Recurrent Loss of Specific Introns during Angiosperm Evolution

doi:10.1371/journal.pgen.1004843

	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.
DOI	10.1371/journal.pgen.1004843
收录类别	SCI
语种	英语
WOS记录号	WOS:000346649900044
引用统计
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
推荐引用方式 GB/T 7714	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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