Insights from the complete chloroplast genome into the evolution of Sesamum indicum L.

Sesame (Sesamum indicum L.) is one of the oldest oilseed crops. In order to investigate the evolutionary characters according to the Sesame Genome Project, apart from sequencing its nuclear genome, we sequenced the complete chloroplast genome of S. indicum cv. Yuzhi 11 (white seeded) using Illumina...

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Autores principales:	Haiyang Zhang, Chun Li, Hongmei Miao, Songjin Xiong
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2013
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/12c8defda6dc4041aa5b447cc7de3ee9
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spelling	oai:doaj.org-article:12c8defda6dc4041aa5b447cc7de3ee92021-11-18T08:44:37ZInsights from the complete chloroplast genome into the evolution of Sesamum indicum L.1932-620310.1371/journal.pone.0080508https://doaj.org/article/12c8defda6dc4041aa5b447cc7de3ee92013-01-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/24303020/pdf/?tool=EBIhttps://doaj.org/toc/1932-6203Sesame (Sesamum indicum L.) is one of the oldest oilseed crops. In order to investigate the evolutionary characters according to the Sesame Genome Project, apart from sequencing its nuclear genome, we sequenced the complete chloroplast genome of S. indicum cv. Yuzhi 11 (white seeded) using Illumina and 454 sequencing. Comparisons of chloroplast genomes between S. indicum and the 18 other higher plants were then analyzed. The chloroplast genome of cv. Yuzhi 11 contains 153,338 bp and a total of 114 unique genes (KC569603). The number of chloroplast genes in sesame is the same as that in Nicotiana tabacum, Vitis vinifera and Platanus occidentalis. The variation in the length of the large single-copy (LSC) regions and inverted repeats (IR) in sesame compared to 18 other higher plant species was the main contributor to size variation in the cp genome in these species. The 77 functional chloroplast genes, except for ycf1 and ycf2, were highly conserved. The deletion of the cp ycf1 gene sequence in cp genomes may be due either to its transfer to the nuclear genome, as has occurred in sesame, or direct deletion, as has occurred in Panax ginseng and Cucumis sativus. The sesame ycf2 gene is only 5,721 bp in length and has lost about 1,179 bp. Nucleotides 1-585 of ycf2 when queried in BLAST had hits in the sesame draft genome. Five repeats (R10, R12, R13, R14 and R17) were unique to the sesame chloroplast genome. We also found that IR contraction/expansion in the cp genome alters its rate of evolution. Chloroplast genes and repeats display the signature of convergent evolution in sesame and other species. These findings provide a foundation for further investigation of cp genome evolution in Sesamum and other higher plants.Haiyang ZhangChun LiHongmei MiaoSongjin XiongPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 8, Iss 11, p e80508 (2013)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Haiyang Zhang Chun Li Hongmei Miao Songjin Xiong Insights from the complete chloroplast genome into the evolution of Sesamum indicum L.
description	Sesame (Sesamum indicum L.) is one of the oldest oilseed crops. In order to investigate the evolutionary characters according to the Sesame Genome Project, apart from sequencing its nuclear genome, we sequenced the complete chloroplast genome of S. indicum cv. Yuzhi 11 (white seeded) using Illumina and 454 sequencing. Comparisons of chloroplast genomes between S. indicum and the 18 other higher plants were then analyzed. The chloroplast genome of cv. Yuzhi 11 contains 153,338 bp and a total of 114 unique genes (KC569603). The number of chloroplast genes in sesame is the same as that in Nicotiana tabacum, Vitis vinifera and Platanus occidentalis. The variation in the length of the large single-copy (LSC) regions and inverted repeats (IR) in sesame compared to 18 other higher plant species was the main contributor to size variation in the cp genome in these species. The 77 functional chloroplast genes, except for ycf1 and ycf2, were highly conserved. The deletion of the cp ycf1 gene sequence in cp genomes may be due either to its transfer to the nuclear genome, as has occurred in sesame, or direct deletion, as has occurred in Panax ginseng and Cucumis sativus. The sesame ycf2 gene is only 5,721 bp in length and has lost about 1,179 bp. Nucleotides 1-585 of ycf2 when queried in BLAST had hits in the sesame draft genome. Five repeats (R10, R12, R13, R14 and R17) were unique to the sesame chloroplast genome. We also found that IR contraction/expansion in the cp genome alters its rate of evolution. Chloroplast genes and repeats display the signature of convergent evolution in sesame and other species. These findings provide a foundation for further investigation of cp genome evolution in Sesamum and other higher plants.
format	article
author	Haiyang Zhang Chun Li Hongmei Miao Songjin Xiong
author_facet	Haiyang Zhang Chun Li Hongmei Miao Songjin Xiong
author_sort	Haiyang Zhang
title	Insights from the complete chloroplast genome into the evolution of Sesamum indicum L.
title_short	Insights from the complete chloroplast genome into the evolution of Sesamum indicum L.
title_full	Insights from the complete chloroplast genome into the evolution of Sesamum indicum L.
title_fullStr	Insights from the complete chloroplast genome into the evolution of Sesamum indicum L.
title_full_unstemmed	Insights from the complete chloroplast genome into the evolution of Sesamum indicum L.
title_sort	insights from the complete chloroplast genome into the evolution of sesamum indicum l.
publisher	Public Library of Science (PLoS)
publishDate	2013
url	https://doaj.org/article/12c8defda6dc4041aa5b447cc7de3ee9
work_keys_str_mv	AT haiyangzhang insightsfromthecompletechloroplastgenomeintotheevolutionofsesamumindicuml AT chunli insightsfromthecompletechloroplastgenomeintotheevolutionofsesamumindicuml AT hongmeimiao insightsfromthecompletechloroplastgenomeintotheevolutionofsesamumindicuml AT songjinxiong insightsfromthecompletechloroplastgenomeintotheevolutionofsesamumindicuml
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Insights from the complete chloroplast genome into the evolution of Sesamum indicum L.

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