Biased mutations and gene losses underlying diploidization of the tetraploid broomcorn millet genome
文献类型: 外文期刊
第一作者: Sun, Yanling
作者: Sun, Yanling;Liu, Yang;Shi, Jinfeng;Liang, Chengzhi;Chen, Mingsheng;Sun, Yanling;Liu, Yang;Liang, Chengzhi;Chen, Jinfeng;Chen, Mingsheng;Liu, Yang;Chen, Jinfeng;Wang, Lun;Yang, Jun;Yang, Jun
作者机构: Chinese Acad Sci, Inst Genet & Dev Biol, State Key Lab Plant Genom, Beijing 100101, Peoples R China;Univ Chinese Acad Sci, Beijing 100039, Peoples R China;Chinese Acad Sci, Inst Zool, State Key Lab Integrated Management Pest Insects &, Beijing 100101, Peoples R China;Shanxi Acad Agr Sci, Inst Crop Germplasm Resources, Taiyuan 030031, Peoples R China;Shanghai Chenshan Bot Garden, Shanghai Key Lab Plant Funct Genom & Resources, Shanghai 201602, Peoples R China;Chinese Acad Sci, CAS Ctr Excellence Mol Plant Sci, Natl Key Lab Plant Mol Genet, Shanghai 200032, Peoples R China
关键词: broomcorn millet; polyploid; diploidization; gene loss; transposable element
期刊名称:PLANT JOURNAL ( 2022影响因子:7.2; 五年影响因子:7.9 )
ISSN: 0960-7412
年卷期: 2023 年 113 卷 4 期
收录情况: SCI
摘要: Broomcorn millet (Panicum miliaceum L.) is one of the earliest domesticated crops, and is a valuable resource to secure food diversity and combat drought stresses under the global warming scenario. However, due to the absence of extant diploid progenitors, the polyploidy genome of broomcorn millet remains poorly understood. Here, we report the chromosome-scale genome assembly of broomcorn millet. We divided the broomcorn millet genome into two subgenomes using the genome sequence of Panicum hallii, a diploid relative of broomcorn millet. Our analyses revealed that the two subgenomes diverged at similar to 4.8 million years ago (Mya), while the allotetraploidization of broomcorn millet may have occurred about similar to 0.48 Mya, suggesting that broomcorn millet is a relatively recent allotetraploid. Comparative analyses showed that subgenome B was larger than subgenome A in size, which was caused by the biased accumulation of long terminal repeat retrotransposons in the progenitor of subgenome B before polyploidization. Notably, the accumulation of biased mutations in the transposable element-rich subgenome B led to more gene losses. Although no significant dominance of either subgenome was observed in the expression profiles of broomcorn millet, we found the minimally expressed genes in P. hallii tended to be lost during diploidization of broomcorn millet. These results suggest that broomcorn millet is at the early stage of diploidization and that mutations likely occurred more on genes that were marked with lower expression levels.
- 相关文献
作者其他论文 更多>>
-
Physiological Adaptation of Fenneropenaeus chinensis in Response to Saline-Alkaline Stress Revealed by a Combined Proteomics and Metabolomics Method
作者:Gao, Tian;Sun, Huarui;Liu, Yang;Gao, Tian;Wang, Qiong;Sun, Huarui;Li, Jitao;He, Yuying;Wang, Qiong;Li, Jitao;He, Yuying
关键词:Fenneropenaeus chinensis; proteomics; metabolomics; carbonate alkalinity stress; high pH stress
-
Investigation of oxygen packaging to maintain beef color stability and microbiology safety after periods of long-term superchilled storage
作者:Yang, Jun;Chen, Xue;Duan, Xinxin;Sun, Ge;Luo, Xin;Hopkins, David L.;Zhang, Yimin;Yang, Jun;Sun, Ge;Luo, Xin;Zhang, Yimin;Chen, Xue;Li, Ke;Cheng, Haijian;Song, Enliang;Holman, Benjamin W. B.
关键词:Long -term storage; Retail display period; Superchilled storage; Modified atmosphere packaging; Beef color; Microbiota abundance
-
Comparative Transcriptome Analysis of the Hypothalamic-Pituitary-Gonadal Axis of Jinhu Grouper (Epinephelus fuscoguttatus ♀ x Epinephelus tukula ♂) and Tiger Grouper (Epinephelus fuscoguttatus)
作者:Qiu, Yishu;Duan, Pengfei;Ding, Xiaoyu;Li, Zhentong;Wang, Xinyi;Li, Linlin;Liu, Yang;Wang, Linna;Tian, Yongsheng;Li, Zhentong;Li, Linlin;Liu, Yang;Wang, Linna;Tian, Yongsheng;Li, Zhentong;Li, Linlin;Liu, Yang;Wang, Linna;Tian, Yongsheng
关键词:Jinhu grouper (Epinephelus fuscoguttatus female x Epinephelus tukula male); Epinephelus fuscoguttatus; gonadal development; transcriptome
-
Isolation, characterization, and circulation sphere of a filovirus in fruit bats
作者:He, Biao;Yan, Xiaomin;Liu, Yuhang;Liu, Yang;Li, Nan;Sun, Yue;Mi, Shijiang;Liu, Yan;Yi, Le;Tu, Zhongzhong;Sun, Sheng;Feng, Ye;Tu, Changchun;Hu, Tingsong;Yu, Jing;Wang, Yiyin;Zhang, Fuqiang;Pa, Yanhui;Liu, Yonghua;Zhang, Hailin;Chai, Jun;Zhang, Wendong;Zhao, Huanyun;Duan, Bofang;Gong, Wenjie;Tu, Changchun
关键词:bats; filovirus; cell isolation; circulation sphere
-
Plant-based proteins: advances in their sources, digestive profiles in vitro and potential health benefits
作者:Li, Mengzhuo;Qin, Peiyou;Zou, Liang;Qin, Peiyou;Zhang, Lizhen;Ren, Guixing;Liu, Yang;Zhao, Xiaoyan;Qin, Peiyou
关键词:Plant-based proteins; protein sources; in vitro digestion; processing; health benefits
-
Surficial engineering of active hydroxyls for ambient formaldehyde oxidation via enhanced Lewis acidity over Zr-doped cryptomelane materials
作者:Wang, Hui-Jun;Yang, Huan-Huan;Chen, Tian-Yun;Zhan, Jingjing;Zhou, Hao;Yi, Xianliang;Zhang, Shi -Yu;Liu, Yang;Li, Zhonghong;Shen, Xudong
关键词:Air purification; Formaldehyde; Catalytic oxidation; Manganese oxide; Hydroxyl; Structure; Performance relation
-
Natural Contamination of Rice with Ustiloxins and the Connection with Climate Conditions in Southern China
作者:Miao, Xuexue;Zheng, Huabin;Tang, Qiyuan;Miao, Xuexue;Tao, Shuhua;Kuang, Na;Wang, Jiemin;Miao, Ying;Liu, Yang
关键词:ustiloxins; rice; LC-MS/MS; agroclimatic conditions; food safety