Proteomics

Dataset Information

71

Protein synthesis rates and ribosome occupancies reveal determinants of translation elongation rates


ABSTRACT: Although protein synthesis dynamics has been studied both with theoretical models and by profiling ribosome footprints, the determinants of ribosome flux along open reading frames (ORFs) are not fully understood. Combining measurements of protein synthesis rate with ribosome footprinting data, we here inferred translation initiation and elongation rates for over a thousand ORFs in exponentially-growing wildtype yeast cells. We found that the amino acid composition of synthesized proteins is as important a determinant of translation elongation rate as parameters related to codon and tRNA adaptation. We did not find evidence of ribosome collisions curbing the protein output of yeast transcripts, either in high translation conditions associated with exponential growth, or in strains in which deletion of individual ribosomal protein genes leads to globally increased or decreased translation. Slow translation elongation is characteristic of RP-encoding transcripts, which have markedly lower protein output compared to other transcripts with equally high ribosome densities.

INSTRUMENT(S): Q Exactive

ORGANISM(S): Saccharomyces cerevisiae  

TISSUE(S): Cell Culture

DISEASE(S): Not Available

SUBMITTER: Alexander Schmidt  

LAB HEAD: Alexander Schmidt

PROVIDER: PXD014357 | Pride | 2019-09-10

REPOSITORIES: Pride

Dataset's files

Source:
Action DRS
015_1_C16.raw Raw
016_1_C16.raw Raw
017_1_C16.raw Raw
018_1_C16.raw Raw
019_1_C16.raw Raw
Items per page:
1 - 5 of 44
altmetric image

Publications

Protein synthesis rates and ribosome occupancies reveal determinants of translation elongation rates.

Riba Andrea A   Di Nanni Noemi N   Mittal Nitish N   Arhné Erik E   Schmidt Alexander A   Zavolan Mihaela M  

Proceedings of the National Academy of Sciences of the United States of America 20190710 30


Although protein synthesis dynamics has been studied both with theoretical models and by profiling ribosome footprints, the determinants of ribosome flux along open reading frames (ORFs) are not fully understood. Combining measurements of protein synthesis rate with ribosome footprinting data, we here inferred translation initiation and elongation rates for over a 1,000 ORFs in exponentially growing wild-type yeast cells. We found that the amino acid composition of synthesized proteins is as imp  ...[more]

Similar Datasets

2019-01-01 | S-EPMC6660795 | BioStudies
2013-01-01 | S-EPMC3561044 | BioStudies
2014-08-21 | E-GEOD-60095 | BioStudies
2016-01-01 | S-EPMC4712605 | BioStudies
2014-01-01 | S-EPMC4216110 | BioStudies
2016-01-01 | S-EPMC5111709 | BioStudies
1000-01-01 | S-EPMC3491468 | BioStudies
2018-01-01 | S-EPMC5838203 | BioStudies
2005-01-01 | S-EPMC1087779 | BioStudies
2012-01-01 | S-EPMC3443142 | BioStudies