The Expansion and Diversification of Pentatricopeptide Repeat RNA-Editing Factors in Plants  

作　　者：Bernard Gutmann Santana Royan Mareike Schallenberg-Rudinger Henning Lenz Ian R.Castleden Rose McDowell Michael AVacher Julian Tonti-Filippini Charles SBond Volker Knoop Ian D.Small 

机构地区：[1]Australian Research Council Centre of Excellence in Plant Energy Biology,The University of Western Australia,Crawley,Perth 6009,WA,Australia [2]School of Molecular Sciences,The University of Western Australia,Crawley,Perth 6009,WA,Australia [3]IZMB-Institut fur Zellulare und Molekulare Botanik,Abteilung Molekulare Evolution,Universitat Bonn,Kirschallee 1,53115 Bonn,Germany [4]Present address:EditForce Inc.,West zone#429,Kyushu University,744 Motooka,Nishi-Ku,Fukuoka,Japan [5]Present address:IBG-2:Plant Sciences,Forschungszentrum Jiilich GmbH,52425 Julich,Germany [6]Present address:Australian eHealth Research Centre,Commonwealth Scientific and Industrial Research Organisation,Floreat,Perth 6014,WA,Australia

出　　处：《Molecular Plant》2020年第2期215-230,共16页分子植物（英文版）

基　　金：supported by the Australian Research Council(grant numbers FL140100179 to I.D.S.,DP150102692 to C.S.B.and I.D.S.,CE140100008 to I.D.S.,DE150101484 to B.G.);the German Research Foundation(DFG grant number SCHA1952/2-1 to M.S.-R.).

摘　　要：The RNA-binding pentatricopeptide repeat(PPR)family comprises hundreds to thousands of genes in most plants,but only a few dozen in algae,indicating massive gene expansions during land plant evolution.The nature and timing of these expansions has not been well defined due to the sparse sequence data available from early-diverging land plant lineages.In this study,we exploit the comprehensive OneKP datasets of over 1000 transcriptomes from diverse plants and algae toward establishing a clear picture of the evolution of this massive gene family,focusing on the proteins typically associated with RNA editing,which show the most spectacular variation in numbers and domain composition across the plant kingdom.We characterize over 2250000 PPR motifs in over 400000 proteins.In lycophytes,polypod ferns,and hornworts,nearly 10%of expressed protein-coding genes encode putative PPR editing factors,whereas they are absent from algae and complex-thalloid liverworts.We show that rather than a single expansion,most land plant lineages with high numbers of editing factors have continued to generate novel sequence diversity.We identify sequence variations that imply functional differences between PPR proteins in seed plants versus non-seed plants and variations we propose to be linked to seed-plant-specific editing co-factors.Finally,using the sequence variations across the datasets,we develop a structural model of the catalytic DYW domain associated with C-to-U editing and identify a clade of unique DYW variants that are strong candidates as U-to-C RNA-editing factors,given their phylogenetic distribution and sequence characteristics.

关 键 词：RNA EDITING RNA-BINDING protein ORGANELLES 

分 类 号：Q943.2[生物学—植物学]