| Literature DB >> 34965378 |
Shihui Niu1, Jiang Li2, Wenhao Bo2, Weifei Yang3, Andrea Zuccolo4, Stefania Giacomello5, Xi Chen2, Fangxu Han2, Junhe Yang2, Yitong Song2, Yumeng Nie2, Biao Zhou2, Peiyi Wang2, Quan Zuo2, Hui Zhang2, Jingjing Ma2, Jun Wang2, Lvji Wang2, Qianya Zhu2, Huanhuan Zhao2, Zhanmin Liu6, Xuemei Zhang3, Tao Liu3, Surui Pei3, Zhimin Li3, Yao Hu7, Yehui Yang7, Wenzhao Li7, Yanjun Zan8, Linghua Zhou8, Jinxing Lin2, Tongqi Yuan9, Wei Li2, Yue Li2, Hairong Wei10, Harry X Wu11.
Abstract
Conifers dominate the world's forest ecosystems and are the most widely planted tree species. Their giant and complex genomes present great challenges for assembling a complete reference genome for evolutionary and genomic studies. We present a 25.4-Gb chromosome-level assembly of Chinese pine (Pinus tabuliformis) and revealed that its genome size is mostly attributable to huge intergenic regions and long introns with high transposable element (TE) content. Large genes with long introns exhibited higher expressions levels. Despite a lack of recent whole-genome duplication, 91.2% of genes were duplicated through dispersed duplication, and expanded gene families are mainly related to stress responses, which may underpin conifers' adaptation, particularly in cold and/or arid conditions. The reproductive regulation network is distinct compared with angiosperms. Slow removal of TEs with high-level methylation may have contributed to genomic expansion. This study provides insights into conifer evolution and resources for advancing research on conifer adaptation and development.Entities:
Keywords: Chinese pine; chromosome-level genome; climate adaptation; conifer evolution; conifer reproduction; gene expression; genome expansion; long intron; methylome
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Year: 2021 PMID： 34965378 DOI： 10.1016/j.cell.2021.12.006
Source DB: PubMed Journal: Cell ISSN： 0092-8674 Impact factor: 41.582