Department of Biochemistry, Quaid-i-Azam University, Islamabad, Pakistan.
Alpha Genomics Private Limited, Islamabad, Pakistan.
Genomics. 2020 Jan;112(1):581-591. doi: 10.1016/j.ygeno.2019.04.010. Epub 2019 Apr 15.
Previous studies to resolve phylogenetic and taxonomic discrepancies of Hibiscus remained inconclusive. Here, we report chloroplast genome sequence of Hibiscus rosa-sinensis. Hibiscus rosa-sinensis chloroplast genome was 160,951 bp, comprising of large single copy (89,509 bp) and small single copy (20,246 bp) regions, separated by IRa and IRb (25,598 bp each). The genome contained 130 genes including 85 protein-coding genes, 37 transfer RNAs and 8 ribosomal RNAs. Comparative analyses of chloroplast genomes revealed similar structure among 12 species within family Malvaceae. Evolutionary rates of 77 protein-coding genes showed 95% similarities. Analyses of codon usage, amino acid frequency, putative RNA editing sites, and repeats showed a great extent of similarities between Hibiscus rosa-sinensis and Hibiscus syriacus. We identified 30 mutational hotpots including psbZ-trnG, trnK-rps16, trnD-trnY, trnW-trnP, rpl33-rps18, petG-trnW, trnS-trnG, trnH-psbA, atpB-rbcL, and rpl32-trnL that might be used as polymorphic and robust markers to resolve phylogenetic discrepancies in genus Hibiscus.
先前的研究对于解决芙蓉属的系统发育和分类差异仍未有定论。在这里，我们报告了木槿的叶绿体基因组序列。木槿叶绿体基因组大小为 160951bp，由一个大的单拷贝区（89509bp）和一个小的单拷贝区（20246bp）组成，它们被 IRa 和 IRb 隔开（各为 25598bp）。该基因组包含 130 个基因，包括 85 个蛋白编码基因、37 个转移 RNA 和 8 个核糖体 RNA。叶绿体基因组的比较分析显示，锦葵科 12 个物种的结构相似。77 个蛋白编码基因的进化率有 95%的相似度。对密码子使用、氨基酸频率、假定的 RNA 编辑位点和重复序列的分析表明，木槿和木芙蓉之间存在很大程度的相似性。我们鉴定了 30 个突变热点，包括 psbZ-trnG、trnK-rps16、trnD-trnY、trnW-trnP、rpl33-rps18、petG-trnW、trnS-trnG、trnH-psbA、atpB-rbcL 和 rpl32-trnL，它们可能被用作解决芙蓉属系统发育差异的多态性和稳健标记。
