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《Journal of Henan Agricultural Sciences》 2018-07
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The Characteristics and Distribution of Tandem Repeats in Sorghum bicolor Genome

ZHAO Zhixin;LI Chunxin;LI Yujiao;College of Biopharmaceutical and Food Engineering,Shangluo University;Molecular Breeding Laboratory,Wheat Research Institute,Henan Academy of Agricultural Sciences;  
The study was aimed to explore the characteristics and distribution of tandem repeats( TRs) in genome,genic and intergenic regions in Sorghum bicolor. Genome and gene annotation data of S. bicolor were downloaded from Phytozome( http://www. phytozome. net/),and then tandem repeat search tool( Phobos version 3. 3. 12) was utilized to detect the variation of TR density,motifs and their distribution( 1—50 bp). The results showed that 5'UTR,UI200 and UI500 regions had high densities( 25 655 bp/Mb,16 761 bp/Mb and 10 718 bp/Mb,respectively),and the densities were similar in other regions( about 6 000 bp/Mb). TR motifs were mainly a multiple of 3 in CDS regions( e. g.,3-bp and 6-bp motifs). In intragenic and intergenic regions,the densities of 2 bp and 3 bp TRs were high,accounting for more than 30% of the whole densities. Moreover,the location of TRs was not randomly distributed,and in intergenic regions many TRs were detected to be close to the genes,indicating the relationship with gene transcription and regulation. In intron region TRs were mostly detected near the both ends,which may have potential roles in intron splicing.
【Fund】: 商洛学院科研基金项目(14SKY028)
【CateGory Index】: S514
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