Citrus diversity analysis based on SNPs from genes of carotenoids, chlorophyll and sugar metabolic pathways

Santos M.A., Paula M.F.B. de, Rivallan Ronan, Ollitrault Frédérique, Luro François, Garcia Dominique, Ollitrault Patrick, Micheli Fabienne. 2016. Citrus diversity analysis based on SNPs from genes of carotenoids, chlorophyll and sugar metabolic pathways. In : Abstract book Sustainable citriculture: the role of applied knowledge. Mattos Dirceu (ed.), Fermino Carlos Eduardo (ed.), Moreira Novelli Valdenice (ed.), Alves de Azevedo Fernando (ed.), Della Coletta Filho Helvécio (ed.), Vicente Contador Zaccheo Paulo (ed.). IAC, IAPAR. Londrina : IAPAR, Résumé, p. 124. ISBN 978-85-88184-55-8 International Citrus Congress, Foz do Iguaçu, Brésil, 18 September 2016/23 September 2016.

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Abstract : In Citrus, the interspecific sexual compatibility, the easy hybridization and the existence of apomixis in many cultivars are factors that explain the large genetic diversity of the genera associated to a wide phenotypic diversity. However, the phylogenetic relationships are controversy for some groups as mandarins and pummelos. Strong phenotypic differences exist on coloration and acidity within these groups and represent important criteria for breeders as well as for fruit and juice market. In this context, the aim of this work was to identify SNPs by in silico analysis from 16, 3 and 19 genes of carotenoids, chlorophyll and sugar metabolic pathways, respectively, based on a comparison of 3 mandarins, 2 pummelos and 5 other Citrus varieties. From the 3,610 SNP markers previously identified, a GST analysis was performed and allowed the selection of 1,386 SNPs separating mandarin and pummelos genotypes. The SNP position (exon/intron) and the distance between two SNPs were parameters for selection of 145 SNPs, which were used in diversity analysis with KASPar chemistry on a larger population of 22 mandarins, 10 pummelos and 64 varieties of lemons, limes, grapefruits and clementines. We confirmed the efficiency of 83 SNPs in separating the mandarin and pummelos interspecific groups. Moreover, 33 SNPs separated genotypes within groups (intraspecificity). This study grave new information on genetic proximity of lemon, grapefruit and clementine varieties with mandarins and pummelos groups. (Texte intégral)

Classification Agris : F30 - Plant genetics and breeding
F60 - Plant physiology and biochemistry

Auteurs et affiliations

  • Santos M.A., UESC (BRA)
  • Paula M.F.B. de, UESC (BRA)
  • Rivallan Ronan, CIRAD-BIOS-UMR AGAP (FRA)
  • Ollitrault Frédérique
  • Luro François, INRA (FRA)
  • Garcia Dominique, CIRAD-BIOS-UMR AGAP (FRA)
  • Ollitrault Patrick, CIRAD-BIOS-UMR AGAP (GLP) ORCID: 0000-0002-9456-5517
  • Micheli Fabienne, CIRAD-BIOS-UMR AGAP (BRA)

Source : Cirad-Agritrop (

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