title: Distribution and characterization of over 1000 T-DNA tags in rice genome.
abstract: We generated T-DNA insertions throughout the rice genome for saturation mutagenesis. More than 1,000 flanking sequences were mapped on 12 rice chromosomes. Our results showed that T-DNA tags were not randomly spread on rice chromosomes and were preferentially inserted in gene-rich regions. Few insertions (2.4%) were found in repetitive regions. T-DNA insertions in genic (58.1%) and intergenic regions (41.9%) showed a good correlation with the predicted size distribution of these sequences in the rice genome. Whereas, obvious biases were found for the insertions in the 5'- and 3'-regulatory regions outside the coding regions both at 500-bp size and in introns rather than in exons. Such distribution patterns and biases for T-DNA integration in rice are similar to that of the previous report in Arabidopsis, which may result from T-DNA integration mechanism itself. Rice will require approximately the same number of T-DNA insertions for saturation mutagenesis as will Arabidopsis. A database of the T-DNA insertion sites in rice is publicly available at our web site (http://www.genomics.zju.edu.cn/ricetdna).
authors.affiliation: The State Key Laboratory of Plant Physiology and Biochemistry, College of Life Science, Zhejiang University, Hangzhou 310029, China.
authors.forename: Shuangyan
authors.initials: S
authors.lastname: Chen
authors.forename: Weizheng
authors.initials: W
authors.lastname: Jin
authors.forename: Mingyi
authors.initials: M
authors.lastname: Wang
authors.forename: Fan
authors.initials: F
authors.lastname: Zhang
authors.forename: Jie
authors.initials: J
authors.lastname: Zhou
authors.forename: Qiaojun
authors.initials: Q
authors.lastname: Jia
authors.forename: Yunrong
authors.initials: Y
authors.lastname: Wu
authors.forename: Feiyan
authors.initials: F
authors.lastname: Liu
authors.forename: Ping
authors.initials: P
authors.lastname: Wu
mesh_terms: D004269:DNA, Bacterial / Q000235:genetics*; D018628:Gene Dosage; D018745:Genome, Plant; D020407:Internet; D016254:Mutagenesis, Insertional; D009154:Mutation; D012275:Oryza / Q000235:genetics*; D020161:Physical Chromosome Mapping / Q000379:methods
chemical_list: D004269:DNA, Bacterial; C036483:T-DNA