Research Article |
Corresponding author: Agniya M. Sokolova ( enfado@ya.ru ) Academic editor: Pavel Stoev
© 2020 Agniya M. Sokolova, Dmitry M. Palatov, Valeria B. Itskovich.
This is an open access article distributed under the terms of the Creative Commons Attribution License (CC BY 4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
Citation:
Sokolova AM, Palatov DM, Itskovich VB (2020) Genetic analysis confirms the freshwater origin of the endemic Caspian sponges (Demospongiae, Spongillida, Metschnikowiidae). ZooKeys 915: 1-16. https://doi.org/10.3897/zookeys.915.47460
|
The Caspian Sea is a unique inland brackish waterbody inhabited by highly endemic fauna. This fauna consists of species of both marine and freshwater origin. Some Caspian invertebrates cannot be confidently referred to as animals of either origin. The endemic monophyletic family of sponges, Metschnikowiidae, is among them. Although these sponges are considered as fresh water in the modern literature, no researcher has seen them alive for many years, and its status is actually unconfirmed. Here, we present the first photos of Metschnikowia tuberculata Grimm, 1877 and report evidence for its freshwater origin based on analysis of ITS1 and ITS2 sequences and partial sequences of CO1 gene. According to the genetic analysis, M. tuberculata belongs to the order Spongillida. We observed specimens of diverse appearance, but their spicule complement proved to be similar, and ITS sequences were identical. Thus, we conclude that they belong to the same species. The obtained results expand our knowledge about the dispersal ability of freshwater sponges.
Caspian Sea, CO1, ITS1, ITS2, Metschnikowia, Porifera, Spongillida
The Caspian Sea is the largest enclosed inland waterbody on our planet, variously classed as the world’s largest lake or a full-fledged sea. Being the residue of ancient seas, the Caspian Sea is completely isolated from oceans now. It is a nondrainage brackish waterbody with profound seasonal and multiannual level oscillations (
In the last century, the Caspian Sea was actively studied, but after the disintegration of the USSR, most of the research ceased. However, some of the Caspian species did not get due consideration even in favorable times. This particularly applies to sponges (phylum Porifera). The endemic Caspian sponges were first described by Grimm in the 19th century (
The authors concerned with Metschnikowia surmised its relation to marine sponges:
Thus, given the fact that the Caspian fauna includes species of both freshwater and marine origin, the evolutionary history of sponges remained unknown. So did their actual diversity and ecology because it has been a long time since biologists saw them alive. The current study presents the first photos of live Caspian sponges and their spicules, and the genetic analysis revealing their phylogenetic position.
The material was collected in the vicinity of Aktau town, Kazakhstan (44°04'88"N, 50°86'98"E), in September 2018. Specimens were gathered by SCUBA diving, snorkeling or by turning over littoral stones. Sponges were carefully detached from rocks and lower parts of large stones by forceps or were collected with the substratum (Mytilus aggregations). Specimens were fixed in 96% ethanol and RNA-later. When possible, sponges were photographed in situ before collection. For comparative purposes, specimens of M. tuberculata from museum collections (deposited in the Zoological Institute of the Russian Academy of Science (
For scanning electron microscopy (SEM), spicules were purified with potassium dichromate solution and mounted on a stub according to the classical method (
Total genomic DNA extraction was performed using the RIBO-sorb RNA/DNA extraction kit (InterLabService, Russia). The 676 bp fragment at the 5’ end of the CO1 gene was amplified and sequenced using universal barcoding primers (
Bayesian analyses on nucleotide sequences were run with a parallel version of MrBayes 3.1.2 (
Trochospongilla latouchiana Annandale, 1907 (Spongillidae) was used as the outgroup for ITS sequences because early branching of this genus among Spongillida has been shown in previous phylogenetic reconstructions (
The World Porifera Database (
Sponges were abundant in the studied depths (0.5–5 m) but preferred hidden places. A total of 41 sponges were collected; nine of them were sequenced.
We observed sponges of highly variable appearance: crusts of yellow, blue, green or several/ transitional colors and bright-yellow spheres (ø 2–7 cm) (Fig.
Thus, two stable morphs could be distinguished among others: thin faded-green encrusting sponges (Fig.
The yellow globular morph and faded-green encrusting morph occupied exclusively shaded areas of rocks and lower surfaces of large stones at a depth of 2 m and more. Encrusting sponges of other colors were observed on less-shaded substrata as well as on shaded surfaces at a depth of 50 cm and more.
Spicules were 126–175 µm × 3–7.5 µm (for more details see Table
Measurements of spicules of Metschnikowia tuberculata. YGC – yellow-green crust, YS – yellow sphere, FGC – faded-green crust, BC – blue crust; SD – standard deviation.
Specimen | Appearance | Spicule length (N = 25) | Spicule width (N = 25) | ||||||
---|---|---|---|---|---|---|---|---|---|
min | mean | SD | max | min | mean | SD | max | ||
Present collection | |||||||||
YGC | 126.25 | 145.33 | 7.69 | 157.50 | 3.75 | 5.50 | 0.91 | 7.00 | |
FGC | 125.00 | 152.40 | 10.69 | 175.00 | 4.00 | 5.68 | 0.82 | 7.50 | |
BC | 141.25 | 152.50 | 5.33 | 160.00 | 4.75 | 5.82 | 0.82 | 7.25 | |
YS | 140.00 | 155.14 | 6.73 | 163.75 | 3.00 | 5.03 | 0.72 | 6.50 | |
YS | 132.50 | 144.20 | 6.57 | 155.00 | 3.75 | 5.60 | 0.92 | 7.25 | |
Museum collection | |||||||||
M. t. var. tuberculata |
Unknown | 143.00 | 148.42 | 4.46 | 156.00 | 4.00 | 6.50 | 0.99 | 7.90 |
M. t. var. tuberculata |
Presumably YS (Fig. |
157.50 | 173.26 | 7.91 | 183.25 | 10.25 | 14.00 | 1.38 | 16.25 |
M. t. var. intermedia |
Unknown | 117.75 | 148.16 | 11.81 | 165.00 | 4.75 | 5.90 | 0.81 | 7.50 |
M. t. var. flava |
Unknown | 151.25 | 172.15 | 10.59 | 192.50 | 7.50 | 12.94 | 1.43 | 15.00 |
Museum collection, measurements from |
|||||||||
M. t. var. tuberculata | 130 | 190 | 12 | 18 | |||||
M. t. var. intermedia | 120 | 210 | 8 | 19 | |||||
M. t. var. flava | 120 | 200 | 10 | 17 |
Skeleton complement of Metschnikowia tuberculata. A–C Spicules of encrusting sponges D spicules of a globular sponge E skeleton arrangement of a globular sponge F skeleton arrangement of an encrusting sponge. Scale bars: 30 µm (A–D whole spicules); 2 µm (A–D magnified parts); 250 µm (E, F).
Oxeas constitute paucispicular ascending tracts, sometimes organized in quite regular anisotropic reticulation. The degree of regularity highly varies, and it is more prominent in peripheral parts of sponges. In encrusting forms, tracts protrude outward from the sponge surface (Fig.
The only existing museum collection of the Caspian sponges includes spirit specimens (
Museum specimens of Metschnikowia tuberculata. A General view of the three syntypes and their labels. Scale bar 1 cm.
COI sequences of nine sponge samples of different colors and shapes were obtained. All sequences (MN431221–MN431229) were identical and have length 676 bp. A BLAST analysis revealed that the obtained sequences are most similar to the freshwater sponge Ephydatia fluviatilis (Linnaeus, 1759) (Spongillidae) and differ from its sequence by one nucleotide substitution. The obtained sequences were aligned with available GenBank sequences of Spongillida and Vetulina stalactites (the closest marine relative of Spongillida) and resulted in a 487 bp alignment, in which 28 characters were available for phylogenetic analyses. Phylogenetic reconstructions based on CO1 data obtained with BI and ML had similar topologies with poorly resolved phylogenetic relationships (tree not shown). Mean genetic distance between M. tuberculata and other freshwater sponges was 1% and between M. tuberculata and V. stalactites was 10%.
ITS1 and ITS2 sequences were obtained from the same specimens. All sequences (MK659927–MK659935) were identical and have length 751 bp. A BLAST analysis revealed that the obtained sequences are most similar to the freshwater sponge Ephydatia fluviatilis (Linnaeus, 1759) (Spongillidae) and other Spongillida. The obtained sequences were aligned with available GenBank sequences of Spongillida and resulted in an 873 bp alignment, in which 437 characters were available for phylogenetic analyses. Marine sponges were not included in the analysis due to the high variability of ITS spacers making the alignment impossible. Phylogenetic reconstructions obtained with BI and ML had generally similar topologies, but the BI-tree shows higher support (Fig.
Bayesian phylogenetic tree based on comparisons of 873 bp of ITS 1 and ITS 2 sequences of Spongillida. Nodes are characterized by Bayesian posterior probabilities (%) followed by bootstrap percentages; a (–) indicates that a particular analysis supported the node at less than 50%, or supported an alternative phylogenetic arrangement in ML tree. Trochospongilla latouchiana (Spongillidae; GenBank EF151955) was used as the outgroup. Scale bar denotes substitutions per site.
The analyzed Caspian sponges form a clade with Ephydatia syriaca Topsent, 1910, E. fluviatilis and Cortispongilla barroisi (Topsent, 1892). This clade is included in the common clade with Racekiela sp. and Heterorotula multidentata (Weltner, 1895). All Lubomirskiidae form a strongly supported monophyletic clade with Ephydatia muelleri (Lieberkühn, 1856) as a sister species. Our results also support monophyly of the genus Eunapius. Radiospongilla is paraphyletic to all other species of Spongillidae.
During its existence, the Caspian Sea has repeatedly reconnected with the ocean. Now isolated, this waterbody retains typical marine features, such as characteristic water circulation, the structure of the water mass, hydrochemical properties, production of organic matter in the pelagic zone, geomorphological structure and distribution of organisms. On the other hand, the Caspian water is characterized by lower salt concentration (12–13‰ in the middle and southern parts) and modified salt composition (
We observed two stable morphs (yellow globules and thin faded-green crusts) and many encrusting sponges with transitional colors.
At the same time, we observed some tendency for an increasing number of oxeas’ spines in globular sponges compared with encrusting ones. Some encrusting sponges have spicules with minute spines, clearly seen under SEM, but not so obvious under a light microscope. Probably, it was this tendency that led Grimm to misidentify some sponges with smooth spicules as representatives of marine haplosclerid Reniera (accepted name Haliclona) (
The Caspian fauna is considered to be in the process of formation because of significant morphological variety of fishes and benthic animals (
Comparison of our specimens with the museum collection leaves no doubt that they represent M. tuberculata. However, spicules of some sponges from the slide collection stand out from others due to their large size and salient spines. Although freshwater sponges (Spongillida) are known for some spicule variability (e.g.,
The current study is based on too few specimens and we certainly cannot claim all the Caspian sponges belong to the one species. Nevertheless, our results revealed that sponges of different morphs have identical ITS sequences. Taking into account that ITS sequences have a good resolution at species and generic levels in Spongillida (
Our data support the monophyly of freshwater sponges previously predicted by morphological data (
Thus, the clustering of Metschnikowia with Ephydatia seems not surprising. This clade also supports the hypothesis of the formation of endemic species from cosmopolitan founders (
CO1 of freshwater sponges, conversely, have low variability that resulted in an unresolved phylogeny within Spongillida both in our data and in previous analyses (
Spongillidae is shown to be paraphyletic with respect to the malawispongiid Cortispongilla barroisi, agreeing with the results of
The work was supported by basic funding № 0345-2019-0002; Russian Foundation for Basic Research (RFBR), project numbers 17-04-01598 (DNA sequencing) and 19-34-90084; RFBR and government of the Irkutsk region, project number17-44-388103 p_а (DNA sequencing). The work of AMS was conducted under the Institute of Developmental Biology National Basic Research Program for 2020 year. Sponge samples were studied using the Joint Usage Center ‘Instrumental Methods in Ecology’ at A. N. Severtsov Institute of Ecology and Evolution, Russian Academy of Sciences. The research was partially done using equipment of the Core Centrum of Institute of Developmental Biology RAS. The authors are thankful to Nariman Zhaksybekov and Bakhramzhan Novruzov for consulting and providing scuba equipment and Olga Bozhenova (