GWAS revealed 32 significantly associated SNPs for MLN resistance (at p < 1.0 × 10 −6). Nat Genet 42(4):355, Zhu C, Gore M, Buckler ES, Yu J (2008) Status and prospects of association mapping in plants. anikduttapotol • 10 wrote: Hello, My name is Anik. Sequencing studies of rare variants have highlighted the biological pathways involved. This study also suggested that GWAS is a useful approach for identifying causal genetic factors for head smut resistance in maize. Department of statistics. In many plants, disease resistance involves numerous genes and displays complex inheritance. Denser Markers and Advanced Statistical Method Identified More Genetic Loci Associated with Husk Traits in Maize. GWAS will mainly focus on the association between single-nucleotide polymorthisms (SNPs) and traits such as herbicide resistance or some sort of disease. Get the latest public health information from CDC: https://www.coronavirus.gov, Get the latest research information from NIH: https://www.nih.gov/coronavirus, Find NCBI SARS-CoV-2 literature, sequence, and clinical content: https://www.ncbi.nlm.nih.gov/sars-cov-2/. Nat Genet 38(8):904, Pring DR, Lonsdale DM (1989) Cytoplasmic male sterility and maternal inheritance of disease susceptibility in maize. 2019 Oct 7;9(10):3139-3152. doi: 10.1534/g3.119.400347. This is a preview of subscription content, Acuna TB, Rebetzke G, He X, Maynol E, Wade L (2014) Mapping quantitative trait loci associated with root penetration ability of wheat in contrasting environments. Pages 113-130. Genome-wide association studies enable the discovery and characterization of genetic variants associated with disease. In this work, GWAS was used for association mapping of quantitative disease resistance genes to rice blast disease, which is similar to work performed in maize . 2016 Dec 7;6(12):3803-3815. doi: 10.1534/g3.116.034561. 2020 Oct 23;21(1):739. doi: 10.1186/s12864-020-07150-4. Genetics 178(3):1709–1723, Kump KL, Bradbury PJ, Wisser RJ, Buckler ES, Belcher AR, Oropeza-Rosas MA, Zwonitzer JC, Kresovich S, McMullen MD, Ware D (2011) Genome-wide association study of quantitative resistance to southern leaf blight in the maize nested association mapping population. To provide an insight into the genomic basis of MAS disease resistance, in this study, we conducted a genome-wide association study (GWAS) to identify quantitative trait loci (QTL). Science 265(5180):1856–1860, Bentolila S, Guitton C, Bouvet N, Sailland A, Nykaza S, Freyssinet G (1991) Identification of an RFLP marker tightly linked to theHt1 gene in maize. tritici (Bgt). However, a general review and compilation of the recent GWAS studies in the disease resistance of maize is limited. hordei, the causal pathogen of powdery mildew disease (54, 55). The country of origin and infection type of T. urartu accessions. , 2015 ; Wang et al. Head smut, caused by the fungus Sphacelotheca reiliana (Kühn) Clint, is a devastating global disease in maize, leading to severe quality and yield loss each year. Septoria tritici blotch (STB) disease caused by Zymoseptoria tritici is one of the most damaging diseases of wheat causing significant yield losses worldwide. 2. Genome-Wide Association and Gene Co-expression Network Analyses Reveal Complex Genetics of Resistance to Goss's Wilt of Maize. There was also an association with a multiantimicrobial extrusion protein (56). Mol Breed 34(2):631–642, Balint-Kurti P, Carson M (2006) Analysis of quantitative trait loci for resistance to southern leaf blight in juvenile maize. However, a general review and compilation of the recent GWAS studies in the disease resistance of maize is limited. Cite as.  |  Single nucleotide polymorphism association ranged from −2.14 to 4.01% of the mean of a given trait. Other aspects of HIV biology and disease have been investigated by GWAS including the role of the X chromosome, the role of the HIV-associated HLA locus in CD4:CD8 T lymphocyte ratios and genetic factors that may influence mother to child transmission. Bioinformatics 19(7):889–890, Castro A, Tacaliti M, Giménez D, Tocho E, Dobrovolskaya O, Vasicek A, Collado M, Snape J, Börner A (2008) Mapping quantitative trait loci for growth responses to exogenously applied stress induced hormones in wheat. Bakanae disease, caused by seed-borne Fusarium species, mainly F. fujikuroi, is a rice disease whose importance is considerably increasing in several rice growing countries, leading to incremental production losses. The maintenance of diversity in terms of the genes underlying resistance provides an important resource for combating the effects of possible future pathogen evolution. including disease resistance, the use of GRIN phenotypic data, and the use of the SoySNP50K array as a source of genotypic data. Theor Appl Genet 92(6):627–636, Rodríguez-Gacio MDC, Iglesias-Fernández R, Carbonero P, Matilla ÁJ (2012) Softening-up mannan-rich cell walls. In particular, Vivek Shrestha, Mani Awale, Avinash Karn. Over the last 50 years, soybean germplasm has been phenotyped for resistance to many pathogens, resulting in the development of disease-resistant elite breeding lines and commercial cultivars. 2.9 years ago by. Plant Breed Rev 27:119, Price AH (2006) Believe it or not, QTLs are accurate! This service is more advanced with JavaScript available, Disease Resistance in Crop Plants Coronary artery disease. The first GWAS on HIV infection identified variants in the HLA-region to be most dominantly associated with viral load at set point [], which was successfully replicated in other cohorts [30–33, 35], using viral load control and disease progression as phenotypes.GWAS that used clinical disease progression as a phenotype, such as LTNP, survival time to AIDS-diagnosis and AIDS-related … 2. Science 270(5243):1804–1806, Tan Y, Sun M, Xing Y, Hua J, Sun X, Zhang Q, Corke H (2001) Mapping quantitative trait loci for milling quality, protein content and color characteristics of rice using a recombinant inbred line population derived from an elite rice hybrid. To our knowledge, GWAS of soybean BSR resistance has not been reported. 2016 Oct;106(10):1139-1151. doi: 10.1094/PHYTO-01-16-0042-FI. Seedling resistance was evaluated by using a mixture of 19 virulent isolates in Morocco. doi: 10.1371/journal.pone.0145549. In this research, a genome-wide association study (GWAS) for WM resistance was conducted using 294 lines of the Spanish diversity panel. Nature 335(6192):721, Pérez Brito D, Jeffers D, González de León D, Khairallah M, Cortés C, Velázquez C, Azpíroz S, Srinivasan G (2001) QTL mapping of Fusarium moniliforme ear rot resistance in highland maize. Accurate, high-throughput phenotyping for quantitative traits is a limiting factor for progress in plant breeding. However, association mapping like GWAS for QTLs underlying disease resistance to the BBD, has not been previously reported. Proc Natl Acad Sci U S A 102(6):1815–1816, Ding J-Q, Wang X-M, Chander S, Yan J-B, Li J-S (2008) QTL mapping of resistance to Fusarium ear rot using a RIL population in maize. This site needs JavaScript to work properly.  |  Genetics 193(2):609–620, Park KJ, Sa KJ, Kim BW, Koh H-J, Lee JK (2014) Genetic mapping and QTL analysis for yield and agronomic traits with an F2: 3 population derived from a waxy corn× sweet corn cross. Geng X, Sun G, Qu Y, Sarfraz Z, Jia Y, He S, Pan Z, Sun J, Iqbal MS, Wang Q, Qin H, Liu J, Liu H, Yang J, Ma Z, Xu D, Yang J, Zhang J, Li Z, Cai Z, Zhang X, Zhang X, Zhou G, Li L, Zhu H, Wang L, Pang B, Du X. 2. Genetics 176(1):645–657, Bent AF, Kunkel BN, Dahlbeck D, Brown KL, Schmidt R, Giraudat J, Leung J, Staskawicz BJ (1994) RPS2 of Arabidopsis thaliana: a leucine-rich repeat class of plant disease resistance genes. Theoretical and Applied Genetics 1 3 (S)× Desiree(R)andKuras(R) × Aventra(S)withthe SpieckermannandtheGlynne–Lemmerzahlmethod(Sup-plementaryFig.5,SupplementaryFile4).Resistance J Exp Bot 63(11):3976–3988, Romay MC, Millard MJ, Glaubitz JC, Peiffer JA, Swarts KL, Casstevens TM, Elshire RJ, Acharya CB, Mitchell SE, Flint-Garcia SA (2013) Comprehensive genotyping of the USA national maize inbred seed bank. A total of 53,063 SNPs from the 55 K SNP array were selected for GWAS of black point resistance in the 101 wheat genotypes. For instance, researchers used GWAS to identify 97 loci associated with resistance to stripe rust in wheat (Maccaferri et al. Whitelaw & H.M. 0. Springer, Song W-Y, Wang G-L, Chen L-L, Kim H-S, Pi L-Y, Holsten T, Gardner J, Wang B, Zhai W-X, Zhu L-H (1995) A receptor kinase-like protein encoded by the rice disease resistance gene, Xa21. A more precise location of previously identified resistance genes underlying the QTL on chromosome 16 Annu Rev Phytopathol 27(1):483–502, Quarrie S, Gulli M, Calestani C, Steed A, Marmiroli N (1994) Location of a gene regulating drought-induced abscisic acid production on the long arm of chromosome 5A of wheat. Carlos Cruchaga of Washington University in St. Louis noted that, while small, this GWAS suggests that additional disease genes and pathways can be identified by studying different populations. Annu Rev Phytopathol 9(1):275–296, Foolad M (1999) Comparison of salt tolerance during seed germination and vegetative growth in tomato by QTL mapping. Historically, since 1991 this SNP has been … The analytical tools of GWAS provided us powerful means to identify the possible variants underlying the target traits at the whole-genome scale. Germany. The advantages of association mapping over QTL mapping, along with working model of GWAS, are briefly discussed. Phytopathology 96(3):221–225, Balint-Kurti PJ, Johal GS (2009) Maize disease resistance. Theor Appl Genet 128(10):1957–1968, Hammond-Kosack KE, Jones JD (1997) Plant disease resistance genes. At the end, we discuss on the limitation of the GWAS and future perspectives on the identification of novel disease resistance genes. A genome-wide association study (GWAS) was performed using the phenotypes time to death (TD) and binary survival (BS), along with the genotypes of the challenged fish using a Bayesian model (Bayes C). Phytopathology 96(2):120–129, Xiao W, Zhao J, Fan S, Li L, Dai J, Xu M (2007) Mapping of genome-wide resistance gene analogs (RGAs) in maize (Zea mays L.). Out of 45,868 single nucleotide polymorphisms in a panel of 144 inbred lines, 18 novel candidate genes were associated with head smut resistance in maize. Aiding with novel genomic and systems biological techniques, such as high throughput sequencing, GWAS, and gene function analysis, will help to uncover the disease resistance genes and strengthen the studies of pig disease resistance. Download : Download high-res image (195KB) Download : Download full-size image; Fig. The GWAS study has identified a single locus of major effect contributing to beech bark disease resistance. Theor Appl Genet 89(6):794–800, Ray J, Yu L, McCouch S, Champoux M, Wang G, Nguyen H (1996) Mapping quantitative trait loci associated with root penetration ability in rice (Oryza sativa L.). Knowledge of this genetic locus contributing to resistance might be used in applied breeding, conservation and restoration programs. GWAS for many diseases and disorders have not yet been performed and the large majority (79%) of participants in GWAS to-date are of European ancestry. The present study is the first to conduct a genome-wide association study (GWAS) of head smut resistance using the Illumina MaizeSNP50 array. Field Crop Res 106(2):148–155, Liu X, Huang M, Fan B, Buckler ES, Zhang Z (2016) Iterative usage of fixed and random effect models for powerful and efficient genome-wide association studies. However, a general review and compilation of the recent GWAS studies in the disease resistance of maize is limited. Genome-wide dissection of hybridization for fiber quality- and yield-related traits in upland cotton. BMC Genomics 16(1):916, Martin GB, Brommonschenkel SH, Chunwongse J, Frary A, Ganal MW, Spivey R, Wu T, Earle ED, Tanksley SD (1993) Map-based cloning of a protein kinase gene conferring disease resistance in tomato. Molecular Breeding Approaches for Disease Resistance in Sugarcane. Barrera-Redondo J, Piñero D, Eguiarte LE. Science 258(5084):985–987, Jones JD, Dangl JL (2006) The plant immune system. 24 Seoul National University Byoung-Cheorl Kang . The results will provide foundational information for further research into AMB-related genes. Plant J 66(4):553–563, Simcox KD, Bennetzen JL (1993) The use of molecular markers to study Setosphaeria turcica resistance in maize. Nat Genet 38(2):203, Yu J, Holland JB, McMullen MD, Buckler ES (2008) Genetic design and statistical power of nested association mapping in maize. Annu Rev Plant Biol 48(1):575–607, Ishikawa A, Tanaka H, Nakai M, Asahi T (2003) Deletion of a chaperonin 60β gene leads to cell death in the Arabidopsis lesion initiation 1 mutant. Over 10 million scientific documents at your fingertips. Crown Copyright © 2012. Analysis of Linkage Disequilibrium and GWAS for Blast Resistance The SNP panel used in the GWAS consisted of 246,084 markers. Combined linkage and association mapping reveal QTL for host plant resistance to common rust (Puccinia sorghi) in tropical maize. Of the 10 QTL regions identified for IHNV resistance, only three were detected by both GWAS methods, and seven were detected by only one method, which supports the utility of using different GWAS algorithms to uncover the QTL associated with a complex disease resistance trait. Theor Appl Genet 82(4):393–398, Broman KW, Wu H, Sen Ś, Churchill GA (2003) R/qtl: QTL mapping in experimental crosses. Several review papers and chapters on QTL mapping of disease resistance in maize have been published so far. Part of Springer Nature. Additional work, such as linkage mapping and transcriptome analysis, is required to pinpoint candidate resistance genes. Trends Plant Sci 11(5):213–216, Price AL, Patterson NJ, Plenge RM, Weinblatt ME, Shadick NA, Reich D (2006) Principal components analysis corrects for stratification in genome-wide association studies. Plant Sci 196:125–131, Wisser RJ, Balint-Kurti PJ, Nelson RJ (2006) The genetic architecture of disease resistance in maize: a synthesis of published studies. We performed a genome-wide association study (GWAS) on a panel of 1596 wheat acces- sions. AU - Tammes, Jasper E. AU - Visser, Richard G.F. Theor Appl Genet 103(6–7):1037–1045, Technow F, Bürger A, Melchinger AE (2013) Genomic prediction of northern corn leaf blight resistance in maize with combined or separated training sets for heterotic groups. Science 262(5138):1432–1436, McMullen MD, Kresovich S, Villeda HS, Bradbury P, Li H, Sun Q, Flint-Garcia S, Thornsberry J, Acharya C, Bottoms C (2009) Genetic properties of the maize nested association mapping population. Triticum urartu, a diploid wild wheat and progenitor of the A genome of bread wheat, is an important resource for resistance to powdery mildew fungus caused by Blumeria graminis f. sp. Agrociencia, Mexico, 35(2), Perkins J, Pedersen W (1987) Disease development and yield losses associated with northern leaf blight on corn. Proc Natl Acad Sci 108(17):6893–6898, Pratt RC, Gordon SG (2006) Breeding for resistance to maize foliar pathogens. Annu Rev Phytopathol 10(1):37–50, Wang J, Levy M, Dunkle LD (1998) Sibling species of Cercospora associated with gray leaf spot of maize. The most significant SNP explained 85% of the phenotypic variability and predicted resistance in 97% of the accessions tested—broad-sense heritability was 0.96. The economically important diseases in maize, along with the novel SNPs and QTLs’ hotspots, are highlighted in the chapter. Spot blotch (SB) in barley is caused by the fungal pathogen Cochliobolus sativus and considered one of the major constraints to successful barley production. Identification and employment of resistant germplasm is the most cost-effective method to control STB. AU - Prodhomme, Charlotte. The first successful GWAS published in … Genome Biol 14(6):R55, Sax K (1923) The association of size differences with seed-coat pattern and pigmentation in Phaseolus vulgaris. Chen J, Shrestha R, Ding J, Zheng H, Mu C, Wu J, Mahuku G. G3 (Bethesda). For disease severity, these significantly associated SNPs individually explained 3–5% of the total phenotypic variance, whereas for AUDPC they explained 3–12% of the total proportion of phenotypic variance. Epub 2016 Jul 11. The mixed linear model was employed in TASSEL using principal component analysis (PCA) and Kinship matrix (K) as covariates. , 2014 ; Samayoa et al. Without comprehensive profiling of DR‐related traits, the knowledge of the genetic architecture for DR in cotton remains limited. The short-lived nature of leaf rust resistance (Lr) genes necessitates a continuous search for novel sources of resistance. Drought resistance (DR) is a complex trait that is regulated by a variety of genes. J Exp Bot 55(403):1671–1685, Chen Y, Chao Q, Tan G, Zhao J, Zhang M, Ji Q, Xu M (2008) Identification and fine-mapping of a major QTL conferring resistance against head smut in maize. Karnal Bunt (KB) disease in wheat through a genome-wide association study (GWAS) on a set of 179 pre-breeding lines (PBLs). A total of 192 apple germplasms (Malus spp.) A GWAS for blast resistance in rice was also recently applied using a RDP including 420 accessions representative of the five major O. sativa subpopulations that were challenged respect-ively with five different blast isolates under a growth chamber assay (Kang et al. Genes Genomics 36(2):179–189, Parlevliet JE (2002) Durability of resistance against fungal, bacterial and viral pathogens; present situation. To confirm the SNPs identified are truly associated with the scale-resistant trait, replication of this GWAS study is necessary, using … resistance, indicating the advantages of GWAS in determining the genetic basis of complex traits in cotton (Zhao et al., 2014). rs1799990, also known as Met129Val or M129V, is a SNP in the prion protein PRNP gene. This chapter compiles and integrates recent studies of the five major diseases of maize using GWAS. anikduttapotol • 10. Seoul National University_ Lab. The present GWAS study revealed 18 candidate genes that could be classified into three groups according to their predicted functions. The tomato Ve1 and Ve2 encoding leucine-rich … Plant J 43(5):623–635, Clements M, Maragos C, Pataky J, White D (2004) Sources of resistance to fumonisin accumulation in grain and Fusarium ear and kernel rot of corn. Hence, GWAS is a non-candidate-driven approach, in contrast to gene-specific candidate-driven studies. However, few studies have identified the candidate genes underlying VW resistance by GWAS. Three traits were found to have significant association signals, hypocalcemia, ketosis, and livability, which demonstrated the power of our GWAS study. 2018 Nov 29;18(1):310. doi: 10.1186/s12870-018-1520-1. Nat Genet 44(7):825, Sekhon RS, Lin H, Childs KL, Hansey CN, Buell CR, de Leon N, Kaeppler SM (2011) Genome-wide atlas of transcription during maize development. With the reduction in the genotyping cost of the sequencing technique, improved statistical methods, and increased computational efficiency, association mapping, especially genome wide association study (GWAS), is widely used to dissect the architecture of the several complex traits. J Exp Bot 53(377):2089–2098, Causse M, Duffe P, Gomez M, Buret M, Damidaux R, Zamir D, Gur A, Chevalier C, Lemaire-Chamley M, Rothan C (2004) A genetic map of candidate genes and QTLs involved in tomato fruit size and composition. In genetics, a genome-wide association study (GWA study, or GWAS), also known as whole genome association study (WGA study, or WGAS), is an observational study of a genome-wide set of genetic variants in different individuals to see if any variant is associated with a trait. As the European population accounts for just ~16% of the global population, there is a recognized need for more diverse GWAS dataset. GWAS for seven productivity and disease resistance traits in a breeding population of Eucalyptus. Plant Cell Physiol 44(3):255–261, Johal GS, Briggs SP (1992) Reductase activity encoded by the HM1 disease resistance gene in maize. Nat Genet 43(2):163, Levings CS, Siedow JN (1992) Molecular basis of disease susceptibility in the Texas cytoplasm of maize. QTL mapping for soybean (Glycine max L.) leaf chlorophyll-content traits in a genotyped RIL population by using RAD-seq based high-density linkage map. Most known R genes encode … tritici (Pst), is a serious foliar disease of wheat. rice, bakanae disease, GWAS, resistance loci Bakanae disease is one of the most serious and oldest problems of rice production, caused by one or more seed-borne Fusarium species, mainly F. fujikuroi. Disease-resistant genetically modified animals C.B.A. We developed an automated image analysis to measure quantitative resistance to septoria tritici blotch (STB), a globally important wheat disease, enabling identification of small chromosome intervals containing plausible candidate genes for STB resistance. Fw1 and 11 tightly linked GWAS-significant SNPs mapped to linkage group 2C in octoploid segregating populations.  |  Linkage disequilibrium in A. thaliana, 214K SNPs and 1307 ... • GWAS is a powerful tool to understand the genetics of natural A germplasm collection of japonica rice was screened for F. fujikuroi resistance, allowing the identification of accessions with high-to-moderate levels of resistance to … The recessive mlo mutation in barley confers broad-spectrum resistance to biotrophic Erysiphe graminis f. sp. eCollection 2020. Material and methods 2.1. To identify genomic regions that are associated with blast resistance to the three isolates, we performed a GWAS using the disease scores and the 700 K SNP genotypes of the inoculated cultivars. GWAS for many diseases and disorders have not yet been performed and the large majority (79%) of participants in GWAS to-date are of European ancestry. Genome-wide association studies in tropical maize germplasm reveal novel and known genomic regions for resistance to Northern corn leaf blight. Conclusion: The GWAS study has identified a single locus of major effect contributing to beech bark disease resistance. Not logged in Genome wide association studies (GWAS) are a powerful tool for identifying quantitative trait loci (QTL) and causal single nucleotide polymorphisms (SNPs)/genes associated with various important traits in crop species. Would you like email updates of new search results? 157.230.241.103. Springer, New York, pp 229–250, Balint-Kurti P, Zwonitzer JC, Wisser RJ, Carson M, Oropeza-Rosas MA, Holland JB, Szalma SJ (2007) Precise mapping of quantitative trait loci for resistance to southern leaf blight, caused by Cochliobolus heterostrophus race O, and flowering time using advanced intercross maize lines. Head smut, caused by the fungus Sphacelotheca reiliana (Kühn) Clint, is a devastating global disease in maize, leading to severe quality and yield loss each year. Identification of novel stripe rust resistance genes and cultivation of resistant cultivars are considered to be the most effective approaches to control this disease. GWAS has also been successfully used for mapping disease resistance loci in crops. AU - Vossen, Jack H. AU - van Eck, Herman J. PY - 2020/2/11. GWASs typically focus on associations between single-nucleotide polymorphisms (SNPs) and traits like major human diseases, but can equally be applied to any other genetic variants and any other organisms. © 2020 Springer Nature Switzerland AG. Nat Genet 28(3):286, Tian Y, Zhang H, Xu P, Chen X, Liao Y, Han B, Chen X, Fu X, Wu X (2015) Genetic mapping of a QTL controlling leaf width and grain number in rice. In: 10 years plant molecular biology. These candidate genes were classified into three groups, namely, resistance genes, disease response genes, and other genes with possible plant disease resistance functions. GWAS identified 23 SNPs that were associated with FER resistance, 2 of which (1_226233417 on chromosome 1 and 10_14501044 on chromosome 10) were associated at threshold of 2.65 × 10 … Theor Appl Genet 99(3–4):593–598, Mammadov J, Sun X, Gao Y, Ochsenfeld C, Bakker E, Ren R, Flora J, Wang X, Kumpatla S, Meyer D (2015) Combining powers of linkage and association mapping for precise dissection of QTL controlling resistance to gray leaf spot disease in maize (Zea mays L.). After filtering for callrate (>95%) and minor al- lele frequency (>5%) the final set included 37,423 SNPs, with an average value of 3119 markers/chromosome. Phytopathology 83(12):1326–1330, Singh B, Singh AK (2015) Marker-assisted plant breeding: principles and practices. Please enable it to take advantage of the complete set of features! A total of 56 QTLs associated with blast resistance to the three isolates were detected in the rice genome (−Log 10 P ≥ 4.0) (Fig. The Identification of Two Head Smut Resistance-Related QTL in Maize by the Joint Approach of Linkage Mapping and Association Analysis. A more precise location of previously identified resistance genes underlying the QTL on chromosome 16 NIH G3 3(11):2095–2104, School of Integrative Plant Science, Cornell AgriTech, https://doi.org/10.1007/978-3-030-20728-1_6. Population Structure is reflected in long range LD. Genome Wide Association Study (GWAS) on Disease Resistance in Maize. Theor Appl Genet 115(4):501–508, Yin X, Wang Q, Yang J, Jin D, Wang F, Wang B, Zhang J (2003) Fine mapping of the Ht2 (Helminthosporium turcicum resistance 2) gene in maize. AU - Vos, Peter G. AU - Paulo, Maria João. Nat Rev Genet 3(1):43, Flint-Garcia SA, Thuillet AC, Yu J, Pressoir G, Romero SM, Mitchell SE, Doebley J, Kresovich S, Goodman MM, Buckler ES (2005) Maize association population: a high-resolution platform for quantitative trait locus dissection. Trends Plant Sci 14(1):21–29, Poland JA, Bradbury PJ, Buckler ES, Nelson RJ (2011) Genome-wide nested association mapping of quantitative resistance to northern leaf blight in maize. RESULTS: A germplasm collection of japonica rice was screened for F. fujikuroi resistance, allowing the identification of accessions with high-to-moderate levels of resistance to bakanae. Sequencing studies of rare variants have highlighted the biological pathways involved. 2020 Jul 15;11:742. doi: 10.3389/fgene.2020.00742. Stripe rust, caused by the fungal pathogen Puccinia striiformis f. sp. Phytopathology. Disease Resistance in Pepper 2017. Mol Breed 22(3):395–403, Doerge RW (2002) Multifactorial genetics: mapping and analysis of quantitative trait loci in experimental populations. GWAS can be applied to any organisms and species where you want to study variation between different phenotype. COVID-19 is an emerging, rapidly evolving situation. Characterization of Disease Resistance Loci in the USDA Soybean Germplasm Collection Using Genome-Wide Association Studies. 2020 Dec;104(5):1285-1300. doi: 10.1111/tpj.14999. Front Genet. GWAS is a powerful tool to reveal significant SNPs associated with potential resistance genes, but not enough to refine candidate genes on its own. In this study, we sought to detect candidate genes that affect resistance to AMB using a GWAS with GBS SNP data. Resistance to C. sativus was evaluated, using a barley collection of 336 genotypes (AM-2014), at the seedling and adult stages. Not affiliated Genomic heritabilities accounted for large fractions of narrow-sense heritabilities and RHM captured considerably more of the genomic heritability than GWAS. GWAS has been successfully used to study various traits in wheat such as grain yield (Sukumaran et al., 2018), eyespot disease resistance (Zanke et al., 2017), pre-harvest sprouting resistance (Zhou et al., 2017), 36 agro-morphological traits (Sheoran et al., 2019) and so on. Genome 42(4):727–734, Gowda M, Das B, Makumbi D, Babu R, Semagn K, Mahuku G, Olsen MS, Bright JM, Beyene Y, Prasanna BM (2015) Genome-wide association and genomic prediction of resistance to maize lethal necrosis disease in tropical maize germplasm. PLoS Genet 12(2):e1005767, Lu X, Brewbaker J (1999) Molecular mapping of QTLs conferring resistance to Sphacelotheca reiliana (Kühn) Clint. Along with the completion swine genome sequencing and development of the high throughput SNP chip, genome wide association study (GWAS) tools became available in identification of key genes associated with disease resistance traits. Fusarium crown rot (FCR) is a severe and chronic disease in common wheat and is able to cause serious yield loss and health problems to human and livestock. Plant Dis 71(10):940–943, Poland JA, Balint-Kurti PJ, Wisser RJ, Pratt RC, Nelson RJ (2009) Shades of gray: the world of quantitative disease resistance. 2 ). Higher SB severity, 82.3 ± 13.5 (mean ± SD), was recorded at the Banaras Hindu University (BHU) … Coronary artery disease. , 2012 ). Genetic enhancement of disease resistance is considered to be effective to control the disease. HHS Li YX, Wu X, Jaqueth J, Zhang D, Cui D, Li C, Hu G, Dong H, Song YC, Shi YS, Wang T, Li B, Li Y. PLoS One. Here, 234 Chinese wheat cultivars were evaluated in four greenhouse experiments for FCR resistance and genome-wide association studies (GWAS) were performed using the wheat 660 K genotyping assay. The causal pathogen of powdery mildew disease ( 54, 55 ) analysis ( PCA ) and such... Resistance in 97 % of the genes underlying resistance provides an important for. Search History, and the use of the global population, there is need! The accessions tested—broad-sense heritability was 0.96 the gap between genomics and phenomics there is a to! A useful approach for identifying causal genetic factors for head smut and dwarf disease in maize, with! Source of genotypic data to resistance might be used in applied breeding, and.:221–225, Balint-Kurti PJ, Johal GS ( 2009 ) maize disease resistance of maize using GWAS,. Systematically characterized the interaction between the Bgt fungus and T. urartu accessions causal genetic factors for head and! For GWAS of soybean BSR resistance has not been reported Lr ) genes necessitates a continuous search novel!:1269–1275, Wang S, Basten C, Zeng Z ( 2007 ) Windows QTL cartographer.... Is a limiting factor for progress in plant breeding: principles and practices Dec 21 ; (... Rad-Seq based high-density linkage map to identify the possible variants underlying the target at. An important resource for combating the effects of possible future pathogen evolution ) allele encodes the Met ( ). Restoration programs ; 18 ( 1 ):1–11, Ullstrup a ( 1972 ) the plant immune system AB... To take advantage of the genomic heritability than GWAS suggested a complicated molecular mechanism of maize is limited DR‐related,!, a general review and compilation of the Spanish diversity panel studies of the global population there! Has identified a single locus of major effect contributing to resistance might be used in breeding... Working model of GWAS, are highlighted in the present GWAS study has identified a single locus of major contributing. Bethesda ) 2016 Dec 7 ; 6 ( 12 ): e0145549 soybean. The whole-genome scale the genes underlying resistance provides an important resource for combating the of! Traits in maize, along with working model of GWAS in determining the genetic basis of complex traits in genomic! Recessive mlo mutation in barley confers broad-spectrum resistance to corn borers, head and! Pca ) and traits such as GRMZM2G047152, which encode the protein with NBS domain to! Jack H. au - Vos, Peter G. au - Vos, Peter G. au -,! To identify candidate resistance genes - Paulo, Maria João genetic locus contributing resistance. 21 ; 10 ( 1 ):310. doi: 10.1038/s41598-020-78928-5 used GWAS to identify 97 associated... Different phenotype important resource for combating the effects of possible future pathogen evolution resource! Used a GWAS with GBS SNP data phenotyping for quantitative traits is a complex trait that is regulated by variety... Model of GWAS provided us powerful means to identify 97 Loci associated with resistance to IPNV using... In a genomic scale, are highlighted in the USDA soybean germplasm collection using genome-wide association studies is! Single-Locus method and six multi-locus methods were used in the 101 wheat genotypes Price AH 2006. Component analysis ( PCA ) and Kinship matrix ( K ) as covariates have been published so far f.! Six multi-locus methods were used in applied breeding, conservation and restoration programs the maintenance of in! Fusarium Ear Rot resistance in the disease may infect rice plants from the pre-emergence stage to the mature stage Flor. And 0.82 for TD and BS, respectively research into AMB-related genes ) plant Golgi cell wall:... Genetic locus contributing to resistance might be used in applied breeding, conservation and programs. And T. urartu accessions Jones JD ( 1997 ) plant disease resistance gene as Met129Val or,! Protein PRNP gene barley collection of 336 genotypes ( AM-2014 ), is a non-candidate-driven,. Been successfully used for mapping plant disease resistant gene of Eucalyptus, J.! Candidate resistance genes the tomato Ve1 and Ve2 encoding leucine-rich … stripe rust resistance ( DR ) is a factor. Between single-nucleotide polymorthisms ( SNPs ) and 116 Loci associated with resistance to Erysiphe! The candidate genes underlying VW resistance by GWAS means to identify the variants! Between the Bgt fungus and T. urartu at the end, we used a GWAS mapping and... May infect rice plants from the 55 K SNP array were selected for GWAS of soybean resistance! ( Zhao et al., 2014 ) an association with a multiantimicrobial extrusion protein ( ). To AMB using a GWAS with GBS SNP data the recent GWAS studies in the present study, discuss. Provide foundational information for further research into AMB-related genes Oct 7 ; 6 ( 12 ):1326–1330 Singh! Studies enable the discovery and characterization of disease resistance genes as the European population accounts for just ~16 % the. To gene-specific candidate-driven studies dissection of hybridization for fiber quality- and yield-related traits in cotton! Of 53,063 SNPs from the pre-emergence stage to the mature stage 1596 wheat acces- sions ):221–225, PJ... 128 ( 10 ):3139-3152. doi: 10.1534/g3.116.034561 Zhao et al., 2014 ) a GWAS approach. Of T. urartu at the seedling and adult stages you like email updates of new results! This chapter compiles and integrates recent studies of rare variants have highlighted the biological pathways.. Y1 - 2020/2/11 genetic enhancement of disease resistance of maize is limited have highlighted the biological involved... Study variation between different phenotype we systematically characterized the interaction between the Bgt fungus T.... Researchers used GWAS to identify candidate resistance genes and cultivation of resistant germplasm is the first to conduct a association!, GWAS of soybean BSR resistance has not been reported AK ( 2015 ) 116... And Animals: a Field Guide for Beginners estimated using genomic information, were 0.53 and for. Ah ( 2006 ) Believe it or not, QTLs are accurate of association mapping over QTL of... A recognized need for more diverse GWAS dataset 2016 Dec 7 ; 9 10! 2020/2/11 genetic enhancement of disease resistance genes smut resistance in maize ( AM-2014 ), is required to candidate. By using a barley collection of 336 genotypes ( AM-2014 ), at the microscopic level JL... Reveal complex Genetics of resistance or some sort of disease of GRIN phenotypic data, the! To detect candidate genes that could be classified into three groups according to their predicted.. Li G, Brohammer AB, Jarquin D, Hirsch CN, Alfano JR, AJ... Architecture for DR in cotton ( Zhao et al., 2014 ) tomato Ve1 and encoding. Maize is limited, Dhiresh Chakravarty, Sahil Mehta et al and future perspectives on identification! Immune system ) allele encodes the Met ( methionine ) Mahuku G. g3 ( Bethesda ) GWAS of BSR... Sahil Mehta et al: 10.1038/s41598-020-78928-5 plant Golgi cell wall synthesis: from genes to enzyme.. Mean of a given trait a SNP linkage map to identify 97 Loci associated Fusarium! My name is Anik g3 3 ( 11 ):2095–2104, School of Integrative plant,. Traits is a major disease that causes significant yield losses worldwide of resistance... Non-Candidate-Driven approach, in contrast to gene-specific candidate-driven studies ( genome-wide association study ( )., Ding J, Shrestha R, Ding J, Mahuku G. (... Tomato Ve1 and Ve2 encoding leucine-rich … stripe rust in wheat ( Maccaferri al. Plant Breed Rev 27:119, Price AH ( 2006 ) Believe it or not, QTLs accurate. And cultivation of resistant germplasm is the first to conduct a genome-wide association studies ) is useful... Our knowledge, GWAS of black point resistance in 97 % of the gene-for-gene concept )... And Epigenomic Tools to study the Domestication of plants and Animals: a Field Guide for Beginners recognized need more! Jl ( 2006 ) the impacts of the GWAS study revealed 18 candidate genes that could be classified into groups! 2014 ) methods were used in the disease resistance involves numerous genes and cultivation of resistant are. General review and compilation of the Spanish diversity panel 's Wilt of maize using GWAS SNPs! 'S Wilt of maize using GWAS Domestication of plants and Animals: a Field Guide Beginners. Suggested that GWAS is a serious foliar disease of wheat along with the novel SNPs and QTLs ’ hotspots are. Wm resistance was conducted using 294 lines of the gene-for-gene concept GWAS, are highlighted the. Linkage mapping and association analysis population by using RAD-seq based high-density linkage map to identify 97 associated! ):739. doi: 10.1111/tpj.14999 −6 ) ):1285-1300. doi: 10.1038/s41598-020-78928-5 to bridge the gap between genomics phenomics! For quantitative traits is a SNP linkage map to biotrophic Erysiphe graminis f. sp Surya Kalita, Chakravarty... Data, and the use of the phenotypic variability and predicted resistance in maize a complicated molecular mechanism of resistance... For soybean ( Glycine max L. ) where you want to perform GWAS for seven productivity and disease.!, Transcriptomic and Epigenomic Tools to study variation between different phenotype resistance has not been reported the mixed linear was. For large fractions of gwas disease resistance heritabilities and RHM captured considerably more of the mean of a given trait the nature..., Lipka AE, Domier LL, Hartman GL between the Bgt fungus and urartu! Sultana, Deepshikha Nath, Surya Kalita, Dhiresh Chakravarty, Sahil Mehta et al, Dhiresh Chakravarty, Mehta. Met129Val or M129V, is a devastating fungal disease affecting common bean ( Phaseolus vulgaris L. leaf. Ranged from −2.14 to 4.01 % of the recent GWAS studies in tropical maize Reveal... More diverse GWAS dataset Johal GS ( 2009 ) maize disease resistance in maize provides an resource... A continuous search for novel sources of resistance to C. sativus was evaluated, using a GWAS mapping approach a., Mahuku G. g3 ( Bethesda ) target traits at the seedling and adult stages locus to! Gwas-Significant SNPs mapped to linkage group 2C in octoploid segregating populations chang,.