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Recurrent Loss of Specific Introns during Angiosperm Evolution
Wang, Hao1; Devos, Katrien M.2,3; Bennetzen, Jeffrey L.1,4
2014-12-01
发表期刊PLOS GENETICS
卷号10期号:12
摘要Numerous instances of presence/absence variations for introns have been documented in eukaryotes, and some cases of recurrent loss of the same intron have been suggested. However, there has been no comprehensive or phylogenetically deep analysis of recurrent intron loss. Of 883 cases of intron presence/absence variation that we detected in five sequenced grass genomes, 93 were confirmed as recurrent losses and the rest could be explained by single losses (652) or single gains (118). No case of recurrent intron gain was observed. Deep phylogenetic analysis often indicated that apparent intron gains were actually numerous independent losses of the same intron. Recurrent loss exhibited extreme non-randomness, in that some introns were removed independently in many lineages. The two larger genomes, maize and sorghum, were found to have a higher rate of both recurrent loss and overall loss and/or gain than foxtail millet, rice or Brachypodium. Adjacent introns and small introns were found to be preferentially lost. Intron loss genes exhibited a high frequency of germ line or early embryogenesis expression. In addition, flanking exon A+T-richness and intron TG/CG ratios were higher in retained introns. This last result suggests that epigenetic status, as evidenced by a loss of methylated CG dinucleotides, may play a role in the process of intron loss. This study provides the first comprehensive analysis of recurrent intron loss, makes a series of novel findings on the patterns of recurrent intron loss during the evolution of the grass family, and provides insight into the molecular mechanism(s) underlying intron loss.
DOI10.1371/journal.pgen.1004843
收录类别SCI
语种英语
WOS研究方向Genetics & Heredity
WOS类目Genetics & Heredity
WOS记录号WOS:000346649900044
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文献类型期刊论文
条目标识符http://ir.kib.ac.cn/handle/151853/20419
专题中国西南野生生物种质资源库
作者单位1.Univ Georgia, Dept Genet, Athens, GA 30602 USA
2.Univ Georgia, Dept Crop & Soil Sci, Athens, GA 30602 USA
3.Univ Georgia, Dept Plant Biol, Athens, GA 30602 USA
4.Kunming Inst Bot, Germplasm Bank Wild Species Southwestern China, Kunming, Yunnan, Peoples R China
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Wang, Hao,Devos, Katrien M.,Bennetzen, Jeffrey L.. Recurrent Loss of Specific Introns during Angiosperm Evolution[J]. PLOS GENETICS,2014,10(12).
APA Wang, Hao,Devos, Katrien M.,&Bennetzen, Jeffrey L..(2014).Recurrent Loss of Specific Introns during Angiosperm Evolution.PLOS GENETICS,10(12).
MLA Wang, Hao,et al."Recurrent Loss of Specific Introns during Angiosperm Evolution".PLOS GENETICS 10.12(2014).
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