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Type: Article
Published: 2019-11-06
Page range: 1–25
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Caridina biyiga sp. nov., a new freshwater shrimp (Crustacea: Decapoda: Atyidae) from Leichhardt Springs, Kakadu National Park, Australia, based on morphological and molecular data, with a preliminary illustrated key to Northern Territory Caridina

BioAccess Australia, PO Box 662, Burpengary Qld 4505, Australia.
Australian Rivers Institute, Griffith University, Nathan, Qld 4111, Australia.
Supervising Scientist Branch (Heritage, Reef and Marine Division), Department of Environment & Energy, PO Box 461, Darwin, NT 0801, Australia.
Crustacea taxonomy systematics DNA phylogeny genetics new species thermal springs


Caridina biyiga sp. nov. is described from Leichhardt Springs, Kakadu National Park, Northern Territory, Australia, based on morphological and molecular data. The new species is highly distinctive among its congeners in having the dactylus of pereiopod 5 similar to the dactyli of pereiopods 3–4 and lacking the comb-like row of spiniform setae typical of the genus. The branchial formula is also distinctive for the genus in lacking an arthrobranch at the base of pereiopod 1 and in having a vestigial epipod on maxilliped 1.

                Despite the distinctive morphology of the new species, the molecular data did not provide strong support for the recognition of a new genus. Phylogenetic analyses of Australian Caridina using the mitochondrial 16S rDNA gene fragment placed the new species in a well-supported clade containing at least one typical species of Caridina. Within this clade, referred to as the ‘thermophila’ group, Kimura 2-parameter (K2P) genetic distances of 16S rDNA between the new species and sister taxa ranged from 5.1–6.0%. Analyses using the mitochondrial 3’ COI gene fragment from species of the ‘thermophila’ group yielded K2P genetic distances between the new species and its sister taxa ranging from 10.4–15.1%.

                A preliminary illustrated key to Northern Territory Caridina is provided. The conservation significance of Leichhardt Springs and its aquatic fauna are also briefly discussed.



  1. Bishop, J.A. (1967) The Zoogeography of the Australian Freshwater decapod Crustacea. In: Weatherley, A.H. (Ed.), Australian Inland Waters and Their Fauna. Australian National University Press, Canberra, pp. 107–122.

    Bouvier, E.L. (1925) Recherches sur la morphologie, les variations, la distribution geographique des crevettes de la famille des Atyidès. Encyclopèdie Entomologique, Paris, séries A, 4, 370 pp.

    Bruce, A.J. (1983) Additions to the marine fauna of the Northern Territory. 1. Decapoda crustacea: Caridea and Stenopodidea. The Beagle, Occasional Papers of the Northern Territory Museum of Arts and Sciences, 1 (5), 41–49.

    Cai, Y., Ng, P.K.L., Shokita, S. & Satake, K. (2006) On the species of Japanese atyid shrimps (Decapoda: Caridea) described by William Stimpson (1860). Journal of Crustacean Biology, 26 (3), 392–419.

    Cai, Y. & Shokita, S. (2006) Report on a collection of freshwater shrimps (Crustacea: Decapoda: Caridea) from the Philippines with the description of four new species. The Raffles Bulletin of Zoology, 54 (2), 245–270.

    Calman, W.T. (1926) XXXII.–On freshwater prawns of the family Atyidae from Queensland. Annals and Magazine of Natural History, 17 (9), 241–246.

    Choy, S.C. (1996) Caridina spelunca, a new species of freshwater shrimp (Crustacea: Decapoda: Atyidae) from a Western Australian cave. Records of the Western Australian Museum, 18, 103–107.

    Choy, S. & Marshall, J. (1997) Two new species of freshwater atyid shrimps (Crustacea: Decapoda: Atyidae) from northern Queensland and the distributional ecology of the Caridina typus species-group in Australia. Memoirs of the Queensland Museum, 41 (1), 25–36.

    Choy, S.C., Page, T.J., de Mazancourt, V. & Mos, B. (2019) Caridina malanda, a new species of freshwater shrimp (Crustacea: Decapoda: Atyidae) from the Wet Tropics World Heritage area, north-eastern Queensland, Australia. Zootaxa, 4652 (1), 113–125.

    Cook, B.D., Page, T.J. & Hughes, J.M. (2011) Molecular and conservation biogeography of freshwater caridean shrimps in north-western Australia. In: Held, C., Koenemann, S. & Schubart, C.D. (Eds.), Phylogeography and Population Genetics in Crustacea. CRC Press, Boca Raton, Florida, pp. 273–289.

    Cook, B.D., Pringle, C.M. & Hughes, J.M. (2008) Molecular evidence for sequential colonization and taxon cycling in freshwater decapod shrimps on a Caribbean island. Molecular Ecology, 17 (4), 1066–1075.

    Cook, B.D., Unmack, P.J., Huey, J.A. & Hughes, J.M. (2014) Did common disjunct populations of freshwater fishes in northern Australia form from the same biogeographic events? Freshwater Science, 33 (1), 263–272.

    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 Crustacea. Canadian Journal of Fisheries and Aquatic Sciences, 64 (2), 272–295.

    De Grave, S. & Page, T.J. (2014) The status of the Australian genus Caridinides Calman, 1926 (Crustacea: Decapoda: Atyidae) with reference to recent phylogenetic studies. Zootaxa, 3753 (4), 398–400.

    de Mazancourt, V., Klotz, W., Marquet, G., Mos, B., Rogers, D.C. & Keith, P. (2019) The complex study of complexes: The first well-supported phylogeny of two species complexes within genus Caridina (Decapoda: Caridea: Atyidae) sheds light on evolution, biogeography, and habitat. Molecular Phylogenetics and Evolution, 131, 164–180.

    Edgar, R.C. (2004) MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Research, 32 (5), 1792–1797.

    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.

    Glaister, J.P. (1976) Postembryonic growth and development of Caridina nilotica aruensis Roux (Decapoda: Atyidae) reared in the laboratory. Australian Journal of Marine and Freshwater Research, 27 (2), 263–278.

    Haan, (1849) Crustacea. In: von Siebold, P.F. (Ed.), Fauna Japonica, sive Descriptio animalium, quae in itinere per Japoniam, jussu et auspiciis superiorum, qui summum in India Batava imperium tenent, suscepto, annis 1823-1830 collegit, notis, observationibus et adumbrationibus illustravit P.F. de Siebold. Conjunctis studiis C.J. Temminck et H. Schlegel pro Vertebratis atque W. de Haan pro Invertebratis elaborata Regis aupicus edita. Decas VI. Leiden, Lugduni-Batavorum. pp. 165–196.

    Holthuis, L.B. (1986) A new genus and species of subterranean shrimp from Western Australia (Crustacea: Decapoda: Atyidae). Zoölogische Mededeelingen, Leiden, 60 (7), 103–111.

    Holthuis, L.B. (1993) The Recent Genera of the Caridean and Stenopodidean Shrimps (Crustacea, Decapoda) with an Appendix on the Order Amphionidacea. Nationaal Natuurhistorisch Museum, Leiden, 328 pp.

    Horwitz, P. (1995) Chapter 7. Decapoda of Australian inland waters: species checklist with distributional ranges. In: Horwitz, P. (Ed.), A Preliminary Key to the Species of Decapoda (Crustacea: Malacostraca) found in Australian Inland Waters. Co-operative Research Centre for Freshwater Ecology Identification Guide 5. The Murray-Darling Freshwater Research Centre, Albury, pp. 61–65.

    Huelsenbeck, J.P. & Ronquist, F. (2001) MRBAYES: Bayesian inference of phylogenetic trees. Bioinformatics, 17, 754–755.

    Hung, M.-S., Chan, T.-Y. & Yu, H.-P. (1993) Atyid shrimps (Decapoda: Caridea) of Taiwan, with descriptions of three new species. Journal of Crustacean Biology, 13 (3), 481–503.

    Jalihal, D.R. & Shenoy, S. (1998) Taxonomic revision of some Indian prawn species of genus Caridina H. Milne Edwards, 1837. In: Proceedings and Abstracts of the Fourth International Crustacean Congress. The Crustacean Society, Amsterdam, pp. 128–129.

    Man, J.G. de (1892) Decapoden des Indischen Archipels. In: Weber, M. (Ed.), Zoologische Ergebnisse einer Reise in Niederländisch Ost-Indien, 2, pp. 265–527.

    Matzen da Silva, J., Creer, S., dos Santos, A., Costa, A.C., Cunha, M.R., Costa, F.O & Carvalho, G.R. (2011) Systematic and evolutionary insights derived from mtDNA COI barcode diversity in the Decapoda (Crustacea: Malacostraca). PLoS ONE, 6, e19449.

    Milne Edwards, H. (1837) Histoire naturelle des Crustacés, comprenant l’anatomie, la physiologie et la classification de ces animaux, Vol. 2. Librairie encyclopédique de Roret, Paris, 532 pp.

    Page, T.J., Baker, A.M., Cook, B.D. & Hughes, J.M. (2005a) Historical transoceanic dispersal of a freshwater shrimp: the colonization of the South Pacific by the Genus Paratya (Atyidae), Journal of Biogeography, 32 (4), 581–593.

    Page, T.J., Choy, S.C. & Hughes, J.M. (2005b) The taxonomic feedback loop: symbiosis of morphology & molecules. Biology Letters, 1 (2), 139–142.

    Page, T.J., von Rintelen, K. & Hughes, J.M. (2007a) An island in the stream: Australia’s place in the cosmopolitan world of Indo-West Pacific freshwater shrimp (Decapoda: Atyidae: Caridina). Molecular Phylogenetics and Evolution, 43, 645–659.

    Page, T.J., von Rintelen, K. & Hughes, J.M. (2007b) Phylogenetic and biogeographic relationships of subterranean and surface genera of Australian Atyidae (Crustacea: Decapoda: Caridea) inferred with mitochondrial DNA. Invertebrate Systematics, 21, 137–145.

    Page, T.J., Cook, B.D., von Rintelen, T., von Rintelen, K. & Hughes, J.M. (2008a) Evolutionary relationships of atyid shrimp imply both ancient Caribbean radiations and common marine dispersals. Journal of the North American Benthological Society, 27 (1), 68–83.

    Page, T.J., Humphreys, W.F. & Hughes, J.M. (2008b) Shrimps down under: evolutionary relationships of subterranean crustaceans from Western Australia (Decapoda: Atyidae: Stygiocaris). PLoS ONE, 3 (2), e1618.

    Page, T.J., Short, J.W., Humphrey, C.L., Hillyer, M.J. & Hughes, J.M. (2008c) Molecular systematics of the Kakaducarididae (Crustacea: Decapoda: Caridea). Molecular Phylogenetics and Evolution, 46, 1003–1014.

    Palumbi, S.R., Martin, A., Romano, S., McMillan, W.O., Stice, L. & Grabowski, G. (1991) A Simple Fool’s Guide to PCR. Honolulu, University of Hawaii Press, 45 pp.

    Riek, E.F. (1953) The Australian freshwater prawns of the family Atyidae. Records of the Australian Museum, 23, 111–121.

    Roux, J. (1911) Nouvelles espèces de Décapodes d’eau douce provenant de Papouasie. Notes from the Leyden Museum. Leyden, 33, 81–106.

    Roux, J. (1926) An account of Australian Atyidae. Records of the Australian Museum, 15, 237–254.

    Schubart, C.D., Neigel, J.E. & Felder, D.L. (2000) Use of the mitochondrial 16S rRNA gene for phylogenetic and population studies of Crustacea. Crustacean Issues, 12, 817–830.

    Short, J.W. (1993) Caridina zebra, a new species of freshwater atyid shrimp (Crustacea: Decapoda) from northeastern Queensland rainforest. Memoirs of the Queensland Museum, 34 (1), 61–67.

    Short, J.W., Humphrey, C.L. & Page, T.J. (2013) Systematic revision and reappraisal of the Kakaducarididae Bruce (Crustacea: Decapoda: Caridea) with the description of three new species of Leptopalaemon Bruce & Short. Invertebrate Systematics, 27, 87–117.

    Shy, J.-Y., Lai, H.-T. & Yu, H.-P. (2001) On the larval development of Caridina formosae (Decapoda, Atyidae) reared in the laboratory. Crustaceana. International Journal of Crustacean Research, 75, 1159–1168.

    Smith, M.J. & Williams, W.D. (1982) Taxonomic revision of the Australian genus Caridinides Calman (Crustacea: Decapoda: Atyidae). Australian Journal of Marine and Freshwater Research, 33 (3), 575–587.

    Tamura, K., Peterson, D., Peterson, N., Stecher, G., Nei, M. & Kumar, S. (2011) MEGA5: Molecular Evolutionary Genetics Analysis Using Maximum Likelihood, Evolutionary Distance, and Maximum Parsimony Method. Molecular Biology and Evolution, 28, 2731–2739.

    Unmack, P.J., Allen, G.R. & Johnson, J.B. (2013) Phylogeny and biogeography of rainbowfishes (Melanotaeniidae) from Australia and New Guinea. Molecular Phylogenetics and Evolution, 67, 15–27.

    Von Rintelen, K., Karge, A. & Klotz, W. (2008) News from a small island—first record of a freshwater shrimp (Decapoda, Atyidae, Caridina) from Peleng, Banggai Islands, Indonesia. Journal of Natural History, 42 (33–34), 2243–2256.

    Von Rintelen, K., Page, T.J., Cai, Y., Roe, K., Stelbrink, B. & Kuhajda, B.R. (2012) Drawn to the dark side: a molecular phylogeny of freshwater shrimps (Crustacea: Decapoda: Caridea: Atyidae) reveals frequent cave invasions and challenges current taxonomic hypotheses. Molecular Phylogenetics and Evolution, 63, 82–96.

    Von Rintelen, K., von Rintelen, T., Meixner, M., Lüter, C., Cai, Y. & Glaubrecht, M. (2007) Freshwater shrimp-sponge association from an ancient lake. Biology Letters, 3 (3), 262–264.

    Williams, W.D. (1964) Subterranean freshwater prawns (Crustacea: Decapoda: Atyidae) in Australia. Australian Journal of Marine and Freshwater Research, 15, 93–106.

    Wilson, D. (2008) Freshwater shrimps from the top end. Australian Aquarium Magazine, 7, 51–53.

    Wilson, G.D.F., Humphrey, C.L., Colgan, D.J., Gray, K. & Johnson, R.N. (2009) Monsoon-influenced speciation patterns in a species flock of Eophreatoicus Nicholls (Isopoda; Crustacea). Molecular Phylogenetics and Evolution, 51, 349–364.