QTL mapping for adult plant field resistance to stripe rust in the AAC Cameron/P2711 spring wheat population

Farzand, Momna; Dhariwal, Raman; Hiebert, Colin W.; Spaner, Dean; Randhawa, H. S.

doi:10.1002/csc2.20741

Cited by 11 publications

(22 citation statements)

References 81 publications

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“…F 1s produced from ‘Sadash/P2711’ and ‘AAC Innova/P2711’ crosses were used for doubled haploid production using the wheat-maize pollination technique ( Suenaga and Nakajima, 1989 ) at the Agriculture and Agri-Food Canada (AAFC), Lethbridge Research and Development Centre (LeRDC), Lethbridge, AB, Canada. F 1s produced from the ‘AAC Cameron/P2711’ cross were used to produce the RIL population as described earlier ( Farzand et al., 2022 ). The numbers of recombinant lines produced from these three crosses were 180 (‘Sadash/P2711’), 374 (‘AAC Innova/P2711’), and 252 (‘AAC Cameron/P2711’).…”

Section: Methodsmentioning

confidence: 99%

“…For this study, we developed two doubled haploid (DH) populations and one recombinant inbred line (RIL) population from Canadian common wheat cvs. Sadash ( Sadasivaiah et al., 2009 ), ‘AAC Innova’ ( Randhawa et al., 2015 ) and ‘AAC Cameron’ ( Fox et al., 2016 ), each crossed with P2711 ( Farzand et al., 2022 ). The objectives of this study were to identify secondary QTLs and their markers for stem-solidness from P2711 that would enhance the effect of the primary QTL and compare identified QTLs with the ones reported previously.…”

Section: Introductionmentioning

confidence: 99%

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QTL analysis identified two major all-internodes solidness loci from a completely solid-stemmed spring wheat line

2022

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The culms of solid-stemmed wheat cultivars are filled with “pith” – a parenchymatous tissue largely composed of soft, spongy, and compact parenchyma cells. Breeding solid-stemmed cultivars is the most effective way to decrease the detrimental impact of wheat stem sawfly (WSS), Cephus cinctus Norton (Hymenoptera: Cephidae) on wheat production. Although a major solid stem gene has been previously identified from durum wheat, it produces an intermediate level of stem solidness in common wheat which is insufficient to provide the required level of WSS resistance. The maximum resistance is achieved when stems are totally filled with pith. Thus, to identify a secondary source of solidness in common wheat, we developed three mapping populations from wheat cvs. Sadash, ‘AAC Innova’ and ‘AAC Cameron’, each crossed separately with P2711, a completely solid-stemmed hexaploid wheat breeding line. All populations were genotyped using either wheat 15K or 90K Infinium iSelect SNP Assay and high-density linkage maps were generated from individual populations along with consensus maps for chromosomes 3B and 3D from all populations. ‘Sadash/P2711’ and ‘AAC Innova/P2711’ populations were subjected to extensive phenotyping in ≥3 environments followed by quantitative trait loci (QTL) analyses using population-specific and consensus linkage maps. We identified two major solid stem QTLs in the distal regions of chromosome arms 3BL and 3DL in both populations in addition to several population-specific or common minor QTLs. Internode-specific QTL analyses detected both major QTLs of chromosomes 3B and 3D across internodes, from top to bottom of the stalk, but minor QTLs were largely detected in upper or middle internodes. Our results suggest that both major QTLs are sufficient to develop highly solid-stemmed cvs; however, the minor loci, which additively enhance the pith expression, can be coupled with major genes to achieve a complete solid stem phenotype in common wheat. Comparative and haplotype analyses showed that the 3B locus is homoeologous to 3D, the former being mapped to a 1.1 Mb genomic region. Major QTLs identified in this study can be incorporated in modern wheat cultivars to achieve maximum WSS resistance from high pith expression.

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Section: Methodsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

QTL analysis identified two major all-internodes solidness loci from a completely solid-stemmed spring wheat line

2022

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“…The present study was conducted on six Canadian spring wheat populations (Table S4) that consisted of an association mapping (diversity) panel of 196 historical and modern spring wheat varieties and unregistered lines [53], 208 RILs derived from the cross Peace/Carberry [54], 167 RILs derived from Attila/CDC Go [55], 153 RILs from Peace/CDC Stanley [56], 190 RILs from AAC Cameron/P2711 [57], and 190 DH lines from AAC Innova/AAC Proclaim [58]. The RILs were advanced to F 6 using the single seed descent method, while the DH lines were developed from F 1 s at the Agriculture and Agri-Food Canada (AAFC) Research and Development Center in Lethbridge, AB, CA, using the wheat-maize hybridization method [59].…”

Section: Phenotyping and Genotypingmentioning

confidence: 99%

“…The AAC Innova/AAC Proclaim DH population, the two parents, and checks were evaluated at five environments using a randomized complete block design with two replications both near Creston and the Lethbridge RDC in 2016 and 2020, and without replication at the Lethbridge RDC in 2017 [58]. The AAC Cameron/P2711 RIL population, the two parents, and checks were evaluated at five environments using a randomized complete block design with two replications both near Creston and the Lethbridge RDC in 2020, and without replication both at the Lethbridge RDC in 2018 and Crescent in 2018 and 2019 [57]. In both the AAC Innova/AAC Proclaim and AAC Cameron/P2711 populations, each line was planted in a 1-m-long row with a spacing of 25 cm between plants.…”

Section: Phenotyping and Genotypingmentioning

confidence: 99%

“…The Peace/Carberry population was genotyped with a total of 36,626 markers (22,741 SilicoDArT markers with present/absent variation and 13,885 SNPs) using the DArTseq technology (https://www.diversityarrays.com (accessed on 28 June 2022)), Canberra, Australia. Both the AAC Innova/AAC Proclaim and AAC Cameron/P2711 populations were genotyped with the Wheat 90 K iSelect SNPs array using the Agriculture and Agri-Food Canada's (AAFC) facility at the Modern Research and Development Center [57,58]. In the diversity panel, we retained SNPs with minor allele frequencies of > 5% and a missing data point of <20%.…”

Section: Phenotyping and Genotypingmentioning

confidence: 99%

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Genomic Prediction Accuracy of Stripe Rust in Six Spring Wheat Populations by Modeling Genotype by Environment Interaction

Semagn

Iqbal

Jarquín

et al. 2022

Plants

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Some previous studies have assessed the predictive ability of genome-wide selection on stripe (yellow) rust resistance in wheat, but the effect of genotype by environment interaction (GEI) in prediction accuracies has not been well studied in diverse genetic backgrounds. Here, we compared the predictive ability of a model based on phenotypic data only (M1), the main effect of phenotype and molecular markers (M2), and a model that incorporated GEI (M3) using three cross-validations (CV1, CV2, and CV0) scenarios of interest to breeders in six spring wheat populations. Each population was evaluated at three to eight field nurseries and genotyped with either the DArTseq technology or the wheat 90K single nucleotide polymorphism arrays, of which a subset of 1,058- 23,795 polymorphic markers were used for the analyses. In the CV1 scenario, the mean prediction accuracies of the M1, M2, and M3 models across the six populations varied from −0.11 to −0.07, from 0.22 to 0.49, and from 0.19 to 0.48, respectively. Mean accuracies obtained using the M3 model in the CV1 scenario were significantly greater than the M2 model in two populations, the same in three populations, and smaller in one population. In both the CV2 and CV0 scenarios, the mean prediction accuracies of the three models varied from 0.53 to 0.84 and were not significantly different in all populations, except the Attila/CDC Go in the CV2, where the M3 model gave greater accuracy than both the M1 and M2 models. Overall, the M3 model increased prediction accuracies in some populations by up to 12.4% and decreased accuracy in others by up to 17.4%, demonstrating inconsistent results among genetic backgrounds that require considering each population separately. This is the first comprehensive genome-wide prediction study that investigated details of the effect of GEI on stripe rust resistance across diverse spring wheat populations.

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Identification and characterization of stripe rust, leaf rust, leaf spot, and common bunt resistance in spring wheat

et al. 2023

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Hundreds of quantitative trait loci (QTLs) have been reported in diverse types of hexaploid wheat (Triticum aestivum L.) populations, but direct comparisons of QTLs in different studies and populations are still challenging due to the lack of physical positions for most QTLs. Here, we used the International Wheat Genome Sequencing Consortium (IWGSC) RefSeq v2.0 physical map of all markers to map QTLs associated with leaf spot (Ls), leaf rust (Lr), stripe rust (Yr), and common bunt (Cbt) resistance in two recombinant inbred line populations. QTL mapping was conducted using the IWGSC physical map of 3158 and 5732 markers and disease severity data of Peace/Carberry and Attila/CDC Go populations evaluated in three to eight environments. We uncovered a total of 82 QTLs associated with Yr (36), Ls (18), Lr (15), and Cbt (13) resistance in the individual and overall means of all combined environments. Among them, 29 were associated with all combined environments, which accounted for 0.5%–20.9% individually and 12.4%–41.2% of the total disease severity per trait. Three (QLr.dms‐2D.2, QLs.dms‐5B, and QYr.dms‐5B.2) of the 29 QTLs were common in both populations. Fourteen out of the 29 QTLs were stable as they were identified both in the overall means and most of the individual environments. Ten chromosome arms harbored a cluster of QTLs associated with resistance to two to four diseases. This methodology would serve as one of the resources to compare QTLs identified in different populations and studies based on the improved physical information of all markers instead of population‐specific and consensus linkage maps.

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QTL mapping for adult plant field resistance to stripe rust in the AAC Cameron/P2711 spring wheat population

Cited by 11 publications

References 81 publications

QTL analysis identified two major all-internodes solidness loci from a completely solid-stemmed spring wheat line

QTL analysis identified two major all-internodes solidness loci from a completely solid-stemmed spring wheat line

Genomic Prediction Accuracy of Stripe Rust in Six Spring Wheat Populations by Modeling Genotype by Environment Interaction

Identification and characterization of stripe rust, leaf rust, leaf spot, and common bunt resistance in spring wheat

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