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Development of chloroplast genomic resources for Pyrus hopeiensis (Rosaceae)

Li, Wenqing, Lu, Yizeng, Xie, Xiaoman, Li, Bin, Han, Yi, Sun, Tao, Xian, Yang, Yang, Haiping, Liu, Kun
Conservation genetics resources 2018 v.10 no.3 pp. 511-513
Pyrus pashia, Pyrus pyrifolia, chloroplast genome, chloroplasts, genomics, introns, microsatellite repeats, mutation, plant identification, population dynamics, ribosomal RNA, transfer RNA, wild plants, China
Pyrus hopeiensis is endangered and was listed in the category of “the wild plants with tiny population” in China because of its limited distribution and population decline. In this study, we reported the complete chloroplast genome of Pyrus hopeiensis by Illumina pair-end sequencing. The entire chloroplast genome map was a circular molecule of 159,996 bp built with a quadripartite organization: two inverted repeats of 26,386 bp separated by a large single copy sequence of 88,023 bp and a small single copy sequence of 19,201 bp. The chloroplast genome contained the conservative structure present in most Rosaceae chloroplasts composing of 78 protein-coding genes, 30 tRNAs and 4 rRNAs. Among these genes, 15 harbored a single intron, and two contained a couple of introns. A total of 99 perfect microsatellites were analyzed in the P. hopeiensis. We identified four mutation hotspot regions for genome divergence that could be utilized as potential markers for plant identification in this genus by compared with Pyrus pyrifolia and Pyrus pashia. There were only 107 substitutions and 100 indels among the three genomes.