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Nonrandom divergence of gene expression following gene and genome duplications in the flowering plant Arabidopsis thaliana
BACKGROUND: Genome analyses have revealed that gene duplication in plants is rampant. Furthermore, many of the duplicated genes seem to have been created through ancient genome-wide duplication events. Recently, we have shown that gene loss is strikingly different for large- and small-scale duplicat...
Autores principales: | , , , , |
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Formato: | Texto |
Lenguaje: | English |
Publicado: |
BioMed Central
2006
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1431724/ https://www.ncbi.nlm.nih.gov/pubmed/16507168 http://dx.doi.org/10.1186/gb-2006-7-2-r13 |
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author | Casneuf, Tineke De Bodt, Stefanie Raes, Jeroen Maere, Steven Van de Peer, Yves |
author_facet | Casneuf, Tineke De Bodt, Stefanie Raes, Jeroen Maere, Steven Van de Peer, Yves |
author_sort | Casneuf, Tineke |
collection | PubMed |
description | BACKGROUND: Genome analyses have revealed that gene duplication in plants is rampant. Furthermore, many of the duplicated genes seem to have been created through ancient genome-wide duplication events. Recently, we have shown that gene loss is strikingly different for large- and small-scale duplication events and highly biased towards the functional class to which a gene belongs. Here, we study the expression divergence of genes that were created during large- and small-scale gene duplication events by means of microarray data and investigate both the influence of the origin (mode of duplication) and the function of the duplicated genes on expression divergence. RESULTS: Duplicates that have been created by large-scale duplication events and that can still be found in duplicated segments have expression patterns that are more correlated than those that were created by small-scale duplications or those that no longer lie in duplicated segments. Moreover, the former tend to have highly redundant or overlapping expression patterns and are mostly expressed in the same tissues, while the latter show asymmetric divergence. In addition, a strong bias in divergence of gene expression was observed towards gene function and the biological process genes are involved in. CONCLUSION: By using microarray expression data for Arabidopsis thaliana, we show that the mode of duplication, the function of the genes involved, and the time since duplication play important roles in the divergence of gene expression and, therefore, in the functional divergence of genes after duplication. |
format | Text |
id | pubmed-1431724 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2006 |
publisher | BioMed Central |
record_format | MEDLINE/PubMed |
spelling | pubmed-14317242006-04-07 Nonrandom divergence of gene expression following gene and genome duplications in the flowering plant Arabidopsis thaliana Casneuf, Tineke De Bodt, Stefanie Raes, Jeroen Maere, Steven Van de Peer, Yves Genome Biol Research BACKGROUND: Genome analyses have revealed that gene duplication in plants is rampant. Furthermore, many of the duplicated genes seem to have been created through ancient genome-wide duplication events. Recently, we have shown that gene loss is strikingly different for large- and small-scale duplication events and highly biased towards the functional class to which a gene belongs. Here, we study the expression divergence of genes that were created during large- and small-scale gene duplication events by means of microarray data and investigate both the influence of the origin (mode of duplication) and the function of the duplicated genes on expression divergence. RESULTS: Duplicates that have been created by large-scale duplication events and that can still be found in duplicated segments have expression patterns that are more correlated than those that were created by small-scale duplications or those that no longer lie in duplicated segments. Moreover, the former tend to have highly redundant or overlapping expression patterns and are mostly expressed in the same tissues, while the latter show asymmetric divergence. In addition, a strong bias in divergence of gene expression was observed towards gene function and the biological process genes are involved in. CONCLUSION: By using microarray expression data for Arabidopsis thaliana, we show that the mode of duplication, the function of the genes involved, and the time since duplication play important roles in the divergence of gene expression and, therefore, in the functional divergence of genes after duplication. BioMed Central 2006 2006-02-20 /pmc/articles/PMC1431724/ /pubmed/16507168 http://dx.doi.org/10.1186/gb-2006-7-2-r13 Text en Copyright © 2006 Casneuf et al.; licensee BioMed Central Ltd. |
spellingShingle | Research Casneuf, Tineke De Bodt, Stefanie Raes, Jeroen Maere, Steven Van de Peer, Yves Nonrandom divergence of gene expression following gene and genome duplications in the flowering plant Arabidopsis thaliana |
title | Nonrandom divergence of gene expression following gene and genome duplications in the flowering plant Arabidopsis thaliana |
title_full | Nonrandom divergence of gene expression following gene and genome duplications in the flowering plant Arabidopsis thaliana |
title_fullStr | Nonrandom divergence of gene expression following gene and genome duplications in the flowering plant Arabidopsis thaliana |
title_full_unstemmed | Nonrandom divergence of gene expression following gene and genome duplications in the flowering plant Arabidopsis thaliana |
title_short | Nonrandom divergence of gene expression following gene and genome duplications in the flowering plant Arabidopsis thaliana |
title_sort | nonrandom divergence of gene expression following gene and genome duplications in the flowering plant arabidopsis thaliana |
topic | Research |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1431724/ https://www.ncbi.nlm.nih.gov/pubmed/16507168 http://dx.doi.org/10.1186/gb-2006-7-2-r13 |
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