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Human Tissues Exhibit Diverse Composition of Translation Machinery

Anisimova, Aleksandra S. ; Kolyupanova, Natalia M. ; Makarova, Nadezhda E. ; Egorov, Artyom A. LU orcid ; Kulakovskiy, Ivan V. and Dmitriev, Sergey E. (2023) In International Journal of Molecular Sciences 24(9).
Abstract

While protein synthesis is vital for the majority of cell types of the human body, diversely differentiated cells require specific translation regulation. This suggests the specialization of translation machinery across tissues and organs. Using transcriptomic data from GTEx, FANTOM, and Gene Atlas, we systematically explored the abundance of transcripts encoding translation factors and aminoacyl-tRNA synthetases (ARSases) in human tissues. We revised a few known and identified several novel translation-related genes exhibiting strict tissue-specific expression. The proteins they encode include eEF1A1, eEF1A2, PABPC1L, PABPC3, eIF1B, eIF4E1B, eIF4ENIF1, and eIF5AL1. Furthermore, our analysis revealed a pervasive tissue-specific relative... (More)

While protein synthesis is vital for the majority of cell types of the human body, diversely differentiated cells require specific translation regulation. This suggests the specialization of translation machinery across tissues and organs. Using transcriptomic data from GTEx, FANTOM, and Gene Atlas, we systematically explored the abundance of transcripts encoding translation factors and aminoacyl-tRNA synthetases (ARSases) in human tissues. We revised a few known and identified several novel translation-related genes exhibiting strict tissue-specific expression. The proteins they encode include eEF1A1, eEF1A2, PABPC1L, PABPC3, eIF1B, eIF4E1B, eIF4ENIF1, and eIF5AL1. Furthermore, our analysis revealed a pervasive tissue-specific relative abundance of translation machinery components (e.g., PABP and eRF3 paralogs, eIF2B and eIF3 subunits, eIF5MPs, and some ARSases), suggesting presumptive variance in the composition of translation initiation, elongation, and termination complexes. These conclusions were largely confirmed by the analysis of proteomic data. Finally, we paid attention to sexual dimorphism in the repertoire of translation factors encoded in sex chromosomes (eIF1A, eIF2γ, and DDX3), and identified the testis and brain as organs with the most diverged expression of translation-associated genes.

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author
; ; ; ; and
publishing date
type
Contribution to journal
publication status
published
keywords
aminoacyl-tRNA synthetases ARSases, cell type-specific translation, gonads, neurons, organ-specific translation, proteome, sexual dimorphism, transcriptional landscape, transcriptome, translation factors
in
International Journal of Molecular Sciences
volume
24
issue
9
article number
8361
publisher
MDPI AG
external identifiers
  • pmid:37176068
  • scopus:85159359827
ISSN
1661-6596
DOI
10.3390/ijms24098361
language
English
LU publication?
no
additional info
Funding Information: This study was supported by the Russian Science Foundation grant no. 18-14-00291 to S.E.D. (conceptualization, design, and data analysis) and Ministry of Science and Higher Education of the Russian Federation grant no. 075152021601 (data processing pipeline). Publisher Copyright: © 2023 by the authors.
id
d9e5f1a4-65a0-4862-aa5a-79aa80df010f
date added to LUP
2023-10-02 10:31:17
date last changed
2024-04-19 01:49:47
@article{d9e5f1a4-65a0-4862-aa5a-79aa80df010f,
  abstract     = {{<p>While protein synthesis is vital for the majority of cell types of the human body, diversely differentiated cells require specific translation regulation. This suggests the specialization of translation machinery across tissues and organs. Using transcriptomic data from GTEx, FANTOM, and Gene Atlas, we systematically explored the abundance of transcripts encoding translation factors and aminoacyl-tRNA synthetases (ARSases) in human tissues. We revised a few known and identified several novel translation-related genes exhibiting strict tissue-specific expression. The proteins they encode include eEF1A1, eEF1A2, PABPC1L, PABPC3, eIF1B, eIF4E1B, eIF4ENIF1, and eIF5AL1. Furthermore, our analysis revealed a pervasive tissue-specific relative abundance of translation machinery components (e.g., PABP and eRF3 paralogs, eIF2B and eIF3 subunits, eIF5MPs, and some ARSases), suggesting presumptive variance in the composition of translation initiation, elongation, and termination complexes. These conclusions were largely confirmed by the analysis of proteomic data. Finally, we paid attention to sexual dimorphism in the repertoire of translation factors encoded in sex chromosomes (eIF1A, eIF2γ, and DDX3), and identified the testis and brain as organs with the most diverged expression of translation-associated genes.</p>}},
  author       = {{Anisimova, Aleksandra S. and Kolyupanova, Natalia M. and Makarova, Nadezhda E. and Egorov, Artyom A. and Kulakovskiy, Ivan V. and Dmitriev, Sergey E.}},
  issn         = {{1661-6596}},
  keywords     = {{aminoacyl-tRNA synthetases ARSases; cell type-specific translation; gonads; neurons; organ-specific translation; proteome; sexual dimorphism; transcriptional landscape; transcriptome; translation factors}},
  language     = {{eng}},
  number       = {{9}},
  publisher    = {{MDPI AG}},
  series       = {{International Journal of Molecular Sciences}},
  title        = {{Human Tissues Exhibit Diverse Composition of Translation Machinery}},
  url          = {{http://dx.doi.org/10.3390/ijms24098361}},
  doi          = {{10.3390/ijms24098361}},
  volume       = {{24}},
  year         = {{2023}},
}