Quantitative and Distribution Characteristics of LTR Retrotransposons in Tetraploid Gossypium barbadense

doi:10.13560/j.cnki.biotech.bull.1985.2017-0940

Abstract

Abstract: Cotton is leading natural fiber-producing crop in the world. The fiber quality of Gossypium barbadense is the best among the four cultivated species of cotton. Understanding the number and distribution of LTR retrotransposons will promote the genome study of G. barbadense. In this study,we searched,classified and analyzed the LTR retrotransposon sequences from the genome of G. barbadense by many different methods. The results showed that LTR retrotransposon families shared by both of subgenome A and D accounted for 95% of all families,and the copy number and specific families of LTR retrotransposons in subgenome A were more than that in the subgenome D. The distribution characteristics of LTR retrotransposons superfamily Copia and Gypsy were significantly different;however,the same superfamily showed similar characteristics on the same subgenome chromosomes. In addition,the GO annotations of genes around LTR retrotransposons were mainly enriched in binding,catalytic,metabolic process,etc. In summary,the distribution characteristics of LTR retrotransposons on G. barbadense chromosomes and the functional enrichment of their surrounding genes are revealed in this paper.

Key words: Gossypium barbadense, LTR retrotransposon, distribution, genome

LIU Zhen ZHANG, Shu-lin, SHI Ying-hui, PENG Ren-hai. Quantitative and Distribution Characteristics of LTR Retrotransposons in Tetraploid Gossypium barbadense[J]. Biotechnology Bulletin, 2018, 34(5): 124-130.

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