Sequential Paleotetraploidization shaped the carrot genome
文献类型：期刊论文
| 作者 | Wang, Jinpeng1,3,6; Yu, Jigao; Li, Yuxian; Wei, Chendan; Guo, He; Liu, Ying; Zhang, Jin; Li, Xiuqing5; Wang, Xiyin4 |
| 刊名 | BMC PLANT BIOLOGY
 |
| 出版日期 | 2020 |
| 卷号 | 20期号:1 |
| ISSN号 | 1471-2229 |
| 关键词 | Carrot Coffee Lettuce Carotenoids Gene collinearity Genomic fractionation Polyploidization |
| DOI | 10.1186/s12870-020-2235-7 |
| 文献子类 | Article |
| 英文摘要 | Background Carrot (Daucus carota subsp. carota L.) is an important root crop with an available high-quality genome. The carrot genome is thought to have undergone recursive paleo-polyploidization, but the extent, occurrences, and nature of these events are not clearly defined. Results Using a previously published comparative genomics pipeline, we reanalysed the carrot genome and characterized genomic fractionation, as well as gene loss and retention, after each of the two tetraploidization events and inferred a dominant and sensitive subgenome for each event. In particular, we found strong evidence of two sequential tetraploidization events, with one (Dc-alpha) approximately 46-52 million years ago (Mya) and the other (Dc-beta) approximately 77-87 Mya, both likely allotetraploidization in nature. The Dc-beta event was likely common to all Apiales plants, occurring around the divergence of Apiales-Bruniales and after the divergence of Apiales-Asterales, likely playing an important role in the derivation and divergence of Apiales species. Furthermore, we found that rounds of polyploidy events contributed to the expansion of gene families responsible for plastidial methylerythritol phosphate (MEP), the precursor of carotenoid accumulation, and shaped underlying regulatory pathways. The alignment of orthologous and paralogous genes related to different events of polyploidization and speciation constitutes a comparative genomics platform for studying Apiales, Asterales, and many other related species. Conclusions Hierarchical inference of homology revealed two tetraploidization events that shaped the carrot genome, which likely contributed to the successful establishment of Apiales plants and the expansion of MEP, upstream of the carotenoid accumulation pathway. |
| 学科主题 | Plant Sciences |
| 出版地 | LONDON |
| WOS关键词 | EVOLUTION ; GENE ; DUPLICATION ; ANCIENT ; POLYPLOIDIZATION ; ESTABLISHES ; SUBGENOMES ; ALIGNMENT ; ANCESTOR ; PROVIDES |
| WOS研究方向 | Plant Sciences |
| 语种 | 英语 |
| 出版者 | BMC |
| WOS记录号 | WOS:000513146200003 |
| 资助机构 | Ministry of Science and Technology of the People's Republic of ChinaMinistry of Science and Technology, China [2016YFD0101001] ; National Natural Science Foundation of ChinaNational Natural Science Foundation of China (NSFC) [31371282, 31510333, 31661143009] ; National Natural Science Foundation of Hebei Province [C2015209069] ; Tangshan Key Laboratory |
| 源URL | [http://ir.ibcas.ac.cn/handle/2S10CLM1/21915]  |
| 专题 | 系统与进化植物学国家重点实验室 |
| 作者单位 | 1.Chinese Acad Sci, Inst Bot, State Key Lab Systemat & Evolutionary Bot, Beijing 100093, Peoples R China 2.Handan Univ, Coll Math & Sci, Handan 056005, Hebei, Peoples R China 3.Chengdu Univ Tradit Chinese Med, Sch Genom & Biobig Data, Chengdu 610075, Peoples R China 4.Agr & Agri Food Canada, Fredericton Res & Dev Ctr, Fredericton, NB E3B 4Z7, Canada 5.Univ Chinese Acad Sci, Beijing 100049, Peoples R China 6.North China Univ Sci & Technol, Ctr Genom & Computat Biol, Sch Life Sci, Tangshan 063200, Hebei, Peoples R China |
| 推荐引用方式 GB/T 7714 | Wang, Jinpeng,Yu, Jigao,Li, Yuxian,et al. Sequential Paleotetraploidization shaped the carrot genome[J]. BMC PLANT BIOLOGY,2020,20(1). |
| APA | Wang, Jinpeng.,Yu, Jigao.,Li, Yuxian.,Wei, Chendan.,Guo, He.,...&Wang, Xiyin.(2020).Sequential Paleotetraploidization shaped the carrot genome.BMC PLANT BIOLOGY,20(1). |
| MLA | Wang, Jinpeng,et al."Sequential Paleotetraploidization shaped the carrot genome".BMC PLANT BIOLOGY 20.1(2020). |
入库方式： OAI收割
来源：植物研究所
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