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The Genomes of the Allohexaploid Echinochloa crus-galli and Its Progenitors Provide Insights into Polyploidization-Driven Adaptation

文献类型： 外文期刊

作者： Ye, Chu-Yu 1 ; Wu, Dongya 1 ; Mao, Lingfeng 1 ; Jia, Lei 1 ; Qiu, Jie 3 ; Lao, Sangting 1 ; Chen, Meihong 1 ; Jiang, Bowe 1 ;

作者机构： 1.Zhejiang Univ, Inst Crop Sci, Hangzhou 310058, Peoples R China

2.Zhejiang Univ, Inst Bioinformat, Hangzhou 310058, Peoples R China

3.Shanghai Normal Univ, Coll Life Sci, Shanghai Key Lab Plant Mol Sci, Shanghai 200235, Peoples R China

4.China Natl Rice Res Inst, State Key Lab Rice Biol, Hangzhou 310006, Peoples R China

5.Hunan Acad Agr Sci, Hunan Weed Sci Key Lab, Changsha 410125, Peoples R China

6.Zhejiang Univ, Agr Expt Stn, Hangzhou 310058, Peoples R China

7.Zhejiang Univ, Inst Biotechnol, Hangzhou 310058, Peoples R China

8.Donald Danforth Plant Sci Ctr, St Louis, MO 63132 USA

9.Washington Univ, Dept Biol, St Louis, MO 63130 USA

关键词： Echinochloa weeds; genome polyploidization; wheat; fitness cost

期刊名称：MOLECULAR PLANT （ 影响因子：13.164； 五年影响因子：16.357 ）

ISSN： 1674-2052

年卷期： 2020 年 13 卷 9 期

页码：

收录情况： SCI

摘要： The hexaploid species Echinochloa crus-galli is one of the most detrimental weeds in crop fields, especially in rice paddies. Its evolutionary history is similar to that of bread wheat, arising through polyploidization after hybridization between a tetraploid and a diploid species. In this study, we generated and analyzed high-quality genome sequences of diploid (E. haploclada), tetraploid (E. otyzicola), and hexaploid (E. crus-galls) Echinochloa species. Gene family analysis showed a significant loss of disease-resistance genes such as those encoding NB-ARC domain-containing proteins during Echinochloa polyploidization, contrary to their significant expansionduring wheat polyploidization, suggesting that natural selection might favor reduced investment in resistance in this weed to maximize its growth and reproduction. In contrast to the asymmetric patterns of genome evolution observed in wheat and other crops, no significant differences in selection pressure were detected between the subgenomes in E. otyzicola and E. crus-galli. In addition, distinctive differences in subgenome transcriptome dynamics during hexaploidization were observed between E. crus-galli and bread wheat. Collectively, our study documents genomic mechanisms underlying the adaptation of a major agricultural weed during polyploidization. The genomic and transcriptomic resources of three Echinochloa species and new insights into the polyploidization-driven adaptive evolution would be useful for future breeding cereal crops.

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