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An atlas of wheat epigenetic regulatory elements reveals subgenome divergence in the regulation of development and stress responses.
Wang, Meiyue; Li, Zijuan; Zhang, Yu'e; Zhang, Yuyun; Xie, Yilin; Ye, Luhuan; Zhuang, Yili; Lin, Kande; Zhao, Fei; Guo, Jingyu; Teng, Wan; Zhang, Wenli; Tong, Yiping; Xue, Yongbiao; Zhang, Yijing.
Afiliación
  • Wang M; National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Shanghai Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai 200032, China.
  • Li Z; University of the Chinese Academy of Sciences, Beijing 100049, China.
  • Zhang Y; National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Shanghai Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai 200032, China.
  • Zhang Y; University of the Chinese Academy of Sciences, Beijing 100049, China.
  • Xie Y; University of the Chinese Academy of Sciences, Beijing 100049, China.
  • Ye L; State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, and The Innovation Academy of Seed Design, Chinese Academy of Sciences, Beijing 100101, China.
  • Zhuang Y; National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Shanghai Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai 200032, China.
  • Lin K; University of the Chinese Academy of Sciences, Beijing 100049, China.
  • Zhao F; National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Shanghai Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai 200032, China.
  • Guo J; University of the Chinese Academy of Sciences, Beijing 100049, China.
  • Teng W; National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Shanghai Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai 200032, China.
  • Zhang W; University of the Chinese Academy of Sciences, Beijing 100049, China.
  • Tong Y; National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Shanghai Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai 200032, China.
  • Xue Y; University of the Chinese Academy of Sciences, Beijing 100049, China.
  • Zhang Y; State Key Laboratory for Crop Genetics and Germplasm Enhancement, Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing, Jiangsu 210095, China.
Plant Cell ; 33(4): 865-881, 2021 05 31.
Article en En | MEDLINE | ID: mdl-33594406
Wheat (Triticum aestivum) has a large allohexaploid genome. Subgenome-divergent regulation contributed to genome plasticity and the domestication of polyploid wheat. However, the specificity encoded in the wheat genome determining subgenome-divergent spatio-temporal regulation has been largely unexplored. The considerable size and complexity of the genome are major obstacles to dissecting the regulatory specificity. Here, we compared the epigenomes and transcriptomes from a large set of samples under diverse developmental and environmental conditions. Thousands of distal epigenetic regulatory elements (distal-epiREs) were specifically linked to their target promoters with coordinated epigenomic changes. We revealed that subgenome-divergent activity of homologous regulatory elements is affected by specific epigenetic signatures. Subgenome-divergent epiRE regulation of tissue specificity is associated with dynamic modulation of H3K27me3 mediated by Polycomb complex and demethylases. Furthermore, quantitative epigenomic approaches detected key stress responsive cis- and trans-acting factors validated by DNA Affinity Purification and sequencing, and demonstrated the coordinated interplay between epiRE sequence contexts, epigenetic factors, and transcription factors in regulating subgenome divergent transcriptional responses to external changes. Together, this study provides a wealth of resources for elucidating the epiRE regulomics and subgenome-divergent regulation in hexaploid wheat, and gives new clues for interpreting genetic and epigenetic interplay in regulating the benefits of polyploid wheat.
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Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Estrés Fisiológico / Triticum / Secuencias Reguladoras de Ácidos Nucleicos / Epigénesis Genética Idioma: En Revista: Plant Cell Asunto de la revista: BOTANICA Año: 2021 Tipo del documento: Article País de afiliación: China Pais de publicación: Reino Unido
Texto completo
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Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Estrés Fisiológico / Triticum / Secuencias Reguladoras de Ácidos Nucleicos / Epigénesis Genética Idioma: En Revista: Plant Cell Asunto de la revista: BOTANICA Año: 2021 Tipo del documento: Article País de afiliación: China Pais de publicación: Reino Unido