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Issue: Vol. 4318 No. 1: 6 Sept. 2017
Type: Article
Published: 2017-09-06
DOI: 10.11646/zootaxa.4318.1.1
Page range: 1–46
Abstract views: 109
PDF downloaded: 1

Patterns of genetic divergence in the Ilyodromus amplicolis lineage (Crustacea, Ostracoda), with descriptions of three new species

UMR CNRS 5558 – LBBE, Laboratoire Biométrie et Biologie Evolutive, Université Claude Bernard Lyon 1 – Bâtiment Mendel, VILLEURBANNE Cedex, France Centre for Ecosystem Management, Edith Cowan University, 270 Joondalup Dv, Joondalup, WA 6027, Australia. Royal Belgian Institute of Natural Sciences, Freshwater Biology, Vautierstraat 29, B-1000 Brussels, Belgium.
Royal Belgian Institute of Natural Sciences, Freshwater Biology, Vautierstraat 29, B-1000 Brussels, Belgium. University of Hasselt, Research Group Zoology, Agoralaan Building D, B-3590 Diepenbeek, Belgium.
Royal Belgian Institute of Natural Sciences, Freshwater Biology, Vautierstraat 29, B-1000 Brussels, Belgium. University of Ghent, Department of Biology, K.L. Ledeganckstraat 35, B-9000 Gent, Belgium.
Bennelongia Environmental Consultants, 5 Bishop Street, Jolimont WA 6014, Australia
Centre for Ecosystem Management, Edith Cowan University, 270 Joondalup Dv, Joondalup, WA 6027, Australia.
Centre for Ecosystem Management, Edith Cowan University, 270 Joondalup Dv, Joondalup, WA 6027, Australia.
Crustacea taxonomy systematics SEM phylogenetics mtDNA rDNA gene flow Western Australia

Abstract

In this study, 13 previously recorded populations of Ilyodromus amplicolis De Deckker, 1981 from temporary aquatic habitats in Western Australia were scanned for undescribed species diversity using morphological and molecular systematics techniques. The study found congruent morphological and molecular evidence for three species that are new to science, all of which are formally described here (I. armacutis n. sp., I. sensaddito n. sp. and I. hiatus n. sp.). The findings shed light on the potential for further undescribed diversity in the genus Ilyodromus Sars, 1894.

 

References

  1. Altschul, S.F., Gish, W., Mller, W., Myers, E.W. & Lipman, D.J. (1990) Basic local alignment search tool. Journal of Molecular Biology, 215, 403–410.
    https://doi.org/10.1016/S0022-2836(05)80360-2

    Angell, R.W. & Hancock, J.W. (1989) Response of eggs of Heterocypris incongruens (Ostracoda) to experimental stress. Journal of Crustacean Biology, 9, 381–386.
    https://doi.org/10.2307/1548561

    Baird, W. (1862) Description of some new species of entomostracous Crustacea. The Annals and Magazine of Natural History, Series 3, 10, 1–6.

    Bayly, I. (1982) Invertebrate fauna and ecology of temporary pools on granite outcrops in southern Western Australia. Marine and Freshwater Research, 33 (3), 599–606.
    https://doi.org/10.1071/MF9820599

    Birky, C.W., Adams, J., Gemmel, M. & Perry, J. (2010) Using population genetic theory and DNA sequences for species detection and identification in asexual organisms. PLOS ONE, 5 (5), e10609.
    https://doi.org/10.1371/journal.pone.0010609

    Bode, S.N.S., Adolfsson, S., Lamatsch, D.K., Martins, M.J.F., Schmit, O., Vandekerkhove, J., Mezquita, F., Namiotko, T., Rossetti, G., Schön, I., Butlin, R.K. & Martens, K. (2010) Exceptional cryptic diversity and multiple origins of parthenogenesis in a freshwater ostracod. Molecular Phylogenetics and Evolution, 54, 542–552.
    https://doi.org/10.1016/j.ympev.2009.08.022

    Brady, G.S. (1886) Notes on freshwater Entomostraca from South Australia. Proceedings of the Zoological Society of London, 1886, 82–93.

    Brady, G.S. & Norman, C.A.M. (1896) A monograph of the marine and freshwater Ostracoda of the north Atlantic and of north-western Europe - Part II, Sections II to IV: Myodocopa, Cladocopa and Platycopa. The Scientific Transactions of the Royal Dublin Society, 5 (2), 621–746.

    Broodbakker, N.W. & Danielopol, D.L. (1982) The chaetotaxy of Cypridacea (Crustacea, Ostracoda) limbs: proposals for a descriptive model. Bijdragen tot de Dierkunde, 52, 103–120.

    Carstens, B.C. & Knowles, L.L. (2007) Estimating species phylogeny from gene-tree probabilities despite incomplete lineage sorting: an example from Melanoplus grasshoppers. Systematic Biology, 56 (3), 400–411.
    https://doi.org/10.1080/10635150701405560

    Costa, F.O., deWaard, J.R., Boutillier, J., Ratnasingham, S., Dooh, R.T., Hajibabaei, M. & Hebert, P.D.N. (2007) Biological identifications through DNA barcodes: the case of the Crustacea. Canadian Journal of Fisheries and Aquatic Sciences, 64 (2), 272–296.
    https://doi.org/10.1139/f07-008

    Daday, E. (1905) Untersuchungen über die Süsswasser-Mikrofauna Paraguays. Zoologica, 44, 1–349.

    Danielopol, D.L. & McKenzie, K.G. (1977) Psychrodromus gen. n. (Crustacea: Ostracoda), with redescription of the cypridid genera Prionocypris and Ilyodromus. Zoologica Scripta, 6, 301–322.
    https://doi.org/10.1111/j.1463-6409.1978.tb00783.x

    De Deckker, P. (1981) Ostracoda from Australian inland waters - notes on taxonomy and ecology. Proceedings of the Royal Society of Victoria, 93, 43–85.

    De Deckker, P. (1982) Non-marine ostracods from two Quaternary profiles at Pulbeena and Mowbray Swamps, Tasmania. Alcheringa, 6, 249–274.
    https://doi.org/10.1080/03115518208619636

    Drummond, A. & Rambaut, A. (2007) BEAST: Bayesian evolutionary analysis by sampling trees. BMC Evolutionary Biology, 7 (1), 214.
    https://doi.org/10.1186/1471-2148-7-214

    Edgar, R.C. (2004) MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Research, 32 (5), 1792–1797.
    https://doi.org/10.1093/nar/gkh340

    Ewing, B. & Green, P. (1998) Base-calling of automated sequencer traces using Phred. II. Error probabilities. Genome Research, 8 (3), 186–194.
    https://doi.org/10.1101/gr.8.3.175

    Ewing, B., Hillier, L., Wendl, M.C. & Green, P. (1998) Base-calling of automated sequencer traces using Phred. I. Accuracy assessment. Genome Research, 8 (3), 175–185.
    https://doi.org/10.1101/gr.8.3.175

    FitzJohn, R.G. (2012) Diversitree: comparative phylogenetic analyses of diversification in R. Methods in Ecology and Evolution, 3 (6), 1084–1092.
    https://doi.org/10.1111/j.2041-210X.2012.00234.x

    Folmer, O., Black, M., Hoeh, W., Lutz, R. & Vrijenhoek, R. (1994) DNA primers for amplification of mitochondrial Cytochrome C oxidase subunit I from diverse metazoan invertebrates. Molecular Marine Biology and Biotechnology, 3, 294–299.

    Gonzalez, I.L., Gorski, J.L., Campen, T.J., Dorney, D.J., Erickson, J.M., Sylvester, J.E. & Schmickel, R.D. (1985) Variation among human 28S ribosomal RNA genes. Proceedings of the National Academy of Sciences of the United States of America, 82 (22), 7666–7670.
    https://doi.org/10.1073/pnas.82.22.7666

    Gonzalez Mozo, M., Martens, K. & Baltanas, A. (1996) A taxonomic revision of European Herpetocypris BRADY and NORMAN, 1889 (Crustacea, Ostracoda). Bulletin van het Koninklijk Belgisch Instituut voor Natuurwetenschappen, Biologie, 66, 93–132.

    Hajibabaei, M., Singer, G.A., Hebert, P.D. & Hickey, D.A. (2007) DNA barcoding: how it complements taxonomy, molecular phylogenetics and population genetics. TRENDS in Genetics, 23 (4), 167–172.
    https://doi.org/10.1016/j.tig.2007.02.001

    Halse, S.A. (2002) Diversity of Ostracoda (Crustacea) in inland waters of Western Australia. Verhandlungen Internationale Vereinigung fur theoretische und angewandte Limnologie, 28, 914–918.

    Harmon, L.J., Weir, J.T., Brock, C.D., Glor, R.E. & Challenger, W. (2008) GEIGER: investigating evolutionary radiations. Bioinformatics, 24, 129–131.
    https://doi.org/10.1093/bioinformatics/btm538

    Hebert, P.D., Cywinska, A. & Ball, S.L. (2003) Biological identifications through DNA barcodes. Proceedings of the Royal Society of London B: Biological Sciences, 270 (1512), 313–321.
    https://doi.org/10.1098/rspb.2002.2218

    Jocque, M., Vanschoenwinkel, B. & Brendonck, L. (2010) Freshwater rock pools: a review of habitat characteristics, faunal diversity and conservation value. Freshwater Biology, 55 (8), 1587–1602.
    https://doi.org/10.1111/j.1365-2427.2010.02402.x

    King, R.L. (1855) On Australian Entomostracans. Papers and Proceedings of the Royal Society of Van Diemen’s Land. Tasmania, 3, 56–75.

    Koenders, A., Martens, K., Halse, S.A. & Schön, I. (2012) Cryptic species of the Eucypris virens species complex (Ostracoda, Crustacea) from Europe have invaded Western Australia. Biological Invasions, 14 (10), 2187–2201.
    https://doi.org/10.1007/s10530-012-0224-y

    Lefébure, T., Douady, C.J., Gouy, M. & Gibert, J. (2006) Relationship between morphological taxonomy and molecular divergence within Crustacea: proposal of a molecular threshold to help species delimitation. Molecular phylogenetics and evolution, 40 (2), 435–447.
    https://doi.org/10.1016/j.ympev.2006.03.014

    Leigh, J.W., Susko, E., Baumgartner, M. & Roger, A.J. (2008) Testing congruence in phylogenomic analysis. Systematic Biology, 57 (1), 104–115.
    https://doi.org/10.1080/10635150801910436

    Lemon, J. (2006) Plotrix: a package in the red light district of R. R-News, 6 (4), 8–12.

    Mallatt, J. & Sullivan, J. (1998) 28S and 18S rDNA sequences support the monophyly of lampreys and hagfishes. Molecular Biology and Evolution, 15 (12), 1706–1718.
    https://doi.org/10.1093/oxfordjournals.molbev.a025897

    Martens, K. (1987) Homology and functional morphology of the sexual dimorphism in the antenna of Sclerocypris Sars, 1924 (Crustacea, Ostracoda, Megalocypridinae). Bijdragen tot de Dierkunde, 57, 183–190.

    Martens, K. (1998) Sex and Parthenogenesis: Evolutionary Ecology of Reproductive Modes in Non-Marine Ostracods. Backhuys, Leiden, 334 pp.

    Martens, K., Halse, S.A. & Schön, I. (2012) Nine new species of Bennelongia De Deckker & McKenzie, 1981 (Crustacea, Ostracoda) from Western Australia, with the description of a new subfamily. European Journal of Taxonomy, 8, 1–56.
    https://doi.org/10.5852/ejt.2012.8

    Martens, K., Halse, S. & Schön, I. (2013) On the Bennelongia barangaroo lineage (Crustacea, Ostracoda) in Western Australia, with the description of seven new species. European Journal of Taxonomy, 66, 1–59.
    https://doi.org/10.5852/ejt.2013.66

    Martens, K., Halse, S. & Schön, I. (2015) On the Bennelongia nimala and B. triangulata lineages (Crustacea, Ostracoda) in Western Australia, with the description of six new species. European Journal of Taxonomy, 111, 1–36.
    https://doi.org/10.5852/ejt.2015.111

    Martens, K., Schön, I., Meisch, C. & Horne, D. (2008) Global diversity of ostracods (Ostracoda, Crustacea) in freshwater. Hydrobiologia, 595 (1), 185–193.
    https://doi.org/10.1007/s10750-007-9245-4

    McKenzie, K.G. (1966) Freshwater Ostracoda from north-western Australia. Australian Journal of Marine and Freshwater Research, 17 (2), 259–280.
    https://doi.org/10.1071/MF9660259

    Meier, R., Shiyang, K., Vaidya, G. & Ng, P.K.L. (2006) DNA barcoding and taxonomy in Diptera: a tale of high intraspecific variability and low identification success. Systematic Biology, 55 (5), 715–728.
    https://doi.org/10.1080/10635150600969864

    Meisch, C. (2000) Freshwater Ostracoda of Western and Central Europe. In: Schwoerbel, J. & Zwick, P. (Eds.), Süßwasserfauna von Mitteleuropa 8(3). Spektrum Akademischer Verlag, Heidelberg, Berlin, pp. 1−522.

    Müller, G.W. (1906) Ostracoda. Wissenschaftliche Ergebnisse der Deutschen Tiefsee-Expedition auf dem Dampfer “Valdivia” 1898–1899, 8, 27–154.

    Müller, G.W. (1912) Crustacea, Ostracoda. In: Schulze, F.E. (Ed.), Das Tierreich. 31. Lieferung. R. Friedländer und Sohn, Berlin, pp. 1–434.

    Paradis, E. (2010) pegas: an R package for population genetics with an integrated–modular approach. Bioinformatics, 26, 419–420.
    https://doi.org/10.1093/bioinformatics/btp696

    Paradis, E., Claude, J. & Strimmer, K. (2004) APE: analyses of phylogenetics and evolution in R language. Bioinformatics, 20, 289–290.
    https://doi.org/10.1093/bioinformatics/btg412

    Petkovski, T.K. & Meisch, C. (1995) Interesting freshwater Ostracoda (Crustacea) from Macedonia. Bulletin de la Société des Naturalistes Luxembourgeois, 96, 176–183.

    Pinceel, T., Vanschoenwinkel, B., Waterkeyn, A., Vanhove, M.P.M., Pinder, A., Timms, B.V. & Brendonck, L. (2013) Fairy shrimps in distress: a molecular taxonomic review of the diverse fairy shrimp genus Branchinella (Anostraca: Thamnocephalidae) in Australia in the light of ongoing environmental change. Hydrobiologia, 700 (1), 313–327.
    https://doi.org/10.1007/s10750-012-1240-8

    Pinder, A.M., Halse, S.A., Shiel, R.J. & McRae, J. (2000) Granite outcrop pools in south-western Australia; foci for diversification and refugia for aquatic invertebrates. Journal of the Royal Society of Western Australia, 83, 149–161.

    Pons, J., Barraclough, T.G., Gomez-Zurita, J., Cardoso, A., Duran, D.P., Hazell, S., Kamoun, S., Sumlin, W. D. & Vogler, A.P. (2006) Sequence-based species delimitation for the DNA taxonomy of undescribed insects. Systematic Biology, 55 (4), 595–609.
    https://doi.org/10.1080/10635150600852011

    Posada, D. (2008) jModelTest: phylogenetic model averaging. Molecular Biology and Evolution, 25 (7), 1253–1256.
    https://doi.org/10.1093/molbev/msn083

    Rambaut, A., Suchard, M.A., Xie, D. & Drummond, A. (2014) Tracer v1.6. Available from: http://beast.bio.ed.ac.uk/Tracer (accessed 13 October 2016)

    Sars, G.O. (1889) On some freshwater Ostracoda and Copepoda raised from dried Australian mud. Christiania Videnskabs-Selskabs Forhandlinger, 8, 3–79.

    Sars, G.O. (1894) Contributions to the knowledge of the freshwater Entomostraca of New Zealand as shown by artificial hatching from dried mud. Videnskabsselskabets skrifter. I, Mathematisk-naturvidenskabelig Klasse, 5, 1–62.

    Sars, G.O. (1896) On freshwater Entomostraca from the neighbourhood of Sydney, partly raised from dried mud. Archiv for Mathematik og Naturvidenskab, 18, 1–81.

    Schön, I., Martens, K. & Halse, S.A. (2010) Genetic diversity in Australian ancient asexual Vestalenula (Ostracoda, Darwinulidae): little variability down under. Hydrobiologia, 641 (1), 59–70.
    https://doi.org/10.1007/s10750-009-0057-6

    Schön, I., Pinto, R.L., Halse, S.A., Smith, A.J., Martens, K. & Birky Jr., C.W. (2012) Cryptic species in putative ancient asexual Darwinulids (Crustacea, Ostracoda). PLOS ONE, 7 (7), e39844.
    https://doi.org/10.1371/journal.pone.0039844

    Schön, I., Poux, C., Verheyen, E. & Martens, K. (2014) High cryptic diversity and persistent lineage segregation in endemic Romecytheridea (Crustacea, Ostracoda) from the ancient Lake Tanganyika. Hydrobiologia, 739, 119–131.
    https://doi.org/10.1007/s10750-013-1581-y

    Schwentner, M., Timms, B.V. & Richter, S. (2014) Evolutionary systematics of the Australian Eocyzicus fauna (Crustacea: Branchiopoda: Spinicaudata) reveals hidden diversity and phylogeographic structure. Journal of Zoological Systematics and Evolutionary Research, 52 (1), 15–31.
    https://doi.org/10.1111/jzs.12038

    Sharpe, R.W. (1908) A further report on the Ostracoda of the United States National Museum. Proceedings of the United States National Museum, 35, 399–430.
    https://doi.org/10.5479/si.00963801.35-1651.399

    Shearn, R., Halse, S.A., Koenders, A., Schön, I. & Martens, K. (2014) Redescriptions of six species of Ilyodromus Sars, 1894 (Crustacea, Ostracoda, Cyprididae) from Eastern Australia and New Zealand. Zootaxa, 3878 (2), 101–145.
    https://doi.org/10.11646/zootaxa.3878.2.1

    Shearn, R., Koenders, A., Halse, S.A., Schön, I. & Martens, K. (2012) A review of Bennelongia De Deckker & McKenzie, 1981 (Crustacea, Ostracoda) species from eastern Australia with the description of three new species. European Journal of Taxonomy, 25, 1–35.
    https://doi.org/10.5852/ejt.2012.25

    Shearn, R., Koenders, A., Schön, I., Halse, S.A. & Martens, K. (2017) On the affinity of Isocypridinae and Herpetocypridinae, with redescriptions of four species of Ilyodromus Sars, 1894 (Crustacea, Ostracoda). Zootaxa, in press.

    Smith, R.J., Janz, H. & Okubo, I. (2011) Recent Cyprididae and Ilyocyprididae (Crustacea: Ostracoda) from Lake Biwa, Japan, including a summary of the lake’s ostracod fauna. Zootaxa, 2874, 1–37.

    Smith, R.J. & Matzke-Karasz, R. (2008) The organ on the first segment of the cypridoidean (Ostracoda, Crustacea) antennule: morphology and phylogenetic significance. Senckenbergiana lethaea, 88 (1), 127–140.
    https://doi.org/10.1007/BF03043984

    Sonnenberg, R., Nolte, A. & Tautz, D. (2007) An evaluation of LSU rDNA D1-D2 sequences for their use in species identification. Frontiers in Zoology, 4 (1), 1–12.
    https://doi.org/10.1186/1742-9994-4-6

    Stamatakis, A. (2006) RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics, 22 (21), 2688–2690.
    https://doi.org/10.1093/bioinformatics/btl446

    Tang, C.Q., Leasi, F., Obertegger, U., Kieneke, A., Barraclough, T.G. & Fontaneto, D. (2012) The widely used small subunit 18S rDNA molecule greatly underestimates true diversity in biodiversity surveys of the meiofauna. Proceedings of the National Academy of Sciences, 109 (40), 16208–16212.
    https://doi.org/10.1073/pnas.1209160109

    Victor, R. & Fernando, C.H. (1981) A new species of Ilyodromus Sars (Crustacea, Ostracoda) from the Philippines. Zoologica Scripta, 10 (4), 255–257.
    https://doi.org/10.1111/j.1463-6409.1981.tb00501.x

    Wickham, H. (2011) The split-apply-combine strategy for data analysis. Journal of Statistical Software, 40 (1), 1–29.
    https://doi.org/10.18637/jss.v040.i01

    Yule, G.U. (1924) A mathematical theory of evolution: based on the conclusions of Dr. J. C. Willis. Philosophical Transactions of the Royal Society of London. Series B, Containing Papers of a Biological Character, 213, 21–87.
    https://doi.org/10.1098/rstb.1925.0002