Homeologous Gene Expression in Response to Growing Temperature in a Recent Allopolyploid (Coffea arabica L.) (original) (raw)

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From the Institut de Recherche pour le Développement (IRD), UMR RPB (IRD, Centre de coopération Internationale en Recherche Agronomique pour le Développement [CIRAD] Université Montpellier II), BP 64501, 34394 Montpellier Cédex 5, France (Combes, Cenci, Baraille, and Lashermes); and the CIRAD, UMR RPB (IRD, CIRAD, Université Montpellier II), BP 64501, 34394 Montpellier Cédex 5, Montpellier, France (Bertrand)

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From the Institut de Recherche pour le Développement (IRD), UMR RPB (IRD, Centre de coopération Internationale en Recherche Agronomique pour le Développement [CIRAD] Université Montpellier II), BP 64501, 34394 Montpellier Cédex 5, France (Combes, Cenci, Baraille, and Lashermes); and the CIRAD, UMR RPB (IRD, CIRAD, Université Montpellier II), BP 64501, 34394 Montpellier Cédex 5, Montpellier, France (Bertrand)

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From the Institut de Recherche pour le Développement (IRD), UMR RPB (IRD, Centre de coopération Internationale en Recherche Agronomique pour le Développement [CIRAD] Université Montpellier II), BP 64501, 34394 Montpellier Cédex 5, France (Combes, Cenci, Baraille, and Lashermes); and the CIRAD, UMR RPB (IRD, CIRAD, Université Montpellier II), BP 64501, 34394 Montpellier Cédex 5, Montpellier, France (Bertrand)

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From the Institut de Recherche pour le Développement (IRD), UMR RPB (IRD, Centre de coopération Internationale en Recherche Agronomique pour le Développement [CIRAD] Université Montpellier II), BP 64501, 34394 Montpellier Cédex 5, France (Combes, Cenci, Baraille, and Lashermes); and the CIRAD, UMR RPB (IRD, CIRAD, Université Montpellier II), BP 64501, 34394 Montpellier Cédex 5, Montpellier, France (Bertrand)

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From the Institut de Recherche pour le Développement (IRD), UMR RPB (IRD, Centre de coopération Internationale en Recherche Agronomique pour le Développement [CIRAD] Université Montpellier II), BP 64501, 34394 Montpellier Cédex 5, France (Combes, Cenci, Baraille, and Lashermes); and the CIRAD, UMR RPB (IRD, CIRAD, Université Montpellier II), BP 64501, 34394 Montpellier Cédex 5, Montpellier, France (Bertrand)

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Revision received:

21 September 2011

Accepted:

30 September 2011

Published:

29 October 2011

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Marie-Christine Combes, Alberto Cenci, Hélène Baraille, Benoît Bertrand, Philippe Lashermes, Homeologous Gene Expression in Response to Growing Temperature in a Recent Allopolyploid (Coffea arabica L.), Journal of Heredity, Volume 103, Issue 1, January-February 2012, Pages 36–46, https://doi.org/10.1093/jhered/esr120
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Abstract

Allopolyploidy is considered as a major factor contributing to speciation, diversification, and plant ecological adaptation. In particular, the expression of duplicate genes (homeologs) can be altered leading to functional plasticity and to phenotypic novelty. This study investigated the influence of growing temperatures on homeologous gene expression in Coffea arabica L., a recent allopolyploid involving 2 closely related diploid parental species. The relative expression of homeologs of 13 genes all located in the same genomic region was analyzed using an SNP ratio quantification method based on dideoxy-terminated sequences of cDNA amplicons. The relative expression of homeologous genes varied depending on the gene, the organ, and the growing condition. Nevertheless, expression of both homeologs was always detected (i.e., no silencing). Although the growing conditions were suitable for one or other of the parental species, neither subgenome appeared preferentially expressed. Furthermore, relative homeologous expression showed moderate variations across organs and conditions and appeared uncorrelated between adjacent genes. These results indicate the absence of signs of subfunctionalization suggesting C. arabica has not undergone noticeable diploidization. Furthermore, these results suggest that the expression of homeologous genes in C. arabica is regulated by a shared _trans_-regulation mechanism acting similarly on the 2 subgenomes and that the observed biases in the relative homeolog expression may result from cis fine-scale factors.

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