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- Title
Genome-Wide Survey of Pseudogenes in 80 Fully Resequenced Arabidopsis thaliana Accessions.
- Authors
Long Wang; Weina Si; Yongfang Yao; Dacheng Tian; Hitoshi Araki; Sihai Yang
- Abstract
Pseudogenes (Ψs), including processed and non-processed Ψs, 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 sΨ 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 Ψs/ORFs and their local gene densities, suggesting a higher proportion of Ψs in gene desert regions, e.g. near centromeres. On the other hand, compared with the non- Ψloci, even the intact coding sequences (CDSs) in the Ψloci 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 Ψs 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.
- Subjects
ARABIDOPSIS thaliana; GENETIC mutation; ARABIDOPSIS; GENETICS; HEREDITY
- Publication
PLoS ONE, 2012, Vol 7, Issue 12, p1
- ISSN
1932-6203
- Publication type
Article
- DOI
10.1371/journal.pone.0051769