Affiliation:
1. University of Copenhagen, Department of Plant and Environmental Sciences, Copenhagen Plant Science Centre, Frederiksberg, Denmark
Abstract
Abstract
Temperature profoundly affects the kinetics of biochemical reactions, yet how large molecular complexes such as the transcription machinery accommodate changing temperatures to maintain cellular function is poorly understood. Here, we developed plant native elongating transcripts sequencing (plaNET-seq) to profile genome-wide nascent RNA polymerase II (RNAPII) transcription during the cold-response of Arabidopsis thaliana with single-nucleotide resolution. Combined with temporal resolution, these data revealed transient genome-wide reprogramming of nascent RNAPII transcription during cold, including characteristics of RNAPII elongation and thousands of non-coding transcripts connected to gene expression. Our results suggest a role for promoter–proximal RNAPII stalling in predisposing genes for transcriptional activation during plant–environment interactions. At gene 3′-ends, cold initially facilitated transcriptional termination by limiting the distance of read-through transcription. Within gene bodies, cold reduced the kinetics of co-transcriptional splicing leading to increased intragenic stalling. Our data resolved multiple distinct mechanisms by which temperature transiently altered the dynamics of nascent RNAPII transcription and associated RNA processing, illustrating potential biotechnological solutions and future focus areas to promote food security in the context of a changing climate.
Funder
Novo Nordisk Foundation
Copenhagen Plant Science Centre Young Investigator Starting grant
European Research Council
Marie Curie Actions under the European Union's Horizon 2020 research and innovation programme
Publisher
Oxford University Press (OUP)
Cited by
78 articles.
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