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Functional Gene Polymorphism to Reveal Species History: The Case of the CRTISO Gene in Cultivated Carrots
- Source :
- PLoS ONE, Plos One 8 (8), . (2013), PLoS ONE, Public Library of Science, 2013, 8 (8), pp.e70801. ⟨10.1371/journal.pone.0070801⟩, PLoS ONE, 2013, 8 (8), pp.e70801. ⟨10.1371/journal.pone.0070801⟩, PLoS ONE, Vol 8, Iss 8, p e70801 (2013)
- Publication Year :
- 2013
- Publisher :
- Public Library of Science (PLoS), 2013.
-
Abstract
- International audience; BACKGROUND: Carrot is a vegetable cultivated worldwide for the consumption of its root. Historical data indicate that root colour has been differentially selected over time and according to geographical areas. Root pigmentation depends on the relative proportion of different carotenoids for the white, yellow, orange and red types but only internally for the purple one. The genetic control for root carotenoid content might be partially associated with carotenoid biosynthetic genes. Carotenoid isomerase (CRTISO) has emerged as a regulatory step in the carotenoid biosynthesis pathway and could be a good candidate to show how a metabolic pathway gene reflects a species genetic history. METHODOLOGY/PRINCIPAL FINDINGS: In this study, the nucleotide polymorphism and the linkage disequilibrium among the complete CRTISO sequence, and the deviation from neutral expectation were analysed by considering population subdivision revealed with 17 microsatellite markers. A sample of 39 accessions, which represented different geographical origins and root colours, was used. Cultivated carrot was divided into two genetic groups: one from Middle East and Asia (Eastern group), and another one mainly from Europe (Western group). The Western and Eastern genetic groups were suggested to be differentially affected by selection: a signature of balancing selection was detected within the first group whereas the second one showed no selection. A focus on orange-rooted carrots revealed that cultivars cultivated in Asia were mainly assigned to the Western group but showed CRTISO haplotypes common to Eastern carrots. CONCLUSION: The carotenoid pathway CRTISO gene data proved to be complementary to neutral markers in order to bring critical insight in the cultivated carrot history. We confirmed the occurrence of two migration events since domestication. Our results showed a European background in material from Japan and Central Asia. While confirming the introduction of European carrots in Japanese resources, the history of Central Asia material remains unclear.
- Subjects :
- 0106 biological sciences
Linkage disequilibrium
lcsh:Medicine
Population genetics
Plant Science
Plant Genetics
Balancing selection
01 natural sciences
Linkage Disequilibrium
Models
Vegetables
Cluster Analysis
lcsh:Science
Carotenoid
Plant Proteins
chemistry.chemical_classification
Genetics
0303 health sciences
education.field_of_study
Multidisciplinary
Plant Biochemistry
food and beverages
Agriculture
Single Nucleotide
Daucus carota
Microsatellite
Sequence Analysis
Research Article
cis-trans-Isomerases
Evolution
Genetic Speciation
Population
Crops
Biology
Genes, Plant
Polymorphism, Single Nucleotide
Evolution, Molecular
03 medical and health sciences
Genetic
Botany
Polymorphism
education
Domestication
030304 developmental biology
[SDV.GEN]Life Sciences [q-bio]/Genetics
Evolutionary Biology
Models, Genetic
lcsh:R
Haplotype
Molecular
Bayes Theorem
Plant
DNA
Sequence Analysis, DNA
Carotenoids
Agronomy
Biosynthetic Pathways
Plant Breeding
Genes
Haplotypes
chemistry
Neutral Theory
Genetic Polymorphism
lcsh:Q
Population Genetics
Microsatellite Repeats
010606 plant biology & botany
Subjects
Details
- ISSN :
- 19326203
- Volume :
- 8
- Database :
- OpenAIRE
- Journal :
- PLoS ONE
- Accession number :
- edsair.doi.dedup.....4ddda79afe9ce6f0412a1ccbb0e21b23
- Full Text :
- https://doi.org/10.1371/journal.pone.0070801