Comparative analysis of chloroplast genomes of kenaf cytoplasmic male sterile line and its maintainer line

Abstract Kenaf is a great source of bast fiber and possesses significantly industrial interests. Cytoplasmic male sterility (CMS) is the basis of heterosis utilization in kenaf. Chloroplast, an important organelle for photosynthesis, could be associated with CMS. To understand the phylogenetic posit...

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Autores principales:	Danfeng Tang, Fan Wei, Ruiyang Zhou
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/69d53e35264a4784b95d61ec5ea249a3
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spelling	oai:doaj.org-article:69d53e35264a4784b95d61ec5ea249a32021-12-02T13:19:22ZComparative analysis of chloroplast genomes of kenaf cytoplasmic male sterile line and its maintainer line10.1038/s41598-021-84567-12045-2322https://doaj.org/article/69d53e35264a4784b95d61ec5ea249a32021-03-01T00:00:00Zhttps://doi.org/10.1038/s41598-021-84567-1https://doaj.org/toc/2045-2322Abstract Kenaf is a great source of bast fiber and possesses significantly industrial interests. Cytoplasmic male sterility (CMS) is the basis of heterosis utilization in kenaf. Chloroplast, an important organelle for photosynthesis, could be associated with CMS. To understand the phylogenetic position and molecular basis of kenaf CMS from the perspective of chloroplast, the chloroplast (cp) genomes of the CMS line P3A and its maintainer line P3B were characterized and their comparative analysis was also performed. In this study, the chloroplast genomes of P3B and P3A were sequenced with 163,597 bp and 163,360 bp in length, respectively. A total of 131 genes including 85 protein coding genes (PCGs), 38 transfer RNA (tRNA) genes, and 8 ribosome RNA (rRNA) genes were annotated in P3B, while 132 genes containing 83 PCGs, 41 tRNA genes, and 8 rRNA genes were found in P3A. The phylogenetic tree revealed that kenaf was closely related to Hibiscus syriacus and Abelmoschus esculentus. Further analysis of single nucleotide polymorphism (SNP) and insertion and deletion (InDel) showed that compared with P3B, a total of 22 SNPs and 53 InDels were detected in gene coding region, gene intron, and intergenic regions of P3A. Remarkably, a total of 9 SNPs including 6 synonymous SNPs and 3 nonsynonymous SNPs were found in psbK, atpA, rpoC2, atpB, rpl20, clpP, rpoA, and ycf1. The present study provided basic information for further study of kenaf CMS mechsnism.Danfeng TangFan WeiRuiyang ZhouNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 11, Iss 1, Pp 1-14 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Danfeng Tang Fan Wei Ruiyang Zhou Comparative analysis of chloroplast genomes of kenaf cytoplasmic male sterile line and its maintainer line
description	Abstract Kenaf is a great source of bast fiber and possesses significantly industrial interests. Cytoplasmic male sterility (CMS) is the basis of heterosis utilization in kenaf. Chloroplast, an important organelle for photosynthesis, could be associated with CMS. To understand the phylogenetic position and molecular basis of kenaf CMS from the perspective of chloroplast, the chloroplast (cp) genomes of the CMS line P3A and its maintainer line P3B were characterized and their comparative analysis was also performed. In this study, the chloroplast genomes of P3B and P3A were sequenced with 163,597 bp and 163,360 bp in length, respectively. A total of 131 genes including 85 protein coding genes (PCGs), 38 transfer RNA (tRNA) genes, and 8 ribosome RNA (rRNA) genes were annotated in P3B, while 132 genes containing 83 PCGs, 41 tRNA genes, and 8 rRNA genes were found in P3A. The phylogenetic tree revealed that kenaf was closely related to Hibiscus syriacus and Abelmoschus esculentus. Further analysis of single nucleotide polymorphism (SNP) and insertion and deletion (InDel) showed that compared with P3B, a total of 22 SNPs and 53 InDels were detected in gene coding region, gene intron, and intergenic regions of P3A. Remarkably, a total of 9 SNPs including 6 synonymous SNPs and 3 nonsynonymous SNPs were found in psbK, atpA, rpoC2, atpB, rpl20, clpP, rpoA, and ycf1. The present study provided basic information for further study of kenaf CMS mechsnism.
format	article
author	Danfeng Tang Fan Wei Ruiyang Zhou
author_facet	Danfeng Tang Fan Wei Ruiyang Zhou
author_sort	Danfeng Tang
title	Comparative analysis of chloroplast genomes of kenaf cytoplasmic male sterile line and its maintainer line
title_short	Comparative analysis of chloroplast genomes of kenaf cytoplasmic male sterile line and its maintainer line
title_full	Comparative analysis of chloroplast genomes of kenaf cytoplasmic male sterile line and its maintainer line
title_fullStr	Comparative analysis of chloroplast genomes of kenaf cytoplasmic male sterile line and its maintainer line
title_full_unstemmed	Comparative analysis of chloroplast genomes of kenaf cytoplasmic male sterile line and its maintainer line
title_sort	comparative analysis of chloroplast genomes of kenaf cytoplasmic male sterile line and its maintainer line
publisher	Nature Portfolio
publishDate	2021
url	https://doaj.org/article/69d53e35264a4784b95d61ec5ea249a3
work_keys_str_mv	AT danfengtang comparativeanalysisofchloroplastgenomesofkenafcytoplasmicmalesterilelineanditsmaintainerline AT fanwei comparativeanalysisofchloroplastgenomesofkenafcytoplasmicmalesterilelineanditsmaintainerline AT ruiyangzhou comparativeanalysisofchloroplastgenomesofkenafcytoplasmicmalesterilelineanditsmaintainerline
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Comparative analysis of chloroplast genomes of kenaf cytoplasmic male sterile line and its maintainer line

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