Ribo-Seq and RNA-Seq of TMA46 ( DFRP1) and GIR2 ( DFRP2) knockout yeast strains
Egorov, Artyom A. LU
; Makeeva, Desislava S.
; Makarova, Nadezhda E.
; Bykov, Dmitri A.
; Hrytseniuk, Yanislav S.
; Mitkevich, Olga V.
; Urakov, Valery N.
; Alexandrov, Alexander I.
; Kulakovskiy, Ivan V.
and Dmitriev, Sergey E.
(2021)
In F1000Research
10.
p.1-11
- Abstract
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... (More)
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.
(Less)
- author
- Egorov, Artyom A.
LU
; Makeeva, Desislava S.
; Makarova, Nadezhda E.
; Bykov, Dmitri A.
; Hrytseniuk, Yanislav S.
; Mitkevich, Olga V.
; Urakov, Valery N.
; Alexandrov, Alexander I.
; Kulakovskiy, Ivan V.
and Dmitriev, Sergey E.
- publishing date
- 2021
- type
- Contribution to journal
- publication status
- published
- keywords
- eIF2A, GCN1/GCN20, GIR2, PUB1, ribosome collision, ribosome profiling, ribosome stalling, Saccharomyces cerevisiae, STM1, TMA46, Transcriptome, translatome, YGR054W
- in
- F1000Research
- volume
- 10
- article number
- 1162
- pages
- 1 pages
- publisher
- F1000 Research Ltd.
- external identifiers
-
- scopus:85122774007
- pmid:34900236
- ISSN
- 2046-1402
- DOI
- 10.12688/f1000research.74727.1
- language
- English
- LU publication?
- no
- additional info
- Publisher Copyright: Copyright: © 2021 Egorov AA et al.
- id
- 585bf7b6-2cce-4c40-ab9d-392e348c3055
- date added to LUP
- 2022-08-24 23:14:58
- date last changed
- 2023-04-05 19:52:01
@article{585bf7b6-2cce-4c40-ab9d-392e348c3055,
abstract = {{<p>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.</p>}},
author = {{Egorov, Artyom A. and Makeeva, Desislava S. and Makarova, Nadezhda E. and Bykov, Dmitri A. and Hrytseniuk, Yanislav S. and Mitkevich, Olga V. and Urakov, Valery N. and Alexandrov, Alexander I. and Kulakovskiy, Ivan V. and Dmitriev, Sergey E.}},
issn = {{2046-1402}},
keywords = {{eIF2A; GCN1/GCN20; GIR2; PUB1; ribosome collision; ribosome profiling; ribosome stalling; Saccharomyces cerevisiae; STM1; TMA46; Transcriptome; translatome; YGR054W}},
language = {{eng}},
pages = {{1--11}},
publisher = {{F1000 Research Ltd.}},
series = {{F1000Research}},
title = {{Ribo-Seq and RNA-Seq of TMA46 ( DFRP1) and GIR2 ( DFRP2) knockout yeast strains}},
url = {{http://dx.doi.org/10.12688/f1000research.74727.1}},
doi = {{10.12688/f1000research.74727.1}},
volume = {{10}},
year = {{2021}},
}