Mitochondrial phylogeography of the Japanese pond turtle, Mauremys japonica (Testudines, Geoemydidae);Mitochondriale Phylogeographie der japanischen Schildkröte Mauremys japonica (Geoemydidae, Testudines)

Journal of Zoological Systematics and Evolutionary Research

Volumn 49, Issue 2, 2011, Pages 141-147

  Suzuki, Dai ^a   Hikida, Tsutomu ^a  

^a KYOTO UNIVERSITY   (Japan)

Author keywords

Control region; Cytochrome b; Freshwater turtle; Mauremys japonica; MtDNA; Phylogeography

Indexed keywords

CYTOCHROME; ENDEMIC SPECIES; FRESHWATER ENVIRONMENT; GENE EXPRESSION; LAST GLACIATION; MITOCHONDRIAL DNA; PHYLOGEOGRAPHY; POND; REFUGIUM; TURTLE;

HONSHU; JAPAN; SHIKOKU;

GEOEMYDIDAE; MAUREMYS JAPONICA; TESTUDINES;

EID: 79953659827     PISSN: 09475745     EISSN: 14390469     Source Type: Journal    
DOI: 10.1111/j.1439-0469.2010.00577.x     Document Type: Article

References (43)

1. Avise JC (2000) Phylogeography: The History and Formation of Species. Harvard University Press, Cambridge, MA.
2. Avise JC (2009) Phylogeography: retrospect and prospect. J Biogeogr 36:3-15.
3. Barth D, Bernhard D, Fritzsch G, Fritz U (2004) The freshwater turtle genus Mauremys (Testudines, Geoemydidae) - a textbook example of an east-west disjunction or a taxonomic misconcept? Zool Scr 33:213-221.
4. Bohonak AJ (2002) IBD (Isolation By Distance): a program for analyses of isolation by distance. J Hered 93:153-154.
5. Excoffier L (2004) Patterns of DNA sequence diversity and genetic structure after a range expansion: lessons from the infinite-island model. Mol Ecol 13:853-864.
6. Excoffier L, Schneiser S (2005) Arlequin (ver. 3.0): an integrated software package for population genetics data analysis. Evol Bioinform Online 1:47-50.
7. Feldman CR, Parham JF (2004) Molecular systematics of old world stripe-necked turtles (Testudines: Mauremys). Asiatic Herpetol Res 10:28-37.
8. Fritz U, Barata M, Busack SD, Fritzsch G, Castilho R (2006) Impact of mountain chains, sea straits and peripheral populations on genetic and taxonomic structure of a freshwater turtle, Mauremys leprosa (Reptilia, Testudines, Geoemydidae). Zool Scri 35:97-108.
9. Fritz U, Guicking D, Kami H, Arakelyan M, Auer M, Ayaz D, Fernández CA, Bakiev AG, Celani A, Džukić G, Fahd S, Havaš P, Joger U, Khabibullin VF, Mazanaeva LF, Široký P, Tripepi S, Vélez AV, Antón GV, Wink M (2007) Mitochondrial phylogeography of European pond turtles (Emys orbicularis, Emys trinacris) - an update. Amphibia-Reptilia 28:418-426.
10. Fritz U, Ayaz D, Buschbom J, Kami HG, Mazanaeva LF, Aloufi AA, Auer M, Rifai L, Šilić T, Hundsdörfer AK (2008) Go east: phylogeographies of Mauremys caspica and M. rivulata- discordance of morphology, mitochondrial and nuclear genomic markers and rare hybridization. J Evol Biol 21:527-540.
11. Gotanda K, Yasuda Y (2008) Spatial biome changes in southwestern Japan since the Last Glacial Maximum. Quat Int 184:84-93.
12. Hasegawa Y, Hirayama R, Hashimoto K (2002) A Miocene turtle (Ocadia sp.: family Bataguridae; Superfamily Testudinoidea) from the Takaku Group, Usuiso, Taira, Iwaki City, Fukushima Prefecture, Japan (In Japanese with English abstract). Bull Gunma Mus Natu Hist 6:53-58.
13. Hikida T (2002) Evolution of Reptiles (In Japanese). Tokyo University Press, Tokyo.
14. Hirayama R (2001) Fossil turtles from the Tsubusagawa Formation (Pliocene) of Ajimu-cho, Oita Prefecture, northern Kyushu, Japan (In Japanese with English abstract). Res rep the Lake Biwa Mus 18:79-96.
15. Hirayama R, Kaneko N, Okazaki H (2007) Ocadia nipponica, a new species of aquatic turtle (Testudines: Testudinoidea: Geoemydidae) from the Middle Pleistocene of Chiba Prefecture, central Japan. Paleontol Res 11:1-19.
16. Honda M, Ota H, Kobayashi M, Nabhitabhata J, Yong HS, Hikida T (1999) Phylogenetic relationships of the flying lizards genus Draco (Reptilia, Agamidae). Zool Sci 16:535-549.
17. Honda M, Yasukawa Y, Ota H (2002) Phylogeny of the freshwater turtles of the genus Mauremys Gray, 1869 (Testudines), with special reference to a close affinity of M. japonica with Chinemys reevesii. J Zool Syst Evol Res 40:195-200.
18. Kumar S, Tamura K, Nei N (2004) MEGA3: integrated software for molecular evolutionary genetics analysis and sequence alignment. Brief Bioinform 5:150-163.
19. Larkin MA, Blackshields G, Brown NP, Chenna R, McGettigan PA, McWilliam H, Valentin F, Wallace IM, Wilm A, Lopez R, Thompson JD, Gibson TJ, Higgins DG (2007) Clustal W and Clustal X version 2.0. Bioinform 23:2947-2948.
20. Maruyama S, Isozaki Y, Kimura G, Terabayashi M (1997) Paleogeographic maps of the Japanese Islands: plate tectonic synthesis from 750Ma to the present. The Island Arc 6:121-142.
21. Matsuda M, Yonegawa H, Hamaguchi S, Sakaizumi M (1997) Geographic variation and diversity in the mitochondrial DNA of the medaka, Oryzias latipes, as determined by restriction endonuclease analysis. Zool Sci 14:517-526.
22. Ohshima K (1990) The history of straits around the Japanese islands in the late Quaternary (In Japanese with English abstract). Quat Res 29:193-208.
23. Okamoto T, Hikida T (2009) Three genetic lineages of the Japanese skink Plestiodon japonicus (Scincidae, Squamata), and the genetic composition of their contact zones. J Zool Syst Evol Res 47:181-188.
24. Okamoto T, Motokawa J, Toda M, Hikida T (2006) Parapatric distribution of the lizards Plestiodon (formerly Eumeces) latiscutatus and P. japonicus (Reptilia: Scincidae) around the Izu Peninsula, central Japan, and its biogeographic implications. Zool Sci 23:419-425.
25. Palumbi SR (1996) Nucleic acids II: the polymerase chain reaction. In: Hillis DM, Moritz C, Mable BK (eds), Molecular Systematics, 2nd edn. Sinauer Associates, Sunderland, MA, pp. 205-247.
26. Posada D, Crandall KA (2001) Intraspecific gene genealogies: trees grafting into networks. Trends Ecol Evol 16:37-45.
27. Rogers AR, Harpending H (1992) Population growth makes waves in the distribution of pairwise genetic differences. Mol Biol Evol 9:552-569.
28. Sakai H, Tamamoto C, Iwata A (1998) Genetic divergence, variation and zoogeography of a freshwater goby, Odontobutis obscura. Ichthyol Res 45:363-376.
29. Sasaki T, Yasukawa Y, Takahashi K, Miura S, Shedlock AM, Okada N (2006) Extensive morphological convergence and rapid radiation in the evolutionary history of the family Geoemydidae (old world pond turtles) revealed by SINE insertion analysis. System Biol 55:912-927.
30. Schneider S, Excoffier L (1999) Estimation of demographic parameters from the distribution of pairwise differences when the mutation rates vary among sites: application to human mitochondrial DNA. Genetics 152:1079-1089.
31. Sengoku S (1979) Ishi-game (Mauremys japonica). In: Okazaki T (ed), Basic Studies of Animals for Teaching Materials (In Japanese). Bunyo-sha, Tokyo, pp. 201-203.
32. Serb JM, Phillips CA, Iverson JB (2001) Molecular phylogeny and biogeography of Kinosternon flavescens based on complete mitochondrial control region sequences. Mol Phyl Evol 18:149-162.
33. Shaffer HB, Meylan P, McKnight ML (1997) Tests of turtles phylogeny: molecular, morphological, and paleontological approaches. System Biol 46:235-268.
34. Shikama T (1949) The Kuzuü ossuaries geological and palaeontological studies of the limestone fissure deposits in Kuzuü, Tochigi Prefecture. Sci Rep Tohoku Univ, 2nd ser (Geology) 23:1-201.
35. Shimizu T, Taniguchi N, Mizuno N (1993) An electrophoretic study of genetic differentiation of a Japanese freshwater goby, Rhinogobius flumineus. Ichthyol Res 39:329-343.
36. Spinks PQ, Shaffer HB, Iverson JB, McCord WP (2004) Phylogenetic hypotheses for the turtle family Geoemydidae. Mol Phyl Evol 32:164-177.
37. Tajima F (1989) Statistical method for testing the neutral mutation hypothesis by DNA polymorphism. Genetics 123:585-595.
38. Templeton AR, Crandall KA, Sing CF (1992) A cladistic analysis of phenotypic associations with haplotypes inferred from restriction endonuclease mapping and DNA sequence data. III. Cladogram estimation. Genetics 132:597-601.
39. Wada H, Makabe KW, Nakauchi M, Satoh N (1992) Phylogenetic relationships between solitary and colonial ascidians, as inferred from the sequence of the central region of their respective 18S rDNA. Biol Bull 183:448-455.
40. Walker D, Avise JC (1998) Principles of phylogeography as illustrated by freshwater and terrestrial turtles in the Southeastern United States. Annu Rev Ecol System 29:23-58.
41. Watanabe K, Nishida M (2003) Genetic population structure of Japanese bagrid catfishes. Ichthyol Res 50:140-148.
42. Wilson CC, Hebert PDN, Reist JD, Dempson JB (1996) Phylogeography and postglacial dispersal of arctic charr Salvelinus alpinus in North America. Mol Ecol 5:187-197.
43. Yasukawa Y, Yabe T, Ota H (2008) Mauremys japonica (Temminck and Schlegel, 1835) - Japanese pond turtle. In: Rhodin AFJ, Pritchard PCH, van Dijk PP, Saumure RA, Buhlmann KA, Iverson JB (eds), Conservation Biology of Freshwater Turtles and Tortoises: A Compilation Project of the IUCN/SSC Tortoise and Freshwater Turtle Specialist Group. Chelonian Res Monogr 5:003.1-003.6.