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. 2022 Aug 30:13:982418.
doi: 10.3389/fgene.2022.982418. eCollection 2022.

A consensus map for quality traits in durum wheat based on genome-wide association studies and detection of ortho-meta QTL across cereal species

Ilaria Marcotuli  1 , Jose Miguel Soriano  2 , Agata Gadaleta  1
Affiliations

A consensus map for quality traits in durum wheat based on genome-wide association studies and detection of ortho-meta QTL across cereal species

Ilaria Marcotuli et al. Front Genet. .

Abstract

The present work focused on the identification of durum wheat QTL hotspots from a collection of genome-wide association studies, for quality traits, such as grain protein content and composition, yellow color, fiber, grain microelement content (iron, magnesium, potassium, selenium, sulfur, calcium, cadmium), kernel vitreousness, semolina, and dough quality test. For the first time a total of 10 GWAS studies, comprising 395 marker-trait associations (MTA) on 57 quality traits, with more than 1,500 genotypes from 9 association panels, were used to investigate consensus QTL hotspots representative of a wide durum wheat genetic variation. MTA were found distributed on all the A and B genomes chromosomes with minimum number of MTA observed on chromosome 5B (15) and a maximum of 45 on chromosome 7A, with an average of 28 MTA per chromosome. The MTA were equally distributed on A (48%) and B (52%) genomes and allowed the identification of 94 QTL hotspots. Synteny maps for QTL were also performed in Zea mays, Brachypodium, and Oryza sativa, and candidate gene identification allowed the association of genes involved in biological processes playing a major role in the control of quality traits.

Keywords: Brachypodium; candidate genes; grain quality; maize; rice; synteny.

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Conflict of interest statement

The authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest.

Figures

FIGURE 1
FIGURE 1
MTA statistics. (A) Number of MTA per chromosome. (B) Confidence interval from original MTA. (C) PVE from original MTA. (D) Percentage of QTL hotspots per bin in the genetic and physical maps.
FIGURE 2
FIGURE 2
QTL hotspots defined by the overview density index (red line). Blue boxes represent the projected MTAs on the durum wheat consensus map.
FIGURE 3
FIGURE 3
Synteny among genomes for the selected quality QTL hotspots. For better visualization of the chromosome links the size of the Brachypodium and rice chromosomes is multiplied by 10.
See this image and copyright information in PMC

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