A CHECKLIST OF AMOEBOZOA SPECIES FROM MARINE AND BRACKISH-WATER BIOTOPES WITH NOTES ON TAXONOMY, SPECIES CONCEPT AND DISTRIBUTION PATTERNS Текст научной статьи по специальности «Биологические науки»

Protistology 15 (4), 220-273 (2021)

Protistology

A checklist of Amoebozoa species from marine and brackish-water biotopes with notes on taxonomy, species concept and distribution patterns

Alexander Kudryavtsev1, Ekaterina Volkova1 and Fyodor Voytinsky12

1 Laboratory ofCellular and Molecular Protistology, Zoological Institute of the Russian Academy of Sciences, 199034 Saint Petersburg, Russia

2 Department ofInvertebrate Zoology, Faculty of Biology, Saint-Petersburg State University, 199034 Saint Petersburg, Russia

| Submitted June 4, 2021 | Accepted July 7, 2021 ||

Summary

The aim of the present review is to bring together the main references on the diversity of species, geographic distribution, taxonomy, and phylogeny of naked Amoebozoa from marine and brackish water environments, including those directly connected with the World Ocean, as well as continental saline biotopes. The main body of data is structured in the tables according to the most recent classification of Amoebozoa, which list all published species names with references to the initial descriptions, redescriptions where applicable, data on the biotopes where the species were found, available strains, salinity tolerance ranges, and types of available published data including light and electron microscopical studies, and Genbank accession numbers of published sequences. In addition, we provide a brief overview of the history of investigations of marine amoebae, briefly discuss the current state of their species concept, and current knowledge of their relations to environmental salinity.

Key words: amoebae, biodiversity, biogeography, marine biotopes, salinity, species problem, taxonomy

Introduction

Since publication of F.C. Page's (1983) key titled "Marine Gymnamoebae", a lot of changes have been introduced into the taxonomy ofthe amoeboid protists. These changes included both, additions to the number and diversity of the known species, and taxonomic rearrangements of the existing species based on the molecular phylogenetic analysis. Compared to the earlier morphology-based systems

(e.g. Jahn et al., 1974; Page, 1976a, 1987), currently used classifications are based on the combination of molecular and morphological data (Cavalier-Smith et al., 2004, 2015, 2016; Smirnov et al., 2005, 2011; Kang et al., 2017; Adl et al. 2019). The higher-level taxa in these new systems significantly differ in composition and names from the traditional groups ofthe earlier morphology-based systems. Moreover, some species names introduced by earlier researchers easily go overlooked and forgotten in subsequent

doi:10.21685/1680-0826-2021-15-4-3 © 2021 The Author(s)

Protistology © 2021 Protozoological Society Affiliated with RAS

revisions, with the obvious risk of getting the same species described more than once under different names. This causes the need for further laborious reinvestigations and decisions of whether the taxon isolated later is the same morphospecies as described years ago, or still demonstrates enough differences that justify its description under a different name. This should often be performed in the case when no "type culture" or otherwise preserved material is available for reinvestigation and comparison. To permit easier solution of these problems, a list of published species names, preferably tracing changes in synonymy and providing literature references has to be published sometimes, providing a reference bibiliographic material for biodiversity studies. We provide this list for marine and brackish water naked Amoebozoa, including, besides lite-rature references, also data on recorded habitats where available. Within the frames of this paper, we consider all species observed in either open sea, or coastal habitats directly connected to the ocean, regardless ofthe salinity of a habitat (i.e. also brackish water, aestuarine habitats). Species recorded in continental saline and brackish waters (saline lakes, rivers, etc., not directly connected to the ocean) are also included, as they may often include the same morphospecies as those inhabiting marine biotopes. The classification system used in this paper is basically that of Adl et al. (2019), as this system is the most up to date. The macrotaxa suggested in this system take into account the results of the most recent phylogenomic studies. At the same time it is detailed enough, listing taxa down to the level of genera. Genera proposed after the publication ofthis system are indicated in appropriate sections.

Brief historical overview of investigations on marine Amoebozoa

Marine amoeboid protists were most probably first mentioned by Dujardin (1841) who described and depicted several species from Mediterranean habitats. Several works describing a number of species of marine amoebae were also published in the second half of the 19th — beginning of 20th centuries (e.g. Grassi, 1881; Mereschkowsky, 1879; Gruber, 1882a, 1882b, 1883a, 1883b, 1885, 18871888; Frenzel, 1897; Calkins, 1902;), however, these papers were scattered over the literature and usuallycontained descriptions ofjust a few species. Some-times a lot of details on morphology and biology of the studied species were provided (e.g.

Schaudinn, 1896; Janicki, 1912), however, not much of the species diversity was described during 19th and the first quarter of the 20th century. There were no large and impactful monographs like those on freshwater amoebae by Cash and Hopkinson (1905, 1909), Leidy (1879), or Penard (1902).

The first significant monograph that contained a large number of species of marine origin was published by Schaeffer (1926). The same work set the basic principles of classification and identification of the naked amoebae in general. The number of studies started to grow later, mostly in the 1960s and 1970s. These studies in many cases represented descriptions ofnaked amoebae as part of the general investigation of microfauna in particular habitats (e.g. Biernacka, 1963 on the fauna of the Bay of Gdansk, or Kufferath, 1952 on the North Sea fauna near Ostende). Several studies specifically addressed the diversity of naked lobose amoebae in particular locations and included descriptions of numerous new species and genera. Among these, papers by Sawyer(1971a, 1971b, 1975a, 1975b,1975c, 1980) should first be mentioned. Although based on only light microscopy, these studies introduced a lot of new species and several new genera. The validity of some of them was later verified using electron microscopy and molecular phylogeny (Page, 1979b; Smirnov, 1996; Peglar et al., 2003; Kudryavtsev et al., 2011, 2020). In parallel with the cited works, Page (1970a, 1970b, 1971a, 1971b, 1972a, 1972b, 1973, 1974, 1976c, 1979a, 1979b, 1980a, 1980b, 1980c, 1981a, 1981b, 1983a; Page and Willumsen, 1983) performed a significant amount of work on isolation and investigation ofmarine and aestuarine naked lobose amoebae from the habitats in the United States (Atlantic coast) and coastal habitats of Great Britain. At the same time, some ofthe material he has been working on originated from the Persian Gulf and Australia (Page, 1980a, 1981b, 1983a). A detailed comparison of the diversity of species found in American Atlantic and British habitats allowed Page (1976c) to evaluate occurrence of certain species on both sides of the Atlantic Ocean. In particular, five marine/brackish water species were mentioned in this paper as present on both sides of the Atlantic.

Accumulation of species descriptions by 1979 allowed Bovee and Sawyer (1979) a publication of a key to marine and freshwater species of amoebae within the series of "Marine flora and fauna of the northeastern United States". Four years later, Page (1983a) published a key titled "Marine Gymnamo-ebae" that contained a comprehensive set of light

and electron micrographs of a number of species that were mostly collected and described by the author himself. Although this key contains data on the majority of genera and species known by that time, some names, especially those from earlier works were mentioned only briefly, and some were just listed without any further data.

In parallel to the above-cited works, the papers by Karl Grell should be mentioned that contained a number of descriptions ofvarious species of branching and plasmodial amoeboid organisms (Grell, 1966, 1988, 1991; Benwitz and Grell, 1971a, 1971b; Grell and Benwitz, 1978). The genera Corallomyxa and Stereomyxa established in these works are still included in Amoebozoa as valid taxa, although their current position is incertae sedis (Adl et al., 2019). In addition, Grell's investigations of Paramoeba eilhardi Schaudinn, 1896, and especially its ultrastructure (Grell, 1961; Grell and Benwitz, 1966, 1970) have set the basis for our modern understanding of this species and the whole group of marine members of Paramoebidae containing an intracellular symbiont Perkinsela amoebae or Perkinsela amoebae-like organism (PLO). Grell (1961) was the first to suggest that the "Nebenkorper" ("secondary nucleus") described in P. eilhardi by Schaudinn (1896) was indeed an intracellular symbiont. This hypothesis was further developed and proven in subsequent works (Grell and Benwitz, 1970; Perkins and Cas-tagna, 1971) and ended up with the inclusion of the symbiont in Kinetoplastida by Hollande (1980) confirmed later with molecular data. Grell's strain of Paramoeba eilhardi became the one on which the modern understanding of this species is based, as it was deposited in the Culture Collection of Algae and Protozoa (strain CCAP 1560/2) and further investigated using molecular methods (Mullen et al., 2005; Volkova et al., 2019 ; Kudryavtsev et al., 2011).

Another set of studies on the diversity of marine amoebae from 1970ies-1990ies that has to be mentioned separately was the research by British and American authors including O. Roger Anderson and Andrew Rogerson. In these works, a number of species of marine and aestuarine naked amoebae were described or reinvestigated (Rogerson, 1993; Anderson et al., 1997, 2003; Rogerson et al., 1998; Hauer et al., 2001, ) and in addition, a number of studies on ecology of marine amoebae, including their distribution in different biotopes, abundances and relations to different environmental factors were performed (Rogerson, 1991; Rogerson and Laybourn-Parry, 1992; Anderson and Rogerson, 1995; Rogerson et al., 1996; Butler and Rogerson,

1996, 1997; Rogerson and Gwaltney, 2000). This is also important that these authors led systematic research using light and electron microscopy on Amoebozoa isolated from the inland salt-water bodies and their salinity tolerance (Rogerson and Hauer, 2002; Hauer and Rogerson, 2005a, 2005b).

The research on biodiversity of marine and brackish-water Amoebozoa continued over the second half of the 1990s into the 21st century with several papers led by Alexey Smirnov (Smirnov, 1996, 1997, 1999a, 1999b, 2001; Smirnov and Kudryavtsev, 2005) that employed a set of "classical" methods (i. e. light and electron microscopy). At the same time, an approach to Amoebozoa biodiversity investigations using molecular tools started to develop. At this stage, culture collections assembled during the previous studies (e.g. American Type Culture Collection in the United States and Culture Collection of Algae and Protozoa in the UK) became of pivotal importance. While officially these cultures were never designated as "type material" in the sense ofthe ICZN (historically regulating the nomenclature of heterotrophic protists including amoebae), they served as DNA sources for already described species on the eve of the molecular studies and facilitated getting their sequences without the need of reisolation and redoing the full investigation to identify a strain.

This way the first investigations of molecular phylogeny of Amoebozoa were performed (Sims et al., 1999; Amaral Zettler et al., 2000; Bolivar et al., 2001; Fahrni et al., 2003; Peglar et al., 2003; Mullen et al., 2005). These studies led to an establishment of the new system ofAmoebozoa combining structural and molecular characters (Cavalier-Smith et al., 2004; Smirnov et al., 2005, 2011). Furthermore, in fact, a new standard of taxonomic studies was set with the need to combine morphological and molecular evidence in the descriptions of new taxa as well as taxonomic revisions (e.g. Smirnov et al., 2002, 2007, 2017; Dykovâ et al., 2005a, 2008a, 2011; Kudryavtsev et al., 2011a, 2011b, 2014, 2018, 2019, 2021; Kudryavtsev and Pawlowski, 2013, 2015; Volkova and Kudryavtsev, 2017; Kudryavtsev and Volkova, 2018, 2020; Volkova et al., 2019; Lotonin and Smirnov, 2020; Udalov et al., 2020a, 2020b). The majority of these and many other works published during this period included strains of Amoebozoa of marine, brackish and freshwater origin. Molecular taxonomy further developed into phylogenomic studies (Cavalier-Smith et al., 2015, 2016; Kang et al., 2017; Tekle et al., 2016; Tekle and Wood, 2017) that led to an emendation and

creation of the current system of Amoebozoa (Adl et al., 2019).

Another line of development of the amoebae molecular studies included attempts to elaborate DNA-barcoding tools for species identification, refinement of the species concept in Amoebozoa and setting the basis for the metabarcoding approach to detect amoebae in the natural communities. This started first with attempts to evaluate the usefulness of 18S rRNA gene for this purpose (Sims et al., 2002; Smirnov et al., 2002), continued with ITS-5.8S locus (Caraguel et al., 2007; Dykova et al., 2005), and further, with attempts to apply a standard animal DNA barcode (Hebert et al., 2003), partial sequence of mitochondrial cytochrome C oxidase subunit 1 (Coxl) gene, as a barcode for amoebae (e.g. Nassonova et al., 2010; Pawlowski et al., 2012; Tekle, 2014; Geisen et al., 2014; Zlatogursky et al., 2016). Further development of the research on this topic goes in the direction of finding and evaluating the Amoebozoa-specific barcodes, the markers derived within Amoebozoa with low degree of paralogy and enough variability to be able to discriminate between species (Bondarenko et al., 2017; Tekle and Wood, 2018).

The last direction of research on marine Amoebozoa that deserves to be mentioned here separately, is the investigations of marine amoebae that host a kinetoplastid symbiont within their cytoplasm named Perkinsela amoebae (Hollande, 1980) or Perkinsela amoebae-like organism (PLO, Dykova et al., 2008b). Three genera — Paramoeba Schaudinn, 1896, Neoparamoeba Page, 1987, and Janickina Chatton, 1953 — belong to this group that in the current system is member of the Dactylopodida (Adl et al., 2019), and the monophyly of this clade has been recently confirmed with molecular data (Volkova and Kudryavtsev, 2021). A specific interest in this group of marine taxa has deve-loped as their members were frequently reported as parasites of marine invertebrates. The very first case of this parasitism (in species later included in the genus Janickina) was reported with the discovery of this group as parasites of Chaetognatha (Grassi, 1880), and later more hosts for these amoebae were identified, such as blue crab Callinectes sapidus (Sprague and Beckett, 1966, 1968; Sprague et al., 1969), sea urchin Strongylocentrotus droebachiensis (Jones, 1985; Jones and Scheibling, 1985), lobster Homarus americanus (Mullen et al., 2005) and various fishes, including farmed salmonids where they cause amoebic gill disease, or AGD (reviewed in Nowak and Archibald, 2018; English and Lima,

2020). A practical importance ofthis group caused a large number of publications on its diversity, biology and molecular phylogeny, including accumulation of a considerable number of sequence data that may be further used for understanding the biodiversity and evolution of Amoebozoa in general.

Changes in taxonomy of the naked lobose amoebae

Although many amoeba species have been described in the end of 19th and beginning of 20th centuries (e.g. Korotneff, 1879; Leidy, 1879; Penard, 1890, 1902; Schaudinn, 1896; Cash and Hopkinson, 1905, 1909), the taxonomy of this group has been remaining unstable since that time and almost until recently. The main obstacle for the construction of acceptable system was the nature of morphological characters of amoebae: mainly a dynamic body shape changing with time as the cell performs its activities. Few constant structures visible with light microscopy are the nucleus and cytoplasmic inclusions that do not show enough variability to allow construction of the system. Therefore, the tendency in the earlier systems of naked amoebae was on the one hand, to lump many different organisms under a single name allowing for artificial expansion of the limits of taxa, on the other hand, a single cell performing different types of activities during its life span, could be assigned to several different species based on the differences in shape. A classical example of this case is a so-called 'Amoeba radiosa', a name that was first used by Dujardin (1841) and applied to a variety of floating (free-swimming) forms adopted by different species of amoebae.

Although various genera of amoebae were being established slowly, not all species were assigned to them correctly from the very beginning, i.e. the system has been generally developing from lower to higher diversity ofthe supraspecific taxa. It was only in 1926 that the first successful attempt to formalize the taxonomic characters used for naked lobose amoebae was made (Schaeffer, 1926). Further development of the system followed the trend set by Schaeffer. With the development of the theories describing amoeboid movement mechanisms (Mast, 1926), the cytological basis was established for further analysis and application ofthe characters used in the system. Therefore, a morphological classification of amoebae was developed based on the types and activities of pseudopodia and modes of movement

(Bovee and Jahn, 1965, 1966; Jahn and Bovee, 1965; Jahn et al., 1974; Bovee and Sawyer, 1979). A similar morphological approach was developed by F.C. Page that, however, in later years heavily relied on electron microscopic characters not used by Bovee and his coauthors (Goodfellow et al., 1974; Page, 1978, 1979a, 1979b, 1979c, 1980a, 1980b, 1980c, 1981a, 1981b, 1983a, 1983b, 1985; Page and Blakey, 1979; Page and Baldock, 1980; Page and Willumsen, 1980, 1983; Page and Kalinina, 1984). It was finally Page's system (Page, 1976a, 1976b, 1987, 1988, 1991) that became most widely accepted and used in practice until the beginning of the molecular systematic approach, while the general system of unicellular eukaryotes adopted in that time (Levine et al., 1980) was an attempt to integrate the systems of Page, and Bovee and Jahn. In later manuals, Page's system was mostly accepted, sometimes with further modifications. For example, Rogerson and Patterson (2002) grouped all naked lobose amoebae into three orders. Two of them (Euamoebida and Leptomyxida) were those used by Page, while the third one (order Centramoebida) was introduced by these authors to accommodate families Acanthamoebidae and Stereomyxidae, and it has been in use until now, although its composition changed (Adl et al., 2019).

The development of molecular phylogeny of lobose amoebae started with single-gene trees based on the small-subunit (SSU) rRNA gene analyses (Bolivar et al., 2001; Peglar et al., 2003) followed by a simultaneous analyses of SSU rRNA and actin (Fahrni et al., 2003) with the further transition to the multigene analysis based mainly on the transcriptomic and, where available, genomic data (Cavalier-Smith et al., 2015, 2016; Kang et al., 2017; Tekle and Wood, 2017). Attempts to integrate molecular data with morphological analysis led to a creation ofthe modern classification ofAmoebozoa (Cavalier-Smith et al., 2004; Smirnov et al., 2005, 2011) that was later incorporated into the global classification of eukaryotes (Adl et al., 2019).

Among the persisting taxonomic problems of Amoebozoa is the lack of apomorphies for some clades that consistently appear in the trees, and poor support for several deep nodes. Yet, the current consensus system seems to be reasonably established; its synopsis for the clades including marine and brackish water species down to the genus level is provided in Table 1. Essentially this system uses the results ofthe phylogenomic study by Kang et al. (2017) including partly the taxa names proposed by Smirnov et al. (2011), and Cavalier-

Smith et al. (2016). By contrast to the earlier classifications, this system has no formal taxonomic ranges, therefore it has the potential of expansion to as many hierarchical levels as needed, when new phylogenetic lineages are introduced. At the same time this system may look "flat" in comparison to the previous ones, as no intermediary hierarchical levels are introduced for some monotypic clades.

Notes on species concept and species problem in amoebae

Data on biodiversity accumulated during the previous periods of investigation and presented in the supplementary tables essentially relied on the application of the species concept and understanding of what a species is, and how to define its borders. This fundamental biological problem is especially important for protists as these organisms are (a) frequently microscopic and sometimes poor in morphological characters that show very inconsistent patterns of variation among lineages; (b) often agamous or have "hidden" sexual processes that are not necessarily coupled to reproduction, which means a reproductive species criterion is non-applicable in most cases; (c) for the majority of taxa data on geographic distribution and ecological preferences are missing. All these problems cause the inability to produce a single, consistent species concept for all protists (reviewed in Boenigk et al., 2011). The mentioned problems are especially significant for amoeboid protists including Amoebozoa, as the majority of taxa in this group demonstrate a changeable cell shape without any permanent external structures, therefore, very few morphological characters were available for the researchers before the introduction of electron microscopy and molecular methods. In fact, for most of amoeba species established before the first quarter of the 20th century, the morphology was usually described in a very inconsistent way. While the descriptions were often very detailed and precise, the sets of characters that the researchers paid attention to varied significantly depending on the condition of cells and their physiological states. Moreover, justifications of identification by comparison of the recorded characters with previous publications were performed in very few cases, while many authors just applied either previously published names, or claimed that the studied species were not similar to any described before, and therefore deserved a new name.

Table 1. An adaptation of the current classification of Amoebozoa (Adl et al., 2019). Only clades comprising currently known naked marine/brackish water species are shown.

Amoebozoa Tubulinea

Corycida (Trichosphaerium) Elardia

Leptomyxida (Flabellula, Rhizamoeba)

Euamoebida (Amoeba, Hartmannella, Metachaos, Nolandella, Saccamoeba, Trichamoeba)

Evosea

Variosea

Flamellidae (Flamella) Holomastigida (Multicilia) Eumycetozoa

Myxogastria

Columellidia (Didymium) Cutosea (Armaparvus, Sapocribrum, Squamamoeba) Archamoebea

Mastigamoebida (Mastigamoeba) Pelobiontida (Mastigella)

Discosea

Flabellinia

Thecamoebida (Thecamoeba) Dermamoebida (Mayorella)

Dactylopodida (Cunea, Janickina, Korotnevella, Neoparamoeba, Paramoeba, Pseudoparamoeba, Vexillifera) Vannellida (Clydonella, Lingulamoeba, Vannella) Stygamoebida (Stygamoeba, Vermistella) Centramoebia

Acanthopodida (Acanthamoeba, Protacanthamoeba) Pellitida (Pellita)

Himatismenida (Cochliopodium, Ovalopodium, Parvamoeba, Planopodium) Incertae sedis Amoebozoa (Belonocystis, Boveella, Corallomyxa, Gibbodiscus, Rhabdamoeba, Stereomyxa, Striolatus, Triaenamoeba, Unda)

In fact, a similar approach was in most cases used by Schaeffer (1926) who did not discuss a degree of divergence of his 39 new species from the previously described ones, but he established the characters on which the morphological description of an amoeba species should be based. In particular, characters of the locomotive form set as a standard for species description allowed to overcome the problem of lack of permanent cell shape and get a significant amount of data from light microscopic observations. Further addition of nuclear division patterns and electron microscopy led to elaboration of a morphological species concept defined by F.C. Page for practical reason ofidentification as follows: "a subgroup of a genus sharing characters which make it identifiable and indicate that its members (strains, populations) are significantly more similar to each other than to other subgroups" (Page, 1988, p. 5). In practice, all possible structural characters

could be found useful to distinguish morphospecies of amoebae. Apart from the locomotive form, these could be floating forms, nuclear structure, cyst structure, and cell coat ultrastructure (reviewed in Smirnov and Brown, 2004). At the same time, in the lack of sequencing techniques, biochemical and physiological characters were not considered widely applicable for identification from the practical point of view (Page, 1988).

The body ofdata on taxonomy and identification ofnaked lobose amoebae grew based on this approach throughout the 20th century as shown in the previous section. In particular, the morphospecies concept allowed a re-isolation and identification of different species from remote habitats and over long time spans (e.g. Bovee, 1965; Page, 1979a, 1979b; Kudryavtsev, 1999, 2000; Smirnov, 1999a). This approach even allowed Page (1976c) to perform a comparison ofthe species composition from habitats

in Great Britain and Atlantic coast of the United States and identify at least five common marine species from both regions.

Development of DNA sequencing as a tool for systematics of amoebae in the beginning of the 21st century has made a picture of the species diversity and species structure much more complex. On the one hand, sequencing (including a DNA barcoding approach; Hebert, 2003) should allow a more precise and clear definition of the borders between species (initiated by Nassonova et al., 2010). It was expected that getting the sequence data from the independently isolated morphologically identical strains of amoebae and their comparison with sequence data from related morphologically different strains, would allow setting a threshold in the genetic distance between sequences to enable a distinction between species by comparison of their sequences (Nassonova et al., 2010). In reality, after getting a representative set of molecular (initially SSU rRNA gene) data from a number of related species, e.g. of the genus Vannella, it became clear that the patterns of variation between sequence data do not match the patterns of morphological variation between morphospecies (Smirnov et al., 2007). In some cases clearly different morphospecies demonstrated almost identical SSU rRNA genes. A similar situation occurred later in the genus Cochliopodium where the morphospecies concept was seemingly clearly set due to the presence of ultrastructurally complex scales on the plasma membrane surface (Bark, 1973). In spite of this, sequence data analysis revealed molecular identity between different morphospecies defined on the basis of a scale structure and initially designated with different names (Geisen et al., 2014; Tekle, 2014; Tekle and Wood, 2018; Kudryavtsev et al., 2021). Moreover, a considerable variability of the SSU rRNA gene even within a clonal culture (usually explained by intragenomic variability; Zlatogursky et al., 2016; Kudryavtsev and Gladkikh, 2017) makes it difficult to apply this marker alone for distinction of species. On the other hand, in the molecular studies of Paramoeba and Neoparamoeba multiple SSU rRNA gene sequences with differences in up to 53 base pairs per ca. 2000 are assigned to the same species name Neoparamoeba pemaquidensis (Dykova et al., 2005b). These facts led Smirnov et al. (2007) to a statement that "In the absence ofknowledge about amoeba sexuality and applicability or otherwise of the biological species concept, defining amoeba species is at present a matter of convenience. Our

experience here indicates that a combination of microscopic and sequence data is more powerful than either alone, but it remains a matter of opinion just where to place species boundaries." (Smirnov et al., 2007, p. 308).

The described problems initiated attempts to elaborate the barcoding approach to identification of amoebae and find an appropriate molecular marker for this purpose. So far, a subunit 1 of mitochondrial cytochrome c oxidase gene (Coxl) was found to be the best candidate barcode for several genera like Vannella (Nassonova et al., 2010), Korotnevella (Zlatogursky et al., 2016), and Cochliopodium (Geisen et al., 2014; Tekle, 2014), however, a reference database of this marker and its practical application for species identification are still at their infancy. Only few genera of naked Amoebozoa are represented by multiple species in the reference Cox1 databases. The only clades of amoebae where all known genera have their Cox1 sequences available are Dactylopodida (Kudryavtsev and Pawlowski, 2015; Zlatogursky et al., 2016; Kudryavtsev et al., 2018, 2020; English et al., 2019; Udalov et al., 2019, 2020; Volkova et al., 2019; Kudryavtsev and Volkova, 2020) and Himatismenida (Kudryavtsev, 2012; Tekle, 2014; Kudryavtsev et al., 2021). Members of other clades include Vannella and Ripella among vannellids (Nassonova et al., 2010; Kudryavtsev and Gladkikh, 2017; Kudryavsev et al., 2019) and several genera of Tubulinea (Copromyxaand Saccamoeba; Kostka et al., 2017). Reference data for other clades are still largely missing. Two problems currently prevent an accumulation of reference data on this perspective DNA barcode. One of them is the lack of universal primers that would reliably amplify this marker in all or nearly all amoebozoans. The standard animal primers (Folmer et al., 1994) work well in many, but not all groups. For example, no Cox1 sequence data could be obtained for the dactylopodid genera Paramoeba and Neoparamoeba before specific primers were designed based on the mitochondrial genome sequence obtained using NGS approach (Volkova et al., 2019). Another problem is the lack ofreference datasets with multiple species that make researchers believe that sequencing and analysis of the Cox1 gene in routine descriptions ofnew species is redundant once the SSU rRNA gene sequence is available. This approach significantly slows down the accumulation ofreference sequences. Therefore, we suggest that the standard species descriptions in Amoebozoa must be accompanied with at least

attempts to amplify and sequence Cox1 gene together with a standard SSU rRNA, as this will facilitate an accumulation of a reference database for DNA barcoding.

Anyway, currently available results ofthe molecular analysis of diversity within morphospecies have shown an extensive cryptic diversity in amoebae. Already the first attempt to try DNA barcoding on members of the genus Vannella revealed multiple Cox1 gene sequences in a morphospecies V. simplex (Nassonova et al., 2010). Furthermore, several cryptic species were identified later among marine amoebae. For example, members of the genus Cunea Kudryavtsev and Pawlowski, 2015 are three independently isolated species that were found in deep-sea benthos in Atlantic Ocean, sublittoral benthos in the Red Sea, and brackish continental spring isolated from the ocean (Kudryavtsev and Pawlowski, 2015; Kudryavtsev and Volkova, 2020). All these species are identical in light and electron microscopic characters, but differ in their gene sequences, biotopes and ecological preferences, therefore are described as separate cryptic species. However, in the pre-molecular era, these strains would be easily assigned to the same nominal species that would be considered as having a broad geographical distribution. Accumulating evidence shows that the degree of cryptic speciation may be high in amoebae. Apart from the above-mentioned data, there were recently cases among Thecamoeba spp. (Mesentsev and Smirnov, 2019; Mesentsev et al., 2020) and Vexillifera spp. (Kudryavtsev et al., 2020). These data suggest that the real diversity of Amoebozoa in the natural habitats may be significantly underestimated, and calls for caution in the taxonomic conclusions on identity of the newly isolated strains with previously described species. In particular, a comparison of full datasets of new and previously described strains including available morphological and molecular data is needed for a reliable conclusion on identification. In case the type strains are lost, and not all data for comparison are available, it is highly desirable to perform re-isolation attempts from the same or at least similar biotopes as in the original descriptions of the species. As the knowledge on these biotopes and their conditions are of crucial importance for such studies, we composed an interactive map for the isolation sites of different species of marine and brackish water Amoebozoa based on the published data. This map is based on Google Maps application, and is available through the following link: https://

www.google.com/maps/d/u/0/edit?mid=1YG4eB SsKapFzL58s7a63KpVno24&usp=sharing for free use and editing.

Salinity: one of the key environmental factors and its influence on marine amoebae

The environmental salinity is long recognized as a key factor that influences the biology and distribution of organisms in marine environment. There are different levels of salinity (usually defined in ppt or %o indicating g of total salts per kg of solution; Pawlowicz, 2013) of natural water bodies on the Earth. They are usually distinguished into freshwater (below 0.5 ppt), brackish water (5—30 ppt), saline (30—50 ppt) and brine (over 50 ppt). The average salinity of the oceanic seawater is about 35 ppt. Consequently, the organisms inhabiting water bodies with different degrees of mineralization are usually classified into freshwater, brackish and marine species. Generally, the most important for the distribution and physiology of the living organisms is the concept of critical salinity and horohalinicum (Khlebovich, 1968; Khlebovich and Abramova, 2000) that is defined as the salinity range between 5 and 8 ppt where a significant shift in ionic composition of solution occurs in transition between freshwater and marine habitats (i.e. typical freshwater and marine faunas). This threshold value is important, because it serves as the border between the two faunas. A "species minimum" is considered to be a characteristic feature of the habitats with this level of salinity (Remane, 1934), although this concept is recently questioned (Telesh et al., 2011). A general analysis of the relationships between the biological communities and salinity of their environment is far beyond the scope of this review. Here, we only would like to provide a brief overview ofwhat is known by now for marine, brackish water and hypersaline amoebae in view of their diversity, ecology and distribution in relation to salinity.

Analysis of the literature shows that in fact very little attention was paid to the relationships of marine amoebae species to environmental factors, in particular, salinity. This may be due to the fact that in most cases amoebae are difficult to observe directly in the natural samples, and can only be found by enrichment cultivation in partly artificial conditions. This means different species that grow in culture are not necessarily those that constitute an active community in a given biotope at the moment

of sampling (Smirnov, 2007), therefore data on the diversity of amoebae from a given sample isolated using given conditions do not necessarily reflect the true species diversity in a given biotope (Smirnov, 2003). Moreover, different methods are known that seemingly yield the most effective species recovery from marine biotopes using enrichment cultivation. For example, Page (1983a) recommends diluting full-strength seawater to 75% ofthe original to yield a higher species diversity. Yet, the question of how salinity factor limits the distribution and diversity of amoebae in the natural habitats is one of the key in biogeography of marine Amoebozoa in general.

In the most studies where this question was addressed, the range of salinity tolerance of cultured amoebae was experimentally determined. Unfortunately, until now there were no attempts to define a standard set of experimental techniques for these measurements, and the statement by Page that "The method needs further development, including quantification." (Page, 1983a, p. 13) is valid until now. One of the pioneering studies on the influence of salinity on marine amoebae was performed by Schaeffer (1926) who reported the direct observations of the influence of diluted seawater on marine amoebae describing the immediate effect of the seawater dilution. The question remains whether the results of these experiments may be extrapolated on the long-term effect of salinity on the population of a given species and its distribution. Further experimental studies of the influence of different salinities on cell physiology were performed on Vannella (as Flabellula) mira (Hopkins, 1938), and an ability to tolerate different salt concentrations from ca. 1.7 to 350 ppt was determined. Later, salinity tolerance experiments on different cultures ofmarine and aestuarine lobose amoebae were mainly performed along with their taxonomic description by Page (1971a, 1971b, 1974, 1983), Sawyer (1975a, 1975b, 1975c), Smirnov (1995, 2001; Smirnov et al., 2002), Hauer et al. (2001), Anderson et al. (2003), Kudryavtsev and Smirnov (2006), Cole et al. (2010), Kudryavtsev and Volkova (2018, 2020), and Kudryavtsev et al. (2019, 2020). Although these works provide some useful information on the salinity tolerance of certain amoeba species, the experimental methods based on inoculation of the cultures in different salinities and obervations of subsequent growth are not consistent between these publications and are rather qualitative than quantitative. Therefore additional studies have to be performed to set up a really reproducible and

quantifiable method of salinity tolerance testing, as well as get a reliable dataset on the tolerance ranges of marine and brackish water amoeba species. Until now, some quantitative experiments to evaluate the growth rates of the naked amoebae cultures depending on the salinity level were performed by Hauer and Rogerson (2005a) and Cowie and Hannah (2006). The amoebae studied, were isolated from the continental and partly hypersaline Salton Sea, biotopes on the coast of Florida, and intertidal habitats in the Kames Bay (North Sea) where salinity was fluctuating.

Another approach to experimental investigations of relationships between brackish and fresh water amoebae faunas was an experiment by Smirnov (2007) that demonstrated a presence of a hidden community of freshwater amoebae in a brackish biotope. In the current state of research, this approach can be successfully coupled with sequencing of environmental DNA to get a fuller picture of the community not influenced by cultivation bias. Along with experimental research to determine how the environmental salinity limits the distribution of different species in the environment, an important point is the cell physiological mechanisms that provide an adaptation of amoebae to different salinity levels, about which virtually nothing is known yet.

To summarize a current situation in our knowledge of the salinity tolerance ofvarious marine and brackish water amoebae, we can mention, that there are fractions of euryhaline and stenohaline species, as well as some typical freshwater species that may be isolated from brackish water biotopes (Page, 1970a; Garstecki and Arndt, 2000; Smirnov, 2007). At the same time it is believed that marine species cannot be isolated from the true freshwater environments, and this was the reason why Page (1988) established a species Vannella cirrifera (Frenzel, 1892) to accommodate a freshwater strain that he previously identified as V. mira (Schaeffer, 1926). The main reason for this was that V. mira was a marine species, and its isolation from a freshwater environment violated a general beliefthat no marine amoebae can be isolated from fresh water (Page, 1988). However, as shown later, the use of the name V. cirrifera was probably not justified by Page, while V. mira was finally correctly redescribed as a marine species with establishment of the neotype (Smirnov 2002). The ways how salinity limits the distribution areas for different species, the degrees of ecological plasticity, as well as mechanisms of adaptation to different salinity values are largely unknown for Amoebozoa.

A synopsis of the current names of marine Amoebozoa

Preliminary notes on the structure of tables and

data provided

The tables below are intended to provide some pieces of data on currently known species ofmarine naked Amoebozoa from the previously published literature, and to serve as a guide and archive of this literature. We included as many previously published species names as possible, as well as designations of unnamed strains where relevant. The species names (column "Species") are provided in their published form, under those genera where they were included most recently (i. e. in a currently accepted combination). Within the frames of this paper, we do not intend to evaluate either validity of certain genera and species or ability to recognize them in case of reisolation. Hence, the collection of species names is intended to be as full as possible. However, the reader is strongly advised against considering all these names as valid and applicable. In particular, some of these species, especially those described only before 1960s using only light microscopy may be difficult to identify in future based on only original descriptions provided. Therefore, evaluation of diversity based on these data should be performed with caution (see also Smirnov and Brown, 2004). Comments on the composition and status of the listed genera in marine/brackish water biotopes are provided with each table.

The column "Initial description" contains references to the works where the species name appeared for the first time and that constitute a publication in the sense of ICZN. The column "Redescription(s) and earlier synonyms (ifpresent)" provides references to the publications where the species was transferred into the genus where it is currently accommodated, and previous names under which the species were published initially. Cultured or preserved strains that are assigned to a given species are listed to the best of our knowledge under the column "Strains if available". The following conventions are accepted in this column: "+" after strain designation indicates that the strain is lost; (T) indicates type strain (by which we mean here the strain that was used for species description, regardless of whether it was designated as "type" in the publication itself). Abbreviations of the culture collections preceding accession numbers are as follows: ATCC=Americn Type Culture Collection;

CC = Culture Collection ofCryopreserved Strains of the Institute of Parasitology, Biology Centre of the Academy of Sciences of the Czech Republic; CCAP = Culture Collection of Algae and Protozoa (UK); CCM = Culture Collection of Microorganisms at the Research Park of Saint-Petersburg State University (Russia); CCZ = Culture Collection of Protists of the Zoological Institute, Russian Academy of Sciences (Russia); SAUT = culture collection of the School ofAquaculture, University of Tasmania (Australia). The column "Habitat" lists the habitats where the species was found. Several different habitats may be listed with appropriate reference if more than one strain was studied (in the same or different publications). We attempted to indicate, as far as possible, the following data: biotope with environmental metadata where available and geographic location with coordinates (in the majority of cases, the coordinates had to be deduced from the descriptions of locations, hence they are indicated approximately). "Salinity tolerance range" provides limits of salinity tolerance range reported in the cited papers. We indicated where possible, whether the limits are based on growth or survival experiments. The column "Data available" cites literature containing different types of data on a species. Conventions are as follows: "LM" indicates light microscopic data available including drawings and/or micrographs; "EM" indicates electron microscopic data (transmission and/or scanning electron microscopy); "Seq" indicates single-gene sequences, besides citation, we provide names of the genes and GenBank accession numbers; "Tr" indicates accession number for available transcriptomic data, while "G" is reserved for genome sequences.

Tubulinea, Elardia, Euamoebida (Table 2).

Amoeba Bory de St. Vincent, 1822. In spite of numerous descriptions, especially in the older works, no modern evidence of isolation of any species of this genus (with its modern diagnosis) from marine or brackish water habitats exist. The last brackish water organisms described as species of Amoeba and not subsequently transferred into other genera were isolated by Kufferath (1952). All species names provided here should either be reclassified or invalidated in future.

Metachaos Schaeffer, 1926. This monotypic genus has never been re-isolated since the description by Schaeffer (1926).

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Species Initial description Redescription and earlier synonyms (if present) Strains if available Habitat Salinity tolerance range Data available

Amoeba Bory de St. Vincent, 1822.

Amoeba alveolata Mereschkowsky 1879 Algal growth at the influx of a small freshwater stream, Monastery Bay, Solowetsky Archipelago, White Sea, Russia; salinity probably changeable LM: Mereschkowsky 1879

A. crassa Dujardin 1841 Mediterranean seawater (Dujardin 1841); detritus and sand, among Ectocarpus intestinalis, Monastery Bay, Sol owetsky Archipelago, White Sea, Russia (Mereschkowsky 1879) LM: Mereschkowski 1879

A. crystalligera Gruber 1885 Marine aquarium with material from the Frankfurt-am-Ma in Zoo (Germany) LM: Gruber 1885

A. fififera Mereschkowsky 1879 Algae, Monastery Bay, Sol owetsky Archipelago, White Sea, Russia LM: Mereschkowsky 1879

A. flava Gruber 1885 Marine aquarium with material from the Frankfurt-am-Ma in Zoo (Germany) LM: Gruber 1885

A. flowersi Jones 1945 Great Salt Lake, Utah (US) LM: Jones 1945

A. fluida Gruber 1885 Marine aquarium with material from the Frankfurt-am-Ma in Zoo (Germany) LM: Gruber 1885

A. hostilis Kufferath 1952 Port of Ostende LM Kufferath 1952

A. ('Amiba') marina Dujardin 1841 Seawater LM Dujardin 1841

A. minuta Mereschkowsky 1879 Detritus and sand, Sol owetsky Archipelago, White Sea, Russia LM Mereschkowsky 1879

A. ostendensis Kufferath 1952 Port of Ostende LM Kufferath 1952

A. placida Kufferath 1952 Bay of Ostende LM Kufferath 1952

A. salinae Frenzel 1897 Branchipus sp. in marine aquarium LM Frenzel 1897

Metachaos Schaeffer, 1926

Metachaos fulvum Schaeffer 1926 Mentioned as Saccamoeba fulvum in Bovee and Sawyer 1979 Irrigated culture, seawater: Tortugas, Florida, US 3.5-35 ppt LM: Schaeffer 1926

Trichamoeba Fromentel, 1874.

Trichamoeba gumia Schaeffer 1926 Mentioned as Saccamoeba gumia in Bovee and Sawyer 1979 Tidal pool: Cold Spring Harbor, Long Island, US 10-35 ppt LM: Schaeffer 1926

T. pallida Schaeffer 1926 Mentioned as Rhizamoeba pallida in Bovee and Sawyer 1979 Seawater: Tortugas, Florida, US 10-35 ppt LM: Schaeffer 1926

T. schaefferi Radir 1927 Ca. 36.61949N, 121.90333W, seawater in tidal pools associated with Bunodactis sp.: Monterey Bay, Pacific Grove, California (US) 17-35 ppt LM: Radir 1927

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Table 2. Continuation.

T. sphaerarum Schaeffer 1926 Mentioned as Rhizamoeba sphaerarum In Bovee and Sawyer 1979 Seawater: Tortugas, Florida, US 26-35 ppt LM: Schaeffer 1926

Saccamoeba Frenzel, 1892.

Saccamoeba admirata Goodkov and Buryakov 1987 This species most probably belongs to the genus Trichamoeba (A.V. Goodkov, pers. comm.), see table for Trichamoeba. Ca. 66.337N, 33.62456E and 66.33639, 33.63872; submerged natural (macroalgae, hydrold ccolonles) and artificial (glass slides) substrates, Kruglaya and Levaya bays, Chupa Inlet, Kandalaksha Bay, the White Sea (Russia); 21-24 ppt. LM: Goodkov and Buryakov 1987

Saccamoeba marina Anderson et al. 1997 55.75116N, 4.91666W; sandy bottom sediments, depth ca. 10 m, Kames Bay, UK; salinity 32.4 ppt LM, EM: Anderson et al. 1997

Hartmannella Alexeieff, 1912.

Hartmannella lobifera Smirnov 1996/97 55.92054N, 12.52338E; upper layer of sediments (sand, anaerobic bacterial mats), Nlva Bay, The Sound, Denmark LM, EM: Smirnov 1996/97

H. tahitiensis Cheng 1970 17.73524S, 149.33922W; moribund oyster (Crassostrea commercialis) tissues, depth 1.5-3 m, Tahiti, French Polynesia; salinity 15-18 ppt, temperature +27.4-39°C (Cheng 1970) LM: Cheng 1970

H. vacuolata Anderson et al. 1997 55.75116N, 4.91666W; sandy bottom sediments, depth ca. 10 m, Kames Bay, UK; salinity 32.4 ppt (Anderson et al. 1997) LM, EM: Anderson et al. 1997

Nolandella Page, 1983.

Nolandella hibernica Page 1980c Page 1983a; Hartmannella hibernica (Page, 1980) CCAP 1534/10 (T+) Tidal pool on a sandy beach: White Strand, Liscannor Bay, near Lahlnch, County Clare, Ireland (Page 1980c) LM, EM: Page 1980c, 1983a Seq: JQ519510 (SSU rDNA), Lahr et al. 2013

N. abertawensis Page 1980c Smirnov et al. 2011; Hartmannella abertawensis (Page, 1980) CCAP 1534/9 (T); CC JKSl CCAP 1534/9: Ca. 51.61204N, 3.95971W; sandy beach, Swansea (Abertawe) Beach, Bristol Channel, West Glamorgan, Wales (UK) Page 1980c CC JKSl: marine sand: Jeju Island, South Korea (Dykova and Kostka 2013) LM, EM (CCAP 1534/9): Page 1980c, 1983a LM, EM (CC JKSl): Dykova and Kostka 2013 Seq: CCAP1534/9: DQ190241 (SSU rDNA), Kulper et al. 2006; AY803764 (efla), Steenkamp et al. 2008, unpublished CC JKSl: JQ271707 (SSU rDNA), Dykova and Kostka 2013

Trichamoeba Fromentel, 1874. The only brackish-water species that may be classified in this genus according to its modern diagnosis, was described as Saccamoeba admirata Goodkov and Bu-ryakov, 1987 (A. Goodkov, pers. comm), and is listed here under Saccamoeba (Table 2), because no formal transfer has been done yet. The species currently listed under Trichamoeba may need to be reclassified in future.

Saccamoeba Frenzel, 1892. One of the two marine species of Saccamoeba probably belongs to Trichamoeba.

Hartmannella Alexeieff, 1912. The taxonomic composition ofthis genus has recently been modified by the transfer of H. cantabrigiensis into the genus Copromyxa (Brown et al., 2011), and the validity of Hartmannella is doubtful, because some of its previous species have been reclassified based on the molecular data (Kostka et al., 2017), and others have not been sequenced. Yet, in our opinion, it does make sense to reserve this name at least for the species listed in Supplementary Table 1 until they are re-isolated and investigated.

Nolandella Page, 1983. This genus comprises exclusively marine species, and initially was placed incertae sedis in lobose amoebae (Page, 1983a), although its members were included in Hartmannella when described for the first time (Page, 1980c). Interestingly, even after the genus Nolandella was established, one of its species, N. abertawensis, was kept in Hartmannella until formal transfer (Smirnov et al., 2011), although its sequence was available five years earlier (Kuiper et al., 2006). It was molecular analysis that placed Nolandella in the Tubulinea first (Tekle et al., 2008).

Tubulinea, Elardia, Leptomyxida (Table 3).

Flabellula Schaeffer, 1926. This genus in its current composition comprises exclusively marine amoebae, except one soil species Flabellula kudoi Singh and Hanumajah, 1979 that was never reinvestigated. Paraflabellula Page and Willumsen, 1983 is a junior synonym of Flabellula abandoned by Smirnov et al. (2017). It is noteworthy that Tyml et al. (2018) identified two distinct SSU rDNA clades, both morphologically corresponding to Flabellula.

Rhizamoeba Page, 1972. Among three named marine species (Table 3), only one was characterized using molecular data. Several species included in Trichamoeba are suspected to be members of Rhizamoeba (Smirnov et al., 2017).

Tubulinea, Corycida (Table 4).

Trichosphaerium Schneider, 1878. This is one of the most morphologically unusual genera comprising exclusively marine Amoebozoa for which a biphasic life cycle consisting of 'spicule-bearing' and 'spicule-less' generations was described by Schaudinn (1899), but never confirmed in later works. Consequently, several junior synonyms were proposed for the spicule-less forms. These names are Pontifex maximus Schaeffer, 1926 later identified as a synonym of Trichosphaerium (Page, 1983a) and Atrichosa algivora established by Cavalier-Smith et al. (2016) for spicule-less ATCC strain 40318, but invalidated later (Adl et al., 2019). It is noteworthy that all available sequence data were obtained for the spicule-less strain ATCC 40318.

Evosea, Variosea, Flamellidae (Table 5).

Flamella Schaeffer, 1926. This genus mostly comprises freshwater and soil amoebozoans (Bovee, 1956a; Fishbeck and Bovee, 1993; Michel and Smirnov, 1999; Kudryavtsev et al., 2009; Shmakova et al., 2016; Walthall et al., 2016; Glotova and Smirnov, 2017), however, its only marine species is the type one (F. magnifica Schaeffer, 1926). This species has never been reisolated since its initial description, and only one other variosean species is known from marine biotopes.

Evosea, Variosea, Holomastigida (Table 6).

Multicilia Cienkowski, 1881. A single known species of this genus is marine, and this is the second of only two known variosean species from marine biotopes.

Evosea, Eumycetozoa, Myxogastria, Columellidia

(Table 7).

Didymium Schrader, 1797. The only record of Eumycetozoa in marine biotopes is represented by this genus, and its strains isolated as endobionts of sea urchins were not identified to species (Dyková et al., 2007a).

Evosea, Cutosea (Table 8).

Cutosea comprise four monotypic genera, of which three (Armaparvus Schuler and Brown, 2018, Sapocribrum Lahr et al., 2015, and Squamamoeba Kudryavtsev and Pawlowski, 2013) are marine. This

Table 3. Tubulinea, Elardia, Leptomyxida.

Species Initial description Redescription and earlier synonyms (if present) Strains if available Habitat Salinity tolerance range Data available

Flabellula Schaeffer, 1926.

Flabellula baltica Smirnov 1999 CCAP 1529/6+ TF (Fenchel 2010) CC SMA17/I, M4M/I, M9M/I, PH21 Strains TF and CCAP 1529/6 55.92054N, 12.52338E; anaerobic bacterial mats, Niva Bay, The Sound, Denmark; salinity 15-20 ppt (Fenchel 2010; Smirnov 1999b; Smirnov et al. 2017). Strain SMA17/I: gill tissue, Scophthalmus maximus, fish farm, North-Western Spain (Dykova et al. 2008a; Smirnov et al. 2017) Strain M4M/I: Ca. 23.25097N, 106.46055W, gills of orangeside triggerfish (Sufflamen verres) collected off the coast of Mazatlan, Sinaloa (Mexico), Dykova et al. 2008a Strain M9M/I: Ca. 23.25097N, 106.46055W, gills of orangeside triggerfish (Balistes polylepis) collected off the coast of Mazatlan, Sinaloa (Mexico), Dykova et al. 2008a Strain PH21: ca. 13.75633N, 120.91855E, wet sand from beach, coast of Anilao, Luzon, (Philippines), Tyml et al. 2018 LM, EM: Dyková et al. 2008a; Fenchel 2010; Smirnov 1999b; Smirnov et al. 2017 Seq: EU852657, EU852653, (SSU rRNA), Dyková et al. 2008a; KT934049, KT945248 (SSU rDNA), Smirnov et al. 2017; LC340976 (SSU rDNA), LC340989- LC340992, LC341037-LC341039 (actin), Tyml et al. 2018

Flabellula calkinsi Hogue 1914 Bovee 1965; Vahlkampfia calkinsi (Hogue 1914) CCAP 1529/1 Oyster digestive tract, Woods Hole, Massachussetts, US (Hogue 1914) Seawater, mud, edge of Damariscotta River, Damariscotta, Maine, US; 29-30 ppt (Page 1971a). Marine, Mersea, Essex, UK (Page 1976c) LM: Hogue 1914, Page 1971a EM: Page 1980c

F. ci ta ta Schaeffer 1926 CCAP 1529/2 Seawater, seaweeds, Tortugas, Florida, US; Cold Spring Harbor, Long Island, US; Casco Bay, Maine, US (Schaeffer 1926). Seawater, mud, Day's Cove, Damariscotta River estuary, Damariscotta, Maine, US; 29-30 ppt (Page 1971a). Marine, Brancaster, Norfolk, UK (Page 1976c) Euryhaline (Schaeffer 1926); 3-30 ppt (Page 1971a) LM: Schaeffer 1926; Page 1971a; Dyková et al. 2008a EM: Page 1980c Seq: EU852654 (SSU rRNA), Dyková et al. 2008a; LC340977- LC340980 (actin), Tyml et al. 2018 Tr: SAMN06642716 (Kang et al. 2017)

F. demetica Page 1980c CCAP 1529/3(T+), probably preserved in CC (Dykova and Kostka 2013) Seawater, mud: St. Bride's Bay, Newgale, Dyfed, UK (Page 1980c) LM, EM: Page 1980c, Dyková and Kostka 2013

F. hoguae Sawyer 1975a Redescribed as Paraflabellula hoguae (Page and Willumsen 1983). Reverted by Smirnov et al. 2017. ATCC 30733 (T) Surface seawater, Chincoteague Bay near Greenbacksville, Virginia, US; 30.7 ppt (Sawyer 1975a). Ca. 43.31248S, 147.08289E, gills of cultured Salmo salar and cage net, fish farm, Huon estuary, Dover, southeast Tasmania, Australia (Wong et al. 2004; Young et al. 2007) 3-30 ppt (Sawyer 1975a) LM: Sawyer 1975a Seq: AF293899 (SSU rDNA), Amaral Zettler et al. 2000; AY277797 (SSU rDNA), Wong et al. 2004; EF216916 (LSU rDNA), Young et al. 2007; JF694313- JF694315 (actin), Lahr et al. 2011.

F. pellucida Schaeffer 1926 Seawater, blue-green algae, Key West Harbor, Florida, US (Schaeffer 1926) Freshwater-30 ppt (Schaeffer 1926) LM: Schaeffer 1926

F. pomeranica Smirnov et al. 2017 Sand, detritus, littoral zone of a beach to the west from Rostock, The Baltic Sea, Mecklenburg-Western Pomerania, Germany; salinity 8-9 ppt (Smirnov et al. 2017) LM, EM: Smirnov et al. 2017 Seq: KT945249, KT986068-KT986072 (SSU rDNA), KT986073-KT986075 (actin), Smirnov et al. 2017

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F. reniformis Schmoller 1964 Smirnov et al. 2017; Rugipes reniformis (Schmoller 1964); Paraflabellula reniformis (Page and Wlllumsen 1983) ATCC 50741 (Isolated by T.K. Sawyer, habitat unknown) Seawater, green algae: upper littoral zone, ca. 2.5 km west from Rostock Warnemünde Pier, Baltic Sea, Germany (Schmoller 1964). Gravel, coarse silt, small pieces of green alga Ceramium rubrum, depth 8 m: Svendborg Sound, central Danish Belt Sea; 15-24 ppt (Page and Wlllumsen 1983) "apparently very euryhallne" (Page 1983) LM: Schmoller 1964 LM, EM: Page 1983a; Page and Wlllumsen 1983 Seq: AF293900 (SSU rDNA), Amaral Zettler et al. 2000

F. sawyeri Tyml et al. 2018 CC GAU17(T), GAU 16, CSP3, CSP6, NETC3/I, STAR2 GAU17, GAU16: Ca. 62.00N, 7.292E; kelp (Laminaria sp.) surface, coast of Vevang, Trondhelm, Norway. CSP3, CSP6: Oyster (Crassostrea sp.) mantle cavity, geographic origin unknown. NETC3: Floating cage surface, Atlantic salmon farm, Tasmania, Australia. STAR2: Ca. 62.00N, 7.292E; starfish (Porania pulvillus) stomach: coast of Vevang, Trondheim, Norway. LM, EM: Dykova et al. 2008a; Dykova and Kostka 2013; Tyml et al. 2018 Seq: EU852656, EU852658, LC340972-LC340975 (SSU rRNA), Dykova et al. 2008a, Tyml et al. 2018; LC340984-LC340988 (actln), Tyml et al. 2018

F. schaefferi Tyml et al. 2018 CC RTITT(T) Ca. 9.3810N, 84.1456W; wet sand, Manuel Antonio Beach, Costa-Rica. LM, EM: Dykova and Kostka 2013; Tyml et al. 2018 Seq: JQ271708 LC340972-LC340975 (SSU rRNA), Dykova and Kostka 2013; LC341016-LC341020 (actln), Tyml et al. 2018

F. trinovantica Page 1980c CCAP 1529/4(T) CC IS014, S3M27, S5M32, SBGL1 CCAP 1529/4: Ca. 51.7733N, 0.9182E, seawater, mud, River Blackwater estuary, West Mersea, Essex, UK (Page 1980c) IS014, SBGL1: gills of European seabass (Dicentrarchus labrax), Sicily, Italy S3M27, S5M32: gills of turbot (Scophthalmus maximus), Gallcia, Spain LM, EM: Page 1980c; Tyml et al. 2018 Seq: JQ271682 (SSU rDNA), Dykova and Kostka 2013; LC340981 - LC340983 (actln), Tyml et al. 2018

Flabellula sp. Dykova et al. 2008a Listed under Paraflabellula by Dykova and Kostka 2013 CC SEDF Sediments, Atlantic salmon (Salmo salar) farm, Tasmania, Australia LM, EM: Dykova et al. 2008a; Dykova and Kostka 2013; Tyml et al. 2018 Seq: EU852655 (SSU rDNA) Dykova et al. 2008a

Flabellula sp. Dykova and Kostka 2013, Tyml et al. 2018 Listed under "Strains incertae sedis, group 03" by Dykova and Kostka 2013 CC ROD2G ROD4G ROD5G ROD8G Gills of turbot (Scophthalmus maximus), Gallcia, Spain LM, EM: Dykova and Kostka 2013, Tyml et al. 2018 Seq: JQ271780- JQ271783 (SSU rDNA) Dykova and Kostka 2013, LC340993-LC341015 (actln) Tyml et al. 2018

Rhizamoeba Page, 1972.

Rhizamoeba polyura Page 1972a Ca. 44.02756N, 69.52809W, mud flat, seawater, edge of Day's Cove, Damariscotta River estuary, Damariscotta, Maine, US; salinity 29-30 ppt LM: Page 1972a

R. saxonica Page 1974b CCAP 1570/2(T) ATCC 50812 (Isolated by T.K. Sawyer, habitat unknown) Ca. 51.77333N, 0.91821E, seawater, tidal pool on the West Mersea Beach on Mersea Island, Essex, UK (Page 1974b) LM: Page 1974b; Smirnov et al. 2008 LM, EM: Page 1980c, 1983a Seq: EU719197 (SSU rDNA), Smirnov et al. 2008; GU001159 (SSU rDNA-ITS-5.8S-LSU rDNA), Glücksman et al. 2011; other sequence data available In Genbank under this name originate from the strains with unverified Identity. Tr: SAMN06642736 (from ATCC 50812 strain, Kang et al. 2017)

R. schnepfii Kühn 1996/97 55.00833N, 8.25833E; plankton collected In the German Bight off the Sylt Island, North Sea; water temperature 16-17 "C LM: Kühn 1996/97

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Table 4. Tubulinea, Corycida.

Species Initial description Redescriptions and earlier synonyms (if present) Strains if available Habitat Salinity tolerance range Data available**

Trichosphaerium Schneider, 1878.

Trichosphaerium sieboldi Schneider 1878 Amoeba tentaculata (Gruber 1882a, 1882b); Pachymyxa hystrix (Gruber 1883a, 1883b); Pontifex maximus (Schaeffer 1926) CCAP 1585/2; ATCC 40318; ATCC 40319 Marine aquarium with material from the Genoa Harbor, Mediterranean Sea, Italy, and the Baltic Sea (Gruber 1882a, 1882b, 1883a, 1883b); oyster bed in Ostende, North Sea coast, Belgium (Schneider 1878); dead seagrass in the Bay of Kiel, and Spirulina versicolor in aquarium with seawater, Baltic Sea, Germany (Möbius 1888); algae, littoral to 5 m depth, Puddefjorden, Bergen, Norway (Schaudinn 1899); CCAP 1585/2: ca. 50.34796N, 4.45094W, rock pools at Hannafore Point, Cornwall, UK, ca. 52.94545N, 1.21765E, sandy beach at Sheringham, Norfolk, UK (Page 1983a); spicule-bearing form: ca. 50.34796N, 4.45094W, rock pools at Hannafore Point, Cornwall, UK (Page 1983a); ATCC 40318: 34.46808N, 120.27233W, Sargassum muticum, at rocky shores, Alegria beach, Hollister Ranch, Santa Barbara County, California, US (Polne-Fuller 1987) Spicule-less form: ca. 43.69564N, 69.99494W, seawater and Fucus sp. material, Casco Bay, Maine, US (Schaeffer 1926) LM spicule-less form: Gruber 1882a, 1882b; Schaeffer 1926; Page 1983a LM spicule-bearing form: Gruber 1883a, 1883b; Schneider 1878; Möbius 1888 LM both forms: Schaudinn 1899; Sheehan and Banner 1973 (as Trichosphaerium sp.) EM both forms: Sheehan and Banner 1973 LM, EM spicule-bearing form: Schuster 1976 (as Trichosphaerium sp.) LM, EM spicule-less form: Polne-Fuller 1987 Seq: EU273464- EU273465, EU273471 (SSU rDNA), EU273469 (alpha-tubulin), EU273470 (beta-tubulin), Tekle et al. 2008; HQ834954 (Rpbl) Tr: SAMN02740470 (Keeling et al. 2014)

T. micrum Angell 1975 Seawater and algae: Big Pine Key and Alligator Harbor, Florida, US; Pacific Grove and Tomales Bay, California, US; ca. 18.21695S, 177.72834E, Korolevu Beach, Fiji; ca. 14.67975S, 145.45922E, Lizard Island, Great Barrier Reef, Australia; ca. 23.44303S, 151.91249E, Heron Island, Great Barrier Reef, Australia LM, EM: Angelí 1975

T. platyxyrum Angell 1976 Seawater and algae: Big Pine Key, Florida, US; ca. 14.67975S, 145.45922E, Lizard Island, Great Barrier Reef, Australia; ca. 23.44303S, 151.91249E, Heron Island, Great Barrier Reef, Australia LM, EM: Angelí 1976

Table 5. Evosea, Variosea, Flamellidae ^

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Flamella Schaeffer, 1926.

Flamella magnifica Schaeffer 1926 Marine blue-green algae: ca. 24.63202N, 82.92158W, Tortugas; ca. 24.56429N, 81.72625W, Key West (US) Freshwater-30 ppt survival LM: Schaeffer 1926

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Table 6. Evosea, Variosea, Holomastigida.

Species Initial description Redescription and earlier synonyms (if present) Strains if available Habitat Salinity tolerance range Data available

Multicilia Cienkowski, 1881.

Multicilia marina Cienkowski 1881 Ca. 44.82049N, 34.90473E; washings of brown algae at 1 m depth between Novy Svet and Vesyoloe settlements (Crimean Peninsula, Black Sea); salinity 18 ppt (Mikrjukov and Mylnikov 1998) Grew in 35 ppt (Mikrjukov and Mylnikov 1998) LM: Cienkowski 1881, Mikrjukov and Mylnikov 1998 EM: Mikrjukov and Mylnikov 1998 Seq: AY268037 (SSU rDNA) Nikolaev et al. 2006

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Table 7. Evosea, Eumycetozoa, Myxogastria, Columellidia.

Species Initial description Redescription and earlier synonyms (if present) Strains if available Habitat Salinity tolerance range Data available

Didymium Schräder, 1797.

Didymium sp. Dyková et al. 2007a CC: ECH1, ECH14, ECH43, ECH 49, ECH54 Coelomic fluid of sea urchins Sphaerechlnus granulans (Lamarck, 1816), off the Brae Island (Adriatic Sea, Croatia) LM, EM: Dyková et al. 2007a; Dyková and Kostka 2013 Seq: EF118757-EF118761 (SSU rDNA) Dyková et al. 2007a

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small number of taxa found only recently, may be due to the small size of these amoebae (generally below 10 ^m) that makes them difficult to observe and isolate.

Evosea, Archamoebea, Mastigamoebida (Table 9).

Mastigamoeba Schulze, 1875. Evosea, Archamoebea, Pelobiontida (Table 10).

Mastigella Lemmermann, 1914.

A few Archamoebea reported from marine environments have never been reinvestigated using molecular methods, and their identity in some cases remais ambiguous. This poor knowledge may be due to the fact that these clades comprise anaerobic amoeboflagellates, and marine anaerobic microbi-ota is poorly studied in general.

Discosea, Flabellinia, Thecamoebida (Table 11).

Thecamoeba Schaeffer, 1926. This genus comprises freshwater, terrestrial and marine species, and its terrestrial diversity is best studied (Mesentsev and Smirnov, 2019, 2021; Mesentsev et al., 2020). However, five species were described from marine biotopes, with only morphological data available until now. We may expect the higher diversity in future if more microhabitats are surveyed.

Discosea, Flabellinia, Dermamoebida (Table 12).

Mayorella Schaeffer, 1926. After a lot of taxo-nomic perturbations (Goodkov, 1988) this genus was finally separated from morphologically similar ones based on the cell coat structure, and transferred into Dermamoebida based on the molecular data. It is noteworthy that many of its marine species have never been reinvestigated since their initial descriptions that were published before the diversity within the genus Mayorella was realized. Therefore, their generic assignment should be treated with caution.

Discosea, Flabellinia, Dactylopodida (Table 13).

Cunea Kudryavtsev and Pawlowski, 2015.

Three species of this genus were first described only recently, all from marine or continental brackish water biotopes (Kudryavtsev and Volkova, 2020). Interestingly, this is the only genus of Amoebozoa

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Table 9. Evosea, Archamoebea, Mastigamoebida.

Species Initial description Redescriptions and earlier synonyms (if present) Strains if available Habitat Salinity tolerance range Data available

Mastigamoeba Schulze, 1875.

Mastigamoeba aspera Schulze 1875 Pond in botanical garden in Joanneum, Graz (Austria), freshwater (Schulze 1875) Ca. 44.02756N, 69.52809W, tidal pools, Day's Cove, Damariscotta River, Maine (US); salinity 29-30 ppt (Page 1970b) Ca. 58.58333N, 28.91667E, anaerobic bottom sediments of a freshwater forest lake near Lyady village, Pskov Region (Russia); ca. 60.55109N, 30.22313E, anaerobic bottom sediments of a freshwater forest lake near Sosnovo settlement, Leningrad Region (Russia) (Chistyakova et al. 2012) If Page's (1970b) identification is correct, this is one of the few amoeba species that occur in sea- and freshwater biotopes simultaneously. LM: Schulze 1875, Page 1970b LM, EM: Chistyakova et al. 2012

Mastigamoeba psammobia Larsen and Patterson 1990 Ca. 19.28333S, 147.06666E, anaerobic mud in mangroves, Bowling Green Bay, Cape Furguson (Australia), ca. 22.85346S, 43.21695W, anaerobic mud in mangroves, Ilha do Fundao, Rio de Janeiro (Brazil) (Larsen and Patterson 1990) LM: Larsen and Patterson 1990

Mastigamoeba simplex Calkins 1902 This name turns out to be a junior homonym of a freshwater species Mastigamoeba simplex Kent, 1880 later renamed Mastigella simplex Lemmermann, 1914. This is strange though, because Calkins cited Kent (1880) in his work. Ca. 41.5252N, 70.67485W, decaying marine algae, Woods Hole, Massachusetts, US LM: Calkins 1902

Table 10. Evosea, Archamoebea, Pelobiontida.

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Mastigella Lemmermann, 1914.

Mastigella simplex Kent 1880 Lemmermann 1914; Mastigamoeba simplex (Kent 1880) Pond water (Kent 1880) Ca. 19.28333S, 147.06666E, anaerobic mud in mangroves, Bowling Green Bay, (Australia) (Larsen and Patterson 1990) LM: Kent 1880, Larsen and Patterson 1990

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Korotnevella Goodkov, 1988. Most of Korotne-vella species are from freshwater, but known marine species suggest that their actual diversity may be higher.

Pseudoparamoeba Page, 1979. The known diversity of this genus is not broad at the moment; all species, except one are marine.

Vexillifera Schaeffer, 1926. The taxonomic diversity of this genus has been fully reviewed recently (Kudryavtsev et al., 2018); it is well represented in marine and freshwater bitotopes, but many of the species were studied using light microscopy only. The phylogenetic relationships within the genus reconstructed using SSU rRNA gene suggest that there are two independent deeply-branching marine clades and one derived freshwater clade within this genus (Kudryavtsev et al., 2020).

Paramoeba Schaudinn, 1896, Neoparamoeba Page, 1987, and Janickina Chatton, 1953. These genera are exclusively marine. In the morphology-based classifications, Janickina was first separated from Paramoeba to accommodate species with PLO ("parasome"), but very different, limax-like locomotive forms. After data on cell coat ultrastructure became available, Neoparamoeba was established by Page (1987) to accommodate those species with PLO ("parasome") that have no surface microscales. Page (1987) only listed N. aestuarina and N. pemaquidensis as species of Neoparamoeba. However, if the absence of surface microscales is the defining character of Neoparamoeba Page, 1987, then P. perniciosa Sprague et al., 1969 and P. invadens Jones, 1985 should also be included in this genus (discussed in Volkova et al., 2019). As this transfer was never done formally, we list these species under Paramoeba. As some of these species are parasites of fish and invertebrates that may be economically important, a considerable amount of molecular data on these amoebae has been generated recently. Phylogenetic analysis shows that the topology of this clade does not correspond to its morphological diversity. Therefore, the taxonomy of these genera requires emendation. In particular, the validity of Neoparamoeba Page, 1987 and Janickina Chatton, 1953 is debated recently. However, given the morphological and ecological heterogeneity of the clade comprising Paramoeba, Neoparamoeba, and Janickina, we provisionally retain all generic names to prevent loss of taxonomic diversity in the literature (Vokova et al., 2019; Volkova and Kudryavtsev, 2021).

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Table 12. Discosea, Flabellinia, Dermamoebida.

Species Initial description Redescription and earlier synonyms (if present) Strains if available Habitat Salinity tolerance range Data available

Mayor ella Schaeffer, 1926.

Mayorella conipes Schaeffer 1926 Seawater: Tortugas, Florida, Long Island Sound, Great South Bay, Long Island, New York, US (Schaeffer 1926) 9-35 ppt (survival) LM: Schaeffer 1926

M. corlissi Sawyer 1975a Seawater: Chincoteague Bay near Greenbacksville, Virginia, US; 29 ppt (Sawyer 1975a); Salt Pond, Woods Hole, Massachusetts, US (Bovee and Sawyer 1979) No tolerance LM: Sawyer 1975a, Bovee and Sawyer 1979

M. crystallus Schaeffer 1926 Seawater tank, Tortugas Marine Laboratory, Florida (US) LM: Schaeffer 1926

M. dactylifera Goodkov and Buryakov 1988 Ca. 66.33518, 33.64777, artificial and natural submerged substrates around Cape Kartesh area, Kandalaksha Bay, the White Sea (Russia), 22-23 ppt LM, EM: Goodkov and Buryakov 1988

M. gemmifera Schaeffer 1926 CCAP 1547/8 1547/12 Seawater: Tortugas, Florida, Cold Spring Harbor, New York, US (Schaeffer 1926); ca. 52.94545N, 1.21765E, sandy beach at Sheringham, Norfolk, UK (CCAP 1547/8, https:// www.ccap.ac.uk/catalogue/strain-1547-8; https://www. ccap.ac.uk/catalogue/strain-1547-12) LM: Schaeffer 1926 LM, EM: Page 1983a, Dykova and Kostka 2013, Dykova et al. 2008c Seq: EU719190 (SSU rDNA) Dykova et al. 2008c

M. kuwaitensis Page 1981b Page 1983a; Hollandella kuwaitensis (Page 1981b) CCAP 1547/9 Seawater tanks, Kuwait Institute for Scientific Research, Kuwait LM, EM: Page 1981b, Page 1983a

M. smalli Sawyer 1975a Seawater: Chincoteague Bay near Greenbacksville, Virginia, US; 25.7-30.7 ppt LM; Sawyer 1975a

M. pussardi Hollande et al. 1981 Ca. 43.683N, 7.317E, Bay of Villefranche, Villefrance-sur-mer (France) LM, EM: Hollande et al. 1981

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Species Initial description Redescription and earlier synonyms (if present) Strains if available Habitat Salinity tolerance range Data available

Cunea Kudryavtsev and Pwlowski, 2015.

Cunea profundata Kudryavtsev and Pawlowski 2015 CCM 602/13/16(T) 3.9498333S, 28.087W, bottom sediments and overlaying sea water, Brazilian abyssal plain (Western Atlantic ocean; depth 5169.3 m), 35 ppt 19-70 ppt, Kudryavtsev and Volkova 2020 LM, EM: Kudryavtsev, Pawlowski 2015. Seq: KP862834-KP862838 (SSU rRNA) ; KP862843-KP862846 (actin) KP862853-KP862855 (Coxl) Kudryavtsev and Pawlowski 2015.

Cunea mssae Kudryavtsev, Vol ko va 2020 CCM Am0458(T) 57.98318N, 31.33482E; bottom sediments of the brackish-water basin surrounding the Tsaritsinskiy Spring, town of Staraya Russa, Novgorod Region (Russia), 19ppt 2,5-50 ppt, Kudryavtsev and Volkova 2020 LM, EM: Kudryavtsev and Volkova 2020. Seq: MN317563-MN317566 (SSU rDNA), MN317568-MN317570 (actin), MN317567 (COI) Kudryavtsev, Volkova 2020.

Cunea thuwaia Kudryavtsev and Pawlowski 2015 22.31985N, 39.004684E; bottom sediments, Red Sea, Saudi Arabian coast, depth 58.7 m, salinity 40 ppt LM, EM: Kudryavtsev, Pawlowski 2015. Seq: KP862839-KP862842 (SSU rDNA) KP862847-KP862851 (actin) KP862852 (Coxl) Kudryavtsev, Pawlowski 2015.

Korotnevella Goodkov, 1988.

Korotnevella nivo Smirnov 1996/97 This species may be an aparasomate Paramoeba (Volkova et al. 2019) 55.92054N, 12.52338E; upper layer of sediments (sand, anaerobic bacterial mats), Niva Bay, The Sound (Denmark), 35 ppt LM, EM: Smirnov 1996/97

K. hemistylolepis O'Kelly et al. 2001 ATCC 50804(T) 37.73811N, 75.85958W; water samples at the mouth of the Pocomoke River, Chesapeake Bay, Maryland (USA) LM, EM: O'Kelly et al. 2001 Seq: AY121850 (SSU rDNA) Peglar et al. 2003

K. monocanthole-pis O'Kelly et al. 2001 ATCC 50819 Mesohaline marine aquarium maintained in the laboratory of Dr. Edward J. Noga at the Department of Veterinary Science, North Carolina State University, Raleigh, North Carolina (USA) LM, EM: O'Kelly et al. 2001 Seq: AY121854 (SSU rDNA) Peglar et. al. 2003

K. mutabilis Udalov et. al 2020b CCM Am0464(T) 55.92054N, 12.52338E; mesohaline marine sediment sample, Niva Bay, The Sound (Denmark) 8-30 ppt (Volkova, unpublished data) LM, EM, Seq: MT193520 (COI): Udalov et. al 2020b

Pseudoparamoeba Page, 1979.

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Pseudoparamoeba pagei Sawyer 1975a Page 1979b; Vexillifera pagei (Sawyer, 1975) CCAP 1566/1, CCAP 1566/2+ (Page 1979b); ATCC 50883 (deposited as Vexillifera armata; Peglar et al. 2003) Seawater: Chincoteague Bay near Greenbacksvllle, Virginia, US; 25.7-30.2 ppt (Sawyer 1975a); CCAP 1566/2: ca. 44.2098N, 69.05623W; seawater, rocky shore: Penobscot Bay, Camden, Maine (US) 30 ppt CCAP 1566/1: ca. 50.2539N, 3.75267W; seawater, mud, Frogmore Creek, off the Klngsbridge estuary, Devon (UK) 50.21853N, 3.77491W; seawater, mud, Klngsbridge River estuary, Devon (UK) (Page 1979b) ATCC 50883: ca. 37.44458N, 75.84187W; salt marsh sediment at Red Bank LTER site, University of Virginia (US), Peglar et al. 2003 3-30 ppt (Sawyer 1975a) LM: Sawyer 1975a LM, EM: Page 1979 Seq: AY183891 (SSU rDNA), Peglar et al., 2003; AY686576, AY277798 (SSU rDNA), Wong et al., 2004; MH349033-MH349037 (COI, CCAP 1566/1), MH349038-MH349044 (COI, CCAP 1566/2), Kudryavtsev et al. 2018

P. garorimi Udalov et al. 2020a CCM Am0455(T) 36.92555N, 126.33916E, Intertidal sandy surface sediments, Garorim Bay (South Korea), ca. 30 ppt LM, EM, Seq: Udalov et al. 2020a; MK482386 (18S rDNA), MK482724 (COI)

Pseudoparamoeba sp. English et al. 2019 MX1 (not deposited) Farmed Atlantic salmon, Tasmania (Australia) LM, EM: English et al. 2019 Seq: MH535944 (COI), MH535967 (SSU rDNA) English et al. 2019.

Vexillifera Schaeffer, 1926.

Vexillifera abyssalis Kudryavtsev et al. 2018 CCM A0006 Ca. 26.64S, 35.2395W, surface of a stone picked with Agassiz trawl, bottom of Brazilian abyssal plain, depth 4527 m, western Atlantic Ocean, ca. 35 ppt LM, EM: Kudryavtsev et al. 2018 Seq: MH349019-MH349020 (SSU rDNA), MH349024-MH349027 (COI) Kudryavtsev et al. 2018

V. armata Page 1979a Ca. 50.2539N, 3.75267W; seawater, mud, Frogmore Creek, off the Kingsbrldge estuary, Devon (UK) (Page 1979a); LM, EM: Page 1979a, 1983a

Vexillifera cf. armata Page 1979a CCM Am 0466 42.69579N, 132.58841E; bottom sediment, Vostok Bay of the Sea of Japan, depth 70 m (Kudryavtsev et al. 2020) 15-50 ppt (growth), 10, 70-90 ppt (survival) (Kudryavtsev et al. 2020) LM, EM: Kudryavtsev et al. 2020 Seq: MT228921, MT228922 (SSU rDNA), MT228923-MT228925 (COI), Kudryavtsev et al. 2020

V. aurea Schaeffer 1926 Seawater at Tortugas, Florida, and Cold Spring Harbor, Long Island (US) 18-35ppt (survival) LM: Schaeffer 1926

V. browni Sawyer 1975a Seawater: Chincoteague Bay near Greenbacksville, Virginia, US; 28.9-30.7 ppt 35 ppt, stenohallne species LM: Sawyer 1975a

V. minutissima Bovee and Sawyer 1979 CCAP 1590/3, originally designated C64 (Page 1979a) Isolated from shallow water (bays, estuaries) in Chincoteague Bay, Virginia; US eastern coast, Virginia to Massachusetts (Bovee and Sawyer 1979) Ca. 51.43645N, 3.1669W, mud, algal material, beach at Penarth, South Glamorgan (Page 1979a, 1983a) LM: Bovee and Sawyer 1979, Page 1983a EM: Page 1979a, 1983a Seq: AY294149 (SSUrDNA), Fahrnl et al., 2003); MH349031 (COI), Kudryavtsev et al. 2018

V. kereti Kudryavtsev et al. 2018 CCM A0007 66.291716N, 34.065166E, soft bottom sediments (upper reddish-brown mud layer), subllttoral area, outlet of Chupa Inlet, Kandalaksha Bay, White Sea (northwestern Russia); depth 106 m, salinity 29 ppt LM, EM: Kudryavtsev et al. 2018; Seq: MH349021-MH349023 (SSU rDNA), MH349032 (COI), Kudryavtsev et al. 2018

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V. ottoi Sawyer 1975a Seawater: Chincoteague Bay near Greenbacksville, Virginia, US; 25.7-32.6 ppt 30 ppt (growth and survival), stenohaline species LM: Sawyer 1975a

V. tasmaniana Dykova et al. 2011 CC RMT(T) Ca. 41.40092S, 147.12314E, gills of the cultured Atlantic salmon Salmo salar, Launceston School of Aquaculture, University of Tasmania, Australia 27 ppt seawater, Dykova et al. 2011 LM, EM: Dykova et al. 2011, Dykova and Kostka 2013 Seq: HQ687483 (SSU rDNA) Dykova et al. 2011

V. telmathalassa Bovee 1956b Ca. 33.7969N, 118.40821W, water samples from mid-tide pools in volcanic rock at Flat Rock Point near Palos Verdes, California (US); ca. 29.10224N, 83.06204W, samples of seawater and sand from a tide-washed sandspit at Seahorse Key, Florida (US), Bovee 1956b Ca. 13.18413N, 59.67614W, seawater 4 km west of St. James, Barbados, depth ca. 1.5 m (Anderson 1994) 16-36 ppt (Anderson 1994) LM: Bovee 1956b LM, EM: Anderson 1994

V. spinosa Bovee 1985 Ca. 26.90764N, 82.08949W, brackish backwater of the Peace River at Punta Gorda, Florida (US) LM: Bovee 1985

Vexillifera sp. Pizzetti et al. 2016 K9 (not deposited) Ca. 41.27008N, 13.0375E, surface seawater, Lago di Sabaudia, Tyrrhenian Sea coast, Latina (Italy), 33.7 ppt LM, EM, Seq: LC049074 (SSU rDNA) Pizzetti et al. 2016

Vexillifera sp. English et. al. 2019 MX6 (not deposited) Farmed Atlantic salmon, Tasmania (Australia) LM, EM, Seq: MH535966 (SSU rDNA) MH535945 (COI) English et al. 2019

Paramoeba Schaudinn, 1896.

Paramoeba eilhardi Schaudinn 1896 С CAP 1560/2 (Grell 1961) 106KRT (English et al. 2019) Marine aquarium in Berlin, Germany (Schaudinn 1896) CCAP 1560/2: ca. 43.69604N, 7.30734E, algal material from The Bay of Villefranche (France) Grell 1961 LM: Cann and Page 1982, Grell 1961, Kudryavtsev et al. 2011a, Schaudinn 1896; EM: Cann and Page 1982, Grell and Benwitz 1966, Grell and Benwitz 1970, Kudyavtsev et al. 2011a Seq: AY686575 (SSU rDNA) Mullen et al. 2005; JN202438- JN202441 (SSU rDNA) Kudryavtsev et al. 2011a; MK168797-MK168799 (COI) Volkova et al. 2019; MH535952 (SSU rDNA) English et al. 2019

P. karteshi Volkova et al. 2019 CCM Am0453(T) 66.3369944N, 33.6598806E, pieces of a sponge Halisarca dujardini, sublittoral of the Levaya Bay, Chupa Inlet, Kandalaksha Bay, White Sea (Russia), depth 5 m, salinity 24-27 ppt LM, EM: Volkova et al. 2019 Seq: MK168787-MK168789 (SSU rDNA ), MK168800-MK168802 (COI), Volkova et al. 2019.

P. aparasomata Volkova et al. 2019 CCM Am0454(T) 66.321344N, 33,85184E Marine (24-27 ppt), sublittoral soft bottom sediments, island beach Chupa Inlet, Kandalaksha Bay, White Sea (Russia), depth 6 m, salinity 24-27 ppt LM, EM: Volkova et al. 2019 Seq: MK168790-MK168793 (SSU rDNA), MK168803 (COI) Volkova et al. 2019 G: MK518072 (mitochondrial) Bondarenko et al. 2020

P. atlantica Kudryavtsev et al. 2011 С CAP 1560/9(T) 29.604833N, 28.985333W, soft bottom sediments of the Great Meteor Seamount, Atlantic Ocean, depth 267.4 m, 35 ppt LM, EM: Kudryavtsev et al. 2011 Seq: JN202436 (SSU rDNA) Kudryavtsev et al. 2011

Table 13. Continuation.

P. invadens Jones 1985 Tissues of Strongyiocentrotus droebachiensis from sublittoral zone, coast of Nova Scotia (Canada), 26 ppt, Jones 1985 LM, EM: Jones, 1985; Feehan et al., 2013, Seq: KC790384-KC790387 (SSU rDNA), Feehan et al., 2013; KY465820-KY465839 (SSU rDNA), Slbbald et al., 2017; KU609016 (uroporphyrinogen III synthase mRNA), Cenci et al., 2016;

P. perniciosa Sprague et al. 1969 Chincoteague Bay, Maryland and Virginia, Isolated form blood of crabs Callinectes sapidus 17-35ppt LM: Sprague et al. 1969 EM: Perkins and Castagana 1971

P. schaudinni Da Faria and Pinto 1922 Isolated form marine aquarium LM: da Faria and Pinto 1922

Neoparamoeba Page, 1987.

Neoparamoeba aestuarina Page 1970a Page 1987, Paramoeba aestuarina (Page 1970a) CCAP 1560/7+, ATCC 50744, ATCC 50805(+), ATCC 50806(+), CCM A0005, CC SU03 Ca. 44.02756N, 69.52809W, sand, water and algal washes from tidal marsh In Days Cove, Damariscotta River, Maine (US), Page 1970a; CCAP 1560/7: east of Atlantic Ocean (Portugal) https://www.ccap.ac.uk/catalogue/straln-1560-7 ATCC 50744: ca. 37.96876N, 76.31482W, Potomac River aestuary, Virginia (US); ATCC 50805: ca. 37.44896N, 75.67268W, Hog Island, Virginia (US); ATCC 50806: 38.30871N, 76.40357W, Patuxent River aestuary, Maryland (US), Peglar et al. 2003 CCM A0005: 42.271593N, 136.73835E, soft sediment samples, Sea of Japan, depth 3665 m (Volkova and Kudryavtsev 2017) CC SU03: ca. 43.28517N, 16.87264E, radial water vessels of a purple sea urchin, Sphaerechinus granulans off the Brae Island, Adriatic Sea (Croatia) Dykova et al. 2008b estuarine cultivated at 30 ppt sea-water (Page, 1970a) LM: Page, 1970a; Page 1983a EM: Page 1983a Seq: EU331035 (SSU rDNA), Dykova et al. 2008b; AY121848, AY121851, AY121852 (SSU rDNA) Peglar et al. 2003; AF371973 (SSU rDNA) Wong et al. 2004; AY686574 (SSU rDNA) Mullen et al. 2005; MF197372-MF197374 (SSU rDNA) Volkova and Kudryavtsev 2017; AY743963- AY743964 (cytB) Lin and Zhang 2005; DQ167554 (ITS1-5.8S-ITS2, partial LSU rDNA) Caraguel et al. 2007; EU884481-EU884483, (ITS1-5.8S-ITS2) Young et al. 2014

N. aestuarina antarctica Moran et al. 2007 Not deposited: S-131-2 SL-200 W4-3 S-131-2: 76.59933S, 165.002667W, sediment, Ross Sea, Antarctica, depth 500 m; SL-200: 71.005333S, 135.063833W, slush In the pack ice, Ross Sea, Antarctica; W4-3: 65.241667S, 165.225W, water sample from combined depths, far north edge of the Ross Sea pack ice, Antarctica. Seq: DQ229957-DQ229959 (SSU rDNA), Moran et al., 2007

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CCAP 1560/4 1560/5+ ATCC 50172 CC AFSM11 FRS GILLNOR1 GILLNOR2 LITHON NET12AFL NETH2T3 NP251002 PAO27 SEDC SEDST1 ST8V TUN1 WT2708 WTUTS

Not deposited: ASL1 FHL GILLRICH3 NETC1 NETC2 PAL2 SEDCB1 SED5A SEDCT1 TG1162 TG1267 UA1 UA6

Ca. 43.87116N, 69.52037W, sand, water, and algal washings, lower intertidal zone, Pemaquld beach, Maine (US) Page 1970;

CCAP 1560/4, 1560/5: ca. 52.91695N, 4.2107W, Criccieth, Gwynedd, Wales, UK (https://www.ccap. ac.uk/catalogue/strain-1560-4; https://www.ccap. ac.uk/catalogue/strai n-1560-5); ATCC 50172: ca. 47.72365N, 122.47133W, Puget Sound, Washington (US) Peglar 2003 (no records on this strain are available in ATCC web page); AFSM11: gills of turbot, Scophthalmus maximus farmed in North-Western Spain (Dykova et al. 2005b) AVG 8194: gills of AGD-affected cultivated Atlantic salmon (Salmo salar) in Ireland (Wong et al. 2004) FHL: ca. 48.49406N, 123.00152W, tidal mud flat at San Juan Island, Washington (US) Sibbald et al. 2017 ASL1, FRS, NP251002, WTUTS: ca. 41.40092S, 147.12314E, gills of the cultivated Atlantic salmon (Salmo salar), Launceston School of Aquaculture, University of Tasmania (Australia) Dykova et al. 2005b, Young et al. 2014

GILLNOR1, GILLNOR2: ca. 43.21581S, 147.30048E, gills of Atlantic salmon Salmo salar, D'Entrecasteaux Cannel, Bruny Island, Tasmania, Australia LITHON: ca. 63.00002N, 7.29224E, red alga Llthophyllum racemus surface off Vevang, Trondheim (Norway) Dykova et al. 2008b

NET12AFL, NETC1, NETC2, NETH2T3: ca. 43.31248S, 147.08289E, cage net, fish farm, Huon estuary, Dover, southeast Tasmania (Australia) Dykova et al. 2005b, Dykova et al. 2008b

PA027, ST4N, ST8V, WT2708: ca. 43.31248S, 147.08289E, gills of cultured Salmo salar, fish farm, Huon estuary, Dover, southeast Tasmania (Australia) Dykova et al. 2008b, Wong et al. 2004 SEDC: ca. 41.88133S, 148.3157E, sediment under the Salmo salar sea cage, Bicheno, Tasmania (Australia) Dykova et al. 2005b

SEDST1: ca. 43.33871S, 147.02928E, sediment under

the Salmo salar sea cage, Stringers Cove, Tasmania

(Australia) Dykova et al., 2005b

SED5A: ca. 43.09843S, 147.72325E, sediment under

the Salmo salar sea cage, Wedge Bay, Tasmania

(Australia) Dykova et al. 2005b

SEDCT1: ca. 41.06686S, 146.78644E, sediment

under the Salmo salar sea cage, River Tamar estuary,

Tasmania (Australia) Dykova et al. 2005b

TUN1, TG1162, TG1267: ca. 34.71106S, 135.86313E,

gills of a dead Southern Bluefin tuna (Thunnus

maccoyii), Port Lincoln, (Australia) Dykova et al. 2007b

GILLRICH3: gills of Atlantic salmon (Salmo salar),

Tasmania (Australia) Dykova et al. 2007b

PAL2: ca. 63.00002N, 7.29224E, surface of algae,

Palmaria palmataf Vevang, Trondheim (Norway) Young

et al. 2014

UA1, UA6: sea urchin Strongylocentrotus droebachiensis, Gulf of Maine (US) Caraguel et al. 2007

LM: Page 1970, 1973, Young et al. 2014 LM, EM: Cann and Page 1982, Dykova and Kostka 2013, Dykova et al. 2000, 2003, 2005b, 2007b, 2008b, Page 1983a, Sibbald et al. 2017, Tanifuji et al. 2011 Seq: JF706697 (rpbl), JF706698, JF262548 (tuba), JF262553 (tubB), JF441171 (trans-spliced leader SL gene) Tanifuji et al. 2011; DQ660492, DQ167506-DQ167553 (SSU rDNA, ITS1, 5.8S, ITS2, LSU rDNA), Caraguel et al. 2007; AF371967-AF371972 (SSU rDNA), Wong et al. 2004; EU884493-EU884494 (SSU rDNA), Young et al. 2014; EU331036, EU331021 (SSU rDNA) Dykova et al., 2008b; EF675601, EF675602, EF675604-EF675607 (SSUrDNA), Dykova et al. 2007b; AY714350-AY714364 (SSU rDNA), Dykova et al. 2005b; AY183887, AY183889, AY183894 (SSU rDNA) Peglar et al. 2003; AY743964 (cob), Lin and Zhang 2005; EU884447; EU884450- EU884461, EU884465-EU884466, EU884473-EU884477, EU884479, EU884486-EU884490, EU884492 (ITS1-5.8S-ITS2) Young et al. 2014; EF216898, EF216912, EF216913, EF216915 (LSU rDNA) Young et al. 2007

KY465848-KY465852 (SSU rDNA) Sibbald et al., 2017, KU609011-KU609043 (various markers), Cenci et al. 2016; KF772980 (EFla), KF772979 (beta actin), Lima et al. 2014; MN025475, MK990593 (COI) Hansen et al. 2019

G: MUHK01000000 (nuclear genome), NC_031417, KX611830 (mitochondrial complete genome)

Tr: GEWA01000000; Tanifuji et al. 2017

to

ON

N. branchiphila Dykova et al., 2005b CC AFSM3 AMOPI NRSS RP SEDMH1 SM68+ ST4N SU4 Not deposited: SM53 SM57 AFSM3, SM53, SM57, SM68: gills of turbot, Scophthalmus maximus farmed In North-Western Spain (Dykova et al. 2005b) AMOPI: ca. 35.52159N, 27.2065E, sea urchin Paracentrotus lividus collected In Cretan Sea, Karpathos Island (Greece) Dykova et al. 2007b NRSS: ca. 41.40092S, 147.12314E, gills of the cultivated Atlantic salmon (Salmo salar), Launceston School of Aquaculture, University of Tasmania (Australia) Dykova et al. 2005b RP: ca. 30.37854N, 88.81847W, blue crab, Callinectes sapidus, Gulf of Mexico coast, Biloxl, Mississippi (US) Dykova et al. 2007b SEDMH1: ca. 42.17405S, 145.31038E, sediment under cages with cultured Salmo salar, Maquarle Harbour, Tasmania (Australia) Dykova et al. 2005b ST4N: ca. 43.31248S, 147.08289E, gills of cultured Salmo salar, fish farm, Huon estuary, Dover, southeast Tasmania (Australia) Dykova et al. 2005b SU4: ca. 41.06686S, 146.78644E, sea urchin Heliocidaris erythrogramma, River Tamar estuary, Tasmania (Australia) Dykova et al. 2007b 05, 5G5, KPF3: ca. 19.72676N, 156.06186W, seawater, sediment, and seaweeds, Keahole Point, the Big Island, Hawal'i (US) Slbbald et al. 2017 LM, EM: Dykova and Kostka 2013, Dykova et al. 2000, 2005b, 2007b, Flala and Dykova 2003 Seq: AY193725 (SSU rDNA) Flala and Dykova 2003; HQ132923-HQ132930, AY714365-AY714367 (SSU rDNA) Dykova et al. 2005b; EF216914-EF216918 (SSU rDNA) Young et al. 2007; EF675599 - EF675603 (SSU rDNA) Dykova et al. 2007b; KY465831-KY465847 (SSU rDNA) Slbbald et al. 2017; EU884448, EU884449, EU884462-EU884464, EU884478, EU884480, EU884484, EU884485, EU884491 (ITS1, 5.8S, ITS2) Young et al. 2014; FJ807261 (EF1A) Glle et al. 2009; MK990594 (COI) Hansen et al. 2019.

N. perurarts Young et al., 2007 SAUT GD-D1/2, GD-Dl/1/1, GD-D1/3, GD-D1/4, GD-D1/1/2, GD-HAC/2/1, GD-HAC/2/2. Not deposited: 4IXB 26SVA 279SVA 82HRT MP1 MP2IRE 2017 01 IRE 2017 02 IRE 1997 17 01A IRE 1997 17 01B NO 2006 09 01A NO 2006 09 01B NO 2013 17 01 NO 2013 17 06 NO 2014 17 01 NO 2014 17 02 SCO 2014 01 SCO 2016 01 SCO 2012 01A SCO 2012 02 SCO 2012 01B SCO 2014 02A SCO 2014 02B TAS 2013 TAS 2015 4IXB TAS 2015 26SVA TAS 2015 82HRT TAS 2015 MP1 TAS 2015 MP2 All GD- strains: ca. 43.21581S, 147.30048E, gills of AGD-affected Salmo salar, D'Entrecasteaux Channel, Tasmania (Australia) Young et al. 2007 26SVA, 279SVA, 4IXB, 82HRT MP1, MP2: gills of AGD-Infected Salmo sa/arfarmed in Tasmania (Australia) English et al. 2019 Rest of the listed strains: samples of AGD recorded In Ireland (IRE), Norway (NO), Scotland (SCO), and Tasmania (TAS) Hansen et al. 2019 LM, EM: English et al. 2019, Young et al. 2007 Seq: EF216899-EF216905 (SSU rDNA) Young et al., 2007; EU326494 (SSU rDNA) Nylund et al. 2008; EU424141 (SSU rDNA) Martinez A. 2008, unpublished data; KT989880, KT989881 (SSU rDNA), Stagg et al. 2015; KF146711-KF146713 (SSU rDNA) Karlsbakk et al., 2013; KF179520 (SSU rDNA) Nylund et al. 2013, unpublished data; GU574794 (SSU rDNA) Nowak et al. 2010; EF216899-EF216905 (SSU rDNA) Young et al. 2007; KU985055-KU985058, (SSU rDNA) Kim et al. 2016; EF216906-EF216918 (LSU rDNA) Young et al. 2007; GQ407108 (SSU rDNA) Bustos et al. 2011; GU574794 (LSU) Young et al. 2007; EU089662 (mRNA, actln), Morrison et al. 2007, unpublished data; EU884467-EU884472 (ITS1, 5.8S, ITS2), Young et al. 2008; MH535959, MH535962, MH535963 (SSU rDNA), MH535932, MH535934, MH535940, MH535946, MH535948 (COI) English et al. 2019; MN025476-MN025479 (COI) Hansen et al. 2019; MN010335-MN010353, MN010362-MN010376; MN010377-MN010379, MN010354-MN010361 (ITS) Hansen et al. 2019; MN025480- MN025488, MK990580 MK990577-MK990579; MN025489- MN025492, MK990581-MK990592; MH535932, MH535934, MH535940, MH535948, MH535946 (COI) Hansen et al. 2019

Neoparamoeba longlpodla Volkova and Kudryavtsev 2017 14.9785S, 29.95833W, bottom sediments, Brasillan abyssal plalne, Western Atlantic Ocean, depth 5125.5 m, 35 ppt LM, EM: Volkova and Kudryavtsev 2017. Seq: MF197368-MF197371 (SSU rDNA), MF140256 (COI) Volkova and Kudryavtsev 2017.

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Discosea, Flabellinia, Vannellida (Table 14).

Clydonella Sawyer, 1975, Lingulamoeba Sawyer, 1975, and VannellaBovee, 1965. The first two genera comprise exclusively marine species, while the third one, species from all habitats. Although validity of some of these genera was debated (Page, 1983a), they all were shown to be valid with combination of morphological and molecular data (Peglar et al., 2003; Dykova et al., 2005a). Instead, the genus Platyamoeba Page, 1969 was abandoned as a junior synonym of Vannella (Smirnov et al., 2007). As Vannella is probably one of the most frequently isolated genera of marine amoebae, the number of its unnamed marine strains is about twice as large as the number of its named marine species. Generic assignment of some species of Clydonella described earlier requires validation.

Discosea, Stygamoebida (Table 15).

Stygamoeba Sawyer, 1975, Vermistella Moran

et al. 2007. The genera Stygamoeba and Vermistella comprising only marine species are classified together (Smirnov et al., 2011; Adl et al., 2019) in spite of the fact that they branch separately in most phylogenetic and phylogenomic trees (e.g. Lahr et al., 2011; Tyml et al., 2016; Kang et al. 2017). Before the sequence data for S. regulata were obtained, Vermistella was even considered a junior synonym of Stygamoeba (Smirnov, 2009) due to a striking morphological similarity of the two genera. In the tree by Lotonin and Smirnov (2020) both genera branch together, but the taxon sampling of that tree is very limited. Clearly, a more extensive study involving more species of amoebae belonging to this morphological group is needed to determine their phylogenetic affinities and a proper place in the classification system.

Discosea, Centramoebia, Acanthopodida (Table 16).

Acanthamoeba Volkonsky, 1930, Protacanth-amoeba Page, 1981. The problem of the geographic distribution of Acanthamoeba in various environments is one of the most complicated. This genus is considered to be ubiquitous due to an ability to form robust cysts that can survive harsh environmental conditions, including salinity alterations (Page, 1983a). Therefore, many cases ofisolation offresh-water and soil species of Acanthamoeba from brackish and marine environments were reported.

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Species Initial description Redescription and earlier synonyms (if present) Strainf if available Habitat Salinity tolerance range Data available

Clydonella Sawyer, 1975.

Cíydoneíía vivax Schaeffer 1926 Sawyer 1975c; Rugipes vivax (Schaeffer 1926) Seawater: Tortugas, Florida, US; tidal pool: Cold Spring Harbor, Long Island, US (Schaeffer 1926) Seawater: Chincoteague Bay near Greenbacksville, Virginia, US; 26-30 ppt (Sawyer 1975a) 15-30 ppt (Sawyer 1975c) LM: Schaeffer 1926, Sawyer 1975c

C. rosenñeldi Sawyer 1975b Seawater: Chincoteague Bay near Greenbacksville, Virginia, US; 29-30.2 ppt (Sawyer 1975a) 7.5-30 ppt LM: Sawyer 1975b

C. sawyeri Kudryavtsev and Volkova 2018 CCM A0009(T) 66.3384387N, 33.618127E; upper layer of littoral mud and sand with bacterial mats: Chupa Inlet, Kandalaksha Bay, The White Sea, Russia; 22 ppt 5-50 ppt LM, EM, Seq: Kudryavtsev and Volkova 2018 (SSU rDNA: MG559729-MG559731; COI: MG559732)

C. sindermanni Sawyer 1975b Seawater: Chincoteague Bay near Greenbacksville, Virginia, US; 30.7 ppt (Sawyer 1975a) 7.5-30 ppt LM: Sawyer 1975b

C. wardi Sawyer 1975b Seawater: Chincoteague Bay near Greenbacksville, Virginia, US; 25.7-29 ppt (Sawyer 1975a) 22.5-30 ppt LM: Sawyer 1975b

Clydonella sp. ATCC 50884 Peglar et al. 2003 ATCC 50884 Ca. 37.46597N, 75.70298W, salt marsh sediment, Chimney Pole, Virginia (US) Seq: AY183892 (SSU rDNA) Peglar et al. 2003 Tr: SAMN04573363 (Tekle et al. 2016)

Clydonella sp. ATCC 50816 Peglar et al. 2003 Although this strain belongs to Clydonella according to molecular analysis by Peglar et al. (2003), ATCC lists it as Vannella langae (https://www.atcc.org/ products/50816) ATCC 50816 Ca. 37.44896N, 75.67268W, Hog Island, Virginia (US) EM: Peglar et al. 2003 Seq: AY183890 (SSU rDNA) Peglar et al. 2003

Língulamoeba Sawyer, 1975.

Lingulamoeba leei Sawyer 1975b ATCC 30734 Seawater: Chincoteague Bay near Greenbacksville, Virginia, US; 32.6 ppt (Sawyer 1975b) 20-32.6 ppt (Sawyer 1975b) LM: Sawyer 1975b EM, Seq: Peglar et al. 2003 (SSU rDNA: AY183886)

Língulamoeba sp. RSH1 Dyková and Kostka 2013 CC RSH1 Ca. 41.40092S, 147.12314E, gills of the cultivated Atlantic salmon (Salmo salar), Launceston School of Aquaculture, University of Tasmania (Australia) LM, EM, Seq: JQ271690 (SSU rDNA) Dykova and Kostka 2013

Lingulamoeba sp. RSL Dyková et al. 2005a Smirnov et al. 2007 (originally Vannella sp.) CC RSL Ca. 41.40092S, 147.12314E, gills of the cultivated Atlantic salmon (Salmo salar), Launceston School of Aquaculture, University of Tasmania (Australia) LM, EM: Dykova and Kostka 2013, Dykova et al. 2005a Seq: AY929908 (SSU rDNA) Dykova et al. 2005a

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Vannella Bovee, 1965.

Vannella aberdonica Page 1980a ATCC 50815 (Peglar et al. 2003) Ca. 57.15384N, 2.07809W; beach at Aberdeen, UK (Page 1980a). Ca. 38.63456N, 76.32661W; Choptank River, Maryland, US (Peglar et al. 2003) LM, EM: Page 1980a Seq: AY121853 (SSU rDNA), Peglar et al. 2003

V. anglica Page 1980a CCAP 1589/8, 1589/11(T) 52.313116N, 1.676647E; Brackish channel, Walberswlck (UK); River Don estuary, Aberdeen (UK) LM, EM: Page 1980a Seq: AF099101 (SSU rDNA), Sims et al. 1999; AF464913 (SSU rDNA), Sims et al. 2002

V. arabica Page 1980a CCAP 1589/7 Kuwait Institute for Scientific Research seawater tank, presumably Gulf of Persia (Kuwait) LM: Page 1980a, Smirnov et al. 2007 EM: Page 1980a Seq: AF464915 (SSU rDNA), Sims et al. 2002; EF051194 (SSU rDNA), Smirnov et al. 2007; GQ265392- GQ265397 (SSU rDNA), GQ265447- GQ265459 (ITS-5.8S), GQ354165-GQ354170 (COI), Nassonova et al. 2010

V. australis Page 1983a Smirnov et al. 2007; Platyamoeba australis (Page, 1983a) CCAP 1565/9 (T)+ Strain 236: Maroochydore, north of Brisbane, Pacific coast of Australia (Page 1980b) LM: Page 1983a, Smirnov et al. 2007 EM: Page 1980b ("Strain 236") Seq: EF051199 (SSU rDNA), Smirnov et al. 2007

V. bursella Page 1974a Platyamoeba bursella (Page 1974); Smirnov et al. 2007 CCAP 1565/5 (T)+, from strain 106; 1565/10, from strain 164 Strain 106: ca. 52.97572N, 0.63597E; seawater, sand, occasional macroalgae: sandy shore near Brankaster, Norfolk, UK. Strain 164: ca. 51.98332N, 1.39328E; seawater, mud, occasional macroalgae: low Intertidal zone, River Deben estuary, UK; 29.5 ppt 3.5-35 ppt (strain 106) 9-35 ppt (strain 164) (Page 1974a) LM: Page 1974a, Smirnov et al. 2007 EM: Page 1980b (strain 106) Seq: EF051195 (SSU rDNA), Smirnov et al. 2007; GQ265375- GQ265379 (SSU rDNA), GQ265441- GQ265446 (ITS-5.8S), GQ354148-GQ354153 (COI), Nassonova et al. 2010

V. caledonica Page 1979b Strains 212, 213: River Morar estuary, UK LM, EM: Page 1979b

V. calycinucleolus Page 1974a Platymoeba calycinucleolus (Page, 1974); Smirnov et al. 2007 CCAP 1565/6+, from strain 140 Strain 140: ca. 51.7733N, 0.9182E; seawater, sand, occasional macroalgae from 3 separate tidal pools, West Mersea, UK 9-35 ppt (strain 140) LM: Page 1974a, Smirnov et al. 2007 EM: Page 1980b Seq: EF051193 (SSU rDNA), Smirnov et al. 2007; GQ265363-GQ265368 (SSU rDNA), GQ265435-GQ265440 (ITS-5.8S), GQ354136-GQ354141 (COI), Nassonova et al. 2010

V. contorta Moran et al. 2007 Platyamoeba contorta (Moran et al. 2007); Smirnov et al. 2007 W51C#4: ATCC PRA-217(T); W51C#5: ATCC PRA-218(T) Strains W51C#4, W51C#5: 65.24166S, 165.225W, seawater, far north edge of the Ross Sea pack ice, Antarctic; depth 10 m (Moran et al. 2007) LM, EM: Moran et al. 2007 Seq: DQ229953- DQ229954 (SSU rDNA), Moran et al. 2007

V. crassa Schaeffer 1926 Smirnov et al. 2007; Flabellula crassa (Schaeffer, 1926) Irrigated cultures: Tortugas, Florida, US (Schaeffer 1926) 3.5-35 ppt (Schaeffer 1926) LM: Schaeffer 1926

V. danica Smirnov et al. 2007 CCAP 1589/17(T) Artificial laboratory cyanobacterlal mat Inoculated with material from: 55.92054N, 12.52338E; Nlva Bay, The Sound, Denmark (Smirnov et al. 2002) 0-50 ppt (Smirnov et al. 2002) LM: Smirnov et al. 2002 (as Vannella simplex Nlva isolate), Smirnov et al. 2007 EM: Smirnov et al. 2002 (as Vannella simplex Nlva isolate) Seq: EF051203-EF051206 (SSU rDNA), Smirnov et al. 2007; GQ265386-GQ265391 (SSU rDNA), GQ265521-GQ265527 (ITS-5.8S), GQ354159-GQ354164 (COI), Nassonova et al. 2010

V. devonica Page 1979b CCAP 1589/5(T)+ Ca. 50.2185N, 3.7749W, seawater, mud: Klngsbridge River estuary, Devon, UK (Page 1979b) LM: Page 1979b, 1983a; Smirnov et al. 2007 EM: Page 1979b, 1983a Seq: EF051196 (SSU rRNA) Smirnov et al. 2007

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V. douvresi Sawyer 1975b Smirnov et al. 2007; Seawater: Chincoteague Bay near Greenbacksvilie, Virginia, US; 30.2 ppt (Sawyer 1975a) 7.5-30 ppt (Sawyer 1975b) LM: Sawyer 1975b

V. ebro Smirnov 2001 Stratified cya no bacterial mats in the system of natural channels: ca. 40.70003N, 0.84762E, Ebro River delta, Spain; salinity 70-80 ppt; depth 0.2-0.3 m Reproduction: 6-90 ppt Survival: up to 135 ppt (Smirnov 2001) LM, EM: Smirnov 2001 Seq: AF486084 (SSU rDNA), Smirnov et al. 2002; EF051198 (SSU rDNA), Smirnov et al. 2007; AY294151 (actin), Fahrni etal. 2003; MN095727 (COI), Kudryavtsev et al. 2019

V. langae Sawyer 1975b Smirnov et al. 2007; Platymoeba langae (Sawyer 1975b) ATCC 50816 (designated Clydonella sp. in Peglar et al. 2003) Seawater: Chincoteague Bay near Green backsvi lie, Virginia, US; 29.5-30.2 ppt (Sawyer 1975a) 7.5-30 ppt (Sawyer 1975b) LM: Sawyer 1975b

V. mainensis Page 1971b Smirnov et al. 2007; Platyamoeba mainensis CCAP 1565/1(T)+ Edge of Damariscotta river, Damariscotta, Maine, US; 30 ppt Freshwater -30 ppt (Page 1971b) LM: Page 1971b, 1983a EM: Page 1980b

V. mira Schaeffer 1926 Bovee 1965; Flabellula mira CCAP 1589/15(T)+ Seawater, with cyanobacteria and decomposing material: Tortugas Marine Laboratory; Key West Harbor, US (Schaeffer 1926). Cya no bacterial mats with underlying sediment: Camargue Natural Reserve, France; 50 ppt (Smirnov 2002) 1.7-350 ppt (Hopkins 1938) LM: Schaeffer 1926, Smirnov 2002 EM: Smirnov 2002

V. murchelanoi Sawyer 1975b Smirnov et al. 2007; Platyamoeba murchelanoi Seawater: Chincoteague Bay near Green backsvi lie, Virginia, US; 29.5-32.6 ppt (Sawyer 1975a) 7.5-30 ppt (Sawyer 1975b) LM: Sawyer 1975b

V. nucleolilateralis Anderson et al. 2003 Smirnov et al. 2007; Platyamoeba nucleolilateralis ATCC 50987 Moist salt marsh sediment ca. 200 m away from the ocean, wildlife refuge on Assateague Island, Virginia, US 2.5-25 ppt (Anderson et al. 2003) LM, EM: Anderson et al. 2003

V. oblongata Moran et al. 2007 Smirnov et al. 2007; Platyamoeba oblongata ATCC PRA-315(T) 71.99233S, 134.97399W, bottom sediment, Ross Sea, Antarctica; depth 3800 m LM, EM: Moran et al. 2007 Seq: DQ229955 (SSU rDNA), Moran et al. 2007

V. peregrinia Smirnov and Fenchel 1996 55.92054N, 12.52338E; upper layer of sediments (sand, anaerobic bacterial mats), Niva Bay, The Sound, Denmark (Smirnov and Fenchel 1996) LM, EM: Smirnov and Fenchel 1996

V. pluhnucleolus Page 1974a Smirnov et al. 2007; Platyamoeba plurinucleolus 117, 150, 151, 158; 139(CCAP 1565/11)(T) Sand, mud and algae from sandy beaches: CCAP 1565/11 (139): West Mersea, Essex, UK; 117: edge of water at high tide, Hunstanton, Norfolk, UK; 150, 151: pool next to groyne on beach, Holland-on-Sea, Essex, UK; 158: water's edge on beach with tide coming in, Harwich, Essex, UK (Page 1974a) CCAP 1565/11, 150, 151, 158: 3.5-35 ppt (Page 1974) LM: Page 1974a, Page 1983a, Smirnov et al. 2007 EM: Page 1980b Seq: EF051189 (SSU rDNA), Smirnov et al. 2007

V. pseudovannel-lida Hauer et al. 2001 Smirnov et al. 2007; Platyamoeba pseudovanneiiida (Hauer et al. 2001) Seawater with suspended particles near shore, Salton Sea, California, US; 44 ppt 0-138 ppt LM, EM: Hauer et al. 2001

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V. salina Ruinen and Baas Becking 1938 Kudryavtsev et al. 2019; Flabellula salina (Ruinen and Baas Becking 1938) Ca. 19.01671N, 72.87897E, salt works at Dadar near Bombay, India, 30-100 ppt. LM: Ruinen and Baas Becking 1938

V. samoroda Kudryavtsev et al. 2019 RC CCMAm 0457(T) 49.09618N,46.73131E, hypersallne water and upper level of bottom sediment, mouth of the Malaya Samoroda River, Lake Elton, Volgograd Region (Russia); salinity ca. 110 ppt Survival: 0-160 ppt Reproduction: 18-160 ppt LM, EM: Kudryavtsev et al. 2019 Seq: MK992740-MK992743 (SSU rDNA), MK992744-MK992746 (actln), MN095725-MN095726 (COI), Kudryavtsev et al. 2019

V. sensilis Bovee 1950 Sawyer 1975c; Flabellula sensilis (Bovee 1950) Atlantic and Pacific coasts of North America (Bovee and Sawyer 1979) LM: Bovee 1953; Bovee and Sawyer 1979; Sawyer 1975c

V. septentrionalis Page 1980a CCAP 1589/10(T+) Ca. 57.15384N, 2.07809W; littoral sand and organic material, Don River estuary, Aberdeen, UK (Page 1980a). LM, EM: Page 1980a, 1983; Smlrnov et al. 2007 Seq: EF051197 (SSU rDNA), Smlrnov et al. 2007

V. weinsteini Sawyer 1975b Smlrnov et al. 2007; Platyamoeba weinsteini (Sawyer, 1975) Seawater, Chincoteague Bay near Greenbacksvllle, Virginia, US; 30.7 ppt (Sawyer 1975a) 7.5-30 ppt LM: Sawyer 1975b

Vannella sp. Al Schulz et al. 2015 Ca. 41.27008N, 13.0375E, surface seawater, Lago dl Sabaudia, Tyrrhenian Sea coast, Latina (Italy), 33.7 ppt LM, EM, Seq: LC025974 (SSU rDNA) Schulz et al. 2015

Vannella sp. ACN1 Dyková and Kostka 2013 CC ACN1 Gills of turbot, Scophthalmus maximus farmed In North-Western Spain LM, EM: Dykovä and Kostka 2013 Seq: JQ271724 (SSU rDNA) Dykovä and Kostka 2013

Vannella sp. AFSM6 Dyková et al. 2005a Smlrnov et al. 2007 (originally Platyamoeba sp.) CC AFSM6 Gills of turbot, Scophthalmus maximus farmed In North-Western Spain LM, EM: Dykovä et al. 2005a, Dykovä and Kostka 2013 Seq: AY929918 (SSU rDNA), AY929934 (ITS) Dykovä et al. 2005a

Vannella sp. ASL3 Dyková and Kostka 2013 CC ASL3 Ca. 41.40092S, 147.12314E, gills of the cultured Atlantic salmon Salmo salar, Launceston School of Aquaculture, University of Tasmania, Australia LM, EM: Dykovä and Kostka 2013 Seq: JQ271725 (SSU rDNA) Dykovä and Kostka 2013

Vannella sp. BAK1 Dyková and Kostka 2013 CC BAK1 Ca. 1.71769N, 110.44392E, mangrove mud in Bako National Park, Sarawak, Borneo (Malaysia) LM, EM: Dykovä and Kostka 2013 Seq: JQ271726 (SSU rDNA) Dykovä and Kostka 2013

Vannella sp. CHOR Dykovä and Kostka 2013 CC CHOR Decomposing crab on beach in Istrla, Adriatic Sea (Croatia) LM, EM, Seq: JQ271730 (SSU rDNA) Dykovä and Kostka 2013

Vannella sp. DB282 Dykovä et al. 2005a Smlrnov et al. 2007 (originally Platyamoeba sp.) CC DB282 Presumably east of Atlantic Ocean (Portugal), contaminant of Neoparamoeba aestuarina CCAP 1560/7 LM, EM: Dykovä et al. 2005a, Dykovä and Kostka 2013 Seq: AY929920 (SSU rDNA), AY929936 (ITS) Dykovä et al. 2005a

Vannella.sp. ECH30 Dykovä and Kostka 2013 CC ECH30 Ca. 43.28517N, 16.87264E, coelomlc fluid of a purple sea urchin, Sphaerechinus granulans off the Brae Island, Adriatic Sea (Croatia) LM, EM, Seq: JQ271731 (SSU rDNA) Dykovä and Kostka 2013

Vannella sp. ELH1-ELH7 Dykovä and Kostka 2013 CC ELH1 ELH2 ELH3 ELH4 ELH5 ELH6 ELH7 Ca. 27.78634N, 18.00911W, surface of algae, beach at La Maceta, El Hlerro, Canary Islands (Spain) LM, EM, Seq: JQ271732- JQ271738 (SSU rDNA) Dykovä and Kostka 2013

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Vannella.sp. ISCRH Dykovä and Kostka 2013 CC ISCRH Ca. 28.21234N, 17.2951W, sand on a beach at La Gomera, Canary Islands (Spain) LM, EM, Seq: JQ271739 (SSU rDNA) Dykovä and Kostka 2013

Vannella.sp. IS013 IS04 ISOKONT Dykovä and Kostka 2013, Dykovä et al. 2005a CC IS013 IS04 ISOKONT Gills of a European seabass Dicentrarchus labrax farmed in Sicily (Italy) LM, EM (IS013): Dykovä et al. 2005a LM, EM (IS04, ISOKONT): Dykovä and Kostka 2013 Seq: AY929905 (SSU rDNA), AY929925 (ITS) Dykovä et al. 2005a, JQ271740, JQ271741 (SSU rDNA) Dykovä and Kostka 2013

Vannella sp. JKZ Dykovä and Kostka 2013 CC JKZ Marine sand, Jeju Island, South Korea GenBank Acc. LM, EM, Seq: JQ271243 (SSU rDNA) Dykovä and Kostka 2013

Vannella sp. K0NT2Pe Dykovä and Kostka 2013 CC KONT2Pe Contaminant of Paramoeba eilhardi CCAP 1560/2, presumably ca. 43.69604N, 7.30734E, algal material from The Bay of Villefranche (France) LM, EM, Seq: JQ271245 (SSU rDNA) Dykovä and Kostka 2013

Vannella sp. LITHOV Dykovä and Kostka 2013 CC LITHOV Material on the surface of red alga Lithophyllum racemus off the Brae Island, Adriatic Sea (Croatia) LM, EM, Seq: JQ271746 (SSU rDNA) Dykovä and Kostka 2013

Vannella sp. MSPE Dykovä and Kostka 2013 CC MSPE Ca. 41.40092S, 147.12314E, gills of the cultivated Atlantic salmon (Salmo salar) used in AGD experiments, Launceston School of Aquaculture, University of Tasmania (Australia) LM, EM, Seq: JQ271747 (SSU rDNA) Dykovä and Kostka 2013

Vannella sp PHILM Dykovä and Kostka 2013 CC PHILM Ca. 41.40092S, 147.12314E, gills of the cultivated Atlantic salmon (Salmo salar) used in AGD experiments, Launceston School of Aquaculture, University of Tasmania (Australia) LM, EM, Seq: JQ271748 (SSU rDNA) Dykovä and Kostka 2013

Vannella sp. PHILV Dykovä and Kostka 2013 CC PHILV Ca. 42.17405S, 145.31038E, gills of Atlantic salmon Salmo salar, Maquarie Harbour, Tasmania (Australia) LM, EM, Seq: JQ271749 (SSU rDNA) Dykovä and Kostka 2013

Vannella sp. PMCH Dykovä et al. 2005a Smirnov et al. 2007 (originally Platyamoeba sp.) CC PMCH Ca. 44.85955N, 13.8215E, coelomic fluid of the marbled rock crab, Pachygrapsus marmoratus, beach in Pula, Adriatic Sea (Croatia) LM, EM, Seq: AY929919 (SSU rDNA), AY929935 (ITS) Dykovä et al. 2005a, Dykovä and Kostka 2013

Vannella sp. R Dykovä and Kostka 2013 CC R Ca. 30.37854N, 88.81847W, haemolymph of blue crab, Callinectes sapidus, Gulf of Mexico coast, Mississippi (USA) LM, EM, Seq: JQ271750 (SSU rDNA) Dykovä and Kostka 2013

Vannella sp. RSSF Dykovä and Kostka 2013 CC RSSF Ca. 41.40092S, 147.12314E, gills of the cultivated Atlantic salmon (Salmo salar) used in AGD experiments, Launceston School of Aquaculture, University of Tasmania (Australia) LM, EM, Seq: JQ271752 (SSU rDNA) Dykovä and Kostka 2013

Vannella sp. S2M2 Dykovä et al. 2005a CC S2M2 Gills of turbot, Scophthalmus maximus farmed in North-Western Spain LM, EM, Seq: AY929904 (SSU rDNA), AY929924 (ITS) Dykovä et al. 2005a, Dykovä and Kostka 2013

Vannella sp. S3M13 Dykovä and Kostka 2013 CC S3M13 Gills of turbot, Scophthalmus maximus farmed in North-Western Spain LM, EM, Seq: JQ271754 (SSU rDNA) Dykovä and Kostka 2013

Vannella sp. S4M23 Dykovä and Kostka 2013 CC S4M23 Gills of turbot, Scophthalmus maximus farmed in North-Western Spain LM, EM, Seq: JQ271755 (SSU rDNA) Dykovä and Kostka 2013

Vannella sp. S4M24 Dykovä and Kostka 2013 CC S4M24 Gills of turbot, Scophthalmus maximus farmed in North-Western Spain LM, EM, Seq: JQ271756 (SSU rDNA) Dykovä and Kostka 2013

Vannella sp. S4M30 Dykovä and Kostka 2013 CC S4M30 Gills of turbot, Scophthalmus maximus farmed in North-Western Spain LM, EM, Seq: JQ271757 (SSU rDNA) Dykovä and Kostka 2013

Vannella sp. S6M33 Dykovä and Kostka 2013 CC S6M33 Gills of turbot, Scophthalmus maximus farmed in North-Western Spain LM, EM, Seq: JQ271758 (SSU rDNA) Dykovä and Kostka 2013

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Table 14. Continuation.

Vannella sp. S7M35 Dyková and Kostka 2013 CC S7M35 Gills of turbot, Scophthalmus maximus farmed In North-Western Spain LM, EM, Seq: JQ271759 (SSU rDNA) Dyková and Kostka 2013

Vannella sp. S7M36 Dyková and Kostka 2013 CC S7M36 Gills of turbot, Scophthalmus maximus farmed In North-Western Spain LM, EM, Seq: JQ271760 (SSU rDNA) Dyková and Kostka 2013

Vannella sp. S98M54F Dyková and Kostka 2013 CC S98M54F Gills of turbot, Scophthalmus maximus farmed In North-Western Spain LM, EM, Seq: JQ271761 (SSU rDNA) Dyková and Kostka 2013

Vannella sp. S98M55 Dyková et al. 2005a CC S98M55 Gills of turbot, Scophthalmus maximus farmed In North-Western Spain LM, EM, Seq: AY929907 (SSU rDNA), AY929927 (ITS) Dyková et al. 2005a, Dyková and Kostka 2013

Vannella sp. S98M7 Dyková and Kostka 2013 CC S98M7 Gills of turbot, Scophthalmus maximus farmed In North-Western Spain LM, EM, Seq: JQ271762 (SSU rDNA) Dyková and Kostka 2013

Vannella.sp S98M8 Dyková et al. 2005a CC S98M8 Gills of turbot, Scophthalmus maximus farmed In North-Western Spain LM, EM, Seq: AY929906 (SSU rDNA), AY929926 (ITS) Dyková et al. 2005a, Dyková and Kostka 2013

Vannella sp. SBV1 Dyková et al. 2005a Smlrnov et al. 2007 (originally Platyamoeba sp.) CC SBV1 Gas bladder content of a European seabass Dicentrarchus labrax farmed In Sicily (Italy) LM, EM, Seq: AY929917 (SSU rDNA), AY929933 (ITS) Dyková et al. 2005a, Dyková and Kostka 2013

Vannella sp. SEDFS Dyková and Kostka 2013 CC SEDFS Ca. 43.33871S, 147.02928E, sediment under the Salmo salar sea cage, Stringers Cove, Tasmania (Australia) LM, EM, Seq: JQ271763 (SSU rDNA) Dyková and Kostka 2013

Vannela sp. SMA13V Dyková and Kostka 2013 CC SMA13V Gills of turbot, Scophthalmus maximus farmed In North-Western Spain LM, EM, Seq: JQ271764 (SSU rDNA) Dyková and Kostka 2013

Vannella sp. SMA26 Dyková and Kostka 2013 CC SMA26 Gills of turbot, Scophthalmus maximus farmed In North-Western Spain LM, EM, Seq: JQ271765 (SSU rDNA) Dyková and Kostka 2013

Vannella sp. SMA30 Dyková and Kostka 2013 CC SMA30 Gills of turbot, Scophthalmus maximus farmed In North-Western Spain LM, EM, Seq: JQ271766 (SSU rDNA) Dyková and Kostka 2013

Vannella sp. SMA7V Dyková and Kostka 2013 CC SMA7V Gills of turbot, Scophthalmus maximus farmed In North-Western Spain LM, EM, Seq: JQ271767 (SSU rDNA) Dyková and Kostka 2013

Vannella.sp SS8FJ1 Dyková et al. 2005a CC SS8FJ1 Gills of Atlantic salmon, Salmo salar, farmed In Farad (Ireland) LM, EM, Seq: AY929915 (SSU rDNA), AY929931 (ITS) Dyková et al. 2005a, Dyková and Kostka 2013

Vannella sp. SYM43 Dyková and Kostka 2013 CC SYM43 Gills of turbot, Scophthalmus maximus farmed In North-Western Spain LM, EM, Seq: JQ271768 (SSU rDNA) Dyková and Kostka 2013

Vannella sp. T02 Dyková and Kostka 2013 CC TO 2 Ca. 34.71106S, 135.86313E, gills of a dead Southern Bluefin tuna (Thunnus maccoyii), Port Lincoln, (Australia) LM, EM, Seq: JQ271769 (SSU rDNA) Dyková and Kostka 2013

Vannella sp. ULLAP Dyková and Kostka 2013 Ca. 57.89349N, 5.16429W, marine sand, beach at Ullapool, Scotland (UK) LM, EM, Seq: JQ271770 (SSU rDNA) Dyková and Kostka 2013

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Table 15. Discosea, Stygamoebida.

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Species Initial description Redescription and earlier synonyms (if present) Strains if available Habitat Salinity tolerance range if available Data available

Stygamoeba Sawyer, 1975.

Stygamoeba cauta Lotonin and Smirnov 2020 55.92054N, 12.52338E, upper layer of sediments (sand, anaerobic bacterial mats), Niva Bay, The Sound, Denmark; 15 ppt LM: Lotonin and Smirnov 2020 Seq: MN547354- MN547356 (SSU rDNA), Lotonin and Smirnov 2020

S. polymorpha Sawyer 1975a Seawater, Chincoteague Bay near Greenbacksville, Virginia, US; 28.9-30.7 ppt (Sawyer 1975a) 7.5-30 ppt (Sawyer 1975a) LM: Sawyer 1975a

S. reguíata Smirnov 1995 CCAP 1580/1(T+) ATCC 50892 (Lahr et al. 2011) CCAP 1580/1: 55.92054N, 12.52338E; upper layer of sediments (sand, anaerobic bacterial mats), Niva Bay, The Sound (Denmark), 15 ppt (Smirnov 1995) ATCC 50892: ca. 37.26598N, 76.38467W; salt marsh bottom sediments, Hog Island, Virginia, US 15-35 ppt (Smirnov 1995) LM: Smirnov 1995, Lahr et al. 2011 EM: Smirnov 1995 Seq: JF694285, MN547357 (SSU rDNA), Lahr et al. 2011; Lotonin and Smirnov 2020 JF694322 (actin) Lahr et al. 2011 Tr: SAMN02740477 (Keeling et al. 2014)

Vermistella Moran et al. 2007.

1/ermistella antarctica Moran et al. 2007 ATCC PRA-216(T) 76.88333S, 154.23333W, bottom sediment near the Ross Ice Shelf, Antarctica; depth 290 m (Moran et al. 2007) LM, EM: Moran et al. 2007 Seq: DQ229956 (SSU rDNA), Moran et al. 2007

1/. arctica Tyml et al. 2016 DX2: CCAP 2581/1; DC17C: CCAP 2581/2; SV198: CCAP 2581/3(T) (none of the strains is visible in CCAP catalogue) Strain DX2: body surface of the tubeworm Circeis spirillum, 78°40'N, 16°28'E, Petuniabukta, Billenfjorden, Svalbard Archipelago; depth 10-20 m; temperature +4°C; July 2012 Strain DC17C: body surface of the tubeworm Circeis spirillum, 78°39'N, 16°42'E, Brucebyen, Billenfjorden, Svalbard Archipelago; depth 10-20 m; temperature +4°C; July 2012 Strain SV198: gills of the hermit crab Pagurus pubescens, 78°31'N, 16°4'E, Skansbukta, Billenfjorden, Svalbard Archipelago; depth 10-20 m; temperature +4°C; August 2009 (Tyml et al. 2016) LM, EM: Tyml et al. 2016 Seq: KJ874207- KJ874209 (SSU rDNA), KJ874216-KJ874227 (actin), Tyml et al. 2016

Table 16. Discosea, Centramoebia, Acanthopodida.

Species Initial description Redescription and earlier synonyms (if present) Strains if available Habitat Salinity tolerance range if available Data available

Acanthamoeba Volkonsky, 1930.

A. gigantea Schmoller 1964 Ca. 54.17699N, 12.05022E, green algae at the upper littoral, Baltic Sea, Germany LM: Schmoller 1964

A. griffini Sawyer 1971b АТС С 30731(T), АТСС 50702 ССАР 1501/4(Т) Ca. 41.32827N, 72.09108W, sandy beach opposite Pequot Avenue, New London, Connecticut (US), 24-28 ppt; Sawyer 1971b 0-32 ppt (Sawyer 1971b) LM: Sawyer 1971b, Page 1983a Seq: U02540 (SSU rDNA group I Intron) Gast et al. 1994, U07412 (SSU rDNA) Gast et al. 1996, S81337 (SSU rDNA) Ledee et al. 1996, AF239295 (SSU rDNA) Khan et al. 2002, AF479562 (16S rDNA) Ledee et al. 2003, GU553135, GU597016- GU597017, (SSU rDNA) Hsu et al., unpublished, HQ007040 (SSU rDNA) Garcia et al. 2011, KC694190- KC694191 (SSU rDNA) Ghaseml et al., unpublished, KF010846 (SSU rDNA) Heredero-Bermejo et al. 2015, KF914142 (SSU rDNA) Gonzalez-Robles et al. 2014, Ю446979-Ю446980 (SSU rDNA) Evyapan et al., unpublished, KR872643-KR872644 (SSU rDNA) Koltas et al. 2015, KU175890, KU759839 (SSU rDNA), MF563609 (16S rDNA) Megha et al., unpublished, KY072779 (SSU rDNA) Martin-Perez et al. 2017, KY488310-KY488312 (SSU rDNA) Solhjoo et al., unpublished, MF100899 (SSU rDNA) Basher et al. 2017, MG945004 (SSU rDNA) Degerll et al., unpublished, MZ314026 (SSU rDNA) Karyagdl et al., unpublished,

A. hatchetti Sawyer et al. 1977 Ca. 39.18233N, 76.44718W, brackish-water sediments, Brewerton Channel, Baltimore, Maryland (US) LM: Sawyer et al. 1977 Seq: AF019060 (designated ATCC 30731 In GenBank) AF019068 (SSU rDNA) Stothard et al. 1998, AF251937, AF251939 (SSU rDNA) Walochnlk et al. 2000a, AF260722-AF260723 (SSU rDNA) Walochnlk et al. 2000b, AF526425- AF526428 (ITS1) Koehsler et al., unpublished, DQ152194-DQ152195 (subtlllsln-llke serine proteinase gene) Blaschltz et al. 2006, JF508857 (SSU rDNA) Conza, unpublished, KC164222, KC164235, KC346960 (SSU rDNA) Conza et al., unpublished, Ю801938 (SSU rDNA) Begg et al. 2014, KX675340-KX675341, KX709491- KX709495 (SSU rDNA), MF563610 (16S rDNA) Megha et al., unpublished, KY072778 (SSU rDNA) Martin-Perez et al. 2017, KY934459 (SSU rDNA) Corsaro et al. 2018, MG945012-MG945014 (SSU rDNA) Degerll etal., unpublished, MH124181-MH124183, MH124197 (COI), MN129723, MN129725, MN129743, MN129747 (ND5) Kohsler et al., unpublished, MH790988-MH790989, MH790999, MH791025, MN700275, MN700300, MN700303- MN700304 (SSU rDNA) Rosnanl Hanlm et al., unpublished, MK713905, MK713909, MK713927 (SSU rDNA) Roshnl Swasthlkka et al., unpublished, MK905437 (SSU rDNA) Mllanez et al. 2020, MT226327 (SSU rDNA) Mllanez et al., unpublished, MT261771 (SSU rDNA) Paes and Rott, unpublished, MW350039 (SSU rDNA) Masangkay et al., unpublished, MZ504292 (SSU rDNA) El-Wakll et al., unpublished.

Protacanthamoeba Page, 1981.

Protacanthamoeba caledonica Page 1981a River Morar estuary, Westrn Scotland (UK), brackish water. LM, EM: Page 1981a

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Species Initial description Redescription and earlier synonyms (if present) Strains if available Habitat Salinity tolerance range if available Data available

Parvamoeba Rogerson, 1993.

Parvamoeba rugata Rogerson 1993 CCAP 1556/1 (T) Ca. Fucus serratus surface washings at the intertidal zone. Marine station Millport, Cumbrae Island, UK; 30 ppt LM, EM: Rogerson 1993; Kudryavtev 2012 Seq: JN202427- JN202433 (SSU rDNA), JN202434-JN202435 (COI) Kudryavtsev 2012, MT975637-MT975642 (actin) Kudryavtsev et a 1.2021

Parvamoba monoura Cole et al. 2010 ATCC PRA-35(T) 41.02501N, 73.36541W, Homarus americanus carapace surface. Long Island Sound near Oyster Bay, New York, US 10-30 ppt LM, EM: Cole et al. 2010 Seq: EF455775 (SSU rDNA), EF455789 (ß-tubulin), EF455756 (a-tubulin), EF455773 (actin); Cole et al. 2010

Ovalopodium Sawyer, 1980.

Ovalopodium carrikeri Sawyer 1980 Ca. 38.79157N, 75.15954W; University of Delaware mariculture facility, Lewes, Delaware (US) LM: Sawyer 1980

0. rosalinum VöIcker and Kudryavtsev, 2021 Kudryavtsev et al. 2021 Ca. 53.748333N, 7.479717E; co-culture with the foraminiferan Rosalina sp., collected in 1984 from the beach at Langeoog Island (Frisian Islands, North Sea, Germany); 30 ppt LM, EM: Kudryavtsev et a 1. 2021 Seq: MT975614-MT975618 (SSU rDNA), MW026146-MW026150 (actin), MT975622-MT975624 (COI); Kudryavtsev et al. 2021

Pianopodium Völckerand Kudryavtsev, 2021.

Pianopodium desert um Kudryavtsev et al. 2011b Kudryavtsev et al. 2021; Ovalopodium desertum (Kudryavtsev et al. 2011b) CCAP 1530/1 (T) Ca. 43.5N, 77.0E; bottom sediments in the littoral zone, semidesert pond in the south of Kazakhstan (Central Asia); 3-4 ppt LM, EM: Kudryavtsev et al. 2011b Seq: JF298243-JF298247 (SSU rDNA), JF298258 (actin); Kudryavtsev et al. 2011b; MT975627 (COI); Kudryavtsev et al. 2021 Tr: PRJNA222682 (Cavalier-Smith et al. 2015)

Cochliopodium Hertwig and Lesser, 1874.

Cochliopodium darum Schaeffer 1926 ATCC 30975 (Sawyer 1971) Marine tidal pool with diatoms and other algae. Cold Spring Harbor, Long Island, US (Schaeffer 1926); ca. 38.66996N, 76.18194W, sea water, Tred Avon River, Chesapeake Bay, Maryland, US; 9-16 ppt (ATCC 30975, Sawyer 1971); (data in ATCC database on strain ATCC 30975 provide "seawater holding tank. Northeast Fisheries Center, Oxford, Maryland, US" which geographically fits Sawyer's isolation site) 0-30 ppt (Sawyer 1971; Schaeffer 1926) LM: Schaeffer 1926; Sawyer 1971

C. gallicum Kudryavtsev and Smirnov2006 CCAP 1537/6 Saline pool with artificial bacterial mats in the Camargue Natural Reserve, Mediterranean Sea, France; 40-42 ppt At least up to 60 ppt (Kudryavtsev and Smirnov 2006) LM, EM: Kudryavtsev and Smirnov 2006 Seq: MT975609- MT975613 (SSU rDNA), MT975592-MT975595 (actin), KJ781467, KJ781468, MT975630 (COI), Kudryavtsev et al. 2021; Tek le 2014

C. gulosum Schaeffer 1926 Zostera sp. and other submerged sea-weeds. Cold Spring Harbor, Great South Bay, Long Island, US (Schaeffer 1926); 66.30623N, 33.64762E, sand from the intertidal zone of the Keret Island (Chupa Inlet, Kandalaksha Bay, the White Sea, NW Russia); 15-17 ppt (Kudryavtsev 1999,2000) LM: Schaeffer 1926, Kudryavtsev 1999 EM: Kudryavtsev 2000

C. maeoticum Kudryavtsev 2006 Ca. 47.25322N, 39.04674E; bottom sediments from the Gulf of Taganrog (the Azov Sea, Russia); ca. 2.5 ppt LM, EM: Kudryavtsev 2006

C. ra dios um Biernacka 1963 Ca. 54.4051 N, 18.83246E, Bay of Gdansk, Baltic Sea (Poland), 6.5-7.5 ppt LM: Biernacka 1963

C. spiniferum Kudryavtsev 2004 CCAP 1537/3 66.28514N, 33.63965E; bottom sediments of a stream flowing through a periodically flooded marsh near the Marine Biological Station of the St. Petersburg University at Srednii Island (Chupa Inlet, Kandalaksha Bay, the White Sea), freshwater-15 ppt, 6 ppt at the moment of sampling LM, EM: Kudryavtsev 2004 Seq: AY775130 (SSU rDNA), JF298273-JF298279 (actin), KJ781455- KJ781459, MT975625 (COI), Kudryavtsev et al. 2005,2011b, 2021; Tekle 2014

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These cases may be due to the stability of cysts in the seawater (Page, 1983a). Despite morphological identities to previously described species, one should bear in mind the possibilities of cryptic speciation as shown earlier in some other amoebozoans (Kud-ryavtsev and Volkova, 2020). We list here only those species initially described from marine or brackish water biotopes.

Discosea, Centramoebia, Himatismenida (Table 17).

Parvamoeba Rogerson, 1993. This genus is one of the smallest in Amoebozoa, and includes two marine species discovered in the last decades. This may be due to their small size, while the actual diversity may be larger. The type species ofthis genus was provisionally included in the Thecamoebidae based on morphology (Rogerson, 1993), but further detailed studies, including gene sequence analysis placed Parvamoeba in Himatismenida (Cole et al., 2010; Kudryavtsev, 2012; Kudryavtsev et al., 2021).

Ovalopodium Sawyer, 1980. This is an elusive genus, because its type species has never been reisolated with certainty since its initial description. Hence, it has only light microscopic images available. Because of this, a species that was added to this genus in 2011 (Kudryavtsev et al., 2011b) had to be transferred into Planopodium (Kudryavtsev et al., 2021) after it became clear that there was a higher diversity of small deeply-branching himatismenid lineages than estimated before.

Planopodium Volcker and Kudryavtsev, 2021. This genus comprises two species, of which one, P. desertum (Kudryavtsev et al., 2011), was isolated from a very weakly saline continental pond in an arid area, and initially included in Ovalopodium, while another species is freshwater. These species are different morphologically, but almost identical in gene sequence data (Kudryavtsev et al., 2021).

Cochliopodium Hertwig and Lesser, 1874. This genus with about 20 named species is known for almost 150 years already, but most of its species are from fresh water and soil. The first two marine species ofthis genus were described only by Schaeffer (1926). Only two named marine species have gene sequence data available.

Discosea, Centramoebia, Pellitida (Table 18).

Pellita Smirnov and Kudryavtsev, 2005. Pellitida were established only recently (Smirnov and Kudryavtsev, 2005; Smirnov et al., 2011), although some

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Species Initial description Redescription and synonyms (if present) Strains if available Habitat Salinity tolerance range if available Data available

Belonocystis marina Klimov and Zlatogursky 2016 CCM 00448 66.31143N, 33.63858E, seawaterfrom salt marsh near Matryonin Island, Chupa Inlet, Kandalaksha Bay, the White Sea (Russia), 16 ppt 10-60 ppt LM, EM: Klimov and Zlatogursky 2016

Boveella obscura Sawyer 1975a Surface sea water of Chincoteague Bay near Greenbackville, Virginia (US), 25.7-28.9 ppt LM: Sawyer 1975a

Corallomyxa chattoni Grell and Benwitz 1978 Possible earlier synonym: Cinetidomyxa chattoni (Cachon and Cahon-Enjumet 1965; Grell and Benwitz 1978) Ca. 43.69604N, 7.30734E, marine algae near Villefranche-sur-mer Marine Station, Mediterranean Sea, France LM, EM: Grell and Benwitz 1978

C. multípara Grell 1988 Ca. 19.27419S, 147.04788E, fallen leaves of mangroves in seawater, littoral, near Australian Institute of Marine Science, Townsville, Queensland, Australia LM: Grell 1988

C. mutabilis Grell 1966 Ca. 13.40742S, 48.29215E, dead coral reef blocks, Nosy Be oceanography Station (now National Centre for Oceanography Research), Nosy-Be Island, Madagascar; Ca. 23.37253S, 43.65754E, dead coral reef blocks, Marine Station Tuléar (now Institute of Fisheries and Marine Science), Tulear, Madagascar LM: Grell 1966 EM: Grell and Benwitz 1978

C. nipponica Grell 1991 Ca. 34.66681N, 138.93621E, bottom sediment, tidal pools near the Shimoda Marine Research Center, Shimoda, Japan LM, SEM: Grell 1991

Gibbodiscus gemma Schaeffer 1926 Seawater tank, Tortugas Marine Laboratory, Florida (US); seawater in tidal pool, Sand Key, Tortugas, Florida (US) LM: Schaeffer 1926

G. newmani Sawyer 1975b Marine surface water, Chincoteague Bay, Virginia (US), 30.2 ppt 3-30 ppt (survival) 7.5-30 ppt (growth) LM: Sawyer 1975b

Rhabdamoeba marina Dunkerly 1921 Marine material associated with Trichosphaerium sp. From the Marine Laboratory, Plymouth (UK) (Dunkerly 1921) Ca. 55.75157N, 4.92456W, benthic sand, depth 10 m, Newtown Bay, Firth of Clyde, Scotland (UK) (Rogerson et al. 1998) LM: Dunkerly 1921, Rogerson et al. 1998 EM: Rogerson et al. 1998

Stereomyxa angulosa Grell 1966 Ca. 13.40742S, 48.29215E, dead coral reef blocks, Nosy Be oceanography Station (now National Centre for Oceanography Research), Nosy-Be Island, Madagascar; Ca. 23.37253S, 43.65754E, dead coral reef blocks, Marine Station Tuléar (now Institute of Fisheries and Marine Science), Tulear, Madagascar LM: Grell 1966 EM: Benwitz and Grell 1971a

S. ramosa Grell 1966 Ca. 13.40742S, 48.29215E, dead coral reef blocks, Nosy Be oceanography Station (now National Centre for Oceanography Research), Nosy-Be Island, Madagascar; Ca. 23.37253S, 43.65754E, dead coral reef blocks, Marine Station Tuléar (now Institute of Fisheries and Marine Science), Tulear, Madagascar LM: Grell 1966 EM: Benwitz and Grell 1971b

Striolatus* tardus Schaeffer 1926 Seawater among blue-green algae, Key West, Florida (US) 9-35 ppt LM: Schaeffer 1926

Triaenamoeba jachowskii Sawyer 1975a Marine surface water, Chincoteague Bay, Virginia (US), 29-29.5 ppt 7.5-30 (survival, growth) LM: Sawyer 1975a

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members of this clade were known for a long time, like Gocevia Valkanov, 1932 and Endostelium Olive et al., 1984. Only one marine species of Pellita was isolated several times from different biotopes.

Amoebozoa incertae sedis (Table 19).

Belonocystis Rainer, 1968, Boveella Sawyer, 1975, Corallomyxa Grell, 1966, Gibbodiscus Schaef-fer, 1926, Rhabdamoeba Dunkerly, 1921, Stereo-myxa Grell, 1966, Striolatus Schaeffer, 1926, Triaenamoeba Bovee, 1953, Unda Schaeffer,1926. The listed genera are either monotypic or comprise up to four species. All of them are marine, except for Belonocystis that also comprises freshwater species. For none of them molecular data are available, therefore, their position in the system is still incertae sedis. One exception is Unda, for which a transcriptome was sequenced (Tekle et al. 2016), however, the generic identity of the sequ-enced strain is unclear.

Acknowledgements

We are grateful to Dr. Andrew Goodkov (Institute of Cytology, Russian Academy of Sciences) Dr. Alexey Smirnov (Saint Petersburg State University) for help with literature and valuable comments. Published data analysis and manuscript preparation supported by the grant No 20-14-50297 from the "Expansion" program ofthe Russian Foundation for Basic Research (RFBR) to AK; collection ofrecently reported biodiversity data on marine amoebae, by a ZIN RAS grant AAAA-A19-119031390116-9 to AK.

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Address for correspondence: Alexander Kudryavtsev. Laboratory ofCellular and Molecular Protistology, Zoological Institute of the Russian Academy of Sciences, Universitetskaya Emb. 1, 199034 Saint-Petersburg, Russia; e-mail: alexander.kudryavtsev@zin.ru