期刊
GENES
卷 13, 期 7, 页码 -出版社
MDPI
DOI: 10.3390/genes13071280
关键词
lycophytes; plastid genome; comparative genomics; clubmoss; plastomic diversity
资金
- China National Orchid Conservation Center
- Orchid Conservation and Research Center of Shenzhen (CNOCC)
- State Key Laboratory of Systematic and Evolutionary Botany, Institute of Botany, the Chinese Academy of Sciences (LSEB, IBCAS)
- University of Chinese Academy of Sciences (UCAS)
- Strategic Priority Research Program of the Chinese Academy of Sciences [XDA19050404]
- National Natural Science Foundation of China [31872651]
- Basic and Applied Basic Research Foundation of Guangdong Province [2021A1515010920]
This study investigates the plastomic diversity and evolutionary patterns of three lycophyte families, providing insights into the phylogenetic relationships and characteristics of these ancient vascular plants. The comparative analysis of plastid phylogenomics and plastomic diversity sets a foundation for further studies in biology and evolution in lycophytes and vascular plants.
Although extant lycophytes represent the most ancient surviving lineage of early vascular plants, their plastomic diversity has long been neglected. The ancient evolutionary history and distinct genetic diversity patterns of the three lycophyte families, each with its own characteristics, provide an ideal opportunity to investigate the interfamilial relationships of lycophytes and their associated patterns of evolution. To compensate for the lack of data on Lycopodiaceae, we sequenced and assembled 14 new plastid genomes (plastomes). Combined with other lycophyte plastomes available online, we reconstructed the phylogenetic relationships of the extant lycophytes based on 93 plastomes. We analyzed, traced, and compared the plastomic diversity and divergence of the three lycophyte families (Isoetaceae, Lycopodiaceae, and Selaginellaceae) in terms of plastomic diversity by comparing their plastome sizes, GC contents, substitution rates, structural rearrangements, divergence times, ancestral states, RNA editings, and gene losses. Comparative analysis of plastid phylogenomics and plastomic diversity of three lycophyte families will set a foundation for further studies in biology and evolution in lycophytes and therefore in vascular plants.
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