A. Butrón

A Genome-Wide Association Study Reveals Genes Associated with Fusarium Ear Rot Resistance in a Maize Core Diversity Panel

Fusarium ear rot is a common disease of maize that affects food and feed quality globally. Resistance to the disease is highly quantitative, and maize breeders have difficulty incorporating polygenic resistance alleles from unadapted donor sources into elite breeding populations without having a negative impact on agronomic performance. Identification of specific allele variants contributing to improved resistance may be useful to breeders by allowing selection of resistance alleles in coupling phase linkage with favorable agronomic characteristics. We report the results of a genome-wide association study to detect allele variants associated with increased resistance to Fusarium ear rot in a maize core diversity panel of 267 inbred lines evaluated in two sets of environments. We performed association tests with 47,445 single-nucleotide polymorphisms (SNPs) while controlling for background genomic relationships with a mixed model and identified three marker loci significantly associated with disease resistance in at least one subset of environments. Each associated SNP locus had relatively small additive effects on disease resistance (±1.1% on a 0–100% scale), but nevertheless were associated with 3 to 12% of the genotypic variation within or across environment subsets. Two of three identified SNPs colocalized with genes that have been implicated with programmed cell death. An analysis of associated allele frequencies within the major maize subpopulations revealed enrichment for resistance alleles in the tropical/subtropical and popcorn subpopulations compared with other temperate breeding pools.

Genome-wide association study reveals a set of genes associated with resistance to the Mediterranean corn borer ( Sesamia nonagrioides L.) in a maize diversity panel

BackgroundCorn borers are the primary maize pest; their feeding on the pith results in stem damage and yield losses. In this study, we performed a genome-wide association study (GWAS) to identify SNPs associated with resistance to Mediterranean corn borer in a maize diversity panel using a set of more than 240,000 SNPs.ResultsTwenty five SNPs were significantly associated with three resistance traits: 10 were significantly associated with tunnel length, 4 with stem damage, and 11 with kernel resistance. Allelic variation at each significant SNP was associated with from 6 to 9% of the phenotypic variance. A set of genes containing or physically close to these SNPs are proposed as candidate genes for borer resistance, supported by their involvement in plant defense-related mechanisms in previously published evidence. The linkage disequilibrium decayed (r2 < 0.10) rapidly within short distance, suggesting high resolution of GWAS associations.ConclusionsMost of the candidate genes found in this study are part of signaling pathways, others act as regulator of expression under biotic stress condition, and a few genes are encoding enzymes with antibiotic effect against insects such as the cystatin1 gene and the defensin proteins. These findings contribute to the understanding the complex relationship between plant-insect interactions.

Inheritance of Resistance to Ear Damage Caused by Sesamia nonagrioides (Lepidoptera: Noctuidae) in Maize

Abstract Sesamia nonagrioides Lefebvre is a major insect pest of maize (Zea mays L.) in northwestern Spain. The inheritance of ear resistance in field corn to this pest has not been studied. This work aims to determine the importance of genetic (additive, dominance, and epistatic effects) and environmental effects in the inheritance of ear resistance to S. nonagrioides. Three field corn inbreds (CM109, EP31, and EP42) were used as parents and two crosses (CM109 × EP31 and CM109 × EP42) were made. These inbreds show different ear resistance levels to S. nonagrioides, with CM109 more resistant than EP31 and EP42. For each cross, parents (P1, P2), F1, F2, and backcrosses to each parent (BC1 and BC2) were evaluated. Correlations among ear damage traits showed that general appearance of the ear should be useful indicator of ear resistance. Ear resistance was dominant to susceptibility and was transmitted from inbreds to their hybrids. The additive-dominance model fit the generation mean analysis for both crosses and the degree of genetic control varied depending on the cross and trait. For both crosses, additive and dominance effects were significant for most ear damage traits. Epistatic gene effects were significant for husk and shank damage, and gene effects for number and length of tunnels were not significant. Because ear resistance involved additive and dominance effects for this set of inbreds, breeding procedures based on both types of gene action should be effective.

Identification of genes related to germination in aged maize seed by screening natural variability

Ageing reduces vigour and viability in maize inbred lines due to non-heritable degenerative changes. Besides non-heritable genetic changes due to chromosome aberrations and damage in the DNA sequence, heritable changes during maize conservation have been reported. Genetic variability among aged seeds of inbred lines could be used for association studies with seed germination. The objective of this study was to identify genes related to germination in aged seeds. The sweet corn inbred line P39 and the field corn inbred line EP44 were used as plant material. Bulks of living and dead seeds after 20 and 22 years of storage were compared by using simple sequence repeats (SSRs) and, when the bulks differed for a marker, the individual grains were genotyped. Differences between dead and living seeds could be explained by residual variability, spontaneous mutation, or ageing. Variability was larger for chromosome 7 than for other chromosomes, and for distal than for proximal markers, suggesting some relationships between position in the genome and viability in aged seed. Polymorphic SSRs between living and dead seeds were found in six known genes, including pathogenesis-related protein 2, superoxide dismutase 4, catalase 3, opaque endosperm 2, and metallothionein1 that were related to germination, along with golden plant 2. In addition, five novel candidate genes have been identified; three of them could be involved in resistance to diseases, one in detoxification of electrophillic compounds, and another in transcription regulation. Therefore, genetic variability among aged seeds of inbreds was useful for preliminary association analysis to identify candidate genes.

QTL mapping for Mediterranean corn borer resistance in European flint germplasm using recombinant inbred lines

BackgroundOstrinia nubilalis (ECB) and Sesamia nonagrioides (MCB) are two maize stem borers which cause important losses in temperate maize production, but QTL analyses for corn borer resistance were mostly restricted to ECB resistance and maize materials genetically related (mapping populations derived from B73). Therefore, the objective of this work was to identify and characterize QTLs for MCB resistance and agronomic traits in a RILs population derived from European flint inbreds.ResultsThree QTLs were detected for stalk tunnel length at bins 1.02, 3.05 and 8.05 which explained 7.5% of the RILs genotypic variance. The QTL at bin 3.05 was co-located to a QTL related to plant height and grain humidity and the QTL at bin 8.05 was located near a QTL related to yield.ConclusionsOur results, when compared with results from other authors, suggest the presence of genes involved in cell wall biosynthesis or fortification with effects on resistance to different corn borer species and digestibility for dairy cattle. Particularly, we proposed five candidate genes related to cell wall characteristics which could explain the QTL for stalk tunnelling in the region 3.05. However, the small proportion of genotypic variance explained by the QTLs suggest that there are also many other genes of small effect regulating MCB resistance and we conclude that MAS seems not promising for this trait. Two QTLs detected for stalk tunnelling overlap with QTLs for agronomic traits, indicating the presence of pleitropism or linkage between genes affecting resistance and agronomic traits.

Defense Mechanisms of Maize against Pink Stem Borer

Research supported by Dep. of Education of the Autonomous Government of Galicia (project XUGA40301B95

Molecular evaluation of two methods for developing maize synthetic varieties

A generalized way to obtain a maize (Zea mays L.) synthetic variety is to randomly mate all possible crosses among inbred lines, but, when the number of lines is large, it would save time and effort to use other mating methods. This work is aimed to determine the utility of two alternative methods, assuming that an equal contribution of each inbred line to the synthetic is the goal (; 1993). Eight Reid inbred lines originated from the U.S. Corn Belt population ‘Reid’, and eight non-Reid unrelated inbreds were the base meterial for synthetic verieties EPS20 and EPS21, respectively . Each variety was built using both alternative methods: i) controlling the balanced contribution of each parental inbred (convergent cross method), and ii) randomly mating a seed mixture from the eight inbreds (random method). In the convergent cross method, single crosses between inbreds, and double crosses were performed in 1995, and 1996, respectively, as the first step to create EPS20c and EPS21c. Finally, in 1997, about 40 plants from each double-cross hybrid were mated only once (as male or female) in plant-to-plant crosses between double cross-hybrids, to generate about 20 ears that provided the base material for synthetics EPS20c and EPS21c. In the random method, a total of 304 seeds from the eight inbred lines, 38 seeds from each one, were bulked and sown in ten rows of 15 two-kernel hills per row in 1998 to form EPS20r and EPS21r. After thinning, 150 plants were left, and random plant-to plant crosses were made (where each plant was used only once as male or female), that resulted in 38 and 39 ears, respectively. The two crossing schemes were followed by two generations of recombination. A sample of 40 individuals from each synthetic variety was genotyped with 17 SSR (simple sequence repeat) markers loci. Primer sequences and chromosomal locations are available at the MaizeDB (www.agron.missouri.edu/ssr.html). Genetic drift due to the relatively small samples used to constitute balanced synthetic varieties, and/or natural selection could modify the original frequencies, but did not cause allele or heterozygosity losses. Therefore, the convergent cross method appeared to be appropriate for developing synthetic varieties either from related or non related inbreds. The random method should be used with caution, especially when inbred parents are genetically different, since relative adaptive advantages of some inbred lines could cause loss of genetic variability.

Critical environmental and genotypic factors for Fusarium verticillioides infection, fungal growth and fumonisin contamination in maize grown in northwestern Spain

In northwestern Spain, where weather is rainy and mild throughout the year, Fusarium verticillioides is the most prevalent fungus in kernels and a significant risk of fumonisin contamination has been exposed. In this study, detailed information about environmental and maize genotypic factors affecting F. verticillioides infection, fungal growth and fumonisin content in maize kernels was obtained in order to establish control points to reduce fumonisin contamination. Evaluations were conducted in a total of 36 environments and factorial regression analyses were performed to determine the contribution of each factor to variability among environments, genotypes, and genotype × environment interactions for F. verticillioides infection, fungal growth and fumonisin content. Flowering and kernel drying were the most critical periods throughout the growing season for F. verticillioides infection and fumonisin contamination. Around flowering, wetter and cooler conditions limited F. verticillioides infection and growth, and high temperatures increased fumonisin contents. During kernel drying, increased damaged kernels favored fungal growth, and higher ear damage by corn borers and hard rainfall favored fumonisin accumulation. Later planting dates and especially earlier harvest dates reduced the risk of fumonisin contamination, possibly due to reduced incidence of insects and accumulation of rainfall during the kernel drying period. The use of maize varieties resistant to Sitotroga cerealella, with good husk coverage and non-excessive pericarp thickness could also be useful to reduce fumonisin contamination of maize kernels.

Quantitative Trait Loci for Cold Tolerance in the Maize IBM Population

B73 and Mo17 represent the main families of elite maize (Zea mays L.) inbred lines. B73 and Mo17 significantly differed in their proportion of germination under low‐temperature conditions, and the IBM population derived from the cross \documentclass{aastex} \usepackage{amsbsy} \usepackage{amsfonts} \usepackage{amssymb} \usepackage{bm} \usepackage{mathrsfs} \usepackage{pifont} \usepackage{stmaryrd} \usepackage{textcomp} \usepackage{portland,xspace} \usepackage{amsmath,amsxtra} \usepackage[OT2,OT1]{fontenc} \newcommand\cyr{ \renewcommand\rmdefault{wncyr} \renewcommand\sfdefault{wncyss} \renewcommand\encodingdefault{OT2} \normalfont \selectfont} \DeclareTextFontCommand{\textcyr}{\cyr} \pagestyle{empty} \DeclareMathSizes{10}{9}{7}{6} \begin{document} \landscape