Liew, Yvonne Jing Mei and Chua, Kah Ooi and Yong, Hoi-Sen and Song, Sze Looi and Chan, Kok Gan (2022) Complete chloroplast genome of Boesenbergia rotunda and a comparative analysis with members of the family Zingiberaceae. Brazilian Journal of Botany, 45 (4). pp. 1209-1222. ISSN 0100-8404, DOI https://doi.org/10.1007/s40415-022-00845-w.
Full text not available from this repository.Abstract
Boesenbergia rotunda (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 B. rotunda 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 B. rotunda 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 (psbK-psbI, trnT-GGU-psbD, rbcL-accD, ndhF-rpl32, and ycf1) in the LSC and SSC regions in the chloroplast genome of B. rotunda that could be utilized as molecular markers for DNA barcoding and species delimitation. Phylogenetic analyses based on shared protein-coding genes revealed that B. rotunda formed a distinct lineage with B. kingii Mood & L.M.Prince, in a subclade that also contained the genera Kaempferia and Zingiber. These findings constitute the first chloroplast genome information of B. rotunda that could be a reference for phylogenetic analysis and identification of genus Boesenbergia within the Zingiberaceae family.
| Item Type: | Article |
|---|---|
| Funders: | University of Malaya Research Grants (Grant No: FP022-2018A), University of Malaya High Impact Research Grants (Grant No: H-50001-A000027, A-000001-50001 & PV005-2017) |
| Uncontrolled Keywords: | Ginger; Illumina sequencing; Nanopore sequencing; Plastid genome; Subfamily Zingiberoideae |
| Subjects: | S Agriculture > S Agriculture (General) |
| Divisions: | Faculty of Science > Institute of Biological Sciences Institute of Advanced Studies Deputy Vice Chancellor (Research & Innovation) Office Deputy Vice Chancellor (Research & Innovation) Office > Centre for Research in Biotechnology for Agriculture |
| Depositing User: | Ms. Juhaida Abd Rahim |
| Date Deposited: | 22 Nov 2023 07:56 |
| Last Modified: | 22 Nov 2023 07:56 |
| URI: | http://eprints.um.edu.my/id/eprint/40375 |
Actions (login required)
 |
View Item |
