Phosphate deficiency alters transcript isoforms via alternative transcription start sites.

Autor: Reis RS; Department of Plant Molecular Biology, University of Lausanne, Biophore Building, Lausanne, CH-1015, Switzerland.; Institute of Plant Sciences, University of Bern, Bern, CH-3013, Switzerland., Clúa J; Department of Plant Molecular Biology, University of Lausanne, Biophore Building, Lausanne, CH-1015, Switzerland., Jaskolowski A; Department of Plant Molecular Biology, University of Lausanne, Biophore Building, Lausanne, CH-1015, Switzerland., Deforges J; Department of Plant Molecular Biology, University of Lausanne, Biophore Building, Lausanne, CH-1015, Switzerland., Jacques-Vuarambon D; Department of Plant Molecular Biology, University of Lausanne, Biophore Building, Lausanne, CH-1015, Switzerland.; Institute of Plant Sciences, University of Bern, Bern, CH-3013, Switzerland., Guex N; Bioinfomatics Competence Center, University of Lausanne, Lausanne, Switzerland., Poirier Y; Department of Plant Molecular Biology, University of Lausanne, Biophore Building, Lausanne, CH-1015, Switzerland.
Jazyk: angličtina
Zdroj: The Plant journal : for cell and molecular biology [Plant J] 2024 Oct; Vol. 120 (1), pp. 218-233. Date of Electronic Publication: 2024 Aug 20.
DOI: 10.1111/tpj.16982
Abstrakt: Alternative transcription start sites (TSS) are widespread in eukaryotes and can alter the 5' UTR length and coding potential of transcripts. Here we show that inorganic phosphate (Pi) availability regulates the usage of several alternative TSS in Arabidopsis (Arabidopsis thaliana). In comparison to phytohormone treatment, Pi had a pronounced and specific effect on the usage of many alternative TSS. By combining short-read RNA sequencing with long-read sequencing of full-length mRNAs, we identified a set of 45 genes showing alternative TSS under Pi deficiency. Alternative TSS affected several processes, such as translation via the exclusion of upstream open reading frames present in the 5' UTR of RETICULAN LIKE PROTEIN B1 mRNA, and subcellular localization via removal of the plastid transit peptide coding region from the mRNAs of HEME OXYGENASE 1 and SULFOQUINOVOSYLDIACYLGLYCEROL 2. Several alternative TSS also generated shorter transcripts lacking the coding potential for important domains. For example, the EVOLUTIONARILY CONSERVED C-TERMINAL REGION 4 (ECT4) locus, which encodes an N 6 -methyladenosine (m 6 A) reader, strongly expressed under Pi deficiency a short noncoding transcript (named ALT ECT4 ) ~550 nt long with a TSS in the penultimate intron. The specific and robust induction of ALT ECT4 production by Pi deficiency led to the identification of a role for m 6 A readers in primary root growth in response to low phosphate that is dependent on iron and is involved in modulating cell division in the root meristem. Our results identify alternative TSS usage as an important process in the plant response to Pi deficiency.
(© 2024 The Author(s). The Plant Journal published by Society for Experimental Biology and John Wiley & Sons Ltd.)
Databáze: MEDLINE
Externí odkaz: