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Relationship between the tissue-specificity of mouse gene expression and the evolutionary origin and function of the proteins

BACKGROUND: The combination of complete genome sequence information with expression data enables us to characterize the relationship between a protein's evolutionary origin or functional category and its expression pattern. In this study, mouse proteins were assigned into functional and phyleti...

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Autores principales: Freilich, Shiri, Massingham, Tim, Bhattacharyya, Sumit, Ponstingl, Hannes, Lyons, Paul A, Freeman, Tom C, Thornton, Janet M
Formato: Texto
Lenguaje:English
Publicado: BioMed Central 2005
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1175987/
https://www.ncbi.nlm.nih.gov/pubmed/15998445
http://dx.doi.org/10.1186/gb-2005-6-7-r56
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author Freilich, Shiri
Massingham, Tim
Bhattacharyya, Sumit
Ponstingl, Hannes
Lyons, Paul A
Freeman, Tom C
Thornton, Janet M
author_facet Freilich, Shiri
Massingham, Tim
Bhattacharyya, Sumit
Ponstingl, Hannes
Lyons, Paul A
Freeman, Tom C
Thornton, Janet M
author_sort Freilich, Shiri
collection PubMed
description BACKGROUND: The combination of complete genome sequence information with expression data enables us to characterize the relationship between a protein's evolutionary origin or functional category and its expression pattern. In this study, mouse proteins were assigned into functional and phyletic groups and the gene expression patterns of the different protein groupings were examined by microarray analysis in various mouse tissues. RESULTS: Our results suggest that the proteins that are universally distributed in all tissues are predominantly enzymes and transporters. In contrast, the tissue-specific set is dominated by regulatory proteins (signal transduction and transcription factors). An increased tendency to tissue-specificity is observed for metazoan-specific proteins. As the composition of the phyletic groups highly correlates with that of the functional groups, the data were tested in order to determine which of the two factors - function or phyletic age - is dominant in shaping the expression profile of a protein. The observed differences in expression patterns of genes between functional groups were found mainly to reflect their different phyletic origin. The connection between tissue specificity and phyletic age cannot be explained by the recent rate of evolution. Finally, although metazoan-specific proteins tend to be tissue-specific compared with phyletically conserved proteins present in all domains of life, many such 'universal' proteins are also tissue-specific. CONCLUSION: The minimal cellular transcriptome of the metazoan cell differs from that of the ancestral unicellular eukaryote: new functions were added (metazoan-specific proteins), whilst other functions became specialized and no longer took place in all cells (tissue-specific pre-metazoan proteins).
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spelling pubmed-11759872005-07-17 Relationship between the tissue-specificity of mouse gene expression and the evolutionary origin and function of the proteins Freilich, Shiri Massingham, Tim Bhattacharyya, Sumit Ponstingl, Hannes Lyons, Paul A Freeman, Tom C Thornton, Janet M Genome Biol Research BACKGROUND: The combination of complete genome sequence information with expression data enables us to characterize the relationship between a protein's evolutionary origin or functional category and its expression pattern. In this study, mouse proteins were assigned into functional and phyletic groups and the gene expression patterns of the different protein groupings were examined by microarray analysis in various mouse tissues. RESULTS: Our results suggest that the proteins that are universally distributed in all tissues are predominantly enzymes and transporters. In contrast, the tissue-specific set is dominated by regulatory proteins (signal transduction and transcription factors). An increased tendency to tissue-specificity is observed for metazoan-specific proteins. As the composition of the phyletic groups highly correlates with that of the functional groups, the data were tested in order to determine which of the two factors - function or phyletic age - is dominant in shaping the expression profile of a protein. The observed differences in expression patterns of genes between functional groups were found mainly to reflect their different phyletic origin. The connection between tissue specificity and phyletic age cannot be explained by the recent rate of evolution. Finally, although metazoan-specific proteins tend to be tissue-specific compared with phyletically conserved proteins present in all domains of life, many such 'universal' proteins are also tissue-specific. CONCLUSION: The minimal cellular transcriptome of the metazoan cell differs from that of the ancestral unicellular eukaryote: new functions were added (metazoan-specific proteins), whilst other functions became specialized and no longer took place in all cells (tissue-specific pre-metazoan proteins). BioMed Central 2005 2005-06-29 /pmc/articles/PMC1175987/ /pubmed/15998445 http://dx.doi.org/10.1186/gb-2005-6-7-r56 Text en Copyright © 2005 Freilich et al.; licensee BioMed Central Ltd.
spellingShingle Research
Freilich, Shiri
Massingham, Tim
Bhattacharyya, Sumit
Ponstingl, Hannes
Lyons, Paul A
Freeman, Tom C
Thornton, Janet M
Relationship between the tissue-specificity of mouse gene expression and the evolutionary origin and function of the proteins
title Relationship between the tissue-specificity of mouse gene expression and the evolutionary origin and function of the proteins
title_full Relationship between the tissue-specificity of mouse gene expression and the evolutionary origin and function of the proteins
title_fullStr Relationship between the tissue-specificity of mouse gene expression and the evolutionary origin and function of the proteins
title_full_unstemmed Relationship between the tissue-specificity of mouse gene expression and the evolutionary origin and function of the proteins
title_short Relationship between the tissue-specificity of mouse gene expression and the evolutionary origin and function of the proteins
title_sort relationship between the tissue-specificity of mouse gene expression and the evolutionary origin and function of the proteins
topic Research
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1175987/
https://www.ncbi.nlm.nih.gov/pubmed/15998445
http://dx.doi.org/10.1186/gb-2005-6-7-r56
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