Characterization of the whole chloroplast genome of Chikusichloa mutica and its comparison with other rice tribe Oryzeae speciesReport as inadecuate




Characterization of the whole chloroplast genome of Chikusichloa mutica and its comparison with other rice tribe Oryzeae species - Download this document for free, or read online. Document in PDF available to download.

Chloroplast genomes are a significant genomic resource in plant species and have been used in many research areas. The complete genomic information from wild crop species could supply a valuable genetic reservoir for breeding. Chikusichloa mutica is one of the most important wild distant relatives of cultivated rice. In this study, we sequenced and characterized its complete chloroplast cp genome and compared it with other species in the same tribe. The whole cp genome sequence is 136,603 bp in size and exhibits a typical quadripartite structure with large and small single-copy regions LSC, 82,327 bp; SSC, 12,598 bp separated by a pair of 20,839-bp inverted repeats IRA, B. A total of 110 unique genes are annotated, including 76 protein-coding genes, 4 ribosomal RNA genes and 30 tRNA genes. The genome structure, gene order, GC content, and other features are similar to those of other angiosperm cp genomes. When comparing the cp genomes between Oryzinae and Zizaniinae subtribes, the main differences were found between the junction regions and distribution of simple sequence repeats SSRs. In comparing the two Chikusichloa species, the genomes were only 40 bp different in length and 108 polymorphic sites, including 83 single nucleotide substitutions SNPs and 25 insertion-deletions Indels, were found between the whole cp genomes. The complete cp genome of C. mutica will be an important genetic tool for future breeding programs and understanding the evolution of wild rice relatives.



Author: Zhiqiang Wu , Cuihua Gu , Luke R. Tembrock, Dong Zhang, Song Ge

Source: http://plos.srce.hr/



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