Identification of significant single nucleotide polymorphisms for resistance to maize rough dwarf disease in elite maize (Zea mays L.) inbred lines

Abstract

Maize rough dwarf disease (MRDD) is a devastating viral disease that causes considerable yield losses in maize worldwide. Identifying quantitative trait loci underlying resistance to MRDD is important for genetic improvement of maize. In this study, 184 elite maize inbred lines from modern breeding programs were evaluated in three years to identify QTLs for MRDD resistance using 3072 single-nucleotide polymorphisms (SNPs) via genome-wide association analysis. The analysis revealed abundant phenotypic diversity in the studied population. All tested maize inbred lines were divided into two subpopulations based on a Bayesian model, and the linkage disequilibrium (LD) level differed among chromosomes, with an intra-chromosomal average of 1,000-1,500 kb. After correction for multiple testing, 21 SNPs were identified for MRDD resistance in different years as well as for BLUPs (the best linear unbiased predictions) of MRDD resistance based on the MLM model, one SNP of PZE-101245575 was stably possessed the most promising association. Several SNPs were located in or close to previously reported quantitative trait loci for MRDD resistance. The significant SNPs identified in this study will be helpful for further understanding the genetic basis of MRDD resistance, and might facilitate the pyramiding of favorable alleles for high resistance to MRDD in future marker-assisted selection schemes in maize.

Quantitative Trait loci (QTL) Identification for Resistance to Mal de Rio Cuarto Virus (MRCV) in Maize Based on Segregate Population

“…By comparing the present results against those previously reported in a late selfing generation [12], it was possible to observe that a QTL associated with INC and SEV was detected in the same genomic regions (bin 8.08), in both early and late generations. On bin 10.03, where a QTL-MRC linked to marker bnlg640 for DSI was mapped, a QTL conferring resistance to maize chlorotic dwarf virus was previously identified [24]. The agreement of findings between these mapping populations may be considered an indication of the existence of these QTL and may encourage the undertaking of further research on these regions.…”

“…Plants have developed a wide range of methodologies to cope with the invading pathogens causing diseases [8]. Most complex traits, as MRC in maize and other viral diseases; are controlled by polygenes or QTL with small individual effects [12,24,25]. Therefore the combination of several quantita-tive resistance genes is necessary to achieve a high level of resistance in a genotype [26].…”

Identification of Genetic Differentiation between Waxy and Common Maize by SNP Genotyping

“…All 220 germplasm accessions in the studied panel were genotyped with the Maize SNP3K Beadchip (Illumina, San Diego, CA, USA) via the GoldenGate assay at the National Maize Improvement Centre of China, China Agricultural University. This SNP3K Beadchip contained 3072 random, good quality SNPs for genotyping, and the SNPs evenly covered the maize genome (including 1884 intragenic SNPs and 1188 intergenic SNPs) [ 29 ].…”

Responses to Potassium Application and Economic Optimum K Rate of Maize under Different Soil Indigenous K Supply

“…With the economic growth and consumption rising, demand for maize is projected to increase 47% to 2030 [7,8]. Additionally, more notably, major advances in the expansion of maize production have occurred over the past four decades through genetic improvements that enhance disease and pest resistance [9][10][11]. Since the majority of maize production systems in China are limited from low nutrient use efficiency and imbalanced fertilization [1,2], it is essential to optimize nutrient application for improving maize production.…”