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

2011 ◽  
Vol 43 (2) ◽  
pp. 163-168 ◽  
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

scholarly journals Genome-wide association study and transcriptome analysis discover new genes for bacterial leaf blight resistance in rice (Oryza sativa L.)

2021 ◽  
Vol 21 (1) ◽  
Author(s):  
Xinyue Shu ◽  
Aijun Wang ◽  
Bo Jiang ◽  
Yuqi Jiang ◽  
Xing Xiang ◽  
...  
Keyword(s):  
Oryza Sativa ◽  
Association Study ◽  
Transcriptome Analysis ◽  
Genome Wide Association Study ◽  
Leaf Blight ◽  
Genome Wide Association ◽  
Bacterial Leaf Blight ◽  
Significant Differential Expression ◽  
Genome Wide ◽  
A Genome

Abstract Background Rice (Oryza sativa) bacterial leaf blight (BLB), caused by the hemibiotrophic Xanthomonas oryzae pv. oryzae (Xoo), is one of the most devastating diseases affecting the production of rice worldwide. The development and use of resistant rice varieties or genes is currently the most effective strategy to control BLB. Results Here, we used 259 rice accessions, which are genotyped with 2 888 332 high-confidence single nucleotide polymorphisms (SNPs). Combining resistance variation data of 259 rice lines for two Xoo races observed in 2 years, we conducted a genome-wide association study (GWAS) to identify quantitative trait loci (QTL) conferring plant resistance against BLB. The expression levels of genes, which contains in GWAS results were also identified between the resistant and susceptible rice lines by transcriptome analysis at four time points after pathogen inoculation. From that 109 candidate resistance genes showing significant differential expression between resistant and susceptible rice lines were uncovered. Furthermore, the haplotype block structure analysis predicted 58 candidate genes for BLB resistance based on Chr. 7_707158 with a minimum P-value (–log 10 P = 9.72). Among them, two NLR protein-encoding genes, LOC_Os07g02560 and LOC_Os07g02570, exhibited significantly high expression in the resistant line, but had low expression in the susceptible line of rice. Conclusions Together, our results reveal novel BLB resistance gene resources, and provide important genetic basis for BLB resistance breeding of rice crops.

scholarly journals Genome-wide association study of carbon and nitrogen metabolism in the maize nested association mapping population

2014 ◽  
Author(s):  
Nengyi Zhang ◽  
Yves Gibon ◽  
Nicholas Lepak ◽  
Pinghua Li ◽  
Lauren Dedow ◽  
...  
Keyword(s):  
Association Mapping ◽  
Natural Variation ◽  
Genome Wide Association Study ◽  
Mapping Population ◽  
Single Gene ◽  
Nested Association Mapping ◽  
Diverse Field ◽  
C And N ◽  
Nested Association Mapping Population ◽  
Association Mapping Population

Carbon (C) and nitrogen (N) metabolism are critical to plant growth and development and at the basis of yield and adaptation. We have applied high throughput metabolite analyses to over 12,000 diverse field grown samples from the maize nested association mapping population. This allowed us to identify natural variation controlling the levels of twelve key C and N metabolites, often with single gene resolution. In addition to expected genes like invertases, critical natural variation was identified in key C4 metabolism genes like carbonic anhydrases and a malate transporter. Unlike prior maize studies, extensive pleiotropy was found for C and N metabolites. This integration of field-derived metabolite data with powerful mapping and genomics resources allows dissection of key metabolic pathways, providing avenues for future genetic improvement.

Sign in / Sign up

Export Citation Format

Share Document