Molecular Phylogeny of Giant Clams Based on Mitochondrial DNA Cytochrome C Oxidase I Gene

HAYATI Journal of Biosciences

Volumn 14, Issue 4, 2007, Pages 162-166

  NURYANTO, A G U S ^a   DURYADI, D E D Y ^a   SOEDHARMA, D E D I ^a   BLOHM, DIETMAR ^b  

^a BOGOR AGRICULTURAL UNIVERSITY   (Indonesia)

^b UNIVERSITY OF BREMEN   (Germany)

Author keywords

Chametrachea; cytochrome c oxidase I; phylogenetic relationships

Indexed keywords

EID: 84856639086     PISSN: 19783019     EISSN: 20864094     Source Type: Journal    
DOI: 10.4308/hjb.14.4.162     Document Type: Article

References (24)

1. Beets, C, Molluscan fauna of the Lower Gelingseh Beds s, str., Sangkulirang area, Kalimantan Timur (East Borneo). Scripta Geol 82 (1986), 1–82.
2. Benzie, JAH, Williams, ST, Phylogenetic relationships among giant clam species (Mollusca: Tridacnidae) determined by protein electrophoresis. Marine Biol 132 (1998), 123–133.
3. Bucklin, A, Frost, BW, Bradford-Grieve, J, Allen, LD, Copley, NJ, Molecular systematic and phylogenetic assessment of 34 calanoid copepod species of the Calanidae and Clausocalanidae. Marine Biol 142 (2003), 3333–3343.
4. Bucklin, A, Guarnieri, M, Hill, RS, Bentley, AM, Kaartvedt, S, Taxonomic and systematic assessment of planktonic copepods using mitochondrial COI sequence variation and competitive, species-specific PCR. Hydrobiologia 401 (1999), 239–254.
5. Copland, JW, Lucas, JS, Giant Clams in Asia and the Pacific, 1988, Australian Centre for International Agricultural Research, Canberra.
6. Folmer, O, Black, M, Lutz, R, Vrijenhoek, R, DNA primers for amplification of mitochondrial cytochrome c oxidase subunit I from metazoan invertebrates. Mol Mar Biol Biotechnol 3 (1994), 294–299.
7. Hall, TA, BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nuc Acids Symp Series 41 (1999), 95–98.
8. Hebert, PDN, Cywinska, A, Ball, SL, de Waar, JR, Biological identification through DNA barcodes. Proc R Soc Lond B270 (2003), 313–321.
9. Hebert, PDN, Ratnasingham, R, de Waard, JR, Barcoding animal life: cytochrome c oxidase subunit I divergences among closely related species. Proc R Soc Lond B (suppl) 270 (2003), S96–S99.
10. Klinbunga, S, et al. Molecular taxonomy of cupped oysters (Crassostrea, Saccostrea, and Striostrea) in Thailand based on COI, 16S, and 18S rDNA polymorphism. Marine Biotechnol 7 (2005), 306–317.
11. Lucas, JS, Giant Clams: Description, Distribution and Life History. Copland, JW, Lucas, JS, (eds.) Giant Clams in Asia and the Pacific, 1988, Australian Centre for International Agricultural Research, Canberra, 21–32.
12. Lucas, JS, Ledua, E, Braley, RD, Tridacna tevoroa Lucas, Ledua and Braley: A recently-describe species of giant clam (Bivalvia; Tridacnidae) from Fiji and Tonga. Nautilus 105 (1991), 92–103.
13. Maruyama, T, Ishikura, M, Yamazaki, S, Kanai, S, Molecular phylogeny of zooxanthellate bivalves. Biol Bull 195 (1998), 70–77.
14. Pandolfi, JM, et al. Global trajectories of the long-term decline of coral reef ecosystem. Science 301 (2003), 955–958.
15. Posada, D, Crandall, KA, Modeltest: testing the model of DNA substitution. Bioinformatics 14 (1998), 817–818.
16. Roa-Quiaoit, HAF, The ecology and culture of giant clams (Tridacnidae) in the Jordanian sector of the Gulf of Aqaba, Red Sea [Dissertation], 2005, Centre for Tropical Marine Ecology, University of Bremen, Bremen.
17. Schneider, JA, O'Foighil, DO, Phylogeny of giant clams (Cardiidae: Tridacnidae) based on partial mitochondrial 16S rDNA gene sequences. Mol Phylogen Evol 13 (1999), 59–66.
18. Skolov, EP, An improve method for DNA isolation from mucopolysaccharide-rich molluscan tissues. J Moll Stud 66 (2000), 573–575.
19. Swofford, DL, PAUP*. Phylogenetic Analysis Using Parsimony (other methods). Vers 4, 1998, Sinauer, Sunderland.
20. Tamura, K, Dudley, J, Nei, M, Kumar, S, MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0. Molec Biol Evol 24 (2007), 1596–1599.
21. Thompson, JG, Higgins, DG, Gibson, TJ, CLUSTAL W: improving the sensitivity of progressive multiple sequence alignments through sequence weighting, position specific gap penalties and weight matrix choice. Nuc Acids Res 22 (1994), 4673–4680.
22. Walsh, PS, Metzger, DA, Higushi, R, Chelex 100 as a medium for simple extraction of DNA for PCR-based typing from forensic material. Biotechniques 10 (1991), 506–513.
23. Wells, S, Giant clams: status, trade and mariculture, and the role of CITES management, 1997, IUCN, Switzerland, and Cambridge.
24. Yoshida, Masa-aki, Tsuneki, K, Furuya, H, Phylogeny of selected Sepiidae (Mollusca, Cephalopoda) based on 12S, 16S, and COI sequences, with comments on the taxonomic reliability of several morphological characters. Zool Sci 23 (2006), 341–351.