Methods for Analyzing Alternative Splicing and Its Regulation in Plants: From Gene-Specific Approaches to Transcriptome-Wide Studies

Kód výsledku v IS VaVaI

<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F00216224%3A14740%2F25%3A00144514" target="_blank" >RIV/00216224:14740/25:00144514 - isvavai.cz</a>

Výsledek na webu

<a href="https://onlinelibrary.wiley.com/doi/10.1111/ppl.70639" target="_blank" >https://onlinelibrary.wiley.com/doi/10.1111/ppl.70639</a>

DOI - Digital Object Identifier

<a href="http://dx.doi.org/10.1111/ppl.70639" target="_blank" >10.1111/ppl.70639</a>

Jazyk výsledku

angličtina

Název v původním jazyce

Methods for Analyzing Alternative Splicing and Its Regulation in Plants: From Gene-Specific Approaches to Transcriptome-Wide Studies

Popis výsledku v původním jazyce

Precursor messenger RNA (pre-mRNA) splicing is a fundamental mechanism of gene regulation that influences both mRNA abundance and proteome diversity. In plants, alternative splicing plays a critical role in coordinating development and enabling responses to environmental stress. This process is tightly regulated by the spliceosome and associated splicing factors, which recognize conserved sequence motifs in pre-mRNAs to guide intron removal and exon joining. In this review, we summarize and compare experimental approaches used to analyze both the regulation of alternative splicing and the splicing profiles of genes, spanning from gene-specific assays to transcriptome-wide methods. Gene-specific techniques, such as minigene assays, transient expression systems, electrophoretic mobility shift assays, and isothermal titration calorimetry, provide insights into the molecular interactions between splicing factors and their RNA targets. To identify RNA-binding partners of splicing factors, or splicing factors that interact with a specific RNA, we discuss high-throughput methods that can be applied in vivo and in vitro. By comparing these approaches, we highlight their advantages, limitations, and applications in plant biology. Understanding alternative splicing regulation is essential for deciphering its role in plant adaptation to environmental challenges, with potential implications for crop improvement strategies.

Název v anglickém jazyce

Methods for Analyzing Alternative Splicing and Its Regulation in Plants: From Gene-Specific Approaches to Transcriptome-Wide Studies

Popis výsledku anglicky

Precursor messenger RNA (pre-mRNA) splicing is a fundamental mechanism of gene regulation that influences both mRNA abundance and proteome diversity. In plants, alternative splicing plays a critical role in coordinating development and enabling responses to environmental stress. This process is tightly regulated by the spliceosome and associated splicing factors, which recognize conserved sequence motifs in pre-mRNAs to guide intron removal and exon joining. In this review, we summarize and compare experimental approaches used to analyze both the regulation of alternative splicing and the splicing profiles of genes, spanning from gene-specific assays to transcriptome-wide methods. Gene-specific techniques, such as minigene assays, transient expression systems, electrophoretic mobility shift assays, and isothermal titration calorimetry, provide insights into the molecular interactions between splicing factors and their RNA targets. To identify RNA-binding partners of splicing factors, or splicing factors that interact with a specific RNA, we discuss high-throughput methods that can be applied in vivo and in vitro. By comparing these approaches, we highlight their advantages, limitations, and applications in plant biology. Understanding alternative splicing regulation is essential for deciphering its role in plant adaptation to environmental challenges, with potential implications for crop improvement strategies.

Druh

J_imp - Článek v periodiku v databázi Web of Science

CEP obor

—

OECD FORD obor

10608 - Biochemistry and molecular biology

Projekt

<a href="/cs/project/GA22-29717S" target="_blank" >GA22-29717S: Odhalování úlohy PRP8 v sestřihu mRNA během embryogeneze a při teplotní odpovědi semen</a><br>

Návaznosti

P - Projekt vyzkumu a vyvoje financovany z verejnych zdroju (s odkazem do CEP)

Rok uplatnění

2025

Kód důvěrnosti údajů

S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů

Název periodika

PHYSIOLOGIA PLANTARUM

ISSN

0031-9317

e-ISSN

1399-3054

Svazek periodika

177

Číslo periodika v rámci svazku

6

Stát vydavatele periodika

US - Spojené státy americké

Počet stran výsledku

18

Strana od-do

1-18

Kód UT WoS článku

001617772000001

EID výsledku v databázi Scopus

2-s2.0-105022220694