Chloroplast Genome Sequence Characteristics and Phylogenetic Analysis of Sophora tonkinensis L.
Sophora tonkinensis is a shrub of the genus Sophora in the Fabaceae family,known for its significant medicinal value and ecological importance.Due to the endangered status of wild populations,urgent measures are needed for its protection.Furthermore,owing to market demand,the resources of wild S.tonkinensis are highly limited,resulting in many counterfeit products in the market.Hence,there is a need to establish a molecular-level method for identifying S.tonkinensis and its adulterants.The chloroplast genome is an important genetic marker source for phylogenetic analysis,genetic diversity assessment,and molecular identification of plants.In this study,we report the complete chloroplast genome of S.tonkinensis.The complete chloroplast genome has a length of 152 234 bp and a total GC content of 36.40％.It includes a total of 126 annotated genes,comprising 8 rRNA genes,37 tRNA genes,80 protein-coding genes and one pseudogene(rps 16).A total of 68 complex repeat sequences and 145 simple repeat sequences were detected.The results of boundary analysis showed that rpl2 and trnH genes at JLA boundary were lost due to due to the IR contraction.Three divergence hotspots(trnT-GGU-psbD,rps18-rpl20 and trnA-UGG-trnI-GAU)were detected by nucleotide polymorphism analysis,withpi(π)＞0.05.Phylogenetic analysis based on 76 protein-coding gene sequences showed that the genus Sophora was clustered into a lineage,with a support rate of 100％.The comparative analysis of S.tonkinensis and its closely related species in this study will contribute to the development of effective conservation and management strategies and provide a molecular identification methods for this important medicinal plant.
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