Phosphate deficiency alters transcript isoforms via alternative transcription start sites
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| Název: | Phosphate deficiency alters transcript isoforms via alternative transcription start sites |
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| Autoři: | Rodrigo S. Reis, Joaquín Clúa, Aime Jaskolowski, Jules Deforges, Dominique Jacques‐Vuarambon, Nicolas Guex, Yves Poirier |
| Zdroj: | The Plant journal, vol. 120, no. 1, pp. 218-233 S Reis, Rodrigo; Clúa, Joaquín; Jaskolowski, Aime; Deforges, Jules; Jacques-Vuarambon, Dominique; Guex, Nicolas; Poirier, Yves (2024). Phosphate deficiency alters transcript isoforms via alternative transcription start sites. The Plant Journal, 120(1), pp. 218-233. Blackwell Science 10.1111/tpj.16982 <http://dx.doi.org/10.1111/tpj.16982> |
| Informace o vydavateli: | Wiley, 2024. |
| Rok vydání: | 2024 |
| Témata: | 2. Zero hunger, Gene Expression Regulation, Plant, Arabidopsis Proteins, Arabidopsis, 570 Life sciences, biology, Arabidopsis/genetics, Arabidopsis/metabolism, Transcription Initiation Site, Phosphates/deficiency, Phosphates/metabolism, 5' Untranslated Regions/genetics, RNA, Messenger/genetics, RNA, Messenger/metabolism, Arabidopsis Proteins/genetics, Arabidopsis Proteins/metabolism, ECT4, noncoding RNA, phosphate deficiency, transcription start sites, upstream open reading frame, RNA, Messenger, 580 Plants (Botany), 5' Untranslated Regions, Phosphates |
| Popis: | SUMMARYAlternative 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 N6‐methyladenosine (m6A) reader, strongly expressed under Pi deficiency a short noncoding transcript (named ALTECT4) ~550 nt long with a TSS in the penultimate intron. The specific and robust induction of ALTECT4 production by Pi deficiency led to the identification of a role for m6A 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. |
| Druh dokumentu: | Article |
| Popis souboru: | application/pdf |
| Jazyk: | English |
| ISSN: | 1365-313X 0960-7412 |
| DOI: | 10.1111/tpj.16982 |
| DOI: | 10.48350/199898 |
| Přístupová URL adresa: | https://pubmed.ncbi.nlm.nih.gov/39164918 https://serval.unil.ch/notice/serval:BIB_DFA16258AAE3 http://nbn-resolving.org/urn/resolver.pl?urn=urn:nbn:ch:serval-BIB_DFA16258AAE33 https://serval.unil.ch/resource/serval:BIB_DFA16258AAE3.P001/REF.pdf https://boris.unibe.ch/199898/ |
| Rights: | CC BY NC ND |
| Přístupové číslo: | edsair.doi.dedup.....7da73e297bc05fedb6b6a3035c5ad16c |
| Databáze: | OpenAIRE |
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Nájsť tento článok vo Web of Science | Abstrakt: | SUMMARYAlternative 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 N6‐methyladenosine (m6A) reader, strongly expressed under Pi deficiency a short noncoding transcript (named ALTECT4) ~550 nt long with a TSS in the penultimate intron. The specific and robust induction of ALTECT4 production by Pi deficiency led to the identification of a role for m6A 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. |
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| ISSN: | 1365313X 09607412 |
| DOI: | 10.1111/tpj.16982 |