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Comparative genomic...
Comparative genomics based on massive parallel transcriptome sequencing reveals patterns of substitution and selection across 10 bird species
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- Künstner, Axel (author)
- Uppsala universitet,Evolutionsbiologi
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- Wolf, Jochen B. W. (author)
- Uppsala universitet,Evolutionsbiologi
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- Backström, Niclas (author)
- Uppsala universitet,Evolutionsbiologi
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Whitney, Osceola (author)
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Balakrishnan, Christopher N. (author)
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Day, Lainy (author)
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Edwards, Scott V. (author)
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Janes, Daniel E. (author)
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Schlinger, Barney A. (author)
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Wilson, Richard K. (author)
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Jarvis, Erich D. (author)
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Warren, Wesley C. (author)
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- Ellegren, Hans (author)
- Uppsala universitet,Evolutionsbiologi
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(creator_code:org_t)
- 2010
- 2010
- English.
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In: Molecular Ecology. - 0962-1083 .- 1365-294X. ; 19:Suppl.1, s. 266-276
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https://urn.kb.se/re...
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https://doi.org/10.1...
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Abstract
Subject headings
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- Next-generation sequencing technology provides an attractive means to obtain largescale sequence data necessary for comparative genomic analysis. To analyse the patterns of mutation rate variation and selection intensity across the avian genome, we performed brain transcriptome sequencing using Roche 454 technology of 10 different non-model avian species. Contigs from de novo assemblies were aligned to the two available avian reference genomes, chicken and zebra finch. In total, we identified 6499 different genes across all 10 species, with ∼1000 genes found in each full run per species. We found evidence for a higher mutation rate of the Z chromosome than of autosomes (male-biased mutation) and a negative correlation between the neutral substitution rate (dS) and chromosome size. Analyses of the mean dN/dS ratio (ω) of genes across chromosomes supported the Hill-Robertson effect (the effect of selection at linked loci) and point at stochastic problems with x as an independent measure of selection. Overall, this study demonstrates the usefulness of next-generation sequencing for obtaining genomic resources for comparative genomic analysis of non-model organisms.
Subject headings
- NATURVETENSKAP -- Biologi (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences (hsv//eng)
Keyword
- Avian genomics
- Hill-Robertson effect
- Male-mutation bias
- Next generation sequencing 454
- Selection
- Biology
- Biologi
Publication and Content Type
- ref (subject category)
- art (subject category)
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- By the author/editor
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Künstner, Axel
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Wolf, Jochen B. ...
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Backström, Nicla ...
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Whitney, Osceola
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Balakrishnan, Ch ...
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Day, Lainy
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show more...
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Edwards, Scott V ...
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Janes, Daniel E.
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Schlinger, Barne ...
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Wilson, Richard ...
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Jarvis, Erich D.
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Warren, Wesley C ...
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Ellegren, Hans
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show less...
- About the subject
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- NATURAL SCIENCES
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NATURAL SCIENCES
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and Biological Scien ...
- Articles in the publication
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Molecular Ecolog ...
- By the university
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Uppsala University