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Structured 3' UTRs destabilize mRNAs in plants.
Zhang, Tianru; Li, Changhao; Zhu, Jiaying; Li, Yanjun; Wang, Zhiye; Tong, Chun-Yip; Xi, Yu; Han, Yi; Koiwa, Hisashi; Peng, Xu; Zhang, Xiuren.
Afiliación
  • Zhang T; Department of Biochemistry and Biophysics, Texas A&M University, College Station, TX, 77843, USA.
  • Li C; Molecular and Environmental Plant Sciences, Texas A&M University, College Station, TX, 77843, USA.
  • Zhu J; Department of Biochemistry and Biophysics, Texas A&M University, College Station, TX, 77843, USA.
  • Li Y; Department of Biochemistry and Biophysics, Texas A&M University, College Station, TX, 77843, USA. zhujiaying@tamu.edu.
  • Wang Z; Department of Biochemistry and Biophysics, Texas A&M University, College Station, TX, 77843, USA.
  • Tong CY; State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-products, Institute of Plant Virology, Ningbo University, Ningbo, 315211, China.
  • Xi Y; Department of Biochemistry and Biophysics, Texas A&M University, College Station, TX, 77843, USA.
  • Han Y; State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou, 310058, China.
  • Koiwa H; Department of Biochemistry and Biophysics, Texas A&M University, College Station, TX, 77843, USA.
  • Peng X; Department of Medical Physiology, College of Medicine, Texas A&M University, Bryan, TX, 77807, USA.
  • Zhang X; National Engineering Laboratory of Crop Stress Resistence Breeding, School of Life Sciences, Anhui Agricultural University, Hefei, 230036, China.
Genome Biol ; 25(1): 54, 2024 02 22.
Article en En | MEDLINE | ID: mdl-38388963
ABSTRACT

BACKGROUND:

RNA secondary structure (RSS) can influence the regulation of transcription, RNA processing, and protein synthesis, among other processes. 3' untranslated regions (3' UTRs) of mRNA also hold the key for many aspects of gene regulation. However, there are often contradictory results regarding the roles of RSS in 3' UTRs in gene expression in different organisms and/or contexts.

RESULTS:

Here, we incidentally observe that the primary substrate of miR159a (pri-miR159a), when embedded in a 3' UTR, could promote mRNA accumulation. The enhanced expression is attributed to the earlier polyadenylation of the transcript within the hybrid pri-miR159a-3' UTR and, resultantly, a poorly structured 3' UTR. RNA decay assays indicate that poorly structured 3' UTRs could promote mRNA stability, whereas highly structured 3' UTRs destabilize mRNA in vivo. Genome-wide DMS-MaPseq also reveals the prevailing inverse relationship between 3' UTRs' RSS and transcript accumulation in the transcriptomes of Arabidopsis, rice, and even human. Mechanistically, transcripts with highly structured 3' UTRs are preferentially degraded by 3'-5' exoribonuclease SOV and 5'-3' exoribonuclease XRN4, leading to decreased expression in Arabidopsis. Finally, we engineer different structured 3' UTRs to an endogenous FT gene and alter the FT-regulated flowering time in Arabidopsis.

CONCLUSIONS:

We conclude that highly structured 3' UTRs typically cause reduced accumulation of the harbored transcripts in Arabidopsis. This pattern extends to rice and even mammals. Furthermore, our study provides a new strategy of engineering the 3' UTRs' RSS to modify plant traits in agricultural production and mRNA stability in biotechnology.
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Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Arabidopsis / Exorribonucleasas Límite: Animals / Humans Idioma: En Revista: Genome Biol Asunto de la revista: BIOLOGIA MOLECULAR / GENETICA Año: 2024 Tipo del documento: Article País de afiliación: Estados Unidos Pais de publicación: Reino Unido

Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Arabidopsis / Exorribonucleasas Límite: Animals / Humans Idioma: En Revista: Genome Biol Asunto de la revista: BIOLOGIA MOLECULAR / GENETICA Año: 2024 Tipo del documento: Article País de afiliación: Estados Unidos Pais de publicación: Reino Unido