Saturated Genetic Mapping of <i>Wheat Streak Mosaic Virus</i> Resistance Gene <i>Wsm2</i> in Wheat

Assanga, Silvano; Zhang, Guorong; Tan, Chor‐Tee; Rudd, Jackie C.; Ibrahim, Amir M. H.; Xue, Qingwu; Chao, Shiaoman; Fuentealba, Maria P.

doi:10.2135/cropsci2016.04.0233

Cited by 13 publications

(19 citation statements)

References 35 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…A set of 214 F 5:7 RILs derived from a cross of CO960293–2 × TAM 111 (CT111) and the Infinium iSelect 90K SNP array were previously used for fine mapping of Wsm2 in CO960293–2 (Assanga et al, 2016). Moderately susceptible cultivar TAM 111 is clearly distinguishable from CO960293–2 for its response to WSMV infection.…”

Section: Methodsmentioning

confidence: 99%

“…Recent advances in high‐throughput genotyping technology have enabled the discovery of thousands of molecular markers in wheat, mainly single‐nucleotide polymorphisms (SNPs). The development of high‐density SNP markers in hexaploid wheat are widely used to detect the association between markers and traits in genetic mapping experiments (Cabral et al, 2014; Forrest et al, 2014; Jighly et al, 2015; Li et al, 2015; Assanga et al, 2016). A recent study used the 90K Infinium iSelect SNP array to generate a high‐resolution genetic map for identification of SNPs tightly linked to Wsm2 in a recombinant inbred line (RIL) population derived from a cross of CO960293–2 × ‘TAM 111’ (Assanga et al, 2016).…”

mentioning

confidence: 99%

See 1 more Smart Citation

Development and Validation of KASP Markers for Wheat Streak Mosaic Virus Resistance Gene Wsm2

et al. 2017

Self Cite

View full text Add to dashboard Cite

Wheat streak mosaic virus (WSMV) can cause significant yield loss in wheat (Triticum aestivum L.) in the Great Plains of North America. A recently identified WSMV resistance gene, Wsm2, was mapped to chromosome 3BS in germplasm line ‘CO960293–2’. Effective genetic markers tightly linked to the gene will enhance the selection of WSMV‐resistant lines through marker‐assisted selection. We have mapped Wsm2 using a high‐density map developed from the wheat 90K Infinium iSelect single‐nucleotide polymorphism (SNP) array with recombinant inbred lines from the cross between CO960293–2 and susceptible cultivar ‘TAM 111’. Array‐based SNPs that mapped within 4 cM of Wsm2 on chromosome 3BS were converted to Kompetitive Allele Specific Polymerase Chain Reaction (KASP) assays in this study. Six KASP SNPs were validated in two doubled haploid populations developed from crosses of ‘RonL’ × ‘Ripper’ and ‘Snowmass’ × ‘Antero’. RonL and Snowmass possess the Wsm2 gene from CO960293–2. Three closely linked KASP SNPs, converted from IAAV6442, BS00018764_51, and wsnp_Ra_c16264_24873670, showed high sensitivity and specificity (0.83 ≤ sensitivity ≤ 0.97, 0.89 ≤ specificity ≤ 0.99). The latter two were also validated in six F2 breeding populations. These three KASP SNPs were effective in differentiating resistant and susceptible genotypes. Comparative mapping was performed using sequences of SNPs flanking Wsm2 and identified candidate genes and regions in Brachypodium and rice (Oryza sativa L. ssp. japonica). The KASP SNPs developed in this study should be useful for marker‐assisted selection of Wsm2 in wheat breeding programs, and the newly constructed map will also facilitate map based cloning of Wsm2.

show abstract

Section: Methodsmentioning

confidence: 99%

mentioning

confidence: 99%

Development and Validation of KASP Markers for Wheat Streak Mosaic Virus Resistance Gene Wsm2

et al. 2017

Self Cite

View full text Add to dashboard Cite

show abstract

“…Maps saturated with 90K array and GBS markers have proven very feasible and useful for fine mapping of QTL for different traits and candidate gene cloning in wheat (Poland et al, 2012;Saintenac et al, 2013;Spindel et al, 2013;Assanga et al, 2017aAssanga et al, , 2017b. With the development of next-generation sequencing, high-density genetic maps have been constructed for sorghum [Sorghum bicolor (L.) Moench], wheat, rice (Oryza sativa L.), barley (Hordeum vulgare L.), and many other crops.…”

Section: Efficiency Of 90k Array and Gbs Snpsmentioning

confidence: 99%

“…With the development of next-generation sequencing, high-density genetic maps have been constructed for sorghum [Sorghum bicolor (L.) Moench], wheat, rice (Oryza sativa L.), barley (Hordeum vulgare L.), and many other crops. Maps saturated with 90K array and GBS markers have proven very feasible and useful for fine mapping of QTL for different traits and candidate gene cloning in wheat (Poland et al, 2012;Saintenac et al, 2013;Spindel et al, 2013;Assanga et al, 2017aAssanga et al, , 2017b. The genetic map was created previously (Basnet et al, 2014) using DArT genotyping, which is the limitation of the representation of whole-genome variation, making it difficult to be applied in many species and high-throughput screening.…”

Section: Efficiency Of 90k Array and Gbs Snpsmentioning

confidence: 99%

“…Using eight biparental mapping populations, Wang et al (2014) mapped 40,267 SNPs out of the 91,829 (90K) SNPs and used them to construct a consensus genetic map, which serves as an invaluable resource for QTL mapping studies in wheat. Assanga et al (2017aAssanga et al ( , 2017b used 90K array SNPs to map a resistance gene Wsm2 for Wheat streak mosaic virus and yield components in dry and irrigated conditions. More recently, GBS appears to be a promising alternative and can be readily used for either de novo discovery or whole-genome-wide sequencing of large populations at low cost (Poland et al, 2012).…”

mentioning

confidence: 99%

See 1 more Smart Citation

Developing KASP Markers on a Major Stripe Rust Resistance QTL in a Popular Wheat TAM 111 Using 90K Array and Genotyping‐by‐Sequencing SNPs

et al. 2019

Self Cite

View full text Add to dashboard Cite

Stripe rust, caused by Puccinia striiformis Westend. f. sp. tritici Erikss. (Pst), is an important disease of wheat (Triticum aestivum L.) in the United States and many other areas of the world. To identify the genetic basis of resistance in the winter wheat cultivar ‘TAM 111’, a mapping population of 124 F6 recombinant inbred lines (RILs) developed from the cross TAM 112/TAM 111 was evaluated against Pst populations over eight field environments in the United States and against race PST‐100 in the greenhouse. A high‐density genetic map was constructed using the wheat 90K iSelect array and genotyping‐by‐sequencing (GBS) markers. A set of 6343 markers covering 11.8 Gb of all 21 chromosomes, including 16 simple sequence repeat (SSR) and sequence‐tagged site (STS), 3335 GBS, and 2992 single nucleotide polymorphism (SNP) markers from the 90K array were used for quantitative trait locus (QTL) analyses. Eight QTL on chromosomes 1A, 2A, 2B, 4A, 4B, 6B, and 7D were identified, and two of them were novel. Six tightly linked SNP markers were converted to Kompetitive allele specific polymerase chain reaction (KASP) markers for high‐throughput screening of the largest and most consistent QTL at 154.3 Mb of chromosome 2B. This QTL, QYr.tamu‐2B, was involved with significant epistatic interactions on both disease severity and infection type, and epistasis × environment interactions with QYr.tamu‐2A1 on disease severity only. These QTL can be combined with effective major genes to enhance the stripe rust resistance, and corresponding diagnostic markers can be applied through marker‐assisted breeding.

show abstract

Development and validation of KASP markers for the greenbug resistance gene Gb7 and the Hessian fly resistance gene H32 in wheat

Tan¹,

Yu²,

Yang

et al. 2017

Theor Appl Genet

View full text Add to dashboard Cite

Greenbug and Hessian fly are important pests that decrease wheat production worldwide. We developed and validated breeder-friendly KASP markers for marker-assisted breeding to increase selection efficiency. Greenbug (Schizaphis graminum Rondani) and Hessian fly [Mayetiola destructor (Say)] are two major destructive insect pests of wheat (Triticum aestivum L.) throughout wheat production regions in the USA and worldwide. Greenbug and Hessian fly infestation can significantly reduce grain yield and quality. Breeding for resistance to these two pests using marker-assisted selection (MAS) is the most economical strategy to minimize losses. In this study, doubled haploid lines from the Synthetic W7984 × Opata M85 wheat reference population were used to construct linkage maps for the greenbug resistance gene Gb7 and the Hessian fly resistance gene H32 with genotyping-by-sequencing (GBS) and 90K array-based single nucleotide polymorphism (SNP) marker data. Flanking markers were closely linked to Gb7 and H32 and were located on chromosome 7DL and 3DL, respectively. Gb7-linked markers (synopGBS773 and synopGBS1141) and H32-linked markers (synopGBS901 and IWB65911) were converted into Kompetitive Allele Specific PCR (KASP) assays for MAS in wheat breeding. In addition, comparative mapping identified syntenic regions in Brachypodium distachyon, rice (Oryza sativa), and sorghum (Sorghum bicolor) for Gb7 and H32 that can be used for fine mapping and map-based cloning of the genes. The KASP markers developed in this study are the first set of SNPs tightly linked to Gb7 and H32 and will be very useful for MAS in wheat breeding programs and future genetic studies of greenbug and Hessian fly resistance.

show abstract

Saturated Genetic Mapping of Wheat Streak Mosaic Virus Resistance Gene Wsm2 in Wheat

Abstract: Abbreviations: 3BS, short arm of chromosome 3B; DAI, days after inoculation; MAS, marker-assisted selection; QTL, quantitative trait locus; RIL, recombinant inbred lines; SNP, single nucleotide polymorphism; SSR, simple sequence repeat; WSMV, Wheat streak mosaic virus.

Cited by 13 publications

References 35 publications

Development and Validation of KASP Markers for Wheat Streak Mosaic Virus Resistance Gene Wsm2

Development and Validation of KASP Markers for Wheat Streak Mosaic Virus Resistance Gene Wsm2

Developing KASP Markers on a Major Stripe Rust Resistance QTL in a Popular Wheat TAM 111 Using 90K Array and Genotyping‐by‐Sequencing SNPs

Development and validation of KASP markers for the greenbug resistance gene Gb7 and the Hessian fly resistance gene H32 in wheat

Contact Info

Product

Resources

About