Phylogenetic relationships in genus Niviventer (Rodentia: Muridae) in China inferred from complete mitochondrial cytochrome b gene

Molecular Phylogenetics and Evolution

Volumn 44, Issue 2, 2007, Pages 521-529

  Jing, Meidong ^a,d   Yu, Hon Tsen ^b   Wu, Sheng Hai ^c   Wang, Wen ^a   Zheng, Xiaoguang ^a  

^a KUNMING INSTITUTE OF ZOOLOGY   (China)

^b NATIONAL TAIWAN UNIVERSITY   (Taiwan)

^c NATIONAL CHUNG HSING UNIVERSITY   (Taiwan)

^d UNIVERSITY OF CHINESE ACADEMY OF SCIENCES   (China)

Author keywords

Biogeography; Chinese species of Niviventer; Cytochrome b; Molecular phylogeny; Vicariant

Indexed keywords

CYTOCHROME B; MITOCHONDRIAL DNA;

ANIMAL; ARTICLE; CHINA; CLASSIFICATION; GENETICS; NUCLEIC ACID DATABASE; NUCLEOTIDE SEQUENCE; PHYLOGENY; RODENT; TIME;

ANIMALS; BASE SEQUENCE; CHINA; CYTOCHROMES B; DATABASES, NUCLEIC ACID; DNA, MITOCHONDRIAL; PHYLOGENY; RODENTIA; TIME FACTORS;

MURIDAE; MYA; NIVIVENTER; NIVIVENTER ANDERSONI; NIVIVENTER BRAHMA; NIVIVENTER CONFUCIANUS; NIVIVENTER COXINGI; NIVIVENTER CREMORIVENTER; NIVIVENTER CULTURATUS; NIVIVENTER EHA; NIVIVENTER EXCELSIOR; NIVIVENTER FULVESCENS; RODENTIA;

EID: 34447261138     PISSN: 10557903     EISSN: 10959513     Source Type: Journal    
DOI: 10.1016/j.ympev.2007.04.003     Document Type: Article

References (55)

1. Allen G.M. The mammals of China and Mongolia, Part II. Am. Mus. Nat. Hist (New York) (1940) 1008-1045
2. Andrews T.D., Jermiin L.S., and Easteal S. Accelerated evolution of cytochrome b in simian primates: adaptive evolution in concert with other mitochondrial proteins?. J. Mol. Evol. 47 (1998) 249-257
3. Avise J.C., Walker D., and Johns G.C. Speciation and pleistocene effects on the vertebrates phylogeography. Proc. R. Soc. Lond. B 265 (1998) 1707-1712
4. Bekken D., Schepartz L.A., Miller-Antonio S., Hou Y., and Huang W. Taxonomic abundance at Panxian Dadong, a middle Pleistocene Cave in South China. Asian Perspect. 43 (2004) 333-359
5. Blaxter M.L. The promise of a DNA taxonomy. Philos. Trans. R. Soc. Lond. B 359 (2004) 669-679
6. Bradley R.D., and Baker R.J. A test of the genetic species concept: cytochrome b sequences and mammals. J. Mammal. 82 (2001) 960-973
7. Cheng J., Cao B., Tian M., and Li L. A new record Pleistocene mammalia fauna from Zhoukoudian. Earth Sci. J. China Univ. Geosci. 20 (1995) 497-504 (in Chinese with English abstract)
8. Corbet G.B., and Hill J.E. The Mammals of the Indo-Malayan Region: A Systematic Review (1992), Oxford University Press, Oxford
9. Ellerman J.R., and Morrison-Scott T.C.S. Checklist of Palaeoarctic and Indian Mammals, 1758 to 1946 (1966), British Mus. (Nat. Hist.), London
10. Goldman N. Simple diagnostic statistical tests of models of DNA substitution. J. Mol. Evol. 37 (1993) 650-661
11. Goldman N. Statistical tests of models of DNA substitution. J. Mol. Evol. 36 (1993) 182-198
12. Harrison T.M., Copeland P., Kidd W.S.F., and Yin A. Raising Tibet. Science 255 (1992) 1663-1670
13. Huelsenbeck J.P., and Crandall K.A. Phylogeny estimation and hypothesis testing using maximum likelihood. Annu. Rev. Ecol. Syst. 28 (1997) 437-466
14. Huelsenbeck J.P., and Ronquist F. MRBAYES: Bayesian inference of phylogenetic trees. Bioinformatics 17 (2001) 754-755
15. Irwin D.M., Kocher T.D., and Wilson A.C. Evolution of the cytochrome b gene of mammals. J. Mol. Evol. 32 (1991) 128-144
16. Johns G.C., and Avise J.C. A comparative summary of genetic distance in the vertebrates from the mitochondrial cytochrome b gene. Mol. Biol. Evol. 15 (1998) 1481-1490
17. Kishino H., Thorne J.L., and Bruno W.J. Performance of a divergence time estimate method under a probabilistic model of rate evolution. Mol. Biol. Evol. 18 (2001) 352-361
18. Kumar S., Tamura K., and Nei M. MEGA 3: integrated software for molecular evolutionary genetics analysis and sequence alignment. Brief. Bioinf. 5 (2004) 150-163
19. Lehmkuhl F., and Haselein F. Quaternary palaeoenvironmental change on the Tibetan Plateau and adjacent areas (Western China and Western Mongolia). Quat. Int. 65/66 (2000) 121-145
20. Li B.Y., and Wang F.B. Basic characteristics of landforms in the northwest Yunnan and southwest Sichuan area. In: Sun H.L. (Ed). Studies in Qinghai-Xizang (Tibet) Plateau Special Issue of Hengduan Mountains Scientific Expedition (1986), Beijing Science and Technology Press, Beijing 174-183 (in Chinese with English summary)
21. Lin C.C., and Zhou R.D. Geology of Taiwan (1974), Committee of Taiwan Literature, TaiBei (in Chinese)
22. Lin S.M., Chen C.A., and Lue K.Y. Molecular phylogeny and biogeography of the grass lizards genus Takydromus (Reptilia: Lacertidae) of East Asia. Mol. Phylogenet. Evol. 22 (2002) 1-15
23. Liu X.M., Wei F.W., Li M., Jiang X.L., Feng Z.J., and Hu J.C. Molecular phylogeny and taxonomy of wood mice (genus Apodemus Kaup, 1829) based on complete mtDNA cytochrome b sequences, with emphasis on Chinese species. Mol. Phylogenet. Evol. 33 (2004) 1-15
24. Luo J., Yang D.M., Suzuki H., Wang Y.X., Chen W., Campbell K.L., and Zhang Y.P. Molecular phylogeny and biogeography of Oriental voles: genus Eothenomys (Muridae, Mammalia). Mol. Phylogenet. Evol. 33 (2004) 349-362
25. Marshall J.T.J. A synopsis of Asian species of Mus (Rodentia, Muridae). Bull. Amer. Mus. Nat. Hist 158 (1977) 173-220
26. Marshall, J.T.J., 1979. Classification of genus Mus. In: Altman, P.C., Katz, D.D. (Eds.), Inbred and Genetically defined Strains of Laboratory Animals (Part 1), Mouse and Rat. Fed. Amer. Soc. Exp. Biol., Bethesda, MD, pp. 212-220.
27. Matisoo-smith E., and Robins J.H. Origins and dispersals of Pacific peoples: evidence from mtDNA phylogenies of the Pacific rat. Proc. Natl. Acad. Sci. USA 101 (2004) 9167-9172
28. Meyer A. Evolution of mitochondrial DNA in fishes. In: Hochachka P.W., and Mommsen T.P. (Eds). Molecular Biology Frontiers, Biochemistry and Molecular Biology of Fishes vol. 2 (1993), Elsevier Science Publishers, Amsterdam 1-38
29. Misonne X. African and Indo-Australian Muridae: evolutionary trends. Ann. Mus. R. Afr. Centr. Tervuren Zool. 172 (1969) 1-219
30. Moritz C., Dowling T.E., and Brown W.M. Evolution of animal mitochondrial DNA: relevance for population biology and systematics. Annu. Rev. Ecol. Syst. 18 (1987) 269-292
31. Musser, G.G., 1981. Results of the Archbold Expeditions No.105. Notes on systematics of Indo-Malayan murid rodents and descriptions of new genera and species from Ceylon, Sulawesi and the Philippines. Bulf. Amer. Mus. (Nat. Hist.), vol. 168(3), pp. 236-256.
32. Musser, G.G., Carleton, M.D., 1993. Muridae: Arvicolinae. In: Wilson, D.E., Reeder, D.A.M. (Eds.), Mammal Species of the world. A Taxonomic and Geographic Reference. Smithsonian Institution Libraries and the National Science Foundation, Washington, DC, pp. 632-635.
33. Musser G.G., and Chiu S. Notes on taxonomy of Rattus andersoni and R. excelsior, murids endemic to western China. J. Mammal. 60 (1979) 581-592
34. Musser G.G., Marshall J.T.J., and Boerai B. Definition and contents of the Sudanic genus Maxomys (Rodentia, Muridae). J. Mammal. 60 (1979) 592-606
35. Nowak R.M. Mammals of the World. sixth ed. (1999), The Johns Hopkins University Press, Baltimore and London
36. Osgood W.H. Mammal species of the Kelley-Roosevelts and Delacour Asiatic expeditions. Publ. Field. Mus. Nat. Hist. Zool. Ser. 18 (1932) 193-339
37. Paäbo S., and Wilson A.C. Polymerase chain reaction reveals cloning artefacts. Nature 334 (1988) 387-388
38. Paillard D. The timing of Pleistocene glaciations from a simple multiple-state climate model. Nature 391 (1998) 378-381
39. Posada D., and Crandall K.A. Modeltest: testing the model of DNA substitution. Bioinformatics 14 9 (1998) 817-818
40. Schepartz L.A., Bakken D.A., Miller-Antonio S., Paraso C.K., and Karkanas P. Faunal approaches to site formation processes at Panxian Dadong. In: Shen C., and Keates S.C. (Eds). Current Research in Chinese Pleistocene Archaeology (2003), Archaeopress, Oxford, England 99-110
41. Shaw, C., 1996. Geographic Evolution of Cretaceous-Cenozoic in Taiwan. Annual of Taiwan Museum, pp. 429-446.
42. Shi Y., Li J., and Li B. Uplift and Environmental Changes of Qinghai-Xizang (Tibetan) Plateau in the Late Cenozoic (1998), Guangdong Science and Technology Press, Guangdong, China (in Chinese)
43. Sun X.L., and Zheng D. Formation, Evolution and Development of Qinghai-Xizang (Tibetan) Plateau (1998), Guangdong Science and Technology Press, Guangdong, China (in Chinese)
44. Swofford, D.L., 2002. PAUP*. Phylogenetic Analysis Using Parsimony (* and other methods). Version 4.0b10*. Sinauer Associates, Sunderland, MA.
45. Tautz D., Arctander P., Minelli A., Thomas R.H., and Vogler A.P. DNA points the way ahead in taxonomy. Nature 418 (2002) 479
46. Tautz D., Arctander P., Minelli A., Thomas R.H., and Vogler A.P. A plea for DNA taxonomy. Trends. Ecol. Evol. 18 (2003) 70-74
47. Teng L.S. Stratigraphic records of the late Cenozoic Penglai orogeny of Taiwan. Acta. Geol. Taiwanica 25 (1987) 205-244
48. Thorne J.L., Kishino H., and Painter I.S. Estimating the rate of evolution of the rate of molecular evolution. Mol. Biol. Evol. 15 (1998) 1647-1657
49. Wang Y.X. A Complete Checklist of Mammal Species and Subspecies in China: A Taxonomic and Geographic Reference (2003), China Forestry Publishing House, Beijing (in Chinese with English foreword)
50. Yang Z., and Yoder A.D. Comparison of likelihood and Bayesian methods for estimating divergence times using multiple gene loci and calibration points, with application to a radiation of cute-looking mouse lemur species. Syst. Biol. 52 (2003) 705-716
51. You Y., and Cai B. Stratigraphic division, fossil mammal and environment of the Pleistocene in Fujian Province. Acta Anthropol. Sinica 15 (1996) 335-346
52. Yu H.T. Distribution and abundance of small mammals along a subtropical elevational gradient in central Taiwan. J. Zool. Lond. 240 (1994) 577-600
53. Yu H.T. Patterns of diversification and genetic population structure of small mammals in Taiwan. Biol. J. Linn. Soc. Lond. (1995) 69-89
54. Yu N., Zheng C.L., Zhang Y.P., and Li W.H. Molecular systematics of Pikas (genus Ochotona) inferred from mitochondrial DNA sequences. Mol. Phylogenet. Evol. 16 (2000) 85-95
55. Zhang D.X., and Hewitt G.M. Nuclear integrations: challenges for mitochondrial DNA markers. Trends Ecol. Evol. 11 (1996) 247-251