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Genome-wide survey of Pseudogenes in 80 fully re-sequenced Arabidopsis thaliana accessions

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Title: Genome-wide survey of Pseudogenes in 80 fully re-sequenced Arabidopsis thaliana accessions
Authors: Wang, Long Browse this author
Si, Weina Browse this author
Yao, Yongfang Browse this author
Tian, Dacheng Browse this author
Araki, Hitoshi Browse this author →KAKEN DB
Yang, Sihai Browse this author
Issue Date: 13-Dec-2012
Publisher: Public Library of Science
Journal Title: PLoS One
Volume: 7
Issue: 12
Start Page: e51769
Publisher DOI: 10.1371/journal.pone.0051769
Abstract: Pseudogenes (Ys), including processed and non-processed Ys, are ubiquitous genetic elements derived from originally functional genes in all studied genomes within the three kingdoms of life. However, systematic surveys of non-processed Ys utilizing genomic information from multiple samples within a species are still rare. Here a systematic comparative analysis was conducted of Ys within 80 fully re-sequenced Arabidopsis thaliana accessions, and 7546 genes, representing ,28% of the genomic annotated open reading frames (ORFs), were found with disruptive mutations in at least one accession. The distribution of these Ys on chromosomes showed a significantly negative correlation between Ys/ORFs and their local gene densities, suggesting a higher proportion of Ys in gene desert regions, e.g. near centromeres. On the other hand, compared with the non-Y loci, even the intact coding sequences (CDSs) in the Y loci were found to have shorter CDS length, fewer exon number and lower GC content. In addition, a significant functional bias against the null hypothesis was detected in the Ys mainly involved in responses to environmental stimuli and biotic stress as reported, suggesting that they are likely important for adaptive evolution to rapidly changing environments by pseudogenization to accumulate successive mutations.
Rights: https://creativecommons.org/licenses/by/4.0/
Type: article
URI: http://hdl.handle.net/2115/64500
Appears in Collections:農学院・農学研究院 (Graduate School of Agriculture / Faculty of Agriculture) > 雑誌発表論文等 (Peer-reviewed Journal Articles, etc)

Submitter: 荒木 仁志

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