Evidence map›Paper›PMID 41388093›Full record

ArticleFunctional & integrative genomics2025

Sequence dynamics and plastome evolution: decoding the complete chloroplast genome of Oenothera drummondii and comparative analysis within Oenothera (Onagraceae).

Chang An, Wenbo Xu, Yixin Yao, Min Li, Yanxiang Lin, S V G N Priyadarshani, Aya Elderini, Yan Cheng, Site Luo, Yuan Qin and 1 more

Erratum issuedAbstract readComparative Study
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In one paragraph

Article in Functional & integrative genomics, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 1 paper.

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0cells of the map it votes in
1citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

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3 · Its place in the literature

Who cites it

1 citing paper in PubMed.

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4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

11 authors.

Chang An *Fujian Provincial Key Laboratory of Haixia Applied Plant Systems Biology, Center for Genomics and Biotechnology, College of Life Science, Fujian Agriculture and Forestry University, Fuzhou, 350002, China.
Wenbo Xu *State Key Laboratory for Quality Ensurance and Sustainable Use of Dao-di Herbs, National Resource Center for Chinese Materia Medica, Academy of Chinese Medical Sciences, Beijing, 100700, China.
Yixin YaoMacau Centre for Research and Development in Chinese Medicine, State Key Laboratory of Quality Research in Chinese Medicine, Institute of Chinese Medical Sciences, University of Macau, Macau, 519000, China.
Min LiFujian Provincial Key Laboratory of Haixia Applied Plant Systems Biology, Center for Genomics and Biotechnology, College of Life Science, Fujian Agriculture and Forestry University, Fuzhou, 350002, China.
Yanxiang LinCollege of Pharmacy, Fujian University of Traditional Chinese Medicine, Fuzhou, 350122, China.
S V G N PriyadarshaniDepartment of Applied Sciences, Faculty of Humanities and Sciences, Sri Lanka Institute of Information Technology, Malabe, 10115, Sri Lanka.
Aya ElderiniFujian Provincial Key Laboratory of Haixia Applied Plant Systems Biology, Center for Genomics and Biotechnology, College of Life Science, Fujian Agriculture and Forestry University, Fuzhou, 350002, China.
Yan ChengFujian Provincial Key Laboratory of Haixia Applied Plant Systems Biology, Center for Genomics and Biotechnology, College of Life Science, Fujian Agriculture and Forestry University, Fuzhou, 350002, China.
Site LuoSchool of Life Sciences, Xiamen University, Xiamen, 361005, China.
Yuan QinFujian Provincial Key Laboratory of Haixia Applied Plant Systems Biology, Center for Genomics and Biotechnology, College of Life Science, Fujian Agriculture and Forestry University, Fuzhou, 350002, China. yuanqin@fafu.edu.cn.
Ping ZhengFujian Provincial Key Laboratory of Haixia Applied Plant Systems Biology, Center for Genomics and Biotechnology, College of Life Science, Fujian Agriculture and Forestry University, Fuzhou, 350002, China. zhengping13@mails.ucas.ac.cn.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Oenothera species are increasingly valued for their medicinal and ornamental qualities and serve as important models in classical cytoplasmic genetics research. The genus Oenothera L., one of the largest in the Onagraceae family, includes 18 subsections and two deep phylogenetic lineages, Clade A and Clade B. Analyzing high-quality chloroplast genomes can provide crucial insights into species classification and genus-level evolution. In this study, we report the complete chloroplast genome of Oenothera drummondii Hook., the first species from subsection Raimannia, with a total length of 167,177 bp and a GC content of 39.3%. This genome contains 129 genes and displays a typical quadripartite structure. Combining this genome with data from 16 publicly available chloroplast genomes, we conducted a comprehensive comparative and evolutionary analysis. Our results indicate that Clade B species diverged independently from Clade A species. Within Clade A, species from subsection Muniza form a distinct branch, while O. drummondii clusters closely with species from subsection Oenothera. Phylogenetic analysis correlates well with chloroplast genome structural differences, such as the loss of the infA gene in Clade B species, the expansion of the IR regions in Muniza, and a shared large inversion in the LSC region among Raimannia and Oenothera species. We also identified repeat sequences, six highly variable genes, and positively selected genes among the 17 chloroplast genomes analyzed. These findings offer valuable insights into the evolutionary processes of Oenothera species and provide a foundation for the development of future molecular markers based on the identified genes and structural variations.

Indexed as

Evolution, MolecularGenome, ChloroplastOenotheraBase CompositionPhylogenyChloroplast genomeComparative genomicsGenome evolutionOenotheraPhylogenetic relationships

Identifiers

PMID41388093

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