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CC BY-NC-ND V4.0, Open Access
Journal article
Plastome data provides new insights into population differentiation and evolution of Ginkgo in the Sichuan Basin of China
BMC plant biology, Vol.25(1), p.14
2025
PMID: 39806316
Abstract
Ginkgo biloba L., an iconic living fossil, challenges traditional views of evolutionary stasis. While nuclear genomic studies have revealed population structure across China, the evolutionary patterns reflected in maternally inherited plastomes remain unclear, particularly in the Sichuan Basin - a potential glacial refugium that may have played a crucial role in Ginkgo's persistence.
Analysis of 227 complete plastomes, including 81 newly sampled individuals from the Sichuan Basin, revealed three distinct maternal lineages differing from known nuclear genome patterns. We identified 170 sequence variants and extensive RNA editing (235 sites) with a bias toward hydrophobic amino acid conversions, suggesting active molecular evolution. A previously undocumented haplotype (IIA2), predominant in western Sichuan Basin populations, showed close genetic affinity with rare refugial haplotypes. Western populations exhibited higher haplotypic diversity and distinctive genetic structure, supporting the basin's role as both glacial refugium and corridor for population expansion. Ancient trees (314-784 years) provided evidence for interaction between natural processes and historical human dispersal in shaping current genetic patterns.
Our findings demonstrate substantial genetic diversity within Sichuan Basin Ginkgo populations and reveal dynamic molecular evolution through plastome variation and RNA editing patterns, challenging the notion of evolutionary stasis in this living fossil. This study provides crucial genomic resources for understanding Ginkgo's evolution and informs conservation strategies for this endangered species.
Details
- Title
- Plastome data provides new insights into population differentiation and evolution of Ginkgo in the Sichuan Basin of China
- Authors/Creators
- Liyun Nie - Agricultural Genomics Institute at ShenzhenFangling Liu - Plant (United States)Meixia Wang - Jiangxi Provincial Key Laboratory of Conservation Biology, Jiangxi Agricultural University, Nanchang, 330045, ChinaZhuying Jiang - Plant (United States)Jiali Kong - Henan UniversityLuke R Tembrock - Colorado State UniversityShenglong Kan - Agricultural Genomics Institute at ShenzhenPenghao Wang - Murdoch University, Centre for Crop and Food InnovationJie Wang - School of Medical, Molecular and Forensic Sciences, Murdoch University, Murdoch, WA, 6149, AustraliaZhiqiang Wu - Huazhong Agricultural UniversityXiaoli Liu - Plant (United States)
- Publication Details
- BMC plant biology, Vol.25(1), p.14
- Publisher
- BioMed Central Ltd unless otherwise stated. Part of Springer Nature.
- Number of pages
- 14
- Grant note
- RCYX20200714114538196 / Science, Technology and Innovation Commission of Shenzhen Municipality 110243160001007 / Chinese Academy of Agricultural Sciences Elite Youth Program 2021QN02N792 / Guangdong Provincial Pearl River Talents Program
- Identifiers
- 991005732479007891
- Copyright
- © The Author(s) 2024.
- Murdoch Affiliation
- School of Medical, Molecular and Forensic Sciences
- Language
- English
- Resource Type
- Journal article
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- Citation topics
- 3 Agriculture, Environment & Ecology
- 3.4 Crop Science
- 3.4.1922 Alternative Oxidase
- Web Of Science research areas
- Plant Sciences
- ESI research areas
- Plant & Animal Science