Skip to main content

Advertisement

Log in

Are Acila divaricata and Acila mirabilis One species or two distinct species? Evidence from COI mitochondrial DNA

  • Published:
Journal of Ocean University of China Aims and scope Submit manuscript

Abstract

Acila divaricata (Hinds, 1843) and A. mirabilis (Adams and Reeve, 1850) are common benthic bivalves in China. A number of researchers have proposed that the latter species is a junior synonym of the former species. Because of morphological similarities, it is difficult to distinguish these two species based on visual examination only. For better understanding of their taxonomy, the mitochondrial COI gene fragments of five individuals of A. divaricata from the East China Sea and six individuals of A. mirabilis from the Yellow Sea were sequenced in this study. The phylogenetic relationships of the obtained COI sequences, together with nineteen sequences of three species of the genus Nucula, were analyzed. The pairwise intra- and inter-specific distances for the COI sequences ranged from 0.002 to 0.017 and from 0.128 to 0.134, respectively, and no overlap was found. Phylogenetically, A. divaricata and A. mirabilis form distinct clades and cluster into a sister to all other Nucula species. The results indicated that A. divaricata and A. mirabilis are two distinct species. The differences in the morphology and distribution between the two species were briefly discussed.

This is a preview of subscription content, log in via an institution to check access.

Access this article

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Instant access to the full article PDF.

Similar content being viewed by others

References

  • Adams, A., and Reeve, L., 1850. Mollusca. In: The Zoology of the Voyage of H.M.S. Samarang: under the Command of Captain Sir Edward Belcher, C. B., F. R. A. S., F. G. S., During the Years 1843-1846. Adams, A., ed., Reeve and Benham, London, 1–87.

    Google Scholar 

  • Avise, J. C., and Johns, G. C., 1999. Proposal for a standardized temporal scheme of biological classification for extant species. Proceedings of the National Academy of Sciences, 96(13): 7358–7363.

    Article  Google Scholar 

  • Bernard, F. R., Cai, Y. Y., and Morton, B., 1993. Catalogue of the Living Marine Bivalve Molluscs of China. Hong Kong University Press, Hong Kong, 146pp.

    Google Scholar 

  • Blaxter, M., 2003. Molecular systematics: Counting angels with DNA. Nature, 421(6919): 122–124.

    Article  Google Scholar 

  • Blaxter, M., 2004. The promise of a DNA taxonomy. Philo-sophical Transactions of the Royal Society of London. Series B: Biological Sciences, 359(1444): 669.

    Article  Google Scholar 

  • Dall, W. H., 1898. Contributions to the Tertiary fauna of Florida, with especial reference to the silex-beds of Tampa, and the Pliocene beds of the Caloosahatchie River, indluding in many cases a complete revision of the generic groups treated of and their American Tertiary species. Part IV. 1. Prionodesmacea: Nucula to Julia. 2. Teleodesmacea: Teredo to Ervila. Trans-actions of the Wagner Free Institute of Science of Phila-delphia, 3(4): 571–947.

    Google Scholar 

  • Felsenstein, J., 1985. Confidence limits on phylogenies: an approach using the bootstrap. Evolution, 39(4): 783–791.

    Article  Google Scholar 

  • Folmer, O., Black, M., Hoeh, W., Lutz, R., and Vrijenhoek, R., 1994. DNA primers for amplification of mitochondrial cytochrome c oxidase subunit I from diverse metazoan invertebrates. Molecular Marine Biology and Biotechnology, 3(5): 294–299.

    Google Scholar 

  • Galtier, N., Nabholz, B., Glémin, S., and Hurst, G. D. D., 2009. Mitochondrial DNA as a marker of molecular diversity: A reappraisal. Molecular Ecology, 18(22): 4541–4550.

    Article  Google Scholar 

  • Gérard, K., Bierne, N., Borsa, P., Chenuil, A., and Féral, J.-P., 2008. Pleistocene separation of mitochondrial lineages of Mytilus spp. mussels from Northern and Southern Hemispheres and strong genetic differentiation among southern populations. Molecular Phylogenetics and Evolution, 49(1): 84–91.

    Article  Google Scholar 

  • Glover, E. A., Taylor, J. D., and Williams, S. T., 2008. Mangrove associated lucinid bivalves of the central Indo-West Pacific: Review of the ‘Austriella’ group with a new genus and species (Mollusca: Bivalvia: Lucinidae). Raffles Bulletin of Zoology, Supplement, 18: 25–40.

    Google Scholar 

  • Godfray, H. C. J., 2002. Challenges for taxonomy. Nature, 417(6884): 17–19.

    Article  Google Scholar 

  • Habe, T., 1958. Report on the Mollusca chiefly collected by the S.S. Soyo-Maru of the Imperial Fisheries Experimental Station on the continental shelf bordering Japan during the years 1922–1930. Part 3. Lamellibranchia (1). Publications of the Seto Marine Biological Laboratory, 6(3): 241–280.

    Google Scholar 

  • Habe, T., 1977. Systematics of Mollusca in Japan: Bivalvia and Scaphopoda. Hokuryukan Publishing Co., Tokyo, 372pp.

    Google Scholar 

  • Hall, T. A., 1999. BioEdit: A user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symposium Series, 41: 95–98.

    Google Scholar 

  • Hanley, S. C. T., 1860. Monograph of the family Nuculidae, forming the Lamarckian genus Nucula. In: Thesaurus Conchyliorum or Monographs of Genera of Shells, Vol. 3. Sowerby, II G. B. ed., London, 105–168.

    Google Scholar 

  • Hebert, P. D. N., Cywinska, A., Ball, S. L., and de Waard, J. R., 2003. Biological identifications through DNA barcodes. Proceedings of the Royal Society of London. Series B: Biological Sciences, 270(1512): 313–321.

    Article  Google Scholar 

  • Hebert, P. D. N., and Gregory, T. R., 2005. The promise of DNA barcoding for taxonomy. Systematic Biology, 54(5): 852–859.

    Article  Google Scholar 

  • Hebert, P. D. N., Penton, E. H., Burns, J. M., Janzen, D. H., and Hallwachs, W., 2004. Ten species in one: DNA barcoding reveals cryptic species in the neotropical skipper butterfly Astraptes fulgerator. Proceedings of the National Academy of Sciences of the United States of America, 101(41): 14812–14817.

    Article  Google Scholar 

  • Hickerson, M. J., Meyer, C. P., and Moritz, C., 2006. DNA barcoding will often fail to discover new animal species over broad parameter space. Systematic Biology, 55(5): 729–739.

    Article  Google Scholar 

  • Hinds, R. B., 1843. Descriptions of new species of Nucula, from the collections of Sir Edward Belcher, C. B., and Hugh Cuming, Esq. Proceedings of the Zoological Society of London, 11: 97–101.

    Article  Google Scholar 

  • Huber, M., 2010. Compendium of Bivalves. ConchBooks, Hackenheim, 901pp.

    Google Scholar 

  • Kilburn, R. N., 1999. The family Nuculidae (Bivalvia: Protobranchia) in South Africa and Mozambique. Annals of the Natal Museum, 40: 245–268.

    Google Scholar 

  • Kimura, M., 1980. A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. Journal of Molecular Evolution, 16(2): 111–120.

    Article  Google Scholar 

  • Knudsen, J., 1967. The deep-sea Bivalvia. Scientific Reports of The John Murray Expedition, 1933-34, 11(3): 237–343.

    Google Scholar 

  • Kuroda, T., and Habe, T., 1981. A Catalogue of Molluscs of Wakayama Prefecture, the Province of Kii: I. Bivalvia, Scaphopoda and Cephalopoda. Nakanishi Printing Co., Ltd, Kyoto, 301pp.

    Google Scholar 

  • Ladhar-Chaabouni, R., Hamza-Chaffai, A., Hardivillier, Y., Chénais, B., and Denis, F., 2010. A pilot study of genetic differentiation between two phenotypes of a Mediterranean population of the bivalve Cerastoderma glaucum and genetic discrimination with other Cerastoderma glaucum and Cerastoderma edule populations outside the Mediterranean. Marine Ecology, 31(2): 355–363.

    Article  Google Scholar 

  • Lan, T. C., 2001. Report on Taiwan Protobranchia. The Pei-yo, 27: 37–49.

    Google Scholar 

  • Lipscomb, D., Platnick, N., and Wheeler, Q., 2003. The intellectual content of taxonomy: A comment on DNA taxonomy. Trends in Ecology and Evolution, 18(2): 65–66.

    Article  Google Scholar 

  • Liu, R. Y., 2008. Checklist of Marine Biota of China Sea. Science Press, Beijing, 1267pp.

    Google Scholar 

  • Liu, R. Y., and Xu, F. S., 1963. Preliminary study on the benthic fauna of the Yellow Sea and the East China Sea. Oceanologia et Limnologia Sinica, 5(4): 306–321.

    Google Scholar 

  • Lutaenko, K. A., and Noseworthy, R. G., 2012. Catalogue of the. Living Bivalvia of the Continental Coast of the Sea of Japan (East Sea). Dalnauka, Vladivostok, 247pp.

    Google Scholar 

  • Mikkelsen, N. T., Schander, C., and Willassen, E., 2007. Local scale DNA barcoding of bivalves (Mollusca): A case study. Zoologica Scripta, 36(5): 455–463.

    Article  Google Scholar 

  • Moore, W. S., 1995. Inferring phylogenies from mtDNA variation: mitochondrial-gene trees versus nuclear-gene trees. Evolution, 49(4): 718–726.

    Article  Google Scholar 

  • Moritz, C., and Cicero, C., 2004. DNA barcoding: Promise and pitfalls. Plos Biology, 2(10): 1529–1531.

    Article  Google Scholar 

  • Okutani, T., 2000. Marine Mollusks in Japan. Tokai University Press, Tokyo, 1173pp.

    Google Scholar 

  • Pennisi, E., 2003. Modernizing the Tree of Life. Science, 300(5626): 1692–1697.

    Article  Google Scholar 

  • Qi, Z. Y., 2004. Seashells of China. China Ocean Press, Beijing, 418pp.

    Google Scholar 

  • Radulovici, A. E., Archambault, P., and Dufresne, F., 2010. DNA barcodes for marine biodiversity: Moving fast forward?. Diversity, 2(4): 450–472.

    Article  Google Scholar 

  • Rubinoff, D., Cameron, S., and Will, K., 2006. A genomic perspective on the shortcomings of mitochondrial DNA for ‘Barcoding’ identification. Journal of Heredity, 97(6): 581–594.

    Article  Google Scholar 

  • Saitou, N., and Nei, M., 1987. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Molecular Biology and Evolution, 4(4): 406–425.

    Google Scholar 

  • Sambrook, J., and Russell, D. W., 2006. The Condensed Protocols from Molecular Cloning: A Laboratory Manual. Cold Spring Harbor Laboratory Press, 800pp.

    Google Scholar 

  • Schenck, H. G., 1934. Classification of nuculid pelecypods. Bulletin du Musée royal d’Histoire Naturelle de Belgique, 10(20): 1–78.

    Google Scholar 

  • Schenck, H. G., 1935. Valid Species of the Nuculid Pelecypod Acila. Bulletin du Musée Royal d’Histoire Naturelle de Belgique, 11(14): 1–5.

    Google Scholar 

  • Schenck, H. G., 1936. Nuculid bivalves of the genus Acila. Geological Society of America Special Papers, 4: 1–149.

    Google Scholar 

  • Smith, E. A., 1892. Descritpions of new species of Nucula, and a list of the species belonging to the subgenus Acila. Journal of Conchology, 7: 110–112.

    Google Scholar 

  • Sowerby II, G. B., 1871. Monograph of the genus Nucula. In: Conchologia Iconica: Or Illustrations of the Molluscous Animals, Vol. 18. Reeve, B., ed., London.

    Google Scholar 

  • Stoeckle, M., 2003. Taxonomy, DNA, and the bar code of life. Bioscience, 53(9): 796–797.

    Article  Google Scholar 

  • Tamura, K., Peterson, D., Peterson, N., Stecher, G., Nei, M., and Kumar, S., 2011. MEGA5: Molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Molecular Biology and Evolution, 28(10): 2731–2739.

    Article  Google Scholar 

  • Tautz, D., Arctander, P., Minelli, A., Thomas, R., and Vogler, A., 2002. DNA points the way ahead in taxonomy. Nature, 418(6897): 479–479.

    Article  Google Scholar 

  • Tautz, D., Arctander, P., Minelli, A., Thomas, R. H., and Vogler, A. P., 2003. A plea for DNA taxonomy. Trends in Ecology and Evolution, 18(2): 70–74.

    Article  Google Scholar 

  • Tchang, S., Tsi, C. Y., Zhang, F. S., and Ma, S. T., 1963. A preliminary study of the demarcation of marine molluscan faunal regions of China and its adjacent waters. Oceanologia et Limnologia Sinica, 5(2): 124–138.

    Google Scholar 

  • Vitousek, P. M., Mooney, H. A., Lubchenco, J., and Melillo, J. M., 1997. Human domination of earth’s ecosystems. Science, 277(5325): 494–499.

    Article  Google Scholar 

  • Will, K. W., and Rubinoff, D., 2004. Myth of the molecule: DNA barcodes for species cannot replace morphology for identification and classification. Cladistics, 20(1): 47–55.

    Article  Google Scholar 

  • Will, K. W., Mishler, B. D., and Wheeler, Q. D., 2005. The perils of DNA barcoding and the need for integrative taxonomy. Systematic Biology, 54(5): 844–851.

    Article  Google Scholar 

  • Wood, A. R., Apte, S., MacAvoy, E. S., and Gardner, J. P. A., 2007. A molecular phylogeny of the marine mussel genus Perna (Bivalvia: Mytilidae) based on nuclear (ITS1& 2) and mitochondrial (COI) DNA sequences. Molecular Phylogenetics and Evolution, 44(2): 685–698.

    Article  Google Scholar 

  • Xu, F. S., 1984. Preliminary study on the Protobranchia (Mollusca) from the shallow waters of China. II. Nuculidae. Studia Marina Sinica, 22: 179–188.

    Google Scholar 

  • Xu, F. S., 1997. Bivalve Mollusca of China sea. Science Press, Beijing, 333pp.

    Google Scholar 

  • Xu, F. S., 1999. Fauna Sinica Phylum Mollusca Class Bivalvia Subclass Protobranchia and Anomalodesmata. Science Press, Beijing, 244pp.

    Google Scholar 

  • Xu, F. S., 2008. Family Nuculidae Gray, 1824. In: Checklist of Marine Biota of China Sea. Liu, R. Y., ed., Science Press, Beijing, 548pp.

    Google Scholar 

  • Xu, F. S., and Zhang, J. L., 2011. Characteristics of bivalve diversity in typical habitats of China seas. Biodiversity Science, 19(6): 716–722.

    Google Scholar 

  • Xu, F. S., and Zhang, S. P., 2008. An Illustrated Bivalvia Mollusca Fauna of China Seas. Science Press, Beijing, 336pp.

    Google Scholar 

  • Zhang, J. L., Xu, F. S., and Liu, R. Y., 2012. Community structure changes of macrobenthos in the South Yellow Sea. Chinese Journal of Oceanology and Limnology, 30(2): 248–255.

    Article  Google Scholar 

Download references

Author information

Authors and Affiliations

Authors

Corresponding author

Correspondence to Zhongli Sha.

Rights and permissions

Reprints and permissions

About this article

Cite this article

Zhang, J., Shi, H., Xu, F. et al. Are Acila divaricata and Acila mirabilis One species or two distinct species? Evidence from COI mitochondrial DNA. J. Ocean Univ. China 13, 283–289 (2014). https://doi.org/10.1007/s11802-014-2139-y

Download citation

  • Received:

  • Revised:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s11802-014-2139-y

Key words

Navigation