文献类型：期刊文献

英文题名：Phylogenomic synteny network analyses reveal ancestral transpositions of auxin response factor genes in plants

作者：Gao, Bei[1] Wang, Liuqiang[2] Oliver, Melvin[3] Chen, Moxian[4] Zhang, Jianhua[1,5]

第一作者：Gao, Bei

通信作者：Zhang, JH[1];Chen, MX[2]

机构：[1]Chinese Univ Hong Kong, State Key Lab Agrobiotechnol, Hong Kong, Peoples R China;[2]Chinese Acad Forestry, State Key Lab Tree Genet & Breeding, Res Inst Forestry, Beijing 100091, Peoples R China;[3]Univ Missouri, USDA ARS, Plant Genet Res Unit, Columbia, MO 65211 USA;[4]Chinese Acad Sci, CAS Key Lab Quantitat Engn Biol, Shenzhen Inst Synthet Biol, Shenzhen Inst Adv Technol, Shenzhen 518055, Peoples R China;[5]Hong Kong Baptist Univ, Fac Sci, Dept Biol, Hong Kong, Peoples R China

年份：2020

卷号：16

期号：1

外文期刊名：PLANT METHODS

收录：;Scopus(收录号：2-s2.0-85085062272);WOS:【SCI-EXPANDED(收录号:WOS:000536101600001)】；

基金：This work was supported by Hong Kong Research Grant Council (GRF 12100318, AoE/M-05/12 and AoE/M-403/16), the Fundamental Research Funds for the Central Non-profit Research Institution of CAF (No. CAFYB-B2018QB002 to L.W.), Shenzhen Institute of Synthetic Biology Scientific Research Program (ZTXM20190003) and the National Science Foundation (Collaborative Research: Dimensions: No. 1638972 to M.J.O.).

语种：英文

外文关键词：Auxin; ARF; Transcription factor; Gene duplication; Genomic synteny

摘要：Background Auxin response factors (ARFs) have long been a research focus and represent a class of key regulators of plant growth and development. Integrated phylogenomic synteny network analyses were able to provide novel insights into the evolution of the ARF gene family. Results Here, more than 3500 ARFs collected from plant genomes and transcriptomes covering major streptophyte lineages were used to reconstruct the broad-scale family phylogeny, where the early origin and diversification of ARF in charophytes was delineated. Based on the family phylogeny, we proposed a unified six-group classification system for angiosperm ARFs. Phylogenomic synteny network analyses revealed the deeply conserved genomic syntenies within each of the six ARF groups and the interlocking syntenic relationships connecting distinct groups. Recurrent duplication events, such as those that occurred in seed plants, angiosperms, core eudicots and grasses contributed to the expansion of ARF genes which facilitated functional diversification. Ancestral transposition activities in important plant families, including crucifers, legumes and grasses, were unveiled by synteny network analyses. Ancestral gene duplications along with transpositions have profound evolutionary significance which may have accelerated the functional diversification process of paralogues. Conclusions The broad-scale family phylogeny in combination with the state-of-art phylogenomic synteny network analyses not only allowed us to infer the evolutionary trajectory of ARF genes across distinct plant lineages, but also facilitated to generate a more robust classification regime for this transcription factor family. Our study provides insights into the evolution of ARFs which will enhance our current understanding of this important transcription factor family.