TY - JOUR
T1 - Chromosomal patterns of diversity and differentiation in creepers
T2 - A next-gen phylogeographic investigation of Certhia americana
AU - Manthey, J. D.
AU - Klicka, J.
AU - Spellman, G. M.
N1 - Funding Information:
We thank Lindsey Allen and Oxana Gorbatenko for assistance in the lab. Scott V Edwards and Simon Malcomber provided useful feedback on earlier drafts of this manuscript. This work was supported in part by NSF grants (DEB 0815705) to JK and (DEB 0814841) to GMS.
Publisher Copyright:
© 2015 Macmillan Publishers Limited. All rights reserved.
PY - 2015
Y1 - 2015
N2 - With methods for sequencing thousands of loci for many individuals, phylogeographic studies have increased inferential power and the potential for applications to new questions. In songbirds, strong patterns of inter-chromosomal synteny, the published genome of a songbird and the ability to obtain thousands of genetic loci for many individuals permit the investigation of differentiation between and diversity within lineages across chromosomes. Here, we investigate patterns of differentiation and diversity in Certhia americana, a widespread North American songbird, using next-generation sequencing. Additionally, we reassess previous phylogeographic studies within the group. Based on ~ 30 million sequencing reads and more than 16 000 single-nucleotide polymorphisms in 41 individuals, we identified a strong positive relationship between genetic differentiation and chromosome size, with a negative relationship between genetic diversity and chromosome size. A combination of selection and drift may explain these patterns, although we found no evidence for selection. Because the observed genomic patterns are very similar between widespread, allopatric clades, it is unlikely that selective pressures would be so similar across such different ecological conditions. Alternatively, the accumulation of fixed differences between lineages and loss of genetic variation within lineages due to genetic drift alone may explain the observed patterns. Due to relatively higher recombination rates on smaller chromosomes, larger chromosomes would, on average, accumulate fixed differences between lineages and lose genetic variation within lineages faster, leading to the patterns observed here in C. americana.
AB - With methods for sequencing thousands of loci for many individuals, phylogeographic studies have increased inferential power and the potential for applications to new questions. In songbirds, strong patterns of inter-chromosomal synteny, the published genome of a songbird and the ability to obtain thousands of genetic loci for many individuals permit the investigation of differentiation between and diversity within lineages across chromosomes. Here, we investigate patterns of differentiation and diversity in Certhia americana, a widespread North American songbird, using next-generation sequencing. Additionally, we reassess previous phylogeographic studies within the group. Based on ~ 30 million sequencing reads and more than 16 000 single-nucleotide polymorphisms in 41 individuals, we identified a strong positive relationship between genetic differentiation and chromosome size, with a negative relationship between genetic diversity and chromosome size. A combination of selection and drift may explain these patterns, although we found no evidence for selection. Because the observed genomic patterns are very similar between widespread, allopatric clades, it is unlikely that selective pressures would be so similar across such different ecological conditions. Alternatively, the accumulation of fixed differences between lineages and loss of genetic variation within lineages due to genetic drift alone may explain the observed patterns. Due to relatively higher recombination rates on smaller chromosomes, larger chromosomes would, on average, accumulate fixed differences between lineages and lose genetic variation within lineages faster, leading to the patterns observed here in C. americana.
UR - http://www.scopus.com/inward/record.url?scp=85027951521&partnerID=8YFLogxK
U2 - 10.1038/hdy.2015.27
DO - 10.1038/hdy.2015.27
M3 - Article
C2 - 25853518
AN - SCOPUS:85027951521
VL - 115
SP - 165
EP - 172
JO - Heredity
JF - Heredity
SN - 0018-067X
IS - 2
ER -