Plastid genome sequencing,comparative genomics,and phylogenomics:Current status and prospects

查看全文 作　　者：Lei [1]GAO;Ying-Juan [2]SU;Ting [1]WANG

机构地区：[1]Key Laboratory of Plant Germplasm Enhancement and Speciality Agriculture, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan 430074, China;[2]State Key Laboratory of Biocontrol, School of Life Sciences, Sun Yat-sen University, Guangzhou 510275, China

出　　处：《Journal of Systematics and Evolution》索引2010年第48卷第2期,共17页

基　　金：supported by the 100 Talent Project of the Chinese Academy of Sciences(Grant No. 0729281F02);the National Natural Science Foundation of China (Grant No. 30970290);the Outstanding Young Scientist Project of the Natural Science Foundation of Hubei Province,China (Grant No.O631061H01);the Open Project of the State Key Laboratory of Biocontrol,China (Grant No. 2007-01) 摘　　要：More than 190 plastid genomes have been completely sequenced during the past two decades due to advances in DNA sequencing technologies.Based on this unprecedented abundance of data,extensive genomic changes have been revealed in the plastid genomes.Inversion is the most common mechanism that leads to gene order changes.Several inversion events have been recognized as informative phylogenetic markers,such as a 30-kb inversion found in all living vascular plants minus lycopsids and two short inversions putatively shared by all ferns.Gene loss is a common event throughout plastid genome evolution.Many genes were independently lost or transferred to the nuclear genome in multiple plant lineages.The trnR-CCG gene was lost in some clades of lycophytes,ferns,and seed plants,and all the ndh genes were absent in parasitic plants,gnetophytes,Pinaceae,and the Taiwan moth orchid.Certain parasitic plants have,in particular,lost plastid genes related to photosynthesis because of the relaxation of functional constraint.The dramatic growth of plastid genome sequences has also promoted the use of whole plastid sequences and genomic features to solve phylogenetic problems.Chloroplast phylogenomics has provided additional evidence for deep-level phylogenetic relationships as well as increased phylogenetic resolutions at low taxonomic levels.However,chloroplast phylogenomics is still in its infant stage and rigorous analysis methodology has yet to be developed. 关键词：基因组测序质体基因组系统发育比较基因组学 DNA测序技术基因组序列维管植物基因组进化

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Plastid genome sequencing,comparative genomics,and phylogenomics:Current status and prospects

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