Allele-aware chromosome-scale assembly of the allopolyploid genome of hexaploid Ma bamboo(Dendrocalamus latiflorus Munro)

作     者：Yushan Zheng Deming Yang Jundong Rong Liguang Chen Qiang Zhu Tianyou He Lingyan Chen Jing Ye Lili Fan Yubang Gao Hangxiao Zhang Lianfeng Gu Yushan Zheng;Deming Yang;Jundong Rong;Liguang Chen;Qiang Zhu;Tianyou He;Lingyan Chen;Jing Ye;Lili Fan;Yubang Gao;Hangxiao Zhang;Lianfeng Gu

作者机构：College of ForestryFujian Agriculture and Forestry UniversityFuzhou 350002China College of Landscape ArchitectureFujian Agriculture and Forestry UniversityFuzhou 350002China Basic Forestry and Proteomics Research CenterCollege of ForestryFujian Provincial Key Laboratory of Haixia Applied PlantSystems BiologyFujian Agriculture and Forestry UniversityFuzhou 350002China 

出 版 物：《Journal of Integrative Plant Biology》 (植物学报（英文版）)

年 卷 期：2022年第64卷第3期

页      面：649-670页

核心收录：

学科分类：0710[理学-生物学] 0907[农学-林学] 08[工学] 0829[工学-林业工程] 09[农学] 

基　　金：supported by the National Key Research and Development Program of China(2018YFD0600104) the National Natural Science Foundation of China Grant(31971734) the Natural Science Foundation of Fujian Province(Grant No.2021J02027) the Distinguished Young Scholar Program of Fujian Agriculture and Forestry University(Grant No.xjq202017) the Technological Innovation Team at the University of Fujian province the Forestry Peak Discipline Construction Project from Fujian Agriculture and Forestry University 

主　　题：alternative splicing bamboo shoots chromosome conformation capture sequencing D.latiflorus genome assembly single-molecular sequencing 

摘      要：Dendrocalamus latiflorus Munro is a woody clumping bamboo with rapid shoot *** genetic transformation and clustered regularly interspaced short palindromic repeats(CRISPR)/CRISPR-associated protein 9(Cas9)gene editing techniques are available for ***,enabling reverse genetic ***,*** has the potential to be a model bamboo ***,the genome sequence of *** has remained unreported due to its polyploidy and large genome ***,we sequenced the *** genome and assembled it into three allele-aware subgenomes(AABBCC),representingthe largest genome of a major bamboo *** assembled 70 allelic chromosomes(2,737 Mb)for hexaploid *** using both singlemolecule sequencing from the Pacific Biosciences(Pac Bio)Sequel platform and chromosome conformation capture sequencing(Hi-C).Repetitive sequences comprised 52.65%of the *** *** annotated 135231 protein-coding genes in the genome based on transcriptomes from eight different *** sequencing using RNA-Seq and Pac Bio singlemolecule real-time long-read isoform sequencing revealed highly differential alternative splicing(AS)between non-abortive and abortive shoots,suggesting that AS regulates the abortion rate of bamboo *** high-quality hexaploid genome and comprehensive strand-specific transcriptome datasets for this Poaceae family member will pave the way for bamboo research using *** as a model species.