Dataset Information

The whole chloroplast genome of Neomartinella yungshunensis (Brassicaceae), an unusual wild plant.

ABSTRACT: Neomartinella yungshunensis (W. T. Wang) Al-Shehbaz 2000 is a kind of perennial herb usually distributed in Yongshun County, Xiangxi Tujia Miao Autonomous Prefecture, Hunan Province. It was the first time to report the complete chloroplast genome sequence of N. yungshunensis. The complete chloroplast genome was 152,597 bp in size, including a large single-copy (LSC) region of 83,145 bp, a small single copy region (SSC) of 17,400 bp, and a pair of reverse repeats (IR) of 26,026 bp. It contained 133 genes in the chloroplast genome, including 87 protein-coding genes (PCGs), 37 transfer RNA (tRNA) genes, and 8 ribosomal RNA (rRNA) genes. The GC content of the chloroplast genome was 36.4%. The phylogenetic analysis showed that N. yungshunensis is closely related to Eutrema integrifolium (NC_049636).

SUBMITTER: Chai W

PROVIDER: S-EPMC9246043 | biostudies-literature | 2022

REPOSITORIES: biostudies-literature

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The whole chloroplast genome of Neomartinella yungshunensis (Brassicaceae), an unusual wild plant.

Chai Weiguo W Li Huimin H Chen Xiang X Qiu Jieren J Xia Pengguo P

Mitochondrial DNA. Part B, Resources 20220622 6

Neomartinella yungshunensis (W. T. Wang) Al-Shehbaz 2000 is a kind of perennial herb usually distributed in Yongshun County, Xiangxi Tujia Miao Autonomous Prefecture, Hunan Province. It was the first time to report the complete chloroplast genome sequence of N. yungshunensis. The complete chloroplast genome was 152,597 bp in size, including a large single-copy (LSC) region of 83,145 bp, a small single copy region (SSC) of 17,400 bp, and a pair of reverse repeats (IR) of 26,026 bp. ...[more]

PMID: 35783054

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Project description:Moricandia arvensis, a plant species originating from the Mediterranean, has been classified as a rare C3-C4 intermediate species, and it is a possible bridge during the evolutionary process from C3 to C4 plant photosynthesis in the family Brassicaceae. Understanding the genomic structure, gene order, and gene content of chloroplasts (cp) of such species can provide a glimpse into the evolution of photosynthesis. In the present study, we obtained a well-annotated cp genome of M. arvensis using long PacBio and short Illumina reads with a de novo assembly strategy. The M. arvensis cp genome was a quadripartite circular molecule with the length of 153,312 bp, including two inverted repeats (IR) regions of 26,196 bp, divided by a small single copy (SSC) region of 17,786 bp and a large single copy (LSC) region of 83,134 bp. We detected 112 unigenes in this genome, comprising 79 protein-coding genes, 29 tRNAs, and four rRNAs. Forty-nine long repeat sequences and 51 simple sequence repeat (SSR) loci of 15 repeat types were identified. The analysis of Ks (synonymous) and Ka (non-synonymous) substitution rates indicated that the genes associated with "subunits of ATP synthase" (atpB), "subunits of NADH-dehydrogenase" (ndhG and ndhE), and "self-replication" (rps12 and rpl16) showed relatively higher Ka/Ks values than those of the other genes. The gene content, gene order, and LSC/IR/SSC boundaries and adjacent genes of the M. arvensis cp genome were highly conserved compared to those in related C3 species. Our phylogenetic analysis demonstrated that M. arvensis was clustered into a subclade with cultivated Brassica species and Raphanus sativus, indicating that M. arvensis was not involved in an independent evolutionary origin event. These results will open the way for further studies on the evolutionary process from C3 to C4 photosynthesis and hopefully provide guidance for utilizing M. arvensis as a resource for improvinng photosynthesis efficiency in cultivated Brassica species.

Dataset Information

The whole chloroplast genome of Neomartinella yungshunensis (Brassicaceae), an unusual wild plant.

Publications

The whole chloroplast genome of <i>Neomartinella yungshunensis</i> (Brassicaceae), an unusual wild plant.

Similar Datasets

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