Widespread premature transcription termination of Arabidopsis thaliana NLR genes by the spen protein FPA

Genes involved in disease resistance are some of the fastest evolving and most diverse components of genomes. Large numbers of nucleotide-binding, leucine-rich repeat (NLR) genes are found in plant genomes and are required for disease resistance. However, NLRs can trigger autoimmunity, disrupt benef...

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Bibliographic Details
Published in:eLife 2021-04, Vol.10
Main Authors: Parker, Matthew T, Knop, Katarzyna, Zacharaki, Vasiliki, Sherwood, Anna V, Tomé, Daniel, Yu, Xuhong, Martin, Pascal Gp, Beynon, Jim, Michaels, Scott D, Barton, Geoffrey J, Simpson, Gordon G
Format: Article
Language:English
Subjects:
alternative polyadenylation
Arabidopsis - genetics
Arabidopsis - metabolism
Arabidopsis Proteins - genetics
Arabidopsis Proteins - metabolism
Autoimmune diseases
Autoimmunity
Chromosomes and Gene Expression
direct RNA sequencing
Disease resistance
Gene expression
Gene Expression Regulation, Plant
Genes, Plant - genetics
Genes, Plant - physiology
Genomes
Immune response
Kinases
m6A
Mass spectrometry
Microbiota
Mutation
nanopore
NLR
NLR Proteins - metabolism
Pathogens
Plant Biology
Polyadenylation
Proteins
RNA polymerase
RNA, Messenger - metabolism
RNA-binding protein
RNA-Binding Proteins - metabolism
Scientific imaging
spen
Surveillance
Transcription termination
Transcription Termination, Genetic
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Summary:Genes involved in disease resistance are some of the fastest evolving and most diverse components of genomes. Large numbers of nucleotide-binding, leucine-rich repeat (NLR) genes are found in plant genomes and are required for disease resistance. However, NLRs can trigger autoimmunity, disrupt beneficial microbiota or reduce fitness. It is therefore crucial to understand how NLRs are controlled. Here, we show that the RNA-binding protein FPA mediates widespread premature cleavage and polyadenylation of NLR transcripts, thereby controlling their functional expression and impacting immunity. Using long-read Nanopore direct RNA sequencing, we resolved the complexity of NLR transcript processing and gene annotation. Our results uncover a co-transcriptional layer of NLR control with implications for understanding the regulatory and evolutionary dynamics of NLRs in the immune responses of plants.
ISSN:2050-084X
2050-084X
DOI:10.7554/elife.65537