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Volumn 45, Issue 1, 2013, Pages 67-71

Whole-genome sequencing of giant pandas provides insights into demographic history and local adaptation

(22)  Zhao, Shancen a,b   Zheng, Pingping a,c   Dong, Shanshan b   Zhan, Xiangjiang a   Wu, Qi a   Guo, Xiaosen b   Hu, Yibo a   He, Weiming b   Zhang, Shanning d   Fan, Wei b   Zhu, Lifeng a   Li, Dong b   Zhang, Xuemei b   Chen, Quan b   Zhang, Hemin e   Zhang, Zhihe f   Jin, Xuelin g   Zhang, Jinguo h   Yang, Huanming b   Wang, Jian b   more..


Author keywords

[No Author keywords available]

Indexed keywords

ADAPTATION; AILUROPODA; ANIMAL GENETICS; ARTICLE; BOTTLENECK POPULATION; CLIMATE CHANGE; DEMOGRAPHY; GENE SEQUENCE; GENETIC VARIABILITY; GENOMICS; HUMAN ACTIVITIES; NONHUMAN; POPULATION DISPERSAL; POPULATION DYNAMICS; POPULATION GENETICS; PRIORITY JOURNAL;

EID: 84871986062     PISSN: 10614036     EISSN: 15461718     Source Type: Journal    
DOI: 10.1038/ng.2494     Document Type: Article
Times cited : (268)

References (46)
  • 1
    • 0010434072 scopus 로고
    • Ailuropoda found from the late Miocene deposits in Lufeng, Yunnan
    • Qiu, Z. & Qi, G. Ailuropoda found from the late Miocene deposits in Lufeng, Yunnan. Vertebrata Palasiatica 27, 153-169 (1989).
    • (1989) Vertebrata Palasiatica , vol.27 , pp. 153-169
    • Qiu, Z.1    Qi, G.2
  • 2
    • 0028991426 scopus 로고
    • Ecology and climate: Research strategies and implications
    • Root, T.L. & Schneider, S.H. Ecology and climate: Research strategies and implications. Science 269, 334-341 (1995).
    • (1995) Science , vol.269 , pp. 334-341
    • Root, T.L.1    Schneider, S.H.2
  • 3
    • 0034702196 scopus 로고    scopus 로고
    • The genetic legacy of the Quaternary ice ages
    • Hewitt, G. The genetic legacy of the Quaternary ice ages. Nature 405, 907-913 (2000).
    • (2000) Nature , vol.405 , pp. 907-913
    • Hewitt, G.1
  • 4
    • 75149155568 scopus 로고    scopus 로고
    • The complete genome sequence of the giant panda
    • Li, R. et al. The complete genome sequence of the giant panda. Nature 463, 311-317 (2010).
    • (2010) Nature , vol.463 , pp. 311-317
    • Li, R.1
  • 6
    • 77954319020 scopus 로고    scopus 로고
    • Sequencing of 50 human exomes reveals adaptation to high altitude
    • Yi, X. et al. Sequencing of 50 human exomes reveals adaptation to high altitude. Science 329, 75-78 (2010).
    • (2010) Science , vol.329 , pp. 75-78
    • Yi, X.1
  • 7
    • 17644402806 scopus 로고    scopus 로고
    • Estimation of individual admixture: Analytical and study design considerations
    • Tang, H., Peng, J., Wang, P. & Risch, N.J. Estimation of individual admixture: Analytical and study design considerations. Genet. Epidemiol. 28, 289-301 (2005).
    • (2005) Genet. Epidemiol. , vol.28 , pp. 289-301
    • Tang, H.1    Peng, J.2    Wang, P.3    Risch, N.J.4
  • 8
    • 69749099417 scopus 로고    scopus 로고
    • Fast model-based estimation of ancestry in unrelated individuals
    • Alexander, D.H., Novembre, J. & Lange, K. Fast model-based estimation of ancestry in unrelated individuals. Genome Res. 19, 1655-1664 (2009).
    • (2009) Genome Res. , vol.19 , pp. 1655-1664
    • Alexander, D.H.1    Novembre, J.2    Lange, K.3
  • 9
    • 34547794162 scopus 로고    scopus 로고
    • Genetic viability and population history of the giant panda, putting an end to the ''Evolutionary Dead End''?
    • Zhang, B. et al. Genetic viability and population history of the giant panda, putting an end to the ''Evolutionary Dead End''? Mol. Biol. Evol. 24, 1801-1810 (2007).
    • (2007) Mol Biol. Evol. , vol.24 , pp. 1801-1810
    • Zhang, B.1
  • 10
    • 0021566877 scopus 로고
    • Estimating F-statistics for the analysis of population structure
    • Weir, B.S. & Cockerham, C. Estimating F-statistics for the analysis of population structure. Evolution 38, 1358 (1984).
    • (1984) Evolution , vol.38 , pp. 1358
    • Weir, B.S.1    Cockerham, C.2
  • 12
    • 65449132092 scopus 로고    scopus 로고
    • Genome-wide survey of SNP variation uncovers the genetic structure of cattle breeds
    • The Bovine HapMap Consortium
    • The Bovine HapMap Consortium. Genome-wide survey of SNP variation uncovers the genetic structure of cattle breeds. Science 324, 528-532 (2009).
    • (2009) Science , vol.324 , pp. 528-532
  • 13
    • 79960914105 scopus 로고    scopus 로고
    • Inference of human population history from individual whole-genome sequences
    • Li, H. & Durbin, R. Inference of human population history from individual whole-genome sequences. Nature 475, 493-496 (2011).
    • (2011) Nature , vol.475 , pp. 493-496
    • Li, H.1    Durbin, R.2
  • 14
    • 33751330745 scopus 로고
    • On the taxonomic status of species geological distribution and evolutionary history of ailuropoda
    • Wang, J. On the taxonomic status of species, geological distribution and evolutionary history of Ailuropoda. Acta Zool. Sinica 20, 191-201 (1974).
    • (1974) Acta Zool. Sinica , vol.20 , pp. 191-201
    • Wang, J.1
  • 15
    • 31344462941 scopus 로고    scopus 로고
    • Late Pliocene-Pleistocene changes in mass accumulation rates of eolian deposits on the central Chinese Loess Plateau
    • Sun, Y.B. & An, Z.S. Late Pliocene-Pleistocene changes in mass accumulation rates of eolian deposits on the central Chinese Loess Plateau. J. Geophys. Res. 110, D23101 (2005).
    • (2005) J. Geophys. Res. , vol.110
    • Sun, Y.B.1    An, Z.S.2
  • 16
    • 0005933278 scopus 로고
    • Evolutionary history of giant pandas
    • Pei, W. Evolutionary history of giant pandas. Acta Zool. Sinica 20, 188-190 (1974).
    • (1974) Acta Zool. Sinica , vol.20 , pp. 188-190
    • Pei, W.1
  • 17
    • 34547449598 scopus 로고    scopus 로고
    • The first skull of the earliest giant panda
    • Jin, C. et al. The first skull of the earliest giant panda. Proc. Natl. Acad. Sci. USA 104, 10932-10937 (2007).
    • (2007) Proc. Natl. Acad. Sci. USA , vol.104 , pp. 10932-10937
    • Jin, C.1
  • 18
    • 77958145918 scopus 로고    scopus 로고
    • Pseudogenization of the umami taste receptor gene Tas1r1 in the giant panda coincided with its dietary switch to bamboo
    • Zhao, H., Yang, J., Xu, H. & Zhang, J. Pseudogenization of the umami taste receptor gene Tas1r1 in the giant panda coincided with its dietary switch to bamboo. Mol. Biol. Evol. 27, 2669-2673 (2010).
    • (2010) Mol. Biol. Evol. , vol.27 , pp. 2669-2673
    • Zhao, H.1    Yang, J.2    Xu, H.3    Zhang, J.4
  • 19
    • 0036629768 scopus 로고    scopus 로고
    • The relationship between climate change and Quaternary glacial cycles on the Qinghai-Tibetan Plateau: Review and speculation
    • Zheng, B., Xu, Q. & Shen, Y. The relationship between climate change and Quaternary glacial cycles on the Qinghai-Tibetan Plateau: Review and speculation. Quat. Int. 97-98, 93-101 (2002).
    • (2002) Quat. Int. , vol.97-98 , pp. 93-101
    • Zheng, B.1    Xu, Q.2    Shen, Y.3
  • 20
    • 84887771387 scopus 로고    scopus 로고
    • Comparative ecology of giant pandas in the five mountain ranges of their distribution in China
    • eds. Lindburg D. & Baragona K.) University of California Press London
    • Hu, J. & Wei, F. Comparative ecology of giant pandas in the five mountain ranges of their distribution in China. in Giant Pandas: Biology and Conservation (eds. Lindburg, D. & Baragona, K.) 137-148 (University of California Press, London, 2004).
    • (2004) Giant Pandas: Biology And Conservation , pp. 137-148
    • Hu, J.1    Wei, F.2
  • 21
    • 79960090843 scopus 로고    scopus 로고
    • Molecular evidence for Pleistocene refugia at the eastern edge of the Tibetan Plateau
    • Zhan, X., Zheng, Y., Wei, F., Bruford, M.W. & Jia, C. Molecular evidence for Pleistocene refugia at the eastern edge of the Tibetan Plateau. Mol. Ecol. 20, 3014-3026 (2011).
    • (2011) Mol. Ecol. , vol.20 , pp. 3014-3026
    • Zhan, X.1    Zheng, Y.2    Wei, F.3    Bruford, M.W.4    Jia, C.5
  • 22
    • 73449149044 scopus 로고    scopus 로고
    • Inferring the joint demographic history of multiple populations from multidimensional SNP frequency data
    • Gutenkunst, R.N., Hernandez, R.D., Williamson, S.H. & Bustamante, C.D. Inferring the joint demographic history of multiple populations from multidimensional SNP frequency data. PLoS Genet. 5, e1000695 (2009).
    • (2009) PLoS Genet. , vol.5
    • Gutenkunst, R.N.1    Hernandez, R.D.2    Williamson, S.H.3    Bustamante, C.D.4
  • 23
    • 0036095616 scopus 로고    scopus 로고
    • Mapping Holocene pollen data and vegetation of China
    • Ren, G. & Beug, H.J. Mapping Holocene pollen data and vegetation of China. Quat. Sci. Rev. 21, 1395-1422 (2002).
    • (2002) Quat. Sci. Rev. , vol.21 , pp. 1395-1422
    • Ren, G.1    Beug, H.J.2
  • 24
    • 0034020966 scopus 로고    scopus 로고
    • Decline of the mid-to-late Holocene forests in China: Climatic change or human impact?
    • Ren, G Decline of the mid-to-late Holocene forests in China: Climatic change or human impact? J. Quaternary Sci. 15, 273-281 (2000).
    • (2000) J. Quaternary Sci. , vol.15 , pp. 273-281
    • Ren, G.1
  • 26
    • 77953032930 scopus 로고    scopus 로고
    • Arlequin suite ver3.5: A new series of programs to perform population genetics analyses under Linux and Windows
    • Excoffier, L. & Lischer, H.E.L. Arlequin suite ver3.5: A new series of programs to perform population genetics analyses under Linux and Windows. Mol. Ecol. Resour. 10, 564-567 (2010).
    • (2010) Mol. Ecol. Resour. , vol.10 , pp. 564-567
    • Excoffier, L.1    Lischer, H.E.L.2
  • 27
    • 0030467524 scopus 로고    scopus 로고
    • Evaluating loci for use in the genetic analysis of population structure
    • Beaumont, M.A. & Nichols, R.A. Evaluating loci for use in the genetic analysis of population structure. P. Roy. Soc. Lond. B. Bio. 263, 1619-1626 (1996).
    • (1996) P. Roy. Soc. Lond. B. Bio. , vol.263 , pp. 1619-1626
    • Beaumont, M.A.1    Nichols, R.A.2
  • 28
    • 58149347836 scopus 로고    scopus 로고
    • A genome-scan method to identify selected loci appropriate for both dominant and codominant markers: A Bayesian perspective
    • Foll, M. & Gaggiotti, O. A genome-scan method to identify selected loci appropriate for both dominant and codominant markers: A Bayesian perspective. Genetics 180, 977-993 (2008).
    • (2008) Genetics , vol.180 , pp. 977-993
    • Foll, M.1    Gaggiotti, O.2
  • 29
    • 0000704272 scopus 로고
    • Estimation of gene flow from F-statistics
    • Cockerham, C.C. & Weir, B. Estimation of gene flow from F-statistics. Evolution 47, 855-863 (1993).
    • (1993) Evolution , vol.47 , pp. 855-863
    • Cockerham, C.C.1    Weir, B.2
  • 30
    • 77950114281 scopus 로고    scopus 로고
    • The molecular receptive ranges of human TAS2R bitter taste receptors
    • Meyerhof, W. et al. The molecular receptive ranges of human TAS2R bitter taste receptors. Chem. Senses 35, 157-170 (2010).
    • (2010) Chem. Senses , vol.35 , pp. 157-170
    • Meyerhof, W.1
  • 31
    • 35349012592 scopus 로고    scopus 로고
    • Genome-wide detection and characterization of positive selection in human populations
    • Sabeti, P.C. et al. Genome-wide detection and characterization of positive selection in human populations. Nature 449, 913-918 (2007).
    • (2007) Nature , vol.449 , pp. 913-918
    • Sabeti, P.C.1
  • 34
    • 84887797518 scopus 로고    scopus 로고
    • Chemical communication in giant pandas
    • eds. Lindburg D.G. & Baragona K.) 106-120 University of California Press Berkeley CA
    • Swaisgood, R.R. et al. Chemical communication in giant pandas. in Giant Pandas: Biology and Conservation (eds. Lindburg, D.G. & Baragona, K.) 106-120 (University of California Press, Berkeley, CA, 2004).
    • (2004) Giant Pandas: Biology And Conservation
    • Swaisgood, R.R.1
  • 35
    • 0038166187 scopus 로고    scopus 로고
    • Chemical cues identify gender and individuality in giant pandas (Ailuropoda melanoleuca)
    • Hagey, L. & MacDonald, E. Chemical cues identify gender and individuality in giant pandas (Ailuropoda melanoleuca). J. Chem. Ecol. 29, 1479-1488 (2003).
    • (2003) J. Chem. Ecol. , vol.29 , pp. 1479-1488
    • Hagey, L.1    MacDonald, E.2
  • 36
    • 33745002215 scopus 로고    scopus 로고
    • Molecular censusing doubles giant panda population estimate in a key nature reserve
    • Zhan, X. et al. Molecular censusing doubles giant panda population estimate in a key nature reserve. Curr. Biol. 16, R451-R452 (2006).
    • (2006) Curr. Biol. , vol.16
    • Zhan, X.1
  • 37
    • 77955508806 scopus 로고    scopus 로고
    • Drastic reduction of the smallest and most isolated giant panda population: Implications for conservation
    • Zhu, L. et al. Drastic reduction of the smallest and most isolated giant panda population: Implications for conservation. Conserv. Biol. 24, 1299-1306 (2010).
    • (2010) Conserv. Biol. , vol.24 , pp. 1299-1306
    • Zhu, L.1
  • 38
    • 67649884743 scopus 로고    scopus 로고
    • Fast and accurate short read alignment with Burrows-Wheeler transform
    • Li, H. & Durbin, R. Fast and accurate short read alignment with Burrows-Wheeler transform. Bioinformatics 25, 1754-1760 (2009).
    • (2009) Bioinformatics , vol.25 , pp. 1754-1760
    • Li, H.1    Durbin, R.2
  • 39
    • 0021066244 scopus 로고
    • Evolutionary relationship of DNA sequences in finite populations
    • Tajima, F. Evolutionary relationship of DNA sequences in finite populations. Genetics 105, 437-460 (1983).
    • (1983) Genetics , vol.105 , pp. 437-460
    • Tajima, F.1
  • 40
    • 0016491430 scopus 로고
    • On the number of segregating sites in genetical models without recombination
    • Watterson, G.A. On the number of segregating sites in genetical models without recombination. Theor. Popul. Biol. 7, 256-276 (1975).
    • (1975) Theor. Popul. Biol. , vol.7 , pp. 256-276
    • Watterson, G.A.1
  • 41
    • 13444269543 scopus 로고    scopus 로고
    • Haploview: Analysis and visualization of LD and haplotype maps
    • Barrett, J.C. et al. Haploview: Analysis and visualization of LD and haplotype maps. Bioinformatics 21, 263-265 (2005).
    • (2005) Bioinformatics , vol.21 , pp. 263-265
    • Barrett, J.C.1
  • 42
    • 0002761503 scopus 로고
    • A study on the life table of wild giant pandas
    • Wei, F. et al. A study on the life table of wild giant pandas. Acta Theriol. Sinica 9, 81-86 (1989).
    • (1989) Acta Theriol. Sinica , vol.9 , pp. 81-86
    • Wei, F.1
  • 43
    • 4644300141 scopus 로고    scopus 로고
    • Bayesian Markov chain Monte Carlo sequence analysis reveals varying neutral substitution patterns in mammalian evolution
    • Hwang, D.G. & Green, P. Bayesian Markov chain Monte Carlo sequence analysis reveals varying neutral substitution patterns in mammalian evolution. Proc. Natl. Acad. Sci. USA 101, 13994-14001 (2004).
    • (2004) Proc. Natl. Acad. Sci. USA , vol.101 , pp. 13994-14001
    • Hwang, D.G.1    Green, P.2
  • 44
    • 0036020892 scopus 로고    scopus 로고
    • A direct approach to false discovery rates
    • Storey, J.D. A direct approach to false discovery rates. J. R. Stat. Soc., B 64, 479-498 (2002).
    • (2002) J. R. Stat. Soc. , vol.B , Issue.64 , pp. 479-498
    • Storey, J.D.1
  • 45
    • 84856033880 scopus 로고    scopus 로고
    • Variation for host range within and among populations of the parasitic plant Striga hermonthica
    • Huang, K., Whitlock, R., Press, M.C. & Scholes, J.D. Variation for host range within and among populations of the parasitic plant Striga hermonthica. Heredity 108, 96-104 (2012).
    • (2012) Heredity , vol.108 , pp. 96-104
    • Huang, K.1    Whitlock, R.2    Press, M.C.3    Scholes, J.D.4
  • 46
    • 84855441828 scopus 로고    scopus 로고
    • Evidence for evolutionary change associated with the recent range expansion of the British butterfly, Aricia agestis, in response to climate change
    • Buckley, J., Butlin, R.K. & Bridle, J.R. Evidence for evolutionary change associated with the recent range expansion of the British butterfly, Aricia agestis, in response to climate change. Mol. Ecol. 21, 267-280 (2012).
    • (2012) Mol. Ecol. , vol.21 , pp. 267-280
    • Buckley, J.1    Butlin, R.K.2    Bridle, J.R.3


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