Temporal dynamics of avian populations during pleistocene revealed by whole-genome sequences

Current Biology

Volumn 25, Issue 10, 2015, Pages 1375-1380

  Nadachowska Brzyska, Krystyna ^a   Li, Cai ^b,c   Smeds, Linnea ^a   Zhang, Guojie ^b,d   Ellegren, Hans ^a  

^a UPPSALA UNIVERSITY   (Sweden)

^b BGI SHENZHEN   (China)

^c UNIVERSITY OF COPENHAGEN   (Denmark)

^d UNIVERSITY OF COPENHAGEN   (Denmark)

Author keywords

[No Author keywords available]

Indexed keywords

AVES;

ANIMAL; BIRD; CLIMATE CHANGE; ENDANGERED SPECIES; GENETIC VARIATION; GENETICS; GENOME; POPULATION DENSITY; POPULATION DYNAMICS; POPULATION GENETICS;

ANIMALS; BIRDS; CLIMATE CHANGE; ENDANGERED SPECIES; GENETIC VARIATION; GENETICS, POPULATION; GENOME; POPULATION DENSITY; POPULATION DYNAMICS;

EID: 84929607193     PISSN: 09609822     EISSN: 18790445     Source Type: Journal    
DOI: 10.1016/j.cub.2015.03.047     Document Type: Article

References (25)

1. D. Williams, D. Dunkerly, P. DeDeckker, P. Kershaw, and M. Chappell Quaternary Environments 1988 Arnold
2. G. Hewitt The genetic legacy of the Quaternary ice ages Nature 405 2000 907 913
3. G.M. Hewitt Genetic consequences of climatic oscillations in the Quaternary Philos. Trans. R. Soc. Lond. B Biol. Sci. 359 2004 183 195 discussion 195
4. S.R. Holm, and J.-C. Svenning 180,000 years of climate change in Europe: avifaunal responses and vegetation implications PLoS ONE 9 2014 e94021
5. H. Li, and R. Durbin Inference of human population history from individual whole-genome sequences Nature 475 2011 493 496
6. E.D. Jarvis, S. Mirarab, A.J. Aberer, B. Li, P. Houde, C. Li, S.Y.W. Ho, B.C. Faircloth, B. Nabholz, and J.T. Howard Whole-genome analyses resolve early branches in the tree of life of modern birds Science 346 2014 1320 1331
7. S. Rahmstorf Ocean circulation and climate during the past 120,000 years Nature 419 2002 207 214
8. J.T. Weir, and D. Schluter Ice sheets promote speciation in boreal birds Proc. Biol. Sci. 271 2004 1881 1887
9. I.J. Lovette Glacial cycles and the tempo of avian speciation Trends Ecol. Evol. 20 2005 57 59
10. N.K. Johnson, and C. Cicero New mitochondrial DNA data affirm the importance of Pleistocene speciation in North American birds Evolution 58 2004 1122 1130
11. J. Klicka, and R.M. Zink The importance of recent ice ages in speciation: a failed paradigm Science 277 1997 1666 1669
12. R.M. Zink, J. Klicka, and B.R. Barber The tempo of avian diversification during the Quaternary Philos. Trans. R. Soc. Lond. B Biol. Sci. 359 2004 215 219 discussion 219-220
13. R. Frankham Conservation genetics Annu. Rev. Genet. 29 1995 305 327
14. S.U. Pauls, C. Nowak, M. Bálint, and M. Pfenninger The impact of global climate change on genetic diversity within populations and species Mol. Ecol. 22 2013 925 946
15. E. Dickinson, and J. Remsen The Howard and Moore Complete Checklist of the Birds of the World 2013 Aves Press
16. W. Jetz, G.H. Thomas, J.B. Joy, K. Hartmann, and A.O. Mooers The global diversity of birds in space and time Nature 491 2012 444 448
17. E.D. Jarvis, S. Mirarab, A.J. Aberer, B. Li, P. Houde, C. Li, S.Y. Ho, B.C. Faircloth, B. Nabholz, J.T. Howard Avian Phylogenomics Consortium Phylogenomic analyses data of the avian phylogenomics project Gigascience 4 2015 4
18. K.J. Gaston, T.M. Blackburn, and K. Klein Goldewijk Habitat conversion and global avian biodiversity loss Proc. Biol. Sci. 270 2003 1293 1300
19. G. Zhang, C. Li, Q. Li, B. Li, D.M. Larkin, C. Lee, J.F. Storz, A. Antunes, M.J. Greenwold, R.W. Meredith Avian Genome Consortium Comparative genomics reveals insights into avian genome evolution and adaptation Science 346 2014 1311 1320
20. C. Alex Buerkle, and Z. Gompert Population genomics based on low coverage sequencing: how low should we go? Mol. Ecol. 22 2013 3028 3035
21. E. Han, J.S. Sinsheimer, and J. Novembre Characterizing bias in population genetic inferences from low-coverage sequencing data Mol. Biol. Evol. 31 2014 723 735
22. K. Nadachowska-Brzyska, R. Burri, P.I. Olason, T. Kawakami, L. Smeds, and H. Ellegren Demographic divergence history of pied flycatcher and collared flycatcher inferred from whole-genome re-sequencing data PLoS Genet. 9 2013 e1003942
23. C.C. Weber, B. Nabholz, J. Romiguier, and H. Ellegren Kr/Kc but not dN/dS correlates positively with body mass in birds, raising implications for inferring lineage-specific selection Genome Biol. 15 2014 542
24. J.E. Brommer, L. Gustafsson, H. Pietiäinen, and J. Merilä Single-generation estimates of individual fitness as proxies for long-term genetic contribution Am. Nat. 163 2004 505 517
25. E. Abouheif A method for testing the assumption of phylogenetic independence in comparative data Evol. Ecol. Res. 1 1999 895 909