DSpace Repository

Next-generation sequencing reveals phylogeographic structure and a species tree for recent bird divergences

Show simple item record

dc.contributor.author McCormack, John E. en
dc.contributor.author Maley, James M. en
dc.contributor.author Hird, Sarah M. en
dc.contributor.author Derryberry, Elizabeth P. en
dc.contributor.author Graves, Gary R. en
dc.contributor.author Brumfield, Robb T. en
dc.date.accessioned 2012-02-06T19:42:24Z
dc.date.available 2012-02-06T19:42:24Z
dc.date.issued 2012
dc.identifier.citation McCormack, John E., Maley, James M., Hird, Sarah M., Derryberry, Elizabeth P., Graves, Gary R., and Brumfield, Robb T. 2012. "<a href="https://repository.si.edu/handle/10088/17644">Next-generation sequencing reveals phylogeographic structure and a species tree for recent bird divergences</a>." <em>Molecular phylogenetics and evolution</em>. 62 (1):397&ndash;406. <a href="https://doi.org/10.1016/j.ympev.2011.10.012">https://doi.org/10.1016/j.ympev.2011.10.012</a> en
dc.identifier.issn 1055-7903
dc.identifier.uri http://hdl.handle.net/10088/17644
dc.description.abstract Next generation sequencing (NGS) technologies are revolutionizing many biological disciplines but have been slow to take root in phylogeography. This is partly due to the difficulty of using NGS to sequence orthologous DNA fragments for many individuals at low cost. We explore cases of recent divergence in four phylogenetically diverse avian systems using a method for quick and cost-effective generation of primary DNA sequence data using NGS pyrosequencing. NGS data were processed using an analytical pipeline that reduces many reads into two called alleles per locus per individual. Using single nucleotide polymorphisms (SNPs) mined from the loci, we detected population differentiation in each of the four bird systems, including: a case of ecological speciation in rails (Rallus); a rapid postglacial radiation in the genus Junco; recent in situ speciation among hummingbirds (Trochilus) in Jamaica; and subspecies of white-crowned sparrows (Zonotrichia leucophrys) along the Pacific coast. The number of recovered loci aligning closely to chromosomal locations on the zebra finch (Taeniopygia guttata) genome was highly correlated to the size of the chromosome, suggesting that loci are randomly distributed throughout the genome. Using eight loci found in Zonotrichia and Junco lineages, we were also able to generate a species tree of these sparrow sister genera, demonstrating the potential of this method for generating data amenable to coalescent-based analysis. We discuss improvements that should enhance the method s utility for primary data generation. en
dc.relation.ispartof Molecular phylogenetics and evolution en
dc.title Next-generation sequencing reveals phylogeographic structure and a species tree for recent bird divergences en
dc.type Journal Article en
dc.identifier.srbnumber 109760
dc.identifier.doi 10.1016/j.ympev.2011.10.012
rft.jtitle Molecular phylogenetics and evolution
rft.volume 62
rft.issue 1
rft.spage 397
rft.epage 406
dc.description.SIUnit NH-Vertebrate Zoology en
dc.description.SIUnit NMNH en
dc.description.SIUnit Peer-reviewed en
dc.citation.spage 397
dc.citation.epage 406

Files in this item

This item appears in the following Collection(s)

Show simple item record

Search DSpace


My Account