Identification of environmentally stable QTL for resistance against Leptosphaeria maculans in oilseed rape (Brassica napus)

Huang, Yongju; Jestin, Christophe; Welham, S. J.; King, Graham J.; Manzanares-Dauleux, Maria; Fitt, Bruce D.L.; Delourme, Régine

doi:10.1007/s00122-015-2620-z

Cited by 47 publications

(59 citation statements)

References 59 publications

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“…Several QTL responsible for quantitative resistance have been identified in B. napus cultivars (Huang et al, 2016;Jestin et al, 2011;Larkan et al, 2016;Raman et al, 2012b). We identified 106 RGA candidates and 688 SNPs within QTL regions associated with blackleg resistance.…”

Section: Discussionmentioning

confidence: 99%

Characterization of disease resistance genes in the Brassica napus pangenome reveals significant structural variation

Dolatabadian

Bayer

Tirnaz

et al. 2019

Plant Biotechnology Journal

101

104

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Summary Methods based on single nucleotide polymorphism (SNP), copy number variation (CNV) and presence/absence variation (PAV) discovery provide a valuable resource to study gene structure and evolution. However, as a result of these structural variations, a single reference genome is unable to cover the entire gene content of a species. Therefore, pangenomics analysis is needed to ensure that the genomic diversity within a species is fully represented. Brassica napus is one of the most important oilseed crops in the world and exhibits variability in its resistance genes across different cultivars. Here, we characterized resistance gene distribution across 50 B. napus lines. We identified a total of 1749 resistance gene analogs (RGAs), of which 996 are core and 753 are variable, 368 of which are not present in the reference genome (cv. Darmor‐bzh). In addition, a total of 15 318 SNPs were predicted within 1030 of the RGAs. The results showed that core R‐genes harbour more SNPs than variable genes. More nucleotide binding site‐leucine‐rich repeat (NBS‐LRR) genes were located in clusters than as singletons, with variable genes more likely to be found in clusters. We identified 106 RGA candidates linked to blackleg resistance quantitative trait locus (QTL). This study provides a better understanding of resistance genes to target for genomics‐based improvement and improved disease resistance.

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Section: Discussionmentioning

confidence: 99%

Characterization of disease resistance genes in the Brassica napus pangenome reveals significant structural variation

Dolatabadian

Bayer

Tirnaz

et al. 2019

Plant Biotechnology Journal

101

104

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“…QR is difficult to evaluate because it often relies on extensive field assessment (Fitt et al, 2006) and seems to vary in terms of effectiveness from year to year. It is possible that environmental factors, such as temperature, explain at least part of this variability (Huang et al, 2016). Elevated temperatures are thought to increase blackleg severity in canola carrying major-gene resistance.…”

Section: Introductionmentioning

confidence: 99%

Quantitative resistance against an isolate of Leptosphaeria maculans (blackleg) in selected Canadian canola cultivars remains effective under increased temperatures

Hubbard

Peng

2018

Plant Pathology

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Blackleg disease, caused by Leptosphaeria maculans, is a serious threat to canola production in western Canada. While specific major resistance (R) genes can be effective, they can also be eroded rapidly by a shift in pathogen race composition. Quantitative resistance (QR) has the potential to provide more durable, if less complete, protection. However, the effectiveness of QR may vary widely in the field. It has long been suspected that elevated temperatures may limit the expression of QR. To test this hypothesis, the infection development of blackleg was assessed on three common Canadian canola cultivars (74‐44 BL, PV 530 G and 45H29) showing QR, with and without a heat treatment of 7 h daily exposure to 32 °C for 1 week during rosette to early flowering under controlled environment conditions. The impact of elevated temperature on the susceptibility to blackleg was compared with that of a moderate temperature with a 22 °C daytime high. A susceptible cultivar, Westar, was used as a control. When data from both temperatures were pooled, all three QR cultivars showed lower blackleg severity relative to Westar. Elevated temperatures increased blackleg severity in Westar only (in terms of the stem‐lesion length from the inoculation of the first true‐leaf petiole in trials involving Westar and 74‐44 BL) and in pooled data for disease severity index in trials involving Westar, PV 530 G and 45H29. These findings suggest that the QR traits in 74‐44 BL, PV 530 G and 45H29 are useful for blackleg management in western Canada, especially under warmer growing conditions when plants are at the rosette to early flowering stages.

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“…In the future, as data will be continually obtained through QTL mapping analyses [46, 47], it will be possible to integrate the data from this study into further meta-analyses using this approach to provide a better understanding of complex traits for crop improvement. These data will provide an important theoretical and applied resource for studies on soybean genetics and genomics.…”

Section: Discussionmentioning

confidence: 99%

QTL Mapping and integration as well as candidate gene prediction for branch number in soybean

Yang

Yang²,

Bai³

et al. 2019

Preprint

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3Branch number is an important factor that affects crop plant architecture and yield in 4 soybean. With the aim of elucidating the genetic basis of branch number, we 5 identified 10 consensus quantitative trait loci (QTLs) through preliminary mapping, 6 which were on chromosome A1, B2, C1, C2, D1a, D1b, F, L and N, explained 7 0.3-33.3% of the phenotypic variance. Of these, three QTLs were identical to 8 previously identified ones, whereas the other seven were novel. In addition, one major 9 QTL-qBN.C2 (R 2 =33.3%) was detected in all three environments and another new 10 major QTL-qBN.N (R 2 =19.6%) was detected in two environments (Taiyuan 2017 and 11 Taiyuan 2018), but only in Taiyuan. Thus, the QTL × environment interaction 12 analysis confirmed that QTL-qBN.N was strongly affected by the environment. We 13 compared the physical positions of the QTL intervals of the candidate genes 14 potentially involved in branching development, and five orthologous genes were 15 ultimately selected and related to the establishment of axillae meristem organization 16 and lateral organs, qBN.A1 (SoyZH13_05G177000.m1), qBN.C2 17 (SoyZH13_06G176500.m1, SoyZH13_06G185600.m1), and qBN.D1b-1 18 (SoyZH13_02G035400.m1, SoyZH13_02G070000.m3). The results of our study 19 reveal a complex and relatively complete genetic architecture and can serve as a basis 20 for the positional gene cloning of branch number in soybean. 21 4 1 Introduction 2 Plant architecture is an extremely important role in plant yield, which can affect 3 light distribution in the canopy and photosynthesis. Modification of crop plant 4 architecture has been used to improve plant fitness and agricultural performance, and 5 these modifications are achieved through genetics and breeding [1-3]. Branching is a 6 major factor that affects plant architecture, together with plant height, main stem, leaf, 7 pod and others [2]. The number and distribution of branches determine the canopy 8 architecture, which influences light interception as well as lodging resistance and 9 ultimately seed yield [4]. Branch number is strongly dependent on aspects related to 10 the cultural practices and growth environment [5]. 11 Branch number is also the most complex trait and is very sensitive to the 12 environmental conditions. Because the environmental effects on branch number are so 13 prominent, there have been few studies on the genetics of this trait, although varietal 14 differences in branch number have been observed in the adaptation to row spacing in 15 accordance with its modest heritability observed in most studies [6, 7]. Two dominant 16 alleles at independent loci were found to be associated with a high-branch number 17 phenotype [8] but the loci and other genetic factors that determine branch number in 18 soybean remain unknown. However, branch number is difficult to improve efficiently 19by traditional breeding methods and the genetic and especially the molecular 20 mechanism involved in branch number in soybean are poorly understood. 21Previous studies have shown that b...

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Identification of environmentally stable QTL for resistance against Leptosphaeria maculans in oilseed rape (Brassica napus)

Cited by 47 publications

References 59 publications

Characterization of disease resistance genes in the Brassica napus pangenome reveals significant structural variation

Characterization of disease resistance genes in the Brassica napus pangenome reveals significant structural variation

Quantitative resistance against an isolate of Leptosphaeria maculans (blackleg) in selected Canadian canola cultivars remains effective under increased temperatures

QTL Mapping and integration as well as candidate gene prediction for branch number in soybean

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