Ribo-Seq and RNA-Seq of TMA46 ( DFRP1) and GIR2 ( DFRP2) knockout yeast strains [version 1; peer review: 3 approved]

In eukaryotes, stalled and collided ribosomes are recognized by several conserved multicomponent systems, which either block protein synthesis in situ and resolve the collision locally, or trigger a general stress response. Yeast ribosome-binding GTPases RBG1 (DRG1 in mammals) and RBG2 (DRG2) form t...

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Published in:F1000 research 2021, Vol.10, p.1162-1162
Main Authors: Egorov, Artyom A, Makeeva, Desislava S, Makarova, Nadezhda E, Bykov, Dmitri A, Hrytseniuk, Yanislav S, Mitkevich, Olga V, Urakov, Valery N, Alexandrov, Alexander I, Kulakovskiy, Ivan V, Dmitriev, Sergey E
Format: Article
Language:English
Subjects:
Animals
Cell growth
Cellular stress response
Data Note
DNA helicase
eng
Gene expression
Generalized linear models
Kinases
Mammals
Ontology
Protein Biosynthesis
Proteins
Quality control
ribosome collision
ribosome profiling
ribosome stalling
Ribosomes
Ribosomes - genetics
RNA-Seq
Saccharomyces cerevisiae
Saccharomyces cerevisiae - genetics
Saccharomyces cerevisiae - metabolism
Saccharomyces cerevisiae Proteins - genetics
Saccharomyces cerevisiae Proteins - metabolism
Transcriptome
translatome
Yeast
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Kulakovskiy, Ivan V
Dmitriev, Sergey E
description In eukaryotes, stalled and collided ribosomes are recognized by several conserved multicomponent systems, which either block protein synthesis in situ and resolve the collision locally, or trigger a general stress response. Yeast ribosome-binding GTPases RBG1 (DRG1 in mammals) and RBG2 (DRG2) form two distinct heterodimers with TMA46 (DFRP1) and GIR2 (DFRP2), respectively, both involved in mRNA translation. Accumulated evidence suggests that the dimers play partially redundant roles in elongation processivity and resolution of ribosome stalling and collision events, as well as in the regulation of GCN1-mediated signaling involved in ribosome-associated quality control (RQC). They also genetically interact with SLH1 (ASCC3) helicase, a key component of RQC trigger (RQT) complex disassembling collided ribosomes. Here, we present RNA-Seq and ribosome profiling (Ribo-Seq) data from S. cerevisiae strains with individual deletions of the TMA46 and GIR2 genes. Raw RNA-Seq and Ribo-Seq data as well as gene-level read counts are available in NCBI Gene Expression Omnibus (GEO) repository under GEO accession GSE185458 and GSE185286.
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subjects Animals
Cell growth
Cellular stress response
Data Note
DNA helicase
eng
Gene expression
Generalized linear models
Kinases
Mammals
Ontology
Protein Biosynthesis
Proteins
Quality control
ribosome collision
ribosome profiling
ribosome stalling
Ribosomes
Ribosomes - genetics
RNA-Seq
Saccharomyces cerevisiae
Saccharomyces cerevisiae - genetics
Saccharomyces cerevisiae - metabolism
Saccharomyces cerevisiae Proteins - genetics
Saccharomyces cerevisiae Proteins - metabolism
Transcriptome
translatome
Yeast
title Ribo-Seq and RNA-Seq of TMA46 ( DFRP1) and GIR2 ( DFRP2) knockout yeast strains [version 1; peer review: 3 approved]
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