Genome-wide signatures of genetic variation within and between populations - a comparative perspective

作者: Nagarjun Vijay , Matthias Weissensteiner , Reto Burri , Takeshi Kawakami , Hans Ellegren

DOI: 10.1101/104604

关键词:

摘要: Genome-wide screens of genetic variation can reveal signatures population-specific selection implicated in adaptation and speciation. Yet, unrelated processes such as linked arising a consequence genome architecture generate comparable across taxa. To investigate prevalence phylogenetic stability selection, we took comparative approach utilizing population-level data from 444 re-sequenced genomes three avian clades spanning 50 million years evolution. Levels nucleotide diversity (π),population-scaled recombination rate (ρ), differentiation (FST, PBS) sequence divergence (Dxy) were remarkably similar syntenic genomic regions clades. Elevated local was associated with inferred centromere sub-telomeric regions. Our results support role shaping genome-wide heterogeneity within between The long-term conservation landscapes stable association features make the outcome this evolutionary process part predictable.

参考文章(59)
R. M. Kuhn, D. Karolchik, A. S. Zweig, H. Trumbower, D. J. Thomas, A. Thakkapallayil, C. W. Sugnet, M. Stanke, K. E. Smith, A. Siepel, K. R. Rosenbloom, B. Rhead, B. J. Raney, A. Pohl, J. S. Pedersen, F. Hsu, A. S. Hinrichs, R. A. Harte, M. Diekhans, H. Clawson, G. Bejerano, G. P. Barber, R. Baertsch, D. Haussler, W. J. Kent, The UCSC genome browser database: update 2007 Nucleic Acids Research. ,vol. 35, pp. 668- 673 ,(2007) , 10.1093/NAR/GKL928
Daniel M. Hooper, Trevor D. Price, Rates of karyotypic evolution in Estrildid finches differ between island and continental clades Evolution. ,vol. 69, pp. 890- 903 ,(2015) , 10.1111/EVO.12633
Knud Andreas Jønsson, Pierre-Henri Fabre, Jonathan D. Kennedy, Ben G. Holt, Michael K. Borregaard, Carsten Rahbek, Jon Fjeldså, A supermatrix phylogeny of corvoid passerine birds (Aves: Corvides) ☆ Molecular Phylogenetics and Evolution. ,vol. 94, pp. 87- 94 ,(2016) , 10.1016/J.YMPEV.2015.08.020
Patrik Nosil, Jeffrey L. Feder, GENOME EVOLUTION AND SPECIATION: TOWARD QUANTITATIVE DESCRIPTIONS OF PATTERN AND PROCESS Evolution. ,vol. 67, pp. 2461- 2467 ,(2013) , 10.1111/EVO.12191
Robert S. Harris, Improved pairwise alignment of genomic dna Pennsylvania State University. ,(2007)
Richard O. Prum, Jacob S. Berv, Alex Dornburg, Daniel J. Field, Jeffrey P. Townsend, Emily Moriarty Lemmon, Alan R. Lemmon, A comprehensive phylogeny of birds (Aves) using targeted next-generation DNA sequencing Nature. ,vol. 526, pp. 569- 573 ,(2015) , 10.1038/NATURE15697
Ole Seehausen, Roger K Butlin, Irene Keller, Catherine E Wagner, Janette W Boughman, Paul A Hohenlohe, Catherine L Peichel, Glenn-Peter Saetre, Claudia Bank, Åke Brännström, Alan Brelsford, Chris S Clarkson, Fabrice Eroukhmanoff, Jeffrey L Feder, Martin C Fischer, Andrew D Foote, Paolo Franchini, Chris D Jiggins, Felicity C Jones, Anna K Lindholm, Kay Lucek, Martine E Maan, David A Marques, Simon H Martin, Blake Matthews, Joana I Meier, Markus Möst, Michael W Nachman, Etsuko Nonaka, Diana J Rennison, Julia Schwarzer, Eric T Watson, Anja M Westram, Alex Widmer, None, Genomics and the origin of species Nature Reviews Genetics. ,vol. 15, pp. 176- 192 ,(2014) , 10.1038/NRG3644
Asher D. Cutter, Bret A. Payseur, Genomic signatures of selection at linked sites: unifying the disparity among species Nature Reviews Genetics. ,vol. 14, pp. 262- 274 ,(2013) , 10.1038/NRG3425
Walter Jetz, Gavin H. Thomas, Jeffrey B. Joy, David W. Redding, Klaas Hartmann, Arne O. Mooers, Global distribution and conservation of evolutionary distinctness in birds Current Biology. ,vol. 24, pp. 919- 930 ,(2014) , 10.1016/J.CUB.2014.03.011
Krystyna Nadachowska-Brzyska, Reto Burri, Pall I. Olason, Takeshi Kawakami, Linnéa Smeds, Hans Ellegren, Demographic Divergence History of Pied Flycatcher and Collared Flycatcher Inferred from Whole-Genome Re-sequencing Data PLoS Genetics. ,vol. 9, pp. e1003942- ,(2013) , 10.1371/JOURNAL.PGEN.1003942