A genome-wide identification of chromosomal regions determining nitrogen use efficiency components in wheat (Triticum aestivum L.)

Cormier Fabien, Le Gouis Jacques, Dubreuil Pierre, Lafarge Stéphane, Praud Sébastien. 2014. A genome-wide identification of chromosomal regions determining nitrogen use efficiency components in wheat (Triticum aestivum L.). Theoretical and Applied Genetics, 127 (12) : 2679-2693.

Quartile : Outlier, Sujet : HORTICULTURE / Quartile : Q1, Sujet : AGRONOMY / Quartile : Q1, Sujet : PLANT SCIENCES / Quartile : Q2, Sujet : GENETICS & HEREDITY

Résumé : Improving nitrogen use efficiency is a key factor to sustainably ensure global production increase. However, while high-throughput screening methods remain at a developmental stage, genetic progress may be mainly driven by marker-assisted selection. The objective of this study was to identify chromosomal regions associated with nitrogen use efficiency-related traits in bread wheat (Triticum aestivum L.) using a genome-wide association approach. Two hundred and fourteen European elite varieties were characterised for 28 traits related to nitrogen use efficiency in eight environments in which two different nitrogen fertilisation levels were tested. The genome-wide association study was carried out using 23,603 SNP with a mixed model for taking into account parentage relationships among varieties. We identified 1,010 significantly associated SNP which defined 333 chromosomal regions associated with at least one trait and found colocalisations for 39 % of these chromosomal regions. A method based on linkage disequilibrium to define the associated region was suggested and discussed with reference to false positive rate. Through a network approach, colocalisations were analysed and highlighted the impact of genomic regions controlling nitrogen status at flowering, precocity, and nitrogen utilisation on global agronomic performance. We were able to explain 40 ± 10 % of the total genetic variation. Numerous colocalisations with previously published genomic regions were observed with such candidate genes as Ppd-D1, Rht-D1, NADH-Gogat, and GSe. We highlighted selection pressure on yield and nitrogen utilisation discussing allele frequencies in associated regions.

Classification Agris : F30 - Génétique et amélioration des plantes
F60 - Physiologie et biochimie végétale
F04 - Fertilisation

Champ stratégique Cirad : Axe 1 (2014-2018) - Agriculture écologiquement intensive

Auteurs et affiliations

• Cormier Fabien, Biogemma (FRA) ORCID: 0000-0002-7283-4616
• Le Gouis Jacques, INRA (FRA)
• Dubreuil Pierre, Biogemma (FRA)
• Lafarge Stéphane, Biogemma (FRA)
• Praud Sébastien, Biogemma (FRA)

Source : Cirad-Agritrop (https://agritrop.cirad.fr/587092/)

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