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Chromosome-level genome assembly of Zizania latifolia provides insights into its seed shattering and phytocassane biosynthesis

文献类型： 外文期刊

作者： Yan, Ning 1 ; Yang, Ting 1 ; Yu, Xiu-Ting 1 ; Shang, Lian-Guang 3 ; Guo, De-Ping 4 ; Zhang, Yu 1 ; Meng, Lin 1 ; Qi, Qian-Qian 1 ; Li, Ya-Li 1 ; Du, Yong-Mei 1 ; Liu, Xin-Min 1 ; Yuan, Xiao-Long 1 ; Qin, Peng 5 ; Qiu, Jie 6 ; Qian, Qian 7 ; Zhang, Zhong-Feng 1 ;

作者机构： 1.Chinese Acad Agr Sci, Tobacco Res Inst, Qingdao 266101, Peoples R China

2.Chinese Acad Agr Sci, Grad Sch, Beijing 100081, Peoples R China

3.Chinese Acad Agr Sci, Agr Genom Inst, Minist Agr & Rural Affairs,Genome Anal Lab, Shenzhen Branch,Guangdong Lab Lingnan Modern Agr, Shenzhen 518120, Peoples R China

4.Zhejiang Univ, Coll Agr & Biotechnol, Dept Hort, Hangzhou 310058, Peoples R China

5.Sichuan Agr Univ, Rice Res Inst, State Key Lab Crop Gene Explorat & Utilizat South, Chengdu 611130, Sichuan, Peoples R China

6.Shanghai Normal Univ, Coll Life Sci, Shanghai Key Lab Plant Mol Sci, Shanghai 200234, Peoples R China

7.Chinese Acad Agr Sci, China Natl Rice Res Inst, State Key Lab Rice Biol, Hangzhou 310006, Peoples R China

期刊名称：COMMUNICATIONS BIOLOGY （ 影响因子：6.548； 五年影响因子：6.816 ）

ISSN：

年卷期： 2022 年 5 卷 1 期

页码：

收录情况： SCI

摘要： Yan, Yang, Yu, Shang et al. provide a chromosome-level reference genome for Chinese wild rice (Zizania latifolia) along with phylogenetic and transcriptomic analyses. Their results identify candidate genes related to seed shattering and synteny with the rice phytocassane biosynthetic gene cluster. Chinese wild rice (Zizania latifolia; family: Gramineae) is a valuable medicinal homologous grain in East and Southeast Asia. Here, using Nanopore sequencing and Hi-C scaffolding, we generated a 547.38 Mb chromosome-level genome assembly comprising 332 contigs and 164 scaffolds (contig N50 = 4.48 Mb; scaffold N50 = 32.79 Mb). The genome harbors 38,852 genes, with 52.89% of the genome comprising repetitive sequences. Phylogenetic analyses revealed close relation of Z. latifolia to Leersia perrieri and Oryza species, with a divergence time of 19.7-31.0 million years. Collinearity and transcriptome analyses revealed candidate genes related to seed shattering, providing basic information on abscission layer formation and degradation in Z. latifolia. Moreover, two genomic blocks in the Z. latifolia genome showed good synteny with the rice phytocassane biosynthetic gene cluster. The updated genome will support future studies on the genetic improvement of Chinese wild rice and comparative analyses between Z. latifolia and other plants.

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