Phylogeography of the large white-bellied rat niviventer excelsior suggests the influence of pleistocene glaciations in the hengduan mountains

Zoological Science

Volumn 27, Issue 6, 2010, Pages 487-493

  Chen, Weicai ^a,c   Liu, Shaoying ^b   Liu, Yang ^b   Hao, Haibang ^a   Zeng, Bo ^a   Chen, Shunde ^a   Peng, Hongyuan ^a   Yue, Bisong ^a   Zhang, Xiuyue ^a  

^a SICHUAN UNIVERSITY   (China)

^b SICHUAN ACADEMY OF FORESTRY   (China)

^c Guangxi Natural History Museum   (China)

Author keywords

genetic divergence; Hengduan Mountains; Niviventer excelsior; phylogeography; Pleistocene glaciations

Indexed keywords

DNA;

ANIMAL; ARTICLE; CHINA; CLIMATE CHANGE; DEMOGRAPHY; GENETIC VARIABILITY; GENETICS; ICE COVER; MURINAE; PHYLOGENY; PHYSIOLOGY; TIME;

ANIMALS; CHINA; CLIMATE CHANGE; DEMOGRAPHY; DNA; GENETIC VARIATION; ICE COVER; MURINAE; PHYLOGENY; TIME FACTORS;

MAMMALIA; MYA; NIVIVENTER EXCELSIOR; NIVIVENTER NIVIVENTER; PIERIS BRASSICAE; RODENTIA;

EID: 77954482406     PISSN: 02890003     EISSN: 02890003     Source Type: Journal    
DOI: 10.2108/zsj.27.487     Document Type: Article

References (49)

1. An B, Zhang LX, Liu NF, Ruan LZ, Song S (2009) Phylogeography of Tibetan snowcock (Tetraogallus tibetanus) in Qinghai-Tibetan Plateau. Mol Phylogenet Evol 50: 526-533
2. Aris-Brosou S, Excoffier L (1996) The impact of population expansion and mutation rate heterogeneity on DNA sequence polymorphism. Mol Biol Evol 13: 494-504
3. Avise JC (2000) Phylogeography: the history and formation of species. Harvard University Press
4. Avise JC, Walker D, Johns GC (1998) Speciation durations and Pleistocene effects on vertebrate phylogeography. Proc R Soc Lond B 265: 1707-1712 (Pubitemid 28451341)
5. Bandelt HJ, Forster P, Rohl A (1999) Median-joining networks for inferring intraspecific phylogenies. Mol Biol Evol 16: 37-48
6. Cao J, Zhao YN (2007) The quaternary glacier in the Shaluli Mountains, west Sichuan and correlation with that in the neighborhood. Sichuan J Geol 27: 81-86
7. Excoffier L, Laval G, Schneider S (2005) Arlequin Version 3.0: An integrated software package for population genetics data analysis. Evol Bioinform Online 1: 47-50
8. Felsenstein J (1988) Phylogenies from molecular sequences: inference and reliability. Ann Rev Genetics 22: 521-565
9. Fu YX (1997) Statistical test of neutrality of mutations against population growth, hitchhiking and background selection. Genetics 147: 915-925
10. Galbreath KE, Cook JA (2004) Genetic consequences of Pleistocene glaciations for the tundra vole (Microtus oeconomus) in Beringia. Mol Ecol 13: 135-148
11. Harrison TM, Copeland P, Kidd WSF, Yin A (1992) Raising Tibet. Science 255: 1663-1670
12. Hewitt GM (1996) Some genetic consequences of ice ages and their role in divergence and speciation. Biol J Linn Soc 58: 247-276
13. Hewitt GM (1999) Post-glacial re-colonization of European biota. Biol J Linn Soc 68: 87-112
14. Hewitt GM (2004) Genetic consequences of climatic oscillations in the Quaternary. Philos Trans R Soc London B 359: 183-195
15. Huelsenbeck JP, Ronquist F (2001) MRBAYES: Bayesian inference of phylogenetic trees. Bioinformatics 17: 754-755
16. Jin YT, Brown RP, Liu NF (2008) Cladogenesis and phylogeography of the lizard Phrynocephalus vlangalii (Agamidae) on the Tibetan plateau. Mol Ecol 17: 1971-1982
17. Jukes TH, Cantor CR (1969) Evolution of protein molecules. In "Mammalian Protein Metabolism" ED by HN Munro, Academic Press, New York, pp 21-132
18. Lehmkuhl F, Haselein F (2000) Quaternary palaeoenvironmental change on the Tibetan Plateau and adjacent areas (Western China and Western Mongolia). Quat Int 65/66: 121-145
19. Lessa EP, Cook JA (1998) The molecular phylogenetics of tucotucos (genus Ctenomys, Rodentia: Octodontidae) suggests an early burst of speciation. Mol Phylogenet Evol 9: 88-99
20. Liu JQ, Wang YJ, Wang AL, Ohba H, Abbott RJ (2006) Radiation and diversification within the Ligularia-Cremanthodium- Rarasenecio complex (Asteraceae) triggered by uplifted of the Qinghai-Tibetan Plateau. Mol Phylogenet Evol 38: 31-49
21. Martin AP, Palumbi SR (1993) Body size, metabolic rate, generation time, and the molecular clock. Proc Nat Acad Sci USA 90: 4087-4091
22. Meng LH, Yang R, Abbott RJ, Miehe G, Hu TH, Liu JQ (2007) Mitochondrial and chloroplast phylogeography of Picea crassifolia Kom. (Pinaceae) in the Qinghai-Tibetan Plateau and adjacent highlands. Mol Ecol 16: 4128-4137
23. Michaux JR, Libois R, Paradis E, Filippucci MG (2004) Phylogeographic history of the yellow-necked fieldmouse (Apodemus flavicollis) in Europe and in the Near and Middle East. Mol Phylogenet Evol 32: 788-798
24. Musser GG (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. Bull Am Mus Nat Hist 168: 225-334
25. Nei M, Li WH (1979) Mathematical model for studying genetic variation in terms of restriction endonucleases. Proc Nat Acad Sci USA 76: 5269-5273
26. Niu YD, Wei FW, Li M, Liu XM, Feng ZJ (2004) Phylogeny of pikas (Lagomorpha, Ochotona) inferred from mitochondrial cytochrome sequences. Folia Zool 53: 141-155 (Pubitemid 39040364)
27. Posada D, Crandall KA (1998) Modeltest: testing the model of DNA substitution. Bioinformatics 14: 817-818
28. Qu YH, Lei FM (2009) Comparative phylogeography of two endemic birds of the Tibetan plateau, the white-rumped snow finch (Onychostruthus taczanowskii) and the Hume's ground tit (Pseudopodoces humilis). Mol Phylogenet Evol 51: 312-326
29. Qu YH, Ericson PGP, Lei FM, Li SH (2005) Post-glacial colonization of the Tibetan plateau inferred from matrilineal genetic structure of the endemic red-necked snow finch, Pyrgilauda ruficollis. Mol Ecol 14: 1767-1781
30. Rogers AR, Harpending H (1992) Population growth makes waves in the distribution of pairwise genetic differences. Mol Biol Evol 9: 552-569
31. Rozas J, Sánchez-DelBarrio JC, Messeguer X, Rozas R (2003) DnaSP, DNA polymorphism analyses by the coalescent and other methods. Bioinformatics 19: 2496-2497
32. Sambrook E, Fritsch F, Maniatis T (1989) Molecular cloning: A Laboratory Manual. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, New York
33. Sbisa E, Tanzariello F, Reyes A, Pesole G, Saccone C (1997) Mammalian mitochondrial D-loop region structural analysis: identification of new conserved sequences and their functional and evolutionary implications. Gene 205: 125-140
34. Schneider S, Excoffier L (1999) Estimation of past demographic parameters from the distribution of pairwise differences when the mutation rates vary among sites: application to human mitochondrial DNA. Genetics 152: 1079-1089
35. Shi YF, Zheng BX, Li SJ (1990) Last glaciation and maximum glaciation in Qinghai-Xizang plateau-A controversy to M. Kuhle ice sheet hypothesis. J Glaciol Geocryol 12: 1-16
36. Slatkin M, Hudson RR (1991) Pairwise comparisons of mitochondrial DNA sequences in stable and exponentially growing populations. Genetics 129: 555-562
37. Su B, Fu YX, Wang YX, Jin L, Chakraborty R (2001) Genetic diversity and population history of the red panda (Ailurus fulgens) as inferred from mitochondrial DNA sequence variations. Mol Biol Evol 18: 1070-1076
38. Swofford DL (2002) PAUP*. Phylogenetic Analysis Using Parsimony (and other methods). Version 4.0b10*. Sinauer Associates, Sunderland, MA
39. Taberlet P, Fumagalli L, Wust-Saucy AG, Cosson JF (1998) Comparative phylogeography and postglacial colonization routes in Europe. Mol Ecol 7: 453-464
40. Tajima F (1989) Statistical method for testing the neutral mutation hypothesis by DNA polymorphism. Genetics 123: 585-595
41. Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DJ (1997) The Clustal X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 25: 4876-4882
42. Wu YQ, Cui ZJ, Liu GN (2001) Quaternary geomorphological evolution of the Kunlun Pass areas and uplift of the Qinghai-Xizang (Tibet) plateau. Geomorphology 36: 203-216
43. Xu LB, Zhou SZ, Cui JX, Wang J, David M (2004) Dating of the Pleistocene glaciations around the Daocheng ice cap. J Glaciol Geocryol 26: 528-534
44. Yang SJ, Lei FM, Qu YH, Yin ZH (2005) Intraspecific phylogeography of the white-rumped snowfinch (Onychostruthus taczanowskii) endemic to the Tibetan Plateau based on mtDNA sequences. J Zool 268: 187-192
45. Yang SJ, Yin ZH, Ma XM, Lei FM (2006) Phylogeography of ground tit (Pseudopodoces humilis) based on mtDNA: Evidence of past fragmentation on the Tibetan Plateau. Mol Phylogenet Evol 41: 257-265
46. Zeng ZY, Song ZM, Deng XZ, Sun QZ (1994) A study of the ungulate fauna in Sichuan. J Sichuan University (Nat Sci Edit) 31: 540-545
47. Zheng B, Xu Q, Shen Y (2002) The relationship between climate change and Quaternary glacial cycles on the Qinghai-Tibetan Plateau: review and speculation. Quat Int 97/98: 93-101
48. Zheng SH (1993) Quaternary rodents of Sichuan-Guizhou area. Science Press, Beijing, pp 185-188
49. Zhou SZ, Xu LB, Cui JX, Zhang XW, Zhao JD (2005) Geomorphologic evolution and environmental changes in the Shaluli Mountain region during the Quaternary. Chin Sci Bull 50: 52-57