256
Views
1
CrossRef citations to date
0
Altmetric
Articles

Molecular identification and phylogenetic relationships of Coleoidea (Mollusca: Cephalopoda) from the Persian Gulf and Oman Sea reveals a case of cryptic diversity

, , , ORCID Icon &
Pages 77-85 | Received 01 May 2017, Published online: 02 Nov 2017

References

  • Allcock, A.L., Barratt, I., Eleaume, M., Linse, K., Norman, M.D., Smith, P.J., Steinke, D., Stevens, D.W. & Strugnell, J.M. (2011) Cryptic speciation and the circumpolarity debate: a case study on endemic Southern Ocean octopuses using the COI barcode of life. Deep Sea Research Part II: Topical Studies in Oceanography 58, 242–249. doi: 10.1016/j.dsr2.2010.05.016
  • Anderson, F.E. (2000) Phylogenetic relationships among loliginid squids (Cephalopoda: Myopsida) based on analyses of multiple data sets. Zoological Journal of the Linnean Society 130, 603–633. doi: 10.1111/j.1096-3642.2000.tb02203.x
  • Anderson, F.E., Bergman, A., Cheng, S.H., Pankey, M.S. & Valinasab, T. (2014) Lights out: the evolution of bacterial bioluminescence in Loliginidae. Hydrobiologia 725, 189–203. doi: 10.1007/s10750-013-1599-1
  • Anderson, F.E., Engelke, R., Jarrett, K., Valinassab, T., Mohamed, K.S., Asokan, P.K., Zacharia, P.U., Nootmorn, P., Chotiyaputta, C. & Dunning, M. (2011) Phylogeny of the Sepia pharaonis species complex (Cephalopoda: Sepiida) based on analyses of mitochondrial and nuclear DNA sequence data. Journal of Molluscan Studies 77, 65–75. doi: 10.1093/mollus/eyq034
  • Anderson, F.E., Valinassab, T., Ho, C.-W., Mohamed, K.S., Asokan, P.K., Rao, G.S., Nootmorn, P., Chotiyaputta, C., Dunning, M. & Lu, C.-C. (2007) Phylogeography of the pharaoh cuttle Sepia pharaonis based on partial mitochondrial 16S sequence data. Reviews in Fish Biology and Fisheries 17, 345–352. doi: 10.1007/s11160-007-9042-1
  • Andrews, K.R., Williams, A.J., Fernandez-Silva, I., Newman, S.J., Copus, J.M., Wakefield, C.B., Bowen, B.W. & Randall, J.E. (2016) Phylogeny of deepwater snappers (Genus Etelis) reveals a cryptic species pair in the Indo-Pacific and Pleistocene invasion of the Atlantic. Molecular Phylogenetics and Evolution 100, 361–371. doi: 10.1016/j.ympev.2016.04.004
  • Arkhipkin, A.I., Bizikov, V.A. & Fuchs, D. (2012) Vestigial phragmocone in the gladius points to a deepwater origin of squid (Mollusca: Cephalopoda). Deep-Sea Research Part I: Oceanographic Research Papers 61, 109–122. doi: 10.1016/j.dsr.2011.11.010
  • Cheng, S.H., Anderson, F.E., Bergman, A., Mahardika, G.N., Muchlisin, Z.A., Dang, B.T., Calumpong, H.P., Mohamed, K.S., Sasikumar, G., Venkatesan, V. & Barber, P.H. (2014) Molecular evidence for co-occurring cryptic lineages within the Sepioteuthis cf. lessoniana species complex in the Indian and Indo-West Pacific Oceans. Hydrobiologia 725, 165–188. doi: 10.1007/s10750-013-1778-0
  • Chow, S., Nakagawa, T., Suzuki, N., Takeyama, H. & Matsunaga, T. (2006) Phylogenetic relationships among Thunnus species inferred from rDNA ITS1 sequence. Journal of Fish Biology 68, 24–35. doi: 10.1111/j.0022-1112.2006.00945.x
  • Dai, L., Zheng, X., Kong, L. & Li, Q. (2012) DNA barcoding analysis of Coleoidea (Mollusca: Cephalopoda) from Chinese waters. Molecular Ecology Resources 12, 437–447. doi: 10.1111/j.1755-0998.2012.03118.x
  • DiBattista, J.D., Rocha, L.A., Hobbs, J.-P.A., He, S., Priest, M.A., Sinclair-Taylor, T.H., Bowen, B.W. & Berumen, M.L. (2015) When biogeographical provinces collide: Hybridization of reef fishes at the crossroads of marine biogeographical provinces in the Arabian Sea. Journal of Biogeography 42, 1601–1614. doi: 10.1111/jbi.12526
  • 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.
  • Guindon, S., Delsuc, F., Dufayard, J.-F. & Gascuel, O. (2009) Estimating maximum likelihood phylogenies with PhyML. Methods in Molecular Biology 537, 113–137. doi: 10.1007/978-1-59745-251-9_6
  • Huelsenbeck, J.P. & Ronquist, F. (2001) MRBAYES: Bayesian inference of phylogenetic trees. Bioinformatics 17, 754–755. doi: 10.1093/bioinformatics/17.8.754
  • Jereb, P. & Roper, C.F.E. (2010) Cephalopods of the World. An Annotated and Illustrated Catalogue of Cephalopod Species Known to Date. Volume 2. Myopsid and Oegopsid Squids. FAO (Food and Agriculture Organization of the United Nations), Rome.
  • Jereb, P., Roper, C.F.E., Norman, M.D. & Finn, J.K. (2016) Cephalopods of the World; An Annotated and Illustrated Catalogue of Cephalopods Species Known to Date. Octopods and Vampire Squids. FAO (Food and Agriculture Organization of the United Nations), Rome.
  • Johnson, S.B., Warén, A. & Vrijenhoek, R.C. (2008) DNA barcoding of Lepetodrilus limpets reveals cryptic species. Journal of Shellfish Research 27, 43–51. doi: 10.2983/0730-8000(2008)27[43:DBOLLR]2.0.CO;2
  • Kearse, M., Moir, R., Wilson, A., Stones-Havas, S., Cheung, M., Sturrock, S., Buxton, S., Cooper, A., Markowitz, S., Duran, C., Thierer, T., Ashton, B., Mentjies, P. & Drummond, A. (2012) Geneious Basic: an integrated and extendable desktop software platform for the organization and analysis of sequence data. Bioinformatics 28, 1647–1649. doi: 10.1093/bioinformatics/bts199
  • Leite, T.S., Haimovici, M., Molina, W. & Warnke, K. (2008) Morphological and genetic description of Octopus insularis, a new cryptic species in the Octopus vulgaris complex (Cephalopoda: Octopodidae) from the tropical southwestern Atlantic. Journal of Molluscan Studies 74, 63–74. doi: 10.1093/mollus/eym050
  • Mantelatto, F.L., Pezzuto, P.R., Masello, A., Wongtschowski, C.L.D.B.R., Silva Hilsdorf, A.W. & Rossi, N. (2014) Molecular analysis of the commercial deep-sea crabs Chaceon ramosae and Chaceon notialis (Brachyura, Geryonidae) reveals possible cryptic species in the South Atlantic. Deep Sea Research Part I: Oceanographic Research Papers 84, 29–37. doi: 10.1016/j.dsr.2013.10.001
  • Nateewathana, A. (1997) The Sepiolidae (Cephalopoda) of the Andaman Sea, Thailand, with description of Euprymna hyllebergi sp. nov. Phuket Marine Biological Center Special Publication 17, 465–481.
  • Nateewathana, A., Nabhitabhata, J. & Nilaphat, P. (2001) A new record of a bobtail squid, Euprymna hyllebergi Nateewathana, 1997 in the Gulf of Thailand. Phuket Marine Biological Center Special Publication 25, 501–506.
  • Norman, M. & Reid, A. (2000) Guide to Squid, Cuttlefish and Octopuses of Australasia. CSIRO Publishing, Victoria.
  • Palumbi, S.R. (1996) Nucleic acids II: the polymerase chain reaction. In: Hillis, D.M., Moritz, C. & Mable, B.K. (Eds), Molecular Systematics. Sinauer & Associates Inc., Sunderland, Massachusetts, pp. 205–247.
  • Posada, D. (2008) jModelTest: phylogenetic model averaging. Molecular Biology and Evolution 25, 1253–1256. doi: 10.1093/molbev/msn083
  • Rambaut, A., Suchard, M., Xie, D. & Drummond, A. (2014) Tracer v1.6. [http://tree.bio.ed.ac.uk/software/tracer/]
  • Sales, J.B.L., Markaida, U., Shaw, P.W., Haimovici, M., Ready, J.S., Figueredo-Ready, W.M.B., Angioletti, F., Carneiro, M.A., Schneider, H., Sampaio, I. & Vartanian, J.-P. (2014) Molecular phylogeny of the genus Lolliguncula Steenstrup, 1881 based on nuclear and mitochondrial DNA sequences indicates genetic isolation of populations from north and south Atlantic, and the possible presence of further cryptic species. PLoS One 9, e88693. doi: 10.1371/journal.pone.0088693
  • Sales, J.B.deL., Shaw, P.W., Haimovici, M., Markaida, U., Cunha, D.B., Ready, J., Figueiredo-Ready, W.M.B., Schneider, H. & Sampaio, I. (2013) New molecular phylogeny of the squids of the family Loliginidae with emphasis on the genus Doryteuthis Naef, 1912: mitochondrial and nuclear sequences indicate the presence of cryptic species in the southern Atlantic Ocean. Molecular Phylogenetics and Evolution 68, 293–299. doi: 10.1016/j.ympev.2013.03.027
  • Schindel, D.E. & Miller, S.E. (2005) DNA barcoding a useful tool for taxonomists. Nature 435, 17. doi: 10.1038/435017b
  • Sin, Y.W., Yau, C. & Chu, K.H. (2009) Morphological and genetic differentiation of two loliginid squids, Uroteuthis (Photololigo) chinensis and Uroteuthis (Photololigo) edulis (Cephalopoda: Loliginidae), in Asia. Journal of Experimental Marine Biology and Ecology 369, 22–30. doi: 10.1016/j.jembe.2008.10.029
  • Sreeja, V., Norman, M.D. & Kumar, A.B. (2015) A new species of pouched octopus, Cistopus Gray, 1849 (Cephalopoda: Octopodidae) from the southwest coast of India. Zootaxa 4058, 244–256. doi: 10.11646/zootaxa.4058.2.6
  • Triantafillos, L. & Adams, M. (2005) Genetic evidence that the northern calamary, Sepioteuthis lessoniana, is a species complex in Australian waters. ICES Journal of Marine Science 62, 1665–1670. doi: 10.1016/j.icesjms.2005.06.004
  • Valinassab, T. (1993) Identification of Cephalopoda in the Oman Sea. Iranian Fisheries Research Organization. Final Report of Research Project 67.
  • Zhang, J., Kapli, P., Pavlidis, P. & Stamatakis, A. (2013) A general species delimitation method with applications to phylogenetic placements. Bioinformatics 29, 2869–2876. doi: 10.1093/bioinformatics/btt499

Reprints and Corporate Permissions

Please note: Selecting permissions does not provide access to the full text of the article, please see our help page How do I view content?

To request a reprint or corporate permissions for this article, please click on the relevant link below:

Academic Permissions

Please note: Selecting permissions does not provide access to the full text of the article, please see our help page How do I view content?

Obtain permissions instantly via Rightslink by clicking on the button below:

If you are unable to obtain permissions via Rightslink, please complete and submit this Permissions form. For more information, please visit our Permissions help page.