Population transcriptomics of life-history variation in the genus Salmo

Autor: Alexis Champigneulle, Ursula Amstutz, Thomas Giger, Carlo R. Largiadèr, Janet Kelso, Michael Møller Hansen, Laurent Excoffier, Philip J. R. Day
Přispěvatelé: University of Bern, Max Planck Institute for Evolutionary Anthropology [Leipzig], Max-Planck-Gesellschaft, Universität Bern- University of Bern [Bern], Partenaires INRAE, University of Manchester [Manchester], Centre Alpin de Recherche sur les Réseaux Trophiques et Ecosystèmes Limniques (CARRTEL), Institut National de la Recherche Agronomique (INRA)-Université Savoie Mont Blanc (USMB [Université de Savoie] [Université de Chambéry]), Danish Institutes for Fisheries Research
Jazyk: angličtina
Rok vydání: 2008
Předmět:
0106 biological sciences
Candidate gene
GENE EXPRESSION
Trout
Denmark
Population
Biology
010603 evolutionary biology
01 natural sciences
03 medical and health sciences
Brown trout
Salmon
Complementary DNA
Genetics
Animals
[SDV.BBM]Life Sciences [q-bio]/Biochemistry
Molecular Biology
14. Life underwater
Salmo
education
Gene
Ecology
Evolution
Behavior and Systematics
ComputingMilieux_MISCELLANEOUS
Oligonucleotide Array Sequence Analysis
030304 developmental biology
Life Cycle Stages
0303 health sciences
education.field_of_study
Geography
POPULATION TRANSCRIPTONIC SALMONIDS
EXPRESSION DU GENE
Gene Expression Profiling
LIFE HISTORY
Discriminant Analysis
Gene Expression Regulation
Developmental
biology.organism_classification
Phenotype
Genetics
Population
Gene chip analysis
France
cDNA MICROARRAY
Salmonidae
Zdroj: Molecular Ecology
Molecular Ecology, Wiley, 2008, 17 (13), pp.3095-3108. ⟨10.1111/j.1365-294X.2008.03820.x⟩
Aarhus University
ISSN: 0962-1083
1365-294X
DOI: 10.1111/j.1365-294X.2008.03820.x⟩
Popis: In this study, we demonstrate the power of applying complementary DNA (cDNA) microarray technology to identifying candidate loci that exhibit subtle differences in expression levels associated with a complex trait in natural populations of a nonmodel organism. Using a highly replicated experimental design involving 180 cDNA microarray experiments, we measured gene-expression levels from 1098 transcript probes in 90 individuals originating from six brown trout (Salmo trutta) and one Atlantic salmon (Salmo salar) population, which follow either a migratory or a sedentary life history. We identified several candidate genes associated with preparatory adaptations to different life histories in salmonids, including genes encoding for transaldolase 1, constitutive heat-shock protein HSC70-1 and endozepine. Some of these genes clustered into functional groups, providing insight into the physiological pathways potentially involved in the expression of life-history related phenotypic differences. Such differences included the down-regulation of genes involved in the respiratory system of future migratory individuals. In addition, we used linear discriminant analysis to identify a set of 12 genes that correctly classified immature individuals as migratory or sedentary with high accuracy. Using the expression levels of these 12 genes, 17 out of 18 individuals used for cross-validation were correctly assigned to their respective life-history phenotype. Finally, we found various candidate genes associated with physiological changes that are likely to be involved in preadaptations to seawater in anadromous populations of the genus Salmo, one of which was identified to encode for nucleophosmin 1. Our findings thus provide new molecular insights into salmonid life-history variation, opening new perspectives in the study of this complex trait.
Databáze: OpenAIRE
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