Molecular phylogeography and evolutionary history of Picea likiangensis in the Qinghai-Tibetan Plateau inferred from mitochondrial and chloroplast DNA sequence variation

Journal of Systematics and Evolution

Volumn 50, Issue 4, 2012, Pages 341-350

  Zou, Jia Bin ^a   Peng, Xiao Li ^a   Li, Long ^a   Liu, Jian Quan ^a   Miehe, Georg ^b   Opgenoorth, Lars ^b  

^a Molecular Ecology Group State Key Laboratory of Grassland Agro Ecosystem College of Life Science ^*  (China)

^b PHILIPPS UNIVERSITY MARBURG   (Germany)

Author keywords

Chloroplast DNA; Genetic differentiation; Introgression; Mitochondrial DNA; Phylogeography; Picea likiangensis; Refugia

Indexed keywords

CONIFEROPHYTA; PICEA; PICEA LIKIANGENSIS;

EID: 84864609409     PISSN: 16744918     EISSN: 17596831     Source Type: Journal    
DOI: 10.1111/j.1759-6831.2012.00207.x     Document Type: Article

References (46)

1. Anderson LL, Hu FS, Nelson DM, Petit RJ, Paige KN. 2006. Iceage endurance: DNA evidence of a white spruce refugium in Alaska. Proceedings of the National Academy of Sciences USA 103: 12447-12450. (Pubitemid 44267279)
2. Bandelt HJ, Forster P, Rohl A. 1999. Median-joining networks for inferring intraspecific phylogenies. Molecular Biology and Evolution 16: 37-48. (Pubitemid 29024937)
3. Chen J, Kãllman T, Gyllenstrand N, Lascoux M. 2010. New insights on the speciation history and nucleotide diversity of three boreal spruce species and a Tertiary relict. Heredity 104: 3-14.
4. Chen KM, Abbott RJ, Milne RI, Tian XM, Liu JQ. 2008. Phylogeography of Pinus tabulaeformis Carr. (Pinaceae), a dominant species of coniferous forest in northern China. Molecular Ecology 19: 4276-4288.
5. Crandall KA, Templeton AR. 1993. Empirical tests of some predictions from coalescent theory with applications to intraspecific phylogeny reconstruction. Genetics 134: 959- 969. (Pubitemid 23193592)
6. Cun YZ, Wang XQ. 2010. Plant recolonization in the Himalaya from the southeastern Qinghai-Tibetan Plateau: Geographical isolation contributed to high population differentiation. Molecular Phylogenetics and Evolution 56: 972-982.
7. Currat M, Ruedi M, Petit RJ, Excoffier L. 2008. The hidden side of invasion: Massive introgression by local genes. Evolution 62: 1908-1920. (Pubitemid 352033252)
8. Donnelly P, Tavaré S. 1986. The ages of alleles and a coalescent. Advances in Applied Probability 18: 1-19.
9. Doyle JJ, Doyle JL. 1990. A rapid total DNA preparation procedure for fresh plant tissue. Focus 12: 13-15.
10. Du FK, Peng XL, Liu JQ, Lascoux M, Hu FS, Petit RJ. 2011. Direction and extent of organelle DNA introgression between two spruce species in the Qinghai-Tibetan Plateau. New Phytologist 192: 1024-1033.
11. Du FK, Petit RJ, Liu JQ. 2009. More introgression with less gene flow: Chloroplast versus mitochondrial DNA in the Picea asperata complex in China, and comparison with other conifers. Molecular Ecology 18: 1396-1407.
12. Excoffier L, Laval G, Schneider S. 2005. Arlequin (version. 3.0): An integrated software package for population genetics data analysis. Evolutionary BioinformaticsOnline 1: 47- 50.
13. Excoffier L, Smouse PE, Quattro JM. 1992. Analysis of molecular variance inferred from metric distances among DNA haplotypes: Application to human mitochondrial DNA restriction data. Genetics 131: 479-491.
14. Fu L, Li N, Mill RR. 1999. Picea. In: Wu ZY, Raven PH eds. Flora of China. Beijing: Science Press; St. Louis: Missouri Botanical Garden Press. 1(4): 25-32.
15. Hamilton M. 1999. Four primer pairs for the amplification of chloroplast intergenic regions with intraspecific variation. Molecular Ecology 8: 521-523. (Pubitemid 29170549)
16. Hewitt GM. 2004. Genetic consequences of climatic oscillations in the Quaternary. Philosophical Transactions of the Royal Society B: Biological Sciences 359: 183-195. (Pubitemid 38231471)
17. Hoelzer GA. 1997. Inferring phylogenies from mtDNA variation: Mitochondrial-gene trees versus nuclear-gene trees revisited. Evolution 51: 622-626.
18. Hollingsworh PM. 2011. Refining the DNA barcode for land plants. Proceedings of the National Academy of Sciences USA 108: 19451-19452.
19. Jia DR, Abbott RJ, Liu TL, Mao KS, Bartish IV, Liu JQ. 2012. Out of the Qinghai-Tibet Plateau: Evidence for the origin and dispersal of Eurasian temperate plants from a phylogeographic study of Hippophaë rhamnoides (Elaeagnaceae). New Phytologist 194: 1123-1133.
20. Jia DR, Liu TL, Wang LY, Zhou DW, Liu JQ. 2011. Evolutionary history of an alpine shrub Hippophae tibetana (Elaeagnaceae): Allopatric divergence and regional expansion. Biological Journal of Linnean Society 102: 37-50.
21. Kumar S, Nei M, Dudley J, and Tamura K. 2008. MEGA: A biologist-centric software for evolutionary analysis of DNA and protein sequence. Brief Bioinform 9: 299-306. (Pubitemid 351890826)
22. Li Y, Stocks M, Hemmilã S, Kãllman T, Zhu HT, Zhou YF, Chen J, Liu JQ, Lascoux M. 2010. Demographic histories of four spruce (Picea) species of the Qinghai-Tibetan Plateau and neighboring areas inferred from multiple nuclear loci. Molecular Biology and Evolution 27: 1001-1014.
23. Liepelt S, Bialozyt R, Ziegenhagen B. 2002. Wind-dispersed pollen mediates postglacial gene flow among refugia. Proceedings of the National Academy of Sciences USA 99: 14590-14594. (Pubitemid 35257715)
24. 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.Molecular Ecology 16: 4128-4137. (Pubitemid 47481047)
25. Miehe G, Miehe S, Bach K, Kluge J, Wesche K, Yang YP, Liu JQ. 2011. Ecological stability during the LGM and the mid- Holocene in the Alpine Steppes of Tibet? Quaternary Research 76: 243-252.
26. Mogensen HL. 1996. The hows and whys of cytoplasmic inheritance in seed plants. American Journal of Botany 83: 383-404.
27. Myers N, Mittermeier RA, Mittermeier CG, da Fonseca GAB, Kent J. 2000. Biodiversity hotspots for conservation priorities. Nature 403: 853-858. (Pubitemid 30130979)
28. Neale DB, Sederoff RR. 1988. Inheritance and evolution of conifer organelle genomes. In: Hanover JW, Keathley DE eds. Genetic manipulation of woody plants. New York: Plenum Press. 251-264.
29. Opgenoorth L, Vendramin GG, Mao K, Miehe G, Miehe S, Liepelt S, Liu JQ, Ziegenhagen B. 2010. Tree endurance on the Tibetan Plateau marks the world's highest known tree line of the Last Glacial Maximum. New Phytologist 185: 332-342.
30. Peng XL, Zhao CM, Wu GL, Liu JQ. 2007. Genetic variation and phylogeographic history of Picea likiangensis revealed by RAPD markers. Trees-Structure and Function 21: 457-464.
31. Petit RJ, Vendramin GG. 2007. Plant phylogeography based on organelle genes: an introduction. In:Weiss S, Ferrand N eds. Phylogeography of Southern European Refugia. New York: Springer. 23-97.
32. Pons O, Petit RJ. 1996. Measuring and testing genetic differentiation with ordered versus unordered alleles. Genetics 144: 1237-1245. (Pubitemid 26378263)
33. Schmidt GA, Mann ME, Rutherford SE. 2011. Discussion of "A statistical analysis of multiple temperature proxies: Are reconstructions of surface temperatures over the last 1000 years reliable?". The Annals of Applied Statistics 5: 65- 70.
34. Sloan DB, Barr CM, Olson MS, Keller SR, Taylor DR. 2008. Evolutionary rate variation at multiple levels of biological organization in plant mitochondrial DNA. Molecular Biology and Evolution 25: 243-246. (Pubitemid 351231611)
35. Taberlet P, Gielly L, Pautou G, Bouvet J. 1991. Universal primers for amplification of three non-coding regions of chloroplast DNA. Plant Molecular Biology 17: 1105-1109.
36. Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG. 1997. The CLUSTAL-X windows interface: Flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Research 25: 4876- 4882. (Pubitemid 28022245)
37. Wang LY, Ikeda H, Liu TL, Wang YJ, Liu JQ. 2009. Repeated range expansion and glacial endurance of Potentilla glabra (Rosaceae) in the Qinghai-Tibetan Plateau. Journal of Integrative Plant Biology 51: 698-706.
38. Wang Q, Yu QS, Liu JQ. 2011. Are nuclear loci ideal for barcoding plants? A case study of genetic delimitation of two sister species using multiple loci and multiple intraspecific individuals. Journal of Systematics and Evolution 49: 182- 188.
39. Willyard A, Syring J, Gernandt DS, Liston A, Cronn R. 2007. Fossil calibration of molecular divergence infers a moderate mutation rate and recent radiations for Pinus. Molecular Biology and Evolution 24: 90-101. (Pubitemid 46026284)
40. Wolfe KH, Li WH, Sharp PM. 1987. Rates of nucleotide substitution vary greatly among plant mitochondrial, chloroplast, and nuclear DNAs. Proceedings of the National Academy of Sciences USA 84: 9054-9058.
41. Wright S. 1943. Isolation by distance. Genetics 28: 114-138.
42. Wu LL, Cui XK, Milng RI, Sun YS, Liu JQ. 2010. Multiple autopolyploidizations and range expansion of Allium przewalskianum Regel. (Alliaceae) in the Qinghai-Tibetan Plateau. Molecular Ecology 19: 1691-1704.
43. Yang FS, Li YF, Ding X, Wang XQ. 2008. Extensive population expansion of Pedicularis longiflora (Orobanchaceae) on the Qinghai-Tibetan Plateau and its correlation with the Quaternary climate change. Molecular Ecology 17: 5135- 5145.
44. Zhang Q, Chiang TY, George M, Liu JQ, Abbott RJ. 2005. Phylogeography of the Qinghai-Tibetan Plateau endemic Juniperus przewalskii (Cupressaceae) inferred from chloroplast DNA sequence variation. Molecular Ecology 14: 3513- 3524.
45. Zhang YL, Li BY, Zheng D. 2002. A discussion on the boundary and area of the Tibetan Plateau in China. Geographical Research 21: 1-10 (in Chinese with an English abstract).
46. Zhou YF, Abbott RJ, Jiang ZY, Du FK, Milne RI, Liu JQ. 2010. Gene flowand species delimitation:Acase study of two pine species with overlapping distributions in southeast China. Evolution 64: 2342-2352.