Arabidopsis RNA processing factor SERRATE regulates the transcription of intronless genes

ELife
Corinna SpethSascha Laubinger

Abstract

Intron splicing increases proteome complexity, promotes RNA stability, and enhances transcription. However, introns and the concomitant need for splicing extend the time required for gene expression and can cause an undesirable delay in the activation of genes. Here, we show that the plant microRNA processing factor SERRATE (SE) plays an unexpected and pivotal role in the regulation of intronless genes. Arabidopsis SE associated with more than 1000, mainly intronless, genes in a transcription-dependent manner. Chromatin-bound SE liaised with paused and elongating polymerase II complexes and promoted their association with intronless target genes. Our results indicate that stress-responsive genes contain no or few introns, which negatively affects their expression strength, but that some genes circumvent this limitation via a novel SE-dependent transcriptional activation mechanism. Transcriptome analysis of a Drosophila mutant defective in ARS2, the metazoan homologue of SE, suggests that SE/ARS2 function in regulating intronless genes might be conserved across kingdoms.

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Citations

Apr 12, 2019·Frontiers in Plant Science·Junli WangGuodong Ren
Jan 24, 2020·Development·Yang YuEric C Lai
Aug 10, 2020·Scientific Reports·Daniel SlaneGerd Jürgens
Sep 6, 2020·Proceedings of the National Academy of Sciences of the United States of America·Shengjun LiBin Yu
Dec 16, 2020·Nature Cell Biology·Seung Cho Lee, Robert A Martienssen
Mar 30, 2021·Plant Diversity·Minghui MouLigang Chen
Jun 2, 2021·Biochemical Society Transactions·Søren Lykke-AndersenTorben Heick Jensen

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Datasets Mentioned

BETA
ERP016859
GSE99367
DRA000959
GSE76939
PXD006004

Methods Mentioned

BETA
immunoprecipitation
ChIP-seq
acetylation
ChIP
Protein blot
immunoprecipitations
co-immunoprecipitation
light microscopy
super-resolution microscopy
transgenic

Software Mentioned

ggsignif
bwa
TRIMMOMATIC
Andromeda
TopHat2
HOKAWO
Subread
Bowtie2
Localizer
ZEN

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