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	Identification of a high frequency transposon induced by tissue culture, ndaiz, a member of the hat family in rice
	Huang, Jian1,2,4; Zhang, Kewei1,2,4; Shen, Yi1,2,4; Huang, Zejun1,2,4; Li, Ming1,2; Tang, Ding1,2; Gu, Minghong3; Cheng, Zhukuan1,2
刊名	Genomics
	2009-03-01
卷号	93期号:3页码:274-281
关键词	Rice Ndaiz Daiz Hat Transposable element
ISSN号	0888-7543
DOI	10.1016/j.ygeno.2008.11.007
通讯作者	Cheng, zhukuan(zkcheng@genetics.ac.cn)
英文摘要	Recent completion of rice genome sequencing has revealed that more than 40% of its genome consists of repetitive sequences, and most of them are related to inactive transposable elements. in the present study, a transposable element, ndaiz0, which is induced by tissue culture with high frequency, was identified by sequence analysis of an allelic line of the golden hull and internode 2 (gh2) mutant, which was integrated into the forth exon of gh2. the 528-bp ndaiz0 has 14-bp terminal inverted repeats (tirs), and generates an 8-bp duplication of its target sites (tsd) during its mobilization. ndaizs are non-autonomous transposons and have no coding capacity. bioinformatics analysis and southern blot hybridization showed that at least 16 copies of ndaiz elements exist in the japonica cultivar nipponbare genome and 11 copies in the indica cultivar 93-11 genome. during tissue culture, only one copy, ndaiz9, located on chromosome 5 in the genome of nipponbare can be activated with its transposable frequency reaching 30%. however, ndaiz9 was not present in the 93-11 genome. the larger elements, daizs, were further identified by database searching using ndaiz0 as a query because they share similar tirs and subterminal sequences. daiz can also generate an 8-bp tsd. daiz elements contain a conserved region with a high similarity to the hat dimerization motif, suggesting that the ndaiz-daiz transposon system probably belongs to the hat superfamily of class 11 transposons. phylogenetic analysis indicated that it is a new type of plant hat-like transposon. although ndaiz is activated by tissue culture, the high transposable frequency indicates that it could become a useful gene tagging system for rice functional genomic studies. in addition, the mechanism of the high transposable ability of ndaiz9 is discussed. (c) 2008 elsevier inc. all rights reserved.
WOS关键词	SEQUENCE ALIGNMENT ; ACTIVE TRANSPOSON ; DNA METHYLATION ; DRAFT SEQUENCE ; GENOME ; MAIZE ; ELEMENTS ; PLANTS ; SUPERFAMILY ; ARABIDOPSIS
WOS研究方向	Biotechnology & Applied Microbiology ; Genetics & Heredity
WOS类目	Biotechnology & Applied Microbiology ; Genetics & Heredity
语种	英语
出版者	ACADEMIC PRESS INC ELSEVIER SCIENCE
WOS记录号	WOS:000263901000011
内容类型	期刊论文
URI标识	http://www.corc.org.cn/handle/1471x/2404282
专题	中国科学院大学
通讯作者	Cheng, Zhukuan
作者单位	1.Chinese Acad Sci, State Key Lab Plant Genom, Beijing 100101, Peoples R China 2.Chinese Acad Sci, Ctr Plant Gene Res, Inst Genet & Dev Biol, Beijing 100101, Peoples R China 3.Yangzhou Univ, Key Lab Crop Genet & Physiol Jiangsu Prov, Key Lab Plant Funct Genom Minist Educ, Yangzhou 225009, Peoples R China 4.Chinese Acad Sci, Grad Univ, Beijing 100049, Peoples R China
推荐引用方式 GB/T 7714	Huang, Jian,Zhang, Kewei,Shen, Yi,et al. Identification of a high frequency transposon induced by tissue culture, ndaiz, a member of the hat family in rice[J]. Genomics,2009,93(3):274-281.
APA	Huang, Jian.,Zhang, Kewei.,Shen, Yi.,Huang, Zejun.,Li, Ming.,...&Cheng, Zhukuan.(2009).Identification of a high frequency transposon induced by tissue culture, ndaiz, a member of the hat family in rice.Genomics,93(3),274-281.
MLA	Huang, Jian,et al."Identification of a high frequency transposon induced by tissue culture, ndaiz, a member of the hat family in rice".Genomics 93.3(2009):274-281.

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