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Identification of common cladocerans and calanoids in two south Australian reservoirs using DNA barcoding and morphological analysis: an integrative approach

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Valid identification of species of freshwater zooplankton is the first step to understand population structures, abundance, and diversity in the pelagic environment. While some Australian taxa can be easily identified morphologically, e.g., Calamoecia ampulla (Searle, 1911), most other species of freshwater micrometazoans are difficult to identify without specialised training, resulting in limited and even incorrect identification of the various taxa. The use of DNA barcodes, for species identification and discrimination, has added a new dimension to the traditional phenotypic approach and allows researchers to understand the patterns of genetic variability and to overcome taxonomic difficulties in the identification of the species from different life history stages. We used mitochondrial gene cytochrome c oxidase I (COI) to examine the species status of common planktonic microcrustaceans in two South Australian reservoirs. COI analyses indicated that the zooplankton specimens examined from the order Diplostraca and the class Maxillopoda, which were assigned binomial names a priori from the genera Bosmina, Boeckella, Chydorus, Calamoecia and Daphnia, possessed distinct COI sequences and nested cohesively within the genealogy, except for individuals of Ceriodaphnia cf. cornuta and a Ceriodaphnia species complex that formed 4 clusters. These clusters were not explicitly identified morphologically. The present study does improve and contribute to the understanding of the status of taxonomy and biogeography of micro-crustaceans in South Australia. This information is crucial for the application of these species in studies of local and regional environmental change over varying time scales. We recommend the integration of traditional morphology with DNA barcoding-based examination, to facilitate species identification, especially for applied research.

Affiliations: 1: 1School of Earth and Environmental Sciences, The University of Adelaide, Adelaide, SA, Australia; 2: 2El Colegio de la Frontera Sur, Av. Centenario km 5.5, Chetumal 77014, Quintana Roo, Mexico; 3: 3Science Division, Office of Environment and Heritage NSW, PO Box A290, Sydney South, NSW 1232, Australia

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1. Bayly I. A. E. , 1962. "Additions to the inland water genus Calamoecia(Copepoda: Calanoida)". Marine and Freshwater Research, Vol 13: 252- 264. http://dx.doi.org/10.1071/MF9620252
2. Bayly I. A. E. , 1964. "A revision of the Australasian species of the freshwater genera Boeckellaand Hemiboeckella(Copepoda: Calanoida)". Australian Journal of Marine and Freshwater Research, Vol 15: 180- 238. http://dx.doi.org/10.1071/MF9640180
3. Bayly I. A. E. , 1976. "The plankton of Lake Eyre". Australian Journal of Marine and Freshwater Research, Vol 27: 661- 665. http://dx.doi.org/10.1071/MF9760661
4. Bayly I. A. E. , 1995. "Distinctive aspects of the zooplankton of large lakes in Australasia, Antarctica and South America". Marine & Freshwater Research, Vol 46: 1109- 1120. http://dx.doi.org/10.1071/MF9951109
5. Bayly I. A. E. , 1997. "Invertebrates of temporary waters in gnammas on granite outcrops in Western Australia". Journal of the Royal Society of Western Australia, Vol 80: September.
6. Bensasson D. , Zhang D. , Hartl D. L. , Hewitt G. M. , 2001. "Mitochondrial pseudogenes: evolution’s misplaced witnesses". Trends Ecol. Evol., Vol 16: 314- 321. http://dx.doi.org/10.1016/S0169-5347(01)02151-6
7. Benzie J. A. H. , 1986. " Daphnia occidentalis, new species (Cladocera: Daphniidae) from Western Australia: new evidence on the evolution of the North American D. ambigua- D. middendorffianagroup". Journal of Crustacean Biology, Vol 6: 232- 245. http://dx.doi.org/10.2307/1547984
8. Benzie J. A. H. , 1988. "The systematics of Australian Daphnia(Cladocera: Daphniidae). Species descriptions and keys". Hydrobiologia, Vol 166: 95- 161. http://dx.doi.org/10.1007/BF00028632
9. Berner D. B. , 1986. Taxonomy of Ceriodaphnia(Crustacea: Cladocera) in U.S. Environmental Cultures. EPA/600/4086/032.
10. Berner D. B. , 2003. Rediscriptions of Ceriodaphnia planifronsand C. hakea, Smith 1909 and of C. spinataHenry, 1919 (Crustacea, Cladocera, Anomopoda, Daphniidae). Joint Congress of ASL and NZLS.
11. Briski E. , Cristescu M. , Bailey S. , MacIsaac H. , 2011. "Use of DNA barcoding to detect invertebrate invasive species from diapausing eggs". Biological Invasions, Vol 13: 1325- 1340. http://dx.doi.org/10.1007/s10530-010-9892-7
12. Brookes D. J. , Hipsey R. M. , Burch D. M. , Regel H. R. , Linden G. L. , Ferguson M. C. , Antenucci P. J. , 2005. "Relative value of surrogate indicators for detecting pathogens in lakes and reservoirs". Environ. Sci. Technol., Vol 39: 8614- 8621. http://dx.doi.org/10.1021/es050821+
13. Buhay J. E. , 2009. "‘COI-like’ sequences are becoming problematic in molecular systematic and DNA barcoding studies". Journal of Crustacean Biology, Vol 29: 96- 110. http://dx.doi.org/10.1651/08-3020.1
14. Costa F. O. , Dewaard J. R. , Boutillier J. , Ratnasingham S. , Dooh R. T. , Hajibabaei M. , Hebert P. D. , 2007. "Biological identifications through DNA barcodes: the case of the Crustacea". Canadian Journal of Fisheries and Aquatic Sciences, Vol 64: 272- 295. http://dx.doi.org/10.1139/f07-008
15. Dayrat B. , 2005. "Towards integrative taxonomy". Biological Journal of the Linnean Society, Vol 85: 407- 415. http://dx.doi.org/10.1111/j.1095-8312.2005.00503.x
16. Desalle R. , Egan G. M. , Siddall M. , 2005. "The unholy trinity: taxonomy, species delimitation and DNA barcoding". Philosophical Transactions of the Royal Society B: Biological Sciences, Vol 360: 1905- 1916. http://dx.doi.org/10.1098/rstb.2005.1722
17. Ebach M. C. , Holdrege C. , 2005. "DNA barcoding is no substitute for taxonomy". Nature, Vol 434: 697. http://dx.doi.org/10.1038/434697b
18. Floyd R. , Abebe E. , Papert A. , Blaxter M. , 2002. "Molecular barcodes for soil nematode identification". Molecular Ecology, Vol 11: 839- 850. http://dx.doi.org/10.1046/j.1365-294X.2002.01485.x
19. Folmer O. F. , 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, Vol 3: 294- 299.
20. Freeland J. R. , Petersen S. D. , Kirk H. , 2011. Molecular ecology( 2nd ed.). ( Wiley-Blackwell, Oxford). http://dx.doi.org/10.1002/9780470979365
21. Frey D. G. , 1987. "The taxonomy and biogeography of the Cladocera". Hydrobiologia, Vol 145: 5- 17. http://dx.doi.org/10.1007/BF02530260
22. Guindon S. , Gascuel O. , 2003. "A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood". Systematic Biology, Vol 52: 696- 704. http://dx.doi.org/10.1080/10635150390235520
23. Gutierrez-Aguirre M. , Suárez-Morales E. , 2000. "The Eurasian Thermocyclops crassus(Fischer, 1853) (Copepoda, Cyclopoida) found in southeastern Mexico". Crustaceana, Vol 73: 705- 714. http://dx.doi.org/10.1163/156854000504732
24. Hajibabaei M. , Janzen D. H. , Burns J. M. , Hallwachs W. , Hebert P. D. , 2006. "DNA barcodes distinguish species of tropical Lepidoptera". Proceedings of the National Academy of Sciences of the United States of America, Vol 103: 968- 971. http://dx.doi.org/10.1073/pnas.0510466103
25. Hall T. A. , 1999. "BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT". Nucleic Acids Symposium Series, Vol 41: 95- 98.
26. Havel J. E. , Colbourne J. K. , Hebert P. D. N. , 2000. "Reconstructing the history of intercontinental dispersal in Daphnia lumholtziby use of genetic markers". Limnology and Oceanography, Vol 45: 1414- 1419. http://dx.doi.org/10.4319/lo.2000.45.6.1414
27. Hebert P. , 1977. "A revision of the taxonomy of the genus Daphnia(Crustacea: Daphnidae) in south-eastern Australia". Australian Journal of Zoology, Vol 25: 371- 398. http://dx.doi.org/10.1071/ZO9770371
28. Hebert P. , 2004. Probing life’s diversity with DNA barcodes. The 2004 ESA Annual Meeting and Exhibition.
29. Hebert P. D. N. , Cywinska A. , Ball S. L. , Dewaard J. R. , 2003. "Biological identifications through DNA barcodes". Proceedings of the Royal Society B: Biological Sciences, Vol 270: 313- 321. http://dx.doi.org/10.1098/rspb.2002.2218
30. Hebert P. D. N. , Remigio E. A. , Colbourne J. K. , Taylor D. J. , Wilson C. C. , 2002. "Accelerated molecular evolution in halophilic crustaceans". Evolution, Vol 56: 909- 926. http://dx.doi.org/10.1111/j.0014-3820.2002.tb01404.x
31. Hebert P. D. N. , Stoeckle M. Y. , Zemlak T. S. , Francis C. M. , 2004. "Identification of birds through DNA barcodes". PLoS Biology, Vol 2: 1657- 1663. http://dx.doi.org/10.1371/journal.pbio.0020312
32. Hubert N. , Hanner R. , Holm E. , Mandrak N. E. , Taylor E. , 2008. "Identifying Canadian freshwater fishes through DNA barcodes". PLoS One, Vol 3: e2490. http://dx.doi.org/10.1371/journal.pone.0002490
33. Jennings R. M. , Bucklin A. , Ossenbrügger H. , Hopcroft R. R. , 2010. "Species diversity of planktonic gastropods (Pteropoda and Heteropoda) from six ocean regions based on DNA barcode analysis". Deep Sea Research Part II: Topical Studies in Oceanography, Vol 57: 2199- 2210. http://dx.doi.org/10.1016/j.dsr2.2010.09.022
34. Johnson S. B. , Warén A. , Vrijenhoek R. C. , 2008. "DNA barcoding of Lepetodriluslimpets reveals cryptic species". Journal of Shellfish Research, Vol 27: 43- 51. http://dx.doi.org/10.2983/0730-8000(2008)27[43:DBOLLR]2.0.CO;2
35. Keane T. M. , Creevey C. J. , Pentony M. M. , Naughton T. J. , McInerney J. O. , 2006. "Assessment of methods for amino acid matrix selection and their use on empirical data shows that ad hoc assumptions for choice of matrix are not justified". BMC Evolutionary Biology, Vol 6: 29. http://dx.doi.org/10.1186/1471-2148-6-29
36. Kim K. , Kotov A. A. , Taylor D. J. , 2006. "Hormonal induction of undescribed males resolves cryptic species of cladocerans". Proceedings of the Royal Society B: Biological Sciences, Vol 273: 141- 147. http://dx.doi.org/10.1098/rspb.2005.3299
37. Kimura M. , 1980. "A simple method for estimating evolutionary rate of base substitution through comparative studies of nucleotide sequences". Journal of Molecular Evolution, Vol 16: 111- 120. http://dx.doi.org/10.1007/BF01731581
38. Kořinek V. , 1999. A guide to limnetic species of Cia doc era of African inland waters (Crustacea, Branchiopoda). Occasional Publication No. 1. (BTL, Geneva).
39. Kořinek V. , 2002. "Cladocera". In: Fernando C. H. (ed.), A guide to tropical freshwater zooplankton. ( Backhuys Publishers, Leiden).
40. Lewis M. D. , Elliottc A. J. , Lambert F. M. , Reynolds S. C. , 2001. "The simulation of an Australian reservoir using a phytoplankton community model: protech". Ecological Modelling, Vol 150: 107- 116. http://dx.doi.org/10.1016/S0304-3800(01)00466-5
41. Leydig F. , 1860. Naturgeschichte der Daphniden (Crustacea Cladocera). ( H. Laupp’sche Buchhandlung, Laupp & Siebeck, Tübingen). http://dx.doi.org/10.5962/bhl.title.4851
42. Millette K. L. , Xu S. , Witt J. D. S. , Cristescu M. E. , 2011. "Pleistocene-driven diversification in freshwater zooplankton: genetic patterns of refugial isolation and postglacial recolonization in Leptodora kindtii(Crustacea, Cladocera)". Limnology and Oceanography, Vol 56: 1725- 1736.
43. Oliver I. , Beattie A. J. , 1993. "A Possible method for the rapid assessment of biodiversity". Conservation Biology, Vol 7: 562- 568. http://dx.doi.org/10.1046/j.1523-1739.1993.07030562.x
44. Posada D. , Buckley T. R. , 2004. "Model selection and model averaging in phylogenetics: advantages of Akaike information criterion and Bayesian approaches over likelihood ratio tests". Systematic Biology, Vol 53: 793- 808. http://dx.doi.org/10.1080/10635150490522304
45. Ratnasingham S. , Hebert P. D. N. , 2007. "BOLD: the barcode of life data system". Molecular Ecology Notes, Vol 7: 355- 364. http://dx.doi.org/10.1111/j.1471-8286.2007.01678.x
46. Schödler J. E. , 1877. Zur Naturgeschichte der Daphniden Jahresbericht Über Die Dorotheenstädtische Realschule Berlin, 1877: 1-24.
47. Sergeev V. , Williams W. D. , 1985. " Daphniopsis australisnov.sp. (Crustacea: Cladocera), a further daphniid in Australian salt lakes". Hydrobiologia, Vol 120: 119- 128. http://dx.doi.org/10.1007/BF00032132
48. Sergeev V. N. , 1990. "The ephippial female of a new species of DaphniopsisSars, 1903 (Anomopoda, Daphniidae) from Queensland, Australia". Crustaceana, Vol 59: 146- 155. http://dx.doi.org/10.1163/156854090X00624
49. Sharma P. , Kotov A. , 2013. "Molecular approach to identify sibling species of the Ceriodaphnia cornutacomplex (Cladocera: Daphniidae) from Australia with notes on the continental endemism of this group". Zootaxa, Vol 3702: 079- 089. http://dx.doi.org/10.11646/zootaxa.3702.1.5
50. Shiel R. J. , 1995. A guide to identification of rotifers, cladocerans and copepods from Australian inland waters. (Co-operative Research centre for Freshwater Ecology, Murray-Darling Freshwater Research Centre, Ellis Street, Thurgoona, Albury, NSW).
51. Sites J. W. Jr. , Marshall J. C. , 2004. "Operational criteria for delimiting species". Annual Review of Ecology, Evolution, and Systematics, Vol 35: 199- 227. http://dx.doi.org/10.1146/annurev.ecolsys.35.112202.130128
52. Smirnov N. N. , Timms B. V. , 1983. Revision of the Australian Cladocera (Crustacea). ( The Australian Museum, Sydney, NSW).
53. Song H. , Buhay E. J. , Whiting F. M. , Crandall K. A. , 2008. "Many species in one: DNA barcoding overestimates the number of species when nuclear mitochondrial pseudogenes are coamplified". Proccedings of the National Academy of Sciences of the United States of America, Vol 105: 13486- 13491. http://dx.doi.org/10.1073/pnas.0803076105
54. Suárez-Morales E. , Gutiérrez-Aguirre M. A. , Mendoza F. , 2011a. "The Afro-Asian cyclopoid Mesocyclops aspericornis(Crustacea: Copepoda) in eastern Mexico with comments on the distribution of exotic copepods". Revista Mexicana de Biodiversidad, Vol 82: 109- 115.
55. Suárez-Morales E. , Gutiérrez-Aguirre M. A. , Torres J. L. , Hernández F. , 2005. "The Asian Mesocyclops pehpeiensisHu, 1943 (Crustacea, Copepoda, Cyclopidae) in Southeast Mexico with comments on the distribution of the species". Zoosystema, Vol 27: 245- 256.
56. Suárez-Morales E. , Mercado-Salas N. F. , Morales-Ramírez Á. , 2011b. "Morphological variability and distribution of the exotic Asian Mesocyclops thermocyclopoides(Copepoda: Cyclopoida): in the Neotropical region". Zoologia (Curitiba), Vol 28: 673- 679. http://dx.doi.org/10.1590/S1984-46702011000500016
57. Suthers I. M. , Rissik D. , 2009. Plankton a guide to their ecology and monitoring for water quality. ( CSIRO Publishing, Canberra, ACT).
58. Tamura K. , Dudley J. , Nei M. , Kumar S. , 2007. "MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0". Molecular Biology and Evolution, Vol 24: 1596- 1599. http://dx.doi.org/10.1093/molbev/msm092
59. Tautz D. , Arctander P. , Minelli A. , Thomas R. H. , Vogler P. A. , 2003. "A plea for DNA taxonomy". Trends in Ecology & Evolution, Vol 18: 40- 74. http://dx.doi.org/10.1016/S0169-5347(02)00041-1
60. Tavares E. , Baker A. , 2008. "Single mitochondrial gene barcodes reliably identify sister-species in diverse clades of birds". BMC Evolutionary Biology, Vol 8: 81. http://dx.doi.org/10.1186/1471-2148-8-81
61. Thompson J. D. , Higgins D. G. , Gibson T. J. , 1994. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position specific gap penalties and weight matrix choice. Nucleic Acids Research.
62. Wiemers M. , Fiedler K. , 2007. "Does the DNA barcoding gap exist? — a case study in blue butterflies (Lepidoptera: Lycaenidae)". Frontiers in Zoology, Vol 4: 8. http://dx.doi.org/10.1186/1742-9994-4-8
63. Wiley E. O. , Lieberman B. S. , 2011. Phylogenetics: theory and practice of phylogenetic systematics( 2nd ed.). ( Wiley-Blackwell, Oxford). http://dx.doi.org/10.1002/9781118017883
64. Witt J. D. S. , Threloff D. L. , Hebert P. D. N. , 2006. "DNA barcoding revelas extraordinary cryptic diversity in an amphipod genus: implication for desert spring conservation". Molecular Ecology, Vol 15: 3073- 3082. http://dx.doi.org/10.1111/j.1365-294X.2006.02999.x
65. Xu L. , Han B.-P. , Van Damme K. , Vierstraete A. , Vanfleteren J. R. , Dumont H. J. , 2011. "Biogeography and evolution of the Holarctic zooplankton genus Leptodora(Crustacea: Branchiopoda: Haplopoda)". Journal of Biogeography, Vol 38: 359- 370. http://dx.doi.org/10.1111/j.1365-2699.2010.02409.x
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2014-07-17
2017-10-18

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