Comparative phylogenetic analyses of Chinese Horsfieldia(Myristicaceae)using complete chloroplast genome sequences  

作　　者：Chao-Nan Cai Hui Ma Xiu-Qin Ci John G.Conran Jie Li 

机构地区：[1]Plant Phylogenetics and Conservation Group,Center for Integrative Conservation,Xishuangbanna Tropical Botanical Garden,Chinese Academy of Sciences,Kunming 650223,China [2]University of Chinese Academy of Sciences,Beijing 100049,China [3]Center of Conservation Biology,Core Botanical Gardens,Chinese Academy of Sciences,Mengla 666303,China [4]Australian Centre for Evolutionary Biology and Biodiversity(ACEBB),and Sprigg Geobiology Centre(SGC),School of Biological Sciences,The University of Adelaide,Adelaide 5005,South Australia,Australia

出　　处：《Journal of Systematics and Evolution》2021年第3期504-514,共11页植物分类学报（英文版）

基　　金：supported by the Science and Technology Basic Resources Investigation Program of China:Survey and Germplasm Conservation of Plant Species with Extremely Small Populations in South-west China(2017FY100100);Biodiversity Conservation Program of Chinese Academy of Sciences(ZSSD-013),and 135 Program。

摘　　要：The biologist's ruler for biodiversity is the species;accurate species identification is fundamental to the conservation of endangered species and in-depth biological scientific exploration.However,the delimitation and affinities of Horsfieldia in China has been controversial,owing in part to very low levels of molecular divergence within the family Myristicaceae.Because species boundaries and phylogenetic relationships within Horsfieldia are also unclear,13 samples were collected across its distribution in China and their genomes were subjected to shotgun sequencing using Illumina platforms.A total of 40487994–84801416 pair-end clean reads were obtained and,after assembly,the complete chloroplast genome was recovered for all samples.Annotation analysis revealed a total of 112 genes,including 78 protein-coding genes,30 transfer RNA,and 4 ribosomal RNA genes.Six variable loci(petN-psbM,trnH-psbA,ndhC-trnV,psbJ-psbL,ndhF,and rrn5-rrn23)were identified.Phylogenetic analyses strongly support the presence of four distinct species of Horsfieldia in China.In addition,samples that had been identified previously as Horsfieldia kingii(Hook.f.)Warb.were indistinguishable from those of H.prainii(King)Warb.,suggesting that if H.kingii does occur in China,it was not collected in this study.Similarly,the chloroplast genome of one H.hainanensis Merr.sample from Guangxi province was identical to H.tetratepala C.Y.Wu,suggesting that the distribution range of H.hainanensis might be narrower than assumed previously.The phylogenetic relationships between the Chinese Horsfieldia species based on the whole chloroplast genomes was supported strongly,indicating the potential for using entire chloroplast genomes as super-barcodes for further resolution of the phylogeny of the genus Horsfieldia.

关 键 词：chloroplast genome Horsfieldia MYRISTICACEAE PHYLOGENETICS species delimitation super-barcodes 

分 类 号：Q943.2[生物学—植物学]