广西植物2025，Vol.45Issue(12)：2241-2254,14.DOI:10.11931/guihaia.gxzw202504008
锦葵科Malvatheca分支的质体基因组演化及系统发育分析
Plastome evolution and phylogenetic analysis of the Malvatheca clade(Malvaceae)
摘要
Abstract
The Malvatheca clade(encompassing Malvoideae and Bombacoideae within Malvaceae s.l.)possesses significant economic and ecological values.However,the phylogenetic relationships within this clade remain controversial,particularly concerning the phylogenetic placement of Fremontodendreae,Ochromeae and Matisieae.Moreover,comprehensive analyses of plastome structural variations and evolution within this clade remain poorly investigated.To resolve these research gaps,this study incorporated the plastid whole genome(WGM)data from 142 species representing 8 tribes and 38 genera of the Malvatheca clade,including 77 plastomes newly de novo assembled.We performed comparative genomic and phylogenetic analyses using the plastome datasets.The results were as follows:(1)The plastome size in the Malvatheca clade exhibited variation ranging from 156 701 bp to 163 741 bp,primarily attributed to differential lengths in the inverted repeat(IR)region and varying numbers of repetitive sequences.(2)Four IR boundary types were identified through analysis of gene variation at IR/SC junctions.The TypeⅢa was inferred as the ancestral structure of the plastome within the Malvatheca clade,with identical IR expansion/contraction events evolving convergently multiple times during its diversification.(3)Eight highly variable regions were detected in both Malvoideae and Bombacoideae,with trnSGCU-trnGUCC,petA-psbJ,ndhD-ccsA and ycf1 being common to both clades.Notably,trnSGCU-trnGUCC,ycf1 and the commonly used molecular markers ndhF exhibited robust phylogenetic resolution.(4)The topologies inferred from both the plastid WGM matrix and protein coding sequence(CDS)matrix datasets were largely identical and well-resolved,and provided a reliable phylogenetic framework for Malvatheca clade.The result showed that the Malvatheca clade was divided into four lineages,with Fremontodendreae as the earliest divergent group,followed by Ochromeae,then Bombacoideae and Malvoideae formed as sister group.Additionally,our results revealed non-monophyly in tribes Adansonieae and Bombaceae,as well as the genera Sida and Hisbiscus.The composition and taxonomic treatment of these groups still require further research.This study clarifies critical phylogenetic relationships within the Malvatheca clade while providing new perspectives on the plastome characteristics and evolution through the most extensively sampled plastome dataset currently available for this clade.关键词
Malvatheca分支/系统发育/质体基因组/木棉亚科/锦葵亚科/锦葵科Key words
Malvatheca clade/phylogeny/plastome/Bombacoideae/Malvoideae/Malvaceae分类
农业科技引用本文复制引用
雷翰霖,黎若竹,蔡杰,杨俊波,张志荣,李德铢,郁文彬..锦葵科Malvatheca分支的质体基因组演化及系统发育分析[J].广西植物,2025,45(12):2241-2254,14.基金项目
云南省基金(202201AT070232,202101BC070003) （202201AT070232,202101BC070003）
科技基础性工作专项(2021FY100200) （2021FY100200）
海南省重点研发计划项目(ZDYF2023RDYL01) （ZDYF2023RDYL01）
海南国家公园研究院资助项目(KY-24ZK02) （KY-24ZK02）
兴滇人才创新团队项目(202405AS350019) （202405AS350019）
中国科学院重大科技基础设施开放研究项目(2017-LSF-GBOWS-02). （2017-LSF-GBOWS-02）
