Genome-wide association mapping reveals novel sources of resistance to northern corn leaf blight in maize

AbstractNorthern Corn Leaf Blight (NCLB) caused by Setosphaeria turcica, is one of the most important diseases of maize world-wide, and one of the major reasons behind yield losses in maize crop in Asia. In the present investigation, a high-resolution genome wide association study (GWAS) was conducted for NCLB resistance in three association mapping panels, predominantly consisting of tropical lines adapted to different agro-ecologies. These panels were phenotyped for disease severity across three locations with high disease prevalence in India. High density SNPs from Genotyping-by-sequencing were used in GWAS, after controlling for population structure and kinship matrices, based on single locus mixed linear model (MLM). Twenty-two SNPs were identified, that revealed a significant association with NCLB in the three mapping panels. Haplotype regression analysis revealed association of 17 significant haplotypes at FDR ≤ 0.05, with two common haplotypes across three maize panels. Several of the significantly associated SNPs/haplotypes were found to be co-located in chromosomal bins previously reported for major genes like Ht2, Ht3 and Htn1 and QTL for NCLB resistance and multiple foliar disease resistance. Phenotypic variance explained by these significant SNPs/haplotypes ranged from low to moderate, suggesting a breeding strategy of combining multiple resistance alleles towards resistance for NCLB.

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Preliminary genome-wide association mapping of rice bacterial leaf blight resistance loci using major Korean races of Xoo (Xanthomonas oryzae)

Plant Omics ◽

10.21475/poj.10.02.17.pne400 ◽

2017 ◽

Vol 10 (02) ◽

pp. 97-106

Author(s):

Asjad Ali ◽

◽

Do Yoon-Hyun ◽

Tae-Hwan Noh ◽

Yu-Mi Choi ◽

...

Keyword(s):

Association Mapping ◽

Leaf Blight ◽

Xanthomonas Oryzae ◽

Genome Wide Association ◽

Bacterial Leaf Blight ◽

Blight Resistance ◽

Genome Wide

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Genome-wide association study of quantitative resistance to southern leaf blight in the maize nested association mapping population

Nature Genetics ◽

10.1038/ng.747 ◽

2011 ◽

Vol 43 (2) ◽

pp. 163-168 ◽

Cited By ~ 371

Author(s):

Kristen L Kump ◽

Peter J Bradbury ◽

Randall J Wisser ◽

Edward S Buckler ◽

Araby R Belcher ◽

...

Keyword(s):

Association Mapping ◽

Association Study ◽

Genome Wide Association Study ◽

Mapping Population ◽

Quantitative Resistance ◽

Leaf Blight ◽

Genome Wide Association ◽

Nested Association Mapping ◽

Genome Wide ◽

Association Mapping Population

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Faculty Opinions recommendation of Genome-wide association study of quantitative resistance to southern leaf blight in the maize nested association mapping population.

Faculty Opinions – Post-Publication Peer Review of the Biomedical Literature ◽

10.3410/f.8524957.9005054 ◽

2011 ◽

Author(s):

Jiming Jiang ◽

Robert Stupar

Keyword(s):

Association Mapping ◽

Association Study ◽

Genome Wide Association Study ◽

Mapping Population ◽

Quantitative Resistance ◽

Leaf Blight ◽

Genome Wide Association ◽

Nested Association Mapping ◽

Genome Wide ◽

Association Mapping Population

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Identification of new QTLs for resistance to Plasmodiophora brassicae in Brassica napus using genome wide association mapping

10.21203/rs.2.14300/v1 ◽

2019 ◽

Author(s):

Abdulsalam Dakouri ◽

Mebarek Lamara ◽

Md. Masud Karim ◽

Jinghe Wang ◽

Qilin Chen ◽

...

Keyword(s):

Brassica Napus ◽

Association Mapping ◽

Resistance Genes ◽

Plasmodiophora Brassicae ◽

Snp Markers ◽

Genome Wide Association ◽

Sources Of Resistance ◽

Genome Wide ◽

Population Structure Analysis ◽

A Genome

Abstract Background Clubroot of canola ( Brassica napus ), caused by the obligate pathogen Plasmodiophora brassicae Woronin, is a major disease worldwide. Genetic resistance remains the best strategy to manage this disease. The objective of the study was to identify and map new sources of resistance to clubroot in B. napus using genome-wide association mapping. The reaction of a collection of 177 accessions to four highly virulent pathotypes of P. brassicae was assessed. These pathotypes were selected because they were most recently identified and showed different virulence patterns on the Canadian clubroot differential (CCD) lines. The collection was then genotyped using genotyping by sequencing (GBS) method. Multi-locus mixed linear model (MMLM) was used to perform the association analysis. Results The majority of accessions were highly susceptible (70 –100 DSI), while few individual accessions showed strong resistance (0–20 DSI) to 5X (2 accessions), 2B (7 accessions), 3A (8 accessions) and 3D (15 accessions). In total, 301,753 SNPs were mapped to 19 chromosomes. Population structure analysis indicated that the 177 accessions belong to two major populations. SNPs were associated with resistance to each pathotype using MLMM. In total, 23 significant SNP loci were identified, with 14 SNPs mapped to the A-genome and 9 to the C-genome. The SNPs were associated with resistance to pathotypes 5X (4 SNPs), 2B (9), 3A (5) and 3D (5). A blast search of 2 Mb upstream and downstream identified 61 disease resistance genes, of which 24 belonged to TIR-NBS-LRR proteins and 20 belonged to CC-NBS-LRR proteins. The distance between a SNP locus and the nearest resistance genes ranged from 0.11–1.66 Mb. This indicated that NBS-LRR gene family might have an important role in clubroot resistance in B. napus . Conclusion The resistant B. napus lines and the SNP markers identified in this study can be used for breeding for resistance to clubroot and contribute to understanding the genetic mechanism of resistance to clubroot.

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