Liew Yvonne Jing Mei, Chua Kah-Ooi, Yong Hoi-Sen, Song Sze-Looi, Chan Kok-Gan
University of Malaya Centre for Proteomics Research, Universiti Malaya, 50603 Kuala Lumpur, Malaysia.
Deputy Vice Chancellor's Office (Research and Innovation), Universiti Malaya, 50603 Kuala Lumpur, Malaysia.
Rev Bras Bot. 2022;45(4):1209-1222. doi: 10.1007/s40415-022-00845-w. Epub 2022 Oct 26.
(L.) Mansf. is a medically important ginger species of the family Zingiberaceae but its genomic information on molecular phylogeny and identification is scarce. In this work, the chloroplast genome of was sequenced, characterized and compared to the other Zingiberaceae species to provide chloroplast genetic resources and to determine its phylogenetic position in the family. The chloroplast genome of was 163,817 bp in length and consisted of a large single-copy (LSC) region of 88,302 bp, a small single-copy (SSC) region of 16,023 bp and a pair of inverted repeats (IRA and IRB) of 29,746 bp each. The chloroplast genome contained 113 unique genes, including 79 protein-coding genes, 30 transfer RNA (tRNA) genes and four ribosomal RNA (rRNA) genes. Several genes had atypical start codons, while most amino acids exhibited biased usage of synonymous codons. Comparative analyses with various chloroplast genomes of Zingiberaceae taxa revealed several highly variable regions (, , , , and ) in the LSC and SSC regions in the chloroplast genome of that could be utilized as molecular markers for DNA barcoding and species delimitation. Phylogenetic analyses based on shared protein-coding genes revealed that formed a distinct lineage with Mood & L.M.Prince, in a subclade that also contained the genera and . These findings constitute the first chloroplast genome information of that could be a reference for phylogenetic analysis and identification of genus within the Zingiberaceae family.
The online version contains supplementary material available at 10.1007/s40415-022-00845-w.
（L.）Mansf. 是姜科中一种具有重要医学价值的姜属植物，但关于其分子系统发育和鉴定的基因组信息却很匮乏。在这项研究中，对（该植物名称缺失）的叶绿体基因组进行了测序、特征分析，并与其他姜科物种进行了比较，以提供叶绿体遗传资源，并确定其在姜科中的系统发育位置。（该植物名称缺失）的叶绿体基因组长度为163,817 bp，由一个88,302 bp的大单拷贝（LSC）区域、一个16,023 bp的小单拷贝（SSC）区域和两个各为29,746 bp的反向重复序列（IRA和IRB）组成。叶绿体基因组包含113个独特基因，包括79个蛋白质编码基因、30个转运RNA（tRNA）基因和4个核糖体RNA（rRNA）基因。几个基因具有非典型起始密码子，而大多数氨基酸表现出同义密码子的偏向使用。与姜科分类群的各种叶绿体基因组进行比较分析发现，（该植物名称缺失）叶绿体基因组的LSC和SSC区域中有几个高度可变区域（具体区域缺失），这些区域可作为DNA条形码和物种界定的分子标记。基于共享蛋白质编码基因的系统发育分析表明，（该植物名称缺失）与Mood & L.M.Prince的（某植物名称缺失）形成了一个独特的分支，该分支还包含（某植物名称缺失）属和（某植物名称缺失）属。这些发现构成了（该植物名称缺失）的首个叶绿体基因组信息，可为姜科内（该植物名称缺失）属的系统发育分析和鉴定提供参考。
在线版本包含可在10.1007/s40415-022-00845-w获取的补充材料。
