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Phylogenetic relationships among species of Calyptogena (Bivalvia: Vesicomyidae) collected around Japan revealed by nucleotide sequences of mitochondrial genes

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Abstract

Phylogenetic relationships among the seven species of deep-sea giant clams Calyptogena (Bivalvia: Vesicomyidae) collected around Japan were examined using parts of nucleotide sequences of mitochondrial genes for cytochrome oxidase I (COI) and cytochrome oxidase III (COIII) and the encoded amino acid sequences. The seven species were C. soyoae (Sagami Bay), C. fausta (Suruga Bay), C. kaikoi (Nankai Trough), C. nautilei (Nankai Trough), C. phaseoliformis (Japan Trench), C. solidissima (Minami-Ensei Knoll, Okinawa Trough) and Calyptogena sp. (Iheya Ridge, Okinawa Trough). A clear phylogenetic split was observed between one group of three species (C. kaikoi, C. phaseoliformis and C. fausta) and the remaining species. This clustering corresponds to the two previously described subgenera within the genus Calyptogena (Calyptogean and Ectenagena) with the exception of the placement of C. nautilei, which had been placed in the subgenus Ectenagena. Genetic distances between two haplotypes of C. soyoae were 0.043 for the COI region and 0.055 for the COIII region, and three amino acid substitutions were detected with the COIII region. Calyptogena sp. from the Iheya Ridge could be distinguished from one of the two haplotypes (type A) of C. soyoae by only a single nucleotide substitution, a result that suggests that Calyptogena sp. of the Iheya Ridge diverged from C. soyoae after the two haplotypes had diverged, and it is now isolated from C. soyoae in Sagami Bay.

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References

  • Anderson S, Bankier AT, Barrell BG, de Brujin MHL, Coulson AR, Drouin J, Eperon IC, Nierlich DP, Roe BA, Sanger F, Schrier PH, Smith AJH, Staden R, Young IG (1981) Sequence and organization of the human mitochondrial genome. Nature, Lond 290: 457–465

    Google Scholar 

  • Bermingham E, Lessios HA (1993) Rate variation of protein and mitochondrial DNA evolution as revealed by sea urchins separated by the Isthmus of Panama. Proc natn Acad Sci USA 90: 2734–2738

    Google Scholar 

  • Clary DO, Wolstenholme DR (1985) The mitochondrial DNA molecule of Drosophila yakuba: nucleotide sequence, gene organization, and genetic code. J molec Evol 22:252–271

    Google Scholar 

  • Fujioka K, Wada H, Okano H (1993) Torishima whale bone deep-sea animal community assemblage — new finding by Skinkai 6500. J Geogr 102:507–517 (in Japanese with English abstract)

    Google Scholar 

  • Hashimoto J, Ohta S, Fujikura K, Miura T (1995). Microdistribution pattern and some biogeographic knowledge on the hydrothermal vent communities of the Minami-Ensei Knoll in the Mid-Okinawa Trough. Deep-Sea Res (in press)

  • Horikoshi M (1989) Hinge structures, their variations and changes during growth, of some Japanese deep-sea, giant white clams, Calyptogena, collected during the “KAIKO” Project. Palaeogeogra Palaeoclim Palaeoecol 71:137–160

    Google Scholar 

  • Higuchi RG, Ochman H (1989) Production of single-stranded DNA templates by exonuclease digestion following the polymerase chain reaction. Nucleic Acid Res 17:5865

    Google Scholar 

  • Hoffmann RJ, Boore JL, Brown WM (1992) A novel mitochondrial genome organization for the blue mussel, Mytilus edulis. Genetics 131:397–412

    Google Scholar 

  • Kimura M (1980) A simple method for estimating evolutionary rate of base substitutions through comparative studies of nucleotide sequence. J molec Evol 16:111–120

    Google Scholar 

  • Kojima S, Kobayashi T, Hashimoto J, Ohta S (1995) RFLP analysis of a mitochondrial gene, cytochrome oxidase I (COI) of three species of the genus Calyptogena around Japan. J Oceanogr (in press)

  • Komm B, Michaels A, Linton J (1982) Isolation and characterization of the mitochondrial DNA from the Florida spiny lobster, Panulirus argus. Comp Biochem Physiol 73B:923–929

    Google Scholar 

  • Kumar S, Tamura K, Nei M (1993) MEGA: molecular evolutionary genetics analysis, ver 1.0. The Pennsylvania State University, University Park, PA

    Google Scholar 

  • Lecanidou R, Douris V, Rodakis GC (1994) Novel features of metazoan mtDNA revealed from sequence analysis of three mitochondrial DNA segments of the land snail Albinaria turrita (Gastropoda: Clausiliidae). J molec Evol 38:369–382

    Google Scholar 

  • Lutz RA, Kennish MJ (1993) Ecology of deep-sea hydrothermal vent communities: a review. Rev Geophys 31:211–242

    Google Scholar 

  • Metivier B, Okutani T, Ohta S (1986) Calyptogena (Ectenagena) phaseoliformis n. sp., an unusual vesicomyid bivalve collected by the submersible Nautile from abyssal depths of the Japan and Kurile Trenches. Venus 45:161–168

    Google Scholar 

  • Nei M (1987) Molecular evolutionary genetics. Columbia University Press, New York

    Google Scholar 

  • Ohta S (1990) Deep-sea submersible survey of the hydrothermal vent community on the northeastern slope of the Iheya Ridge the Okinawa Trough. JAMSTEC Deep-Sea Res 6.145-156 (in Japanese with English abstract)

    Google Scholar 

  • Ohta S, Laubier L (1987) Deep biological communities in the subduction zone of Japan from bottom photographs taken during “Nautile” dives in the Kaiko project. Earth planet Sci Lett 83:329–342

    Google Scholar 

  • Okutani T, Egawa K (1985) The first underwater observation on living habit and thanatocoenoses of Calyptogena soyoae in bathyal depth of Sagami Bay. Venus 44:285–289

    Google Scholar 

  • Okutani T, Fujikura K, Hashimoto J (1993) Another new species of Calyptogena (Bivalvia: Vesicomyidae) from bathyal depth in Suruga Bay, Japan. Venus 52:121–126

    Google Scholar 

  • Okutani T, Hashimoto J, Fujikura K (1992) A new species of vesicomyid bivalve associated with hydrothermal vents near Amami-Oshima Island, Japan. Venus 51:225–233

    Google Scholar 

  • Okutani T, Metivier B (1986) Descriptions of three species of vesicomyid bivalves collected by the submersible Nautile from abyssal depths off Honshu, Japan. Venus 45:147–160

    Google Scholar 

  • Saitou N, Nei M (1987) The neighbour-joining method: a new meth od for reconstructing phylogenetic trees. Molec Biol Evolut 10:471–483

    Google Scholar 

  • Shimayama T, Himeno H, Sasuga J, Yokobori S, Ueda T, Watanabe K (1990) The genetic code of a squid mitochondrial gene. Nucleic Acids Symp Ser 22:77–78

    Google Scholar 

  • Thorne JL, Churchill GA (1995) Estimation and reliability of molecular sequence alignments. Biometrics (in press)

  • Thorne JL, Kishino H, Felsenstein J (1992) Inching toward reality: an improved likelihood model of sequence evolution. J molec Evol 34:3–16

    Google Scholar 

  • Tunnicliffe V (1991) The biology of hydrothermal vents: ecology and evolution, Oceanogr mar Biol A Rev 29:319–407

    Google Scholar 

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Communicated by T. Ikeda, Nagasaki

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Kojima, S., Segawa, R., Kobayashi, T. et al. Phylogenetic relationships among species of Calyptogena (Bivalvia: Vesicomyidae) collected around Japan revealed by nucleotide sequences of mitochondrial genes. Marine Biology 122, 401–407 (1995). https://doi.org/10.1007/BF00350872

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