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Signatures of selection inscribed on poplar genomes
Date:8/24/2014

ce in 2006 by the DOE JGI. Since the genome was made publicly available, it has been used to understand woody perennial plant development and served as a model for genome-level insights in forest trees. The publication itself has been cited more than 1,000 times in a wide variety of journals.

"This is the first time that deep genomics resources have ever been applied to an ecological question, in this case: 'What does selection do at the genome level?'" said Tuskan. "In the past, people looked at adaptation to factors such as temperature and light levels, and they examined variation in those genes as they vary across environmental gradients. There was a preconceived notion and a very narrow view of what was causing the response. Here, we took five major approaches, applied them blindly to the whole genome, and let the analysis show us where the fingerprints of selection are and what genes fall under those fingerprints." Watch a video of Tuskan on the importance of selection in trees at http://bit.ly/Tuskan14fingerprints.

Going from 1,000 genotypes and 45,000 genes "to figuring out what's not just statistically significant but biologically meaningful" wasn't easy, said study first author Luke Evans of West Virginia University. "We did it by determining selection targets things that looked like they might be under natural selection in wild populations and looked at growth and performance evidence that they affect adaptive traits. If these targets showed not only computational evidence of selection but also influenced phenotypes, it was a nice sort of dovetailing that was mutually supportive."

DiFazio highlighted the significance of the computational work. "Our approach is particularly powerful because we are mining standing natural variation resulting from tens of thousands of years of evolution and selection such that the alleles or gene variants that we have identified have
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Contact: David Gilbert
degilbert@lbl.gov
925-296-5643
DOE/Joint Genome Institute
Source:Eurekalert

Page: 1 2 3

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