New Sugarcane Microsatellites and Target Region Amplification Polymorphism Primers Designed from Candidate Genes Related to Disease Resistance

Sugar Tech ◽  
2016 ◽  
Vol 19 (2) ◽  
pp. 219-224 ◽  
Author(s):  
Fernanda R. C. dos Santos ◽  
Maria I. Zucchi ◽  
Jong-Won Park ◽  
Thiago R. Benatti ◽  
Jorge A. da Silva ◽  
...  
Keyword(s):  
Disease Resistance ◽  
Candidate Genes ◽  
Target Region ◽  
Target Region Amplification Polymorphism

scholarly journals Genome-Wide Association Study and QTL Mapping Reveal Genomic Loci Associated with Fusarium Ear Rot Resistance in Tropical Maize Germplasm

2016 ◽  
Vol 6 (12) ◽  
pp. 3803-3815 ◽  
Author(s):  
Jiafa Chen ◽  
Rosemary Shrestha ◽  
Junqiang Ding ◽  
Hongjian Zheng ◽  
Chunhua Mu ◽  
...  
Keyword(s):  
Disease Resistance ◽  
Association Study ◽  
Candidate Genes ◽  
Genome Wide Association Study ◽  
Physical Map ◽  
Genome Wide Association ◽  
Fusarium Ear Rot ◽  
Ear Rot ◽  
Tropical Maize ◽  
Genome Wide

Abstract Fusarium ear rot (FER) incited by Fusarium verticillioides is a major disease of maize that reduces grain quality globally. Host resistance is the most suitable strategy for managing the disease. We report the results of genome-wide association study (GWAS) to detect alleles associated with increased resistance to FER in a set of 818 tropical maize inbred lines evaluated in three environments. Association tests performed using 43,424 single-nucleotide polymorphic (SNPs) markers identified 45 SNPs and 15 haplotypes that were significantly associated with FER resistance. Each associated SNP locus had relatively small additive effects on disease resistance and accounted for 1–4% of trait variation. These SNPs and haplotypes were located within or adjacent to 38 candidate genes, 21 of which were candidate genes associated with plant tolerance to stresses, including disease resistance. Linkage mapping in four biparental populations to validate GWAS results identified 15 quantitative trait loci (QTL) associated with F. verticillioides resistance. Integration of GWAS and QTL to the maize physical map showed eight colocated loci on chromosomes 2, 3, 4, 5, 9, and 10. QTL on chromosomes 2 and 9 are new. These results reveal that FER resistance is a complex trait that is conditioned by multiple genes with minor effects. The value of selection on identified markers for improving FER resistance is limited; rather, selection to combine small effect resistance alleles combined with genomic selection for polygenic background for both the target and general adaptation traits might be fruitful for increasing FER resistance in maize.

scholarly journals Haplotype Block Analysis Reveals Candidate Genes and QTLs for Meat Quality and Disease Resistance in Chinese Jiangquhai Pig Breed

2020 ◽  
Vol 11 ◽  
Author(s):  
Favour Oluwapelumi Oyelami ◽  
Qingbo Zhao ◽  
Zhong Xu ◽  
Zhe Zhang ◽  
Hao Sun ◽  
...  
Keyword(s):  
Disease Resistance ◽  
Candidate Genes ◽  
Meat Quality ◽  
Haplotype Block

scholarly journals Potential Candidate Genes for Improving Rice Disease Resistance

Rice ◽  
2010 ◽  
Vol 3 (1) ◽  
pp. 56-71 ◽  
Author(s):  
Amandine Delteil ◽  
Jie Zhang ◽  
Philippe Lessard ◽  
Jean-Benoit Morel
Keyword(s):  
Disease Resistance ◽  
Candidate Genes ◽  
Potential Candidate ◽  
Rice Disease

scholarly journals Identification of candidate genes involved in Witches’ broom disease resistance in a segregating mapping population of Theobroma cacao L. in Brazil

BMC Genomics ◽  
2016 ◽  
Vol 17 (1) ◽  
Author(s):  
Stefan Royaert ◽  
Johannes Jansen ◽  
Daniela Viana da Silva ◽  
Samuel Martins de Jesus Branco ◽  
Donald S. Livingstone ◽  
...  
Keyword(s):  
Disease Resistance ◽  
Candidate Genes ◽  
Theobroma Cacao ◽  
Mapping Population ◽  
Broom Disease ◽  
Theobroma Cacao L

scholarly journals Genome-wide association of single nucleotide polymorphism loci and candidate genes for frogeye leaf spot (Cercospora sojina) resistance in soybean

2021 ◽  
Vol 21 (1) ◽  
Author(s):  
Xin Gu ◽  
Shanshan Huang ◽  
Zhiguo Zhu ◽  
Yansong Ma ◽  
Xiaohe Yang ◽  
...  
Keyword(s):  
Single Nucleotide Polymorphism ◽  
Disease Resistance ◽  
Candidate Genes ◽  
Genome Wide Association ◽  
Effective Strategy ◽  
Nucleotide Polymorphism ◽  
Single Nucleotide ◽  
Cercospora Sojina ◽  
Haplotype Blocks ◽  
Genome Wide

Abstract Background Frogeye leaf spot (FLS) is a destructive fungal disease that affects soybean production. The most economical and effective strategy to control FLS is the use of resistant cultivars. However, the use of a limited number of resistant loci in FLS management will be countered by the emergence of new high-virulence Cercospora sojina races. Therefore, we identified quantitative trait loci (QTL) that control resistance to FLS and identified novel resistant genes using a genome-wide association study (GWAS) on 234 Chinese soybean cultivars. Results A total of 30,890 single nucleotide polymorphism (SNP) markers were used to estimate linkage disequilibrium (LD) and population structure. The GWAS results showed four loci (p < 0.0001) distributed over chromosomes (Chr.) 5 and 20, that are significantly associated with FLS resistance. No previous studies have reported resistance loci in these regions. Subsequently, 45 genes in the two resistance-related haplotype blocks were annotated. Among them, Glyma20g31630 encoding pyruvate dehydrogenase (PDH), Glyma05g28980, which encodes mitogen-activated protein kinase 7 (MPK7), and Glyma20g31510, Glyma20g31520 encoding calcium-dependent protein kinase 4 (CDPK4) in the haplotype blocks deserves special attention. Conclusions This study showed that GWAS can be employed as an effective strategy for identifying disease resistance traits in soybean and narrowing SNPs and candidate genes. The prediction of candidate genes in the haplotype blocks identified by disease resistance loci can provide a useful reference to study systemic disease resistance.

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