Complete Chloroplast Genomes of Acanthochlamys bracteata (China) and Xerophyta (Africa) (Velloziaceae): Comparative Genomics and Phylogenomic Placement

P.C. Kao is a Chinese endemic monotypic genus, whereas . is a genus endemic to Africa mainland, Arabian Peninsula and Madagascar with ca.70 species. In this recent study, the complete chloroplast genome of was sequenced and its genome structure compared with two African species ( and ) present in th...

Full description

Saved in:
Bibliographic Details
Published in:Frontiers in plant science 2021-06, Vol.12, p.691833-691833
Main Authors: Wanga, Vincent Okelo, Dong, Xiang, Oulo, Millicent Akinyi, Mkala, Elijah Mbandi, Yang, Jia-Xin, Onjalalaina, Guy Eric, Gichua, Moses Kirega, Kirika, Paul Muigai, Gituru, Robert Wahiti, Hu, Guang-Wan, Wang, Qing-Feng
Format: Article
Language:English
Subjects:
Acanthochlamys bracteata
chloroplast genome
comparative genomics
Plant Science
repeat analysis
SSRs
Xerophyta
Citations: Items that this one cites
Items that cite this one
Online Access:Get full text
Tags: Add Tag
No Tags, Be the first to tag this record!
Description
Summary:P.C. Kao is a Chinese endemic monotypic genus, whereas . is a genus endemic to Africa mainland, Arabian Peninsula and Madagascar with ca.70 species. In this recent study, the complete chloroplast genome of was sequenced and its genome structure compared with two African species ( and ) present in the NCBI database. The genomes showed a quadripartite structure with their sizes ranging from 153,843 bp to 155,498 bp, having large single-copy (LSC) and small single-copy (SSC) regions divided by a pair of inverted repeats (IR regions). The total number of genes found in , and cp genomes are 129, 130, and 132, respectively. About 50, 29, 28 palindromic, forward and reverse repeats and 90, 59, 53 simple sequence repeats (SSRs) were found in the , , and cp genome, respectively. Nucleotide diversity analysis in all species was 0.03501, Ka/Ks ratio average score was calculated to be 0.26, and intergeneric K2P value within the Order Pandanales was averaged to be 0.0831. Genomic characterization was undertaken by comparing the genomes of the three species of Velloziaceae and it revealed that the coding regions were more conserved than the non-coding regions. However, key variations were noted mostly at the junctions of IRs/SSC regions. Phylogenetic analysis suggests that species has a closer genetic relationship to the genus . The present study reveals the complete chloroplast genome of and gives a genomic comparative analysis with the African species of . Thus, can be useful in developing DNA markers for use in the study of genetic variabilities and evolutionary studies in Velloziaceae.
ISSN:1664-462X
1664-462X
DOI:10.3389/fpls.2021.691833