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Codon usage suggests that translational selection has a major impact on protein expression in trypanosomatids
BACKGROUND: Different proteins are required in widely different quantities to build a living cell. In most organisms, transcription control makes a major contribution to differential expression. This is not the case in trypanosomatids where most genes are transcribed at an equivalent rate within lar...
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Formato: | Texto |
Lenguaje: | English |
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BioMed Central
2008
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Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2217535/ https://www.ncbi.nlm.nih.gov/pubmed/18173843 http://dx.doi.org/10.1186/1471-2164-9-2 |
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author | Horn, David |
author_facet | Horn, David |
author_sort | Horn, David |
collection | PubMed |
description | BACKGROUND: Different proteins are required in widely different quantities to build a living cell. In most organisms, transcription control makes a major contribution to differential expression. This is not the case in trypanosomatids where most genes are transcribed at an equivalent rate within large polycistronic clusters. Thus, trypanosomatids must use post-transcriptional control mechanisms to balance gene expression requirements. RESULTS: Here, the evidence for translational selection, the enrichment of 'favoured' codons in more highly expressed genes, is explored. A set of highly expressed, tandem-repeated genes display codon bias in Trypanosoma cruzi, Trypanosoma brucei and Leishmania major. The tRNA complement reveals forty-five of the sixty-one possible anticodons indicating widespread use of 'wobble' tRNAs. Consistent with translational selection, cognate tRNA genes for favoured codons are over-represented. Importantly, codon usage (Codon Adaptation Index) correlates with predicted and observed expression level. In addition, relative codon bias is broadly conserved among syntenic genes from different trypanosomatids. CONCLUSION: Synonymous codon bias is correlated with tRNA gene copy number and with protein expression level in trypanosomatids. Taken together, the results suggest that translational selection is the dominant mechanism underlying the control of differential protein expression in these organisms. The findings reveal how trypanosomatids may compensate for a paucity of canonical Pol II promoters and subsequent widespread constitutive RNA polymerase II transcription. |
format | Text |
id | pubmed-2217535 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2008 |
publisher | BioMed Central |
record_format | MEDLINE/PubMed |
spelling | pubmed-22175352008-01-30 Codon usage suggests that translational selection has a major impact on protein expression in trypanosomatids Horn, David BMC Genomics Research Article BACKGROUND: Different proteins are required in widely different quantities to build a living cell. In most organisms, transcription control makes a major contribution to differential expression. This is not the case in trypanosomatids where most genes are transcribed at an equivalent rate within large polycistronic clusters. Thus, trypanosomatids must use post-transcriptional control mechanisms to balance gene expression requirements. RESULTS: Here, the evidence for translational selection, the enrichment of 'favoured' codons in more highly expressed genes, is explored. A set of highly expressed, tandem-repeated genes display codon bias in Trypanosoma cruzi, Trypanosoma brucei and Leishmania major. The tRNA complement reveals forty-five of the sixty-one possible anticodons indicating widespread use of 'wobble' tRNAs. Consistent with translational selection, cognate tRNA genes for favoured codons are over-represented. Importantly, codon usage (Codon Adaptation Index) correlates with predicted and observed expression level. In addition, relative codon bias is broadly conserved among syntenic genes from different trypanosomatids. CONCLUSION: Synonymous codon bias is correlated with tRNA gene copy number and with protein expression level in trypanosomatids. Taken together, the results suggest that translational selection is the dominant mechanism underlying the control of differential protein expression in these organisms. The findings reveal how trypanosomatids may compensate for a paucity of canonical Pol II promoters and subsequent widespread constitutive RNA polymerase II transcription. BioMed Central 2008-01-03 /pmc/articles/PMC2217535/ /pubmed/18173843 http://dx.doi.org/10.1186/1471-2164-9-2 Text en Copyright © 2008 Horn; licensee BioMed Central Ltd. http://creativecommons.org/licenses/by/2.0 This is an Open Access article distributed under the terms of the Creative Commons Attribution License ( (http://creativecommons.org/licenses/by/2.0) ), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Research Article Horn, David Codon usage suggests that translational selection has a major impact on protein expression in trypanosomatids |
title | Codon usage suggests that translational selection has a major impact on protein expression in trypanosomatids |
title_full | Codon usage suggests that translational selection has a major impact on protein expression in trypanosomatids |
title_fullStr | Codon usage suggests that translational selection has a major impact on protein expression in trypanosomatids |
title_full_unstemmed | Codon usage suggests that translational selection has a major impact on protein expression in trypanosomatids |
title_short | Codon usage suggests that translational selection has a major impact on protein expression in trypanosomatids |
title_sort | codon usage suggests that translational selection has a major impact on protein expression in trypanosomatids |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2217535/ https://www.ncbi.nlm.nih.gov/pubmed/18173843 http://dx.doi.org/10.1186/1471-2164-9-2 |
work_keys_str_mv | AT horndavid codonusagesuggeststhattranslationalselectionhasamajorimpactonproteinexpressionintrypanosomatids |