The genomic consequences of adaptive divergence and reproductive isolation between species of manakins

Publikation: Bidrag til tidsskriftTidsskriftartikelForskningfagfællebedømt

Standard

The genomic consequences of adaptive divergence and reproductive isolation between species of manakins. / Parchman, T. L.; Gompert, Z.; Braun, M. J.; Brumfield, R. T.; McDonald, D. B.; Uy, J. A. C.; Zhang, G.; Jarvis, E. D.; Schlinger, B. A.; Buerkle, C. A.

I: Molecular Ecology, Bind 22, Nr. 12, 2013, s. 3304-3317.

Publikation: Bidrag til tidsskriftTidsskriftartikelForskningfagfællebedømt

Harvard

Parchman, TL, Gompert, Z, Braun, MJ, Brumfield, RT, McDonald, DB, Uy, JAC, Zhang, G, Jarvis, ED, Schlinger, BA & Buerkle, CA 2013, 'The genomic consequences of adaptive divergence and reproductive isolation between species of manakins', Molecular Ecology, bind 22, nr. 12, s. 3304-3317. https://doi.org/10.1111/mec.12201

APA

Parchman, T. L., Gompert, Z., Braun, M. J., Brumfield, R. T., McDonald, D. B., Uy, J. A. C., Zhang, G., Jarvis, E. D., Schlinger, B. A., & Buerkle, C. A. (2013). The genomic consequences of adaptive divergence and reproductive isolation between species of manakins. Molecular Ecology, 22(12), 3304-3317. https://doi.org/10.1111/mec.12201

Vancouver

Parchman TL, Gompert Z, Braun MJ, Brumfield RT, McDonald DB, Uy JAC o.a. The genomic consequences of adaptive divergence and reproductive isolation between species of manakins. Molecular Ecology. 2013;22(12):3304-3317. https://doi.org/10.1111/mec.12201

Author

Parchman, T. L. ; Gompert, Z. ; Braun, M. J. ; Brumfield, R. T. ; McDonald, D. B. ; Uy, J. A. C. ; Zhang, G. ; Jarvis, E. D. ; Schlinger, B. A. ; Buerkle, C. A. / The genomic consequences of adaptive divergence and reproductive isolation between species of manakins. I: Molecular Ecology. 2013 ; Bind 22, Nr. 12. s. 3304-3317.

Bibtex

@article{c805d904d9a340ed9f99e41d790a3ff2,
title = "The genomic consequences of adaptive divergence and reproductive isolation between species of manakins",
abstract = "The processes of adaptation and speciation are expected to shape genomic variation within and between diverging species. Here we analyze genomic heterogeneity of genetic differentiation and introgression in a hybrid zone between two bird species (Manacus candei and M. vitellinus) using 59 100 SNPs, a whole genome assembly, and Bayesian models. Measures of genetic differentiation (FST) and introgression (genomic cline center [α] and rate [β]) were highly heterogeneous among loci. We identified thousands of loci with elevated parameter estimates, some of which are likely to be associated with variation in fitness in Manacus populations. To analyze the genomic organization of differentiation and introgression, we mapped SNPs onto a draft assembly of the M. vitellinus genome. Estimates of FST, α, and β were autocorrelated at very short physical distances (< 100 bp), but much less so beyond this. In addition, average statistical associations (linkage disequilibrium) between SNPs were generally low and were not higher in admixed populations than in populations of the parental species. Although they did not occur with a constant probability across the genome, loci with elevated FST, α, and β were not strongly co-localized in the genome. Contrary to verbal models that predict clustering of loci involved in adaptation and isolation in discrete genomic regions, these results are consistent with the hypothesis that genetic regions involved in adaptive divergence and reproductive isolation are scattered throughout the genome. We also found that many loci were characterized by both exceptional genetic differentiation and introgression, consistent with the hypothesis that loci involved in isolation are also often characterized by a history of divergent selection. However, the concordance between isolation and differentiation was only partial, indicating a complex architecture and history of loci involved in isolation. See also the Perspective by Yeaman",
keywords = "genomic cline, hybrid zone, Manacus, next-generation sequencing, population genomics, speciation",
author = "Parchman, {T. L.} and Z. Gompert and Braun, {M. J.} and Brumfield, {R. T.} and McDonald, {D. B.} and Uy, {J. A. C.} and G. Zhang and Jarvis, {E. D.} and Schlinger, {B. A.} and Buerkle, {C. A.}",
year = "2013",
doi = "10.1111/mec.12201",
language = "English",
volume = "22",
pages = "3304--3317",
journal = "Molecular Ecology",
issn = "0962-1083",
publisher = "Wiley-Blackwell",
number = "12",

}

RIS

TY - JOUR

T1 - The genomic consequences of adaptive divergence and reproductive isolation between species of manakins

AU - Parchman, T. L.

AU - Gompert, Z.

AU - Braun, M. J.

AU - Brumfield, R. T.

AU - McDonald, D. B.

AU - Uy, J. A. C.

AU - Zhang, G.

AU - Jarvis, E. D.

AU - Schlinger, B. A.

AU - Buerkle, C. A.

PY - 2013

Y1 - 2013

N2 - The processes of adaptation and speciation are expected to shape genomic variation within and between diverging species. Here we analyze genomic heterogeneity of genetic differentiation and introgression in a hybrid zone between two bird species (Manacus candei and M. vitellinus) using 59 100 SNPs, a whole genome assembly, and Bayesian models. Measures of genetic differentiation (FST) and introgression (genomic cline center [α] and rate [β]) were highly heterogeneous among loci. We identified thousands of loci with elevated parameter estimates, some of which are likely to be associated with variation in fitness in Manacus populations. To analyze the genomic organization of differentiation and introgression, we mapped SNPs onto a draft assembly of the M. vitellinus genome. Estimates of FST, α, and β were autocorrelated at very short physical distances (< 100 bp), but much less so beyond this. In addition, average statistical associations (linkage disequilibrium) between SNPs were generally low and were not higher in admixed populations than in populations of the parental species. Although they did not occur with a constant probability across the genome, loci with elevated FST, α, and β were not strongly co-localized in the genome. Contrary to verbal models that predict clustering of loci involved in adaptation and isolation in discrete genomic regions, these results are consistent with the hypothesis that genetic regions involved in adaptive divergence and reproductive isolation are scattered throughout the genome. We also found that many loci were characterized by both exceptional genetic differentiation and introgression, consistent with the hypothesis that loci involved in isolation are also often characterized by a history of divergent selection. However, the concordance between isolation and differentiation was only partial, indicating a complex architecture and history of loci involved in isolation. See also the Perspective by Yeaman

AB - The processes of adaptation and speciation are expected to shape genomic variation within and between diverging species. Here we analyze genomic heterogeneity of genetic differentiation and introgression in a hybrid zone between two bird species (Manacus candei and M. vitellinus) using 59 100 SNPs, a whole genome assembly, and Bayesian models. Measures of genetic differentiation (FST) and introgression (genomic cline center [α] and rate [β]) were highly heterogeneous among loci. We identified thousands of loci with elevated parameter estimates, some of which are likely to be associated with variation in fitness in Manacus populations. To analyze the genomic organization of differentiation and introgression, we mapped SNPs onto a draft assembly of the M. vitellinus genome. Estimates of FST, α, and β were autocorrelated at very short physical distances (< 100 bp), but much less so beyond this. In addition, average statistical associations (linkage disequilibrium) between SNPs were generally low and were not higher in admixed populations than in populations of the parental species. Although they did not occur with a constant probability across the genome, loci with elevated FST, α, and β were not strongly co-localized in the genome. Contrary to verbal models that predict clustering of loci involved in adaptation and isolation in discrete genomic regions, these results are consistent with the hypothesis that genetic regions involved in adaptive divergence and reproductive isolation are scattered throughout the genome. We also found that many loci were characterized by both exceptional genetic differentiation and introgression, consistent with the hypothesis that loci involved in isolation are also often characterized by a history of divergent selection. However, the concordance between isolation and differentiation was only partial, indicating a complex architecture and history of loci involved in isolation. See also the Perspective by Yeaman

KW - genomic cline

KW - hybrid zone

KW - Manacus

KW - next-generation sequencing

KW - population genomics

KW - speciation

U2 - 10.1111/mec.12201

DO - 10.1111/mec.12201

M3 - Journal article

C2 - 23441849

AN - SCOPUS:84879023569

VL - 22

SP - 3304

EP - 3317

JO - Molecular Ecology

JF - Molecular Ecology

SN - 0962-1083

IS - 12

ER -

ID: 258276317