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Parallel degradome-seq and DMS-MaPseq substantially revise the miRNA biogenesis atlas in Arabidopsis.
Yan, Xingxing; Li, Changhao; Liu, Kaiye; Zhang, Tianru; Xu, Qian; Li, Xindi; Zhu, Jiaying; Wang, Ziying; Yusuf, Anikah; Cao, Shuqing; Peng, Xu; Cai, James J; Zhang, Xiuren.
Afiliación
  • Yan X; Department of Biochemistry and Biophysics, Texas A&M University, College Station, TX, USA.
  • Li C; Molecular and Environmental Plant Sciences, Texas A&M University, College Station, TX, USA.
  • Liu K; Department of Biochemistry and Biophysics, Texas A&M University, College Station, TX, USA.
  • Zhang T; Department of Biochemistry and Biophysics, Texas A&M University, College Station, TX, USA.
  • Xu Q; National Key Laboratory for Tropical Crop Breeding, School of Tropical Agriculture and Forestry, Hainan University, Haikou, China.
  • Li X; Department of Biochemistry and Biophysics, Texas A&M University, College Station, TX, USA.
  • Zhu J; Molecular and Environmental Plant Sciences, Texas A&M University, College Station, TX, USA.
  • Wang Z; Department of Veterinary Integrative Biosciences, Texas A&M University, College Station, TX, USA.
  • Yusuf A; Department of Biochemistry and Biophysics, Texas A&M University, College Station, TX, USA.
  • Cao S; Department of Biochemistry and Biophysics, Texas A&M University, College Station, TX, USA.
  • Peng X; Department of Biology, Texas A&M University, College Station, TX, USA.
  • Cai JJ; McWilliams School of Biomedical Informatics, University of Texas Health Science Center at Houston, Houston, TX, USA.
  • Zhang X; Department of Biochemistry and Biophysics, Texas A&M University, College Station, TX, USA.
Nat Plants ; 10(7): 1126-1143, 2024 07.
Article en En | MEDLINE | ID: mdl-38918606
ABSTRACT
MicroRNAs (miRNAs) are produced from highly structured primary transcripts (pri-miRNAs) and regulate numerous biological processes in eukaryotes. Due to the extreme heterogeneity of these structures, the initial processing sites of plant pri-miRNAs and the structural rules that determine their processing have been predicted for many miRNAs but remain elusive for others. Here we used semi-active DCL1 mutants and advanced degradome-sequencing strategies to accurately identify the initial processing sites for 147 of 326 previously annotated Arabidopsis miRNAs and to illustrate their associated pri-miRNA cleavage patterns. Elucidating the in vivo RNA secondary structures of 73 pri-miRNAs revealed that about 95% of them differ from in silico predictions, and that the revised structures offer clearer interpretation of the processing sites and patterns. Finally, DCL1 partners Serrate and HYL1 could synergistically and independently impact processing patterns and in vivo RNA secondary structures of pri-miRNAs. Together, our work sheds light on the precise processing mechanisms of plant pri-miRNAs.
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Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Arabidopsis / ARN de Planta / Proteínas de Arabidopsis / MicroARNs Idioma: En Revista: Nat Plants Año: 2024 Tipo del documento: Article País de afiliación: Estados Unidos Pais de publicación: Reino Unido
Texto completo
Añadir a Mi BVS
Imprimir
XML
PubMed Links
Buscar en Google

Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Arabidopsis / ARN de Planta / Proteínas de Arabidopsis / MicroARNs Idioma: En Revista: Nat Plants Año: 2024 Tipo del documento: Article País de afiliación: Estados Unidos Pais de publicación: Reino Unido