Dynamic transition of transcription and chromatin landscape during fission yeast adaptation to glucose starvation

Genes to Cells : Devoted to Molecular & Cellular Mechanisms
Arisa OdaKunihiro Ohta

Abstract

Shortage of glucose, the primary energy source for all organisms, is one of the most critical stresses influencing cell viability. Glucose starvation promptly induces changes in mRNA and noncoding RNA (ncRNA) transcription. We previously reported that glucose starvation induces long ncRNA (lncRNA) transcription in the 5' segment of a fission yeast gluconeogenesis gene (fbp1+), which leads to stepwise chromatin alteration around the fbp1+ promoter and to subsequent robust gene activation. Here, we analyzed genomewide transcription by strand-specific RNA sequencing, together with chromatin landscape by immunoprecipitation sequencing (ChIP-seq). Clustering analysis showed that distinct mRNAs and ncRNAs are induced at the early, middle and later stages of cellular response to glucose starvation. The starvation-induced transcription depends substantially on the stress-responsive transcription factor Atf1. Using a new computer program that examines dynamic changes in expression patterns, we identified ncRNAs with similar behavior to the fbp1+ lncRNA. We confirmed that there are continuous lncRNAs associated with local reduction of histone density. Overlapping with the regions for transcription of these lncRNAs, antisense RNAs are ant...Continue Reading

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Citations

Aug 13, 2015·Biochimica Et Biophysica Acta·Akira YamashitaMasayuki Yamamoto
Mar 6, 2016·Nucleic Acids Research·Naomichi TakemataKunihiro Ohta
Oct 11, 2016·Genes to Cells : Devoted to Molecular & Cellular Mechanisms·Atsuko MikiKunihiro Ohta
Nov 18, 2017·Nucleic Acids Research·Shintaro YamadaTakatomi Yamada
Sep 29, 2019·Journal of Cell Science·Maria B HeimlicherDamian Brunner
Oct 9, 2020·Genes & Genetic Systems·Satoshi Senmatsu, Kouji Hirota
Jan 6, 2022·ELife·Maria Rodriguez-LopezJürg Bähler

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