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The First Complete Chloroplast Genome of Cordia monoica: Structure and Comparative Analysis
Cordia monoica is a member of the Boraginaceae family. This plant is widely distributed in tropical regions and has a great deal of medical value as well as economic importance. In the current study, the complete chloroplast (cp) genome of C. monoica was sequenced, assembled, annotated, and reported...
Autores principales: | , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
MDPI
2023
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10217729/ https://www.ncbi.nlm.nih.gov/pubmed/37239336 http://dx.doi.org/10.3390/genes14050976 |
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author | Alshegaihi, Rana M. Mansour, Hassan Alrobaish, Shouaa A. Al Shaye, Najla A. Abd El-Moneim, Diaa |
author_facet | Alshegaihi, Rana M. Mansour, Hassan Alrobaish, Shouaa A. Al Shaye, Najla A. Abd El-Moneim, Diaa |
author_sort | Alshegaihi, Rana M. |
collection | PubMed |
description | Cordia monoica is a member of the Boraginaceae family. This plant is widely distributed in tropical regions and has a great deal of medical value as well as economic importance. In the current study, the complete chloroplast (cp) genome of C. monoica was sequenced, assembled, annotated, and reported. This circular chloroplast genome had a size of 148,711 bp, with a quadripartite structure alternating between a pair of repeated inverted regions (26,897–26,901 bp) and a single copy region (77,893 bp). Among the 134 genes encoded by the cp genome, there were 89 protein-coding genes, 37 transfer RNA (tRNA) genes, and 8 ribosomal RNA (rRNA) genes. A total of 1387 tandem repeats were detected, with the hexanucleotides class making up 28 percent of the repeats. Cordia monoica has 26,303 codons in its protein-coding regions, and leucine amino acid was the most frequently encoded amino acid in contrast to cysteine. In addition, 12 of the 89 protein-coding genes were found to be under positive selection. The phyloplastomic taxonomical clustering of the Boraginaceae species provides further evidence that chloroplast genome data are reliable not only at family level but also in deciphering the phylogeny at genus level (e.g., Cordia). |
format | Online Article Text |
id | pubmed-10217729 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2023 |
publisher | MDPI |
record_format | MEDLINE/PubMed |
spelling | pubmed-102177292023-05-27 The First Complete Chloroplast Genome of Cordia monoica: Structure and Comparative Analysis Alshegaihi, Rana M. Mansour, Hassan Alrobaish, Shouaa A. Al Shaye, Najla A. Abd El-Moneim, Diaa Genes (Basel) Article Cordia monoica is a member of the Boraginaceae family. This plant is widely distributed in tropical regions and has a great deal of medical value as well as economic importance. In the current study, the complete chloroplast (cp) genome of C. monoica was sequenced, assembled, annotated, and reported. This circular chloroplast genome had a size of 148,711 bp, with a quadripartite structure alternating between a pair of repeated inverted regions (26,897–26,901 bp) and a single copy region (77,893 bp). Among the 134 genes encoded by the cp genome, there were 89 protein-coding genes, 37 transfer RNA (tRNA) genes, and 8 ribosomal RNA (rRNA) genes. A total of 1387 tandem repeats were detected, with the hexanucleotides class making up 28 percent of the repeats. Cordia monoica has 26,303 codons in its protein-coding regions, and leucine amino acid was the most frequently encoded amino acid in contrast to cysteine. In addition, 12 of the 89 protein-coding genes were found to be under positive selection. The phyloplastomic taxonomical clustering of the Boraginaceae species provides further evidence that chloroplast genome data are reliable not only at family level but also in deciphering the phylogeny at genus level (e.g., Cordia). MDPI 2023-04-26 /pmc/articles/PMC10217729/ /pubmed/37239336 http://dx.doi.org/10.3390/genes14050976 Text en © 2023 by the authors. https://creativecommons.org/licenses/by/4.0/Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/). |
spellingShingle | Article Alshegaihi, Rana M. Mansour, Hassan Alrobaish, Shouaa A. Al Shaye, Najla A. Abd El-Moneim, Diaa The First Complete Chloroplast Genome of Cordia monoica: Structure and Comparative Analysis |
title | The First Complete Chloroplast Genome of Cordia monoica: Structure and Comparative Analysis |
title_full | The First Complete Chloroplast Genome of Cordia monoica: Structure and Comparative Analysis |
title_fullStr | The First Complete Chloroplast Genome of Cordia monoica: Structure and Comparative Analysis |
title_full_unstemmed | The First Complete Chloroplast Genome of Cordia monoica: Structure and Comparative Analysis |
title_short | The First Complete Chloroplast Genome of Cordia monoica: Structure and Comparative Analysis |
title_sort | first complete chloroplast genome of cordia monoica: structure and comparative analysis |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10217729/ https://www.ncbi.nlm.nih.gov/pubmed/37239336 http://dx.doi.org/10.3390/genes14050976 |
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