Targeted discovery of quantitative trait loci for resistance to northern leaf blight and other diseases of maize

Chung, Chi-Ming; Poland, Jesse; Kump, Kristen L.; Benson, Jacqueline; Longfellow, Joy; Walsh, Ellie; Balint‐Kurti, Peter; Nelson, Rebecca

doi:10.1007/s00122-011-1585-9

Cited by 44 publications

(50 citation statements)

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“…Most publications designate GLS QTL into maize core bins [3,4,7,25-27]. A maize genome bin has been defined as one of the 100 designated chromosomal segments between two core RFLP markers (http://www.maizegdb.org/cgi-bin/bin_viewer.cgi).…”

Section: Methodsmentioning

confidence: 99%

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Mapping QTL conferring resistance in maize to gray leaf spot disease caused by Cercospora zeina

et al. 2014

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BackgroundGray leaf spot (GLS) is a globally important foliar disease of maize. Cercospora zeina, one of the two fungal species that cause the disease, is prevalent in southern Africa, China, Brazil and the eastern corn belt of the USA. Identification of QTL for GLS resistance in subtropical germplasm is important to support breeding programmes in developing countries where C. zeina limits production of this staple food crop.ResultsA maize RIL population (F7:S6) from a cross between CML444 and SC Malawi was field-tested under GLS disease pressure at five field sites over three seasons in KwaZulu-Natal, South Africa. Thirty QTL identified from eleven field trials (environments) were consolidated to seven QTL for GLS resistance based on their expression in at least two environments and location in the same core maize bins. Four GLS resistance alleles were derived from the more resistant parent CML444 (bin 1.10, 4.08, 9.04/9.05, 10.06/10.07), whereas the remainder were from SC Malawi (bin 6.06/6.07, 7.02/7.03, 9.06). QTLs in bin 4.08 and bin 6.06/6.07 were also detected as joint QTLs, each explained more than 11% of the phenotypic variation, and were identified in four and seven environments, respectively. Common markers were used to allocate GLS QTL from eleven previous studies to bins on the IBM2005 map, and GLS QTL “hotspots” were noted. Bin 4.08 and 7.02/7.03 GLS QTL from this study overlapped with hotspots, whereas the bin 6.06/6.07 and bin 9.06 QTLs appeared to be unique. QTL for flowering time (bin 1.07, 4.09) in this population did not correspond to QTL for GLS resistance.ConclusionsQTL mapping of a RIL population from the subtropical maize parents CML444 and SC Malawi identified seven QTL for resistance to gray leaf spot disease caused by C. zeina. These QTL together with QTL from eleven studies were allocated to bins on the IBM2005 map to provide a basis for comparison. Hotspots of GLS QTL were identified on chromosomes one, two, four, five and seven, with QTL in the current study overlapping with two of these. Two QTL from this study did not overlap with previously reported QTL.

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Section: Methodsmentioning

confidence: 99%

“…Subsequent studies employed populations of recombinant inbred lines (RIL), such as the intermated B73 X Mo17 (IBM) population, which allowed repeated GLS disease testing in multiple environments coupled with high density molecular marker maps [25-27]. QTL for GLS resistance were located to regions down to 3 cM [25].…”

Section: Introductionmentioning

confidence: 99%

Mapping QTL conferring resistance in maize to gray leaf spot disease caused by Cercospora zeina

et al. 2014

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“…In a QTL study of the recombinant inbred line (RIL) population Ki14 3 B73 evaluated for three foliar fungal diseases, NLB, GLS, and SLB, a 33-Mb region spanning bins 1.05 and 1.06 was the only locus identified that conferred resistance to all three diseases (Zwonitzer et al 2010). A number of QTL studies for NLB resistance in maize have identified QTL at bin 1.06, ranging in physical size from 3 to 30 Mb (Freymark et al 1993;Welz et al 1999;Wisser et al 2006;Chung et al 2010bChung et al , 2011Van Esbroeck et al 2010;Poland et al 2011). Additionally, bin 1.06 harbors the dominant Stewart's wilt resistance gene Sw1 (Ming et al 1999).…”

mentioning

confidence: 99%

“…At the chromosomal segment level, disease and insect resistance loci colocalize in a nonrandom fashion (McMullen and Simcox 1995;Williams 2003;Wisser et al 2005) and loci have been identified that confer resistance to diverse pathogen isolates and taxa (Zwonitzer et al 2010;Chung et al 2011;Belcher et al 2012). There is evidence to suggest that gene clusters can confer resistance to more than one disease.…”

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confidence: 99%

Unraveling Genomic Complexity at a Quantitative Disease Resistance Locus in Maize

et al. 2014

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Multiple disease resistance has important implications for plant fitness, given the selection pressure that many pathogens exert directly on natural plant populations and indirectly via crop improvement programs. Evidence of a locus conditioning resistance to multiple pathogens was found in bin 1.06 of the maize genome with the allele from inbred line "Tx303" conditioning quantitative resistance to northern leaf blight (NLB) and qualitative resistance to Stewart's wilt. To dissect the genetic basis of resistance in this region and to refine candidate gene hypotheses, we mapped resistance to the two diseases. Both resistance phenotypes were localized to overlapping regions, with the Stewart's wilt interval refined to a 95.9-kb segment containing three genes and the NLB interval to a 3.60-Mb segment containing 117 genes. Regions of the introgression showed little to no recombination, suggesting structural differences between the inbred lines Tx303 and "B73," the parents of the fine-mapping population. We examined copy number variation across the region using next-generation sequencing data, and found large variation in read depth in Tx303 across the region relative to the reference genome of B73. In the fine-mapping region, association mapping for NLB implicated candidate genes, including a putative zinc finger and pan1. We tested mutant alleles and found that pan1 is a susceptibility gene for NLB and Stewart's wilt. Our data strongly suggest that structural variation plays an important role in resistance conditioned by this region, and pan1, a gene conditioning susceptibility for NLB, may underlie the QTL.T HE genes and loci that influence host-pathogen interactions vary in allele effects, specificities, and linkage relationships. While disease resistance can be conditioned by single genes with large effect (Bent 1996;Jones and Dangl 2006), the emerging model of resistance for many plant diseases is complex in nature, with many genes and loci functioning in concert and each contributing a small proportion of the total phenotypic variation Poland et al. 2011;Cook et al. 2012b). Each locus has a unique profile, with some loci contributing broadspectrum protection against diverse pathogen species and strains. Investigating these intricacies offers the opportunity to understand the diverse ways in which plants defend themselves against microbial assault.Correlated responses to multiple diseases have been observed in various germplasm panels, implying that there are loci and genes that condition broad-spectrum resistance (Rossi et al. 2006;Gurung et al. 2009;Wisser et al. 2011). At the chromosomal segment level, disease and insect resistance loci colocalize in a nonrandom fashion (McMullen and Simcox 1995;Williams 2003;Wisser et al. 2005) and loci have been identified that confer resistance to diverse pathogen isolates and taxa (Zwonitzer et al. 2010;Chung et al. 2011;Belcher et al. 2012). There is evidence to suggest that gene clusters can confer resistance to more than one disease. A cluster of germin-like ...

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“…In addition, these two genome regions were also found to confer resistance to multiple potyviruses, including SCMV, MDMV, ZeMV, and WSMV (Lubberstedt et al 2006). To investigate genomic regions associated with MDR in maize, Chung et al (2011) adopted heterogeneous inbred families (HIFs) and RILs to survey their response to eight diseases, discovering two MDR QTL, one QTL in bin 1.06/1.07 conferred resistance to NLB and Stewart's wilt, and another in bin 6.05 conferring resistance to NLB and ASR. Two reliable QTL conferring resistance to NLB were also found to be involved in MDR of maize, with qNLB1.02 B73 associated with resistance to Stewart's wilt and common rust, and qNLB1.06 Tx303 conferring resistance to Stewart's wilt as well (Chung et al 2010b).…”

Section: Genes Conferring Resistance To Biotic Stresses In Maizementioning

confidence: 99%

Qualitative and Quantitative Trait Polymorphisms in Maize

Yang

2013

Diagnostics in Plant Breeding

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Targeted discovery of quantitative trait loci for resistance to northern leaf blight and other diseases of maize

Cited by 44 publications

References 77 publications

Mapping QTL conferring resistance in maize to gray leaf spot disease caused by Cercospora zeina

Mapping QTL conferring resistance in maize to gray leaf spot disease caused by Cercospora zeina

Unraveling Genomic Complexity at a Quantitative Disease Resistance Locus in Maize

Qualitative and Quantitative Trait Polymorphisms in Maize

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