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Identification of nitrogen consumption genetic variants in yeast through QTL mapping and bulk segregant RNA-Seq analyses

Cubillos Francisco A., Brice Claire, Molinet Jennifer, Tisne Sébastien, Abarca Valentina, Tapia Sebastián, Oporto Christian, García Verónica, Liti Gianni, Martínez Claudio. 2017. Identification of nitrogen consumption genetic variants in yeast through QTL mapping and bulk segregant RNA-Seq analyses. G3 - Genes Genomes Genetics, 7 (6) : pp. 1693-1705.

Journal article ; Article de recherche ; Article de revue à facteur d'impact Revue en libre accès total
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Quartile : Q2, Sujet : GENETICS & HEREDITY

Abstract : Saccharomyces cerevisiae is responsible for wine must fermentation. In this process, nitrogen represents a limiting nutrient and its scarcity results in important economic losses for the wine industry. Yeast isolates use different strategies to grow in poor nitrogen environments and their genomic plasticity enables adaptation to multiple habitats through improvements in nitrogen consumption. Here, we used a highly recombinant S. cerevisiae multi-parent population (SGRP-4X) derived from the intercross of four parental strains of different origins to identify new genetic variants responsible for nitrogen consumption differences during wine fermentation. Analysis of 165 fully sequenced F12 segregants allowed us to map 26 QTL in narrow intervals for 14 amino acid sources and ammonium, the majority of which represent genomic regions previously unmapped for these traits. To complement this strategy, we performed Bulk segregant RNA-seq (BSR-seq) analysis in segregants exhibiting extremely high and low ammonium consumption levels. This identified several QTL overlapping differentially expressed genes and refined the gene candidate search. Based on these approaches, we were able to validate ARO1, PDC1, CPS1, ASI2, LYP1, and ALP1 allelic variants underlying nitrogen consumption differences between strains, providing evidence of many genes with small phenotypic effects. Altogether, these variants significantly shape yeast nitrogen consumption with important implications for evolution, ecological, and quantitative genomics.

Mots-clés géographiques Agrovoc : Amérique du Nord, Afrique occidentale

Classification Agris : Q02 - Food processing and preservation
000 - Autres thèmes

Champ stratégique Cirad : Axe 3 (2014-2018) - Alimentation durable

Auteurs et affiliations

  • Cubillos Francisco A., Universidad de Santiago de Chile (CHL)
  • Brice Claire, Universidad de Santiago de Chile (CHL)
  • Molinet Jennifer, Universidad de Santiago de Chile (CHL)
  • Tisne Sébastien, CIRAD-BIOS-UMR AGAP (FRA)
  • Abarca Valentina, Universidad de Santiago de Chile (CHL)
  • Tapia Sebastián, Universidad de Santiago de Chile (CHL)
  • Oporto Christian, Universidad de Santiago de Chile (CHL)
  • García Verónica, Universidad de Santiago de Chile (CHL)
  • Liti Gianni, Université de Nice (FRA)
  • Martínez Claudio, Universidad de Santiago de Chile (CHL) - auteur correspondant

Source : Cirad-Agritrop (https://agritrop.cirad.fr/589812/)

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