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Wheat SNP KASP

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https://www.readbyqxmd.com/read/28913866/conversion-of-array-based-single-nucleotide-polymorphic-markers-for-use-in-targeted-genotyping-by-sequencing-in-hexaploid-wheat-triticum-aestivum
#1
Amanda J Burridge, Paul A Wilkinson, Mark O Winfield, Gary L A Barker, Alexandra M Allen, Jane A Coghill, Christy Waterfall, Keith J Edwards
Wheat breeders and academics alike use Single Nucleotide Polymorphisms (SNPs) as molecular markers to characterise regions of interest within the hexaploid wheat genome. A number of SNP-based genotyping platforms are available and their utility depends upon factors such as the available technologies, number of data points required, budgets and the technical expertise required. Unfortunately, markers can rarely be exchanged between existing and newly developed platforms, meaning that previously generated data cannot be compared, or combined, with more recently generated datasets...
September 15, 2017: Plant Biotechnology Journal
https://www.readbyqxmd.com/read/28832276/combining-snp-genotyping-array-with-bulked-segregant-analysis-to-map-a-gene-controlling-adult-plant-resistance-to-stripe-rust-in-wheat-line-03031-1-5-h62
#2
Jianhui Wu, Qilin Wang, Liangsheng Xu, Xianming Chen, Bei Li, Jingmei Mu, Qingdong Zeng, Lili Huang, Dejun Han, Zhensheng Kang
Stripe rust, caused by Puccinia striiformis f. sp. tritici (Pst), is one of the most devastating diseases of wheat worldwide. Growing resistant cultivars is considered the best approach to manage this disease. In order to identify the resistance gene(s) in wheat line 03031-1-5 H62, which displayed high resistance to stripe rust at adult plant stage, a cross was made between 03031-1-5 H62 and susceptible cultivar Avocet S. The mapping population was tested with Chinese Pst race CYR32 through artificial inoculation in a field in Yangling, Shaanxi Province and in Tianshui, Gansu Province under natural infection...
August 23, 2017: Phytopathology
https://www.readbyqxmd.com/read/28760136/development-of-a-high-density-linkage-map-and-mapping-of-the-three-pistil-gene-pis1-in-wheat-using-gbs-markers
#3
Zaijun Yang, Zhenyong Chen, Zhengsong Peng, Yan Yu, Mingli Liao, Shuhong Wei
BACKGROUND: The wheat mutant line three-pistil (TP) exhibits three pistils per floret. As TP normally has two or three seeds in each of the florets on the same spike, there is the possibility of increasing the number of grains per spike. Therefore, TP is a highly valuable mutant for breeding and for the study of floral development in wheat. To map the three-pistil gene (Pis1), genotyping-by-sequencing single-nucleotide polymorphism (GBS-SNP) data from an F2 mapping population (CM28 × CM28TP) was used to construct a genetic map that is of significant value...
July 31, 2017: BMC Genomics
https://www.readbyqxmd.com/read/28624908/development-and-validation-of-kasp-markers-for-the-greenbug-resistance-gene-gb7-and-the-hessian-fly-resistance-gene-h32-in-wheat
#4
Chor-Tee Tan, Hangjin Yu, Yan Yang, Xiangyang Xu, Mingshun Chen, Jackie C Rudd, Qingwu Xue, Amir M H Ibrahim, Lisa Garza, Shichen Wang, Mark E Sorrells, Shuyu Liu
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...
June 17, 2017: TAG. Theoretical and Applied Genetics. Theoretische und Angewandte Genetik
https://www.readbyqxmd.com/read/28589757/quantitative-trait-loci-for-slow-rusting-resistance-to-leaf-rust-in-doubled-haploid-wheat-population-ci13227-%C3%A3-lakin
#5
Yue Lu, Robert L Bowden, Guorong Zhang, Xiangyang Xu, Allan K Fritz, Guihua Bai
CI13227 is a U.S. winter wheat line with adult-plant slow-rusting resistance that has been the subject of several studies on the characteristics and components of slow rusting. Previous genetic studies used different populations and approaches and came to different conclusions about the genetic basis of resistance in CI13227. To clarify the situation, a new doubled-haploid (DH) population of CI13227 × Lakin was produced and a linkage map was constructed using 5,570 single-nucleotide polymorphism (SNP) markers derived from wheat 90K SNP assays and 84 simple sequence repeat markers...
August 18, 2017: Phytopathology
https://www.readbyqxmd.com/read/28491075/saturation-mapping-of-a-major-effect-qtl-for-stripe-rust-resistance-on-wheat-chromosome-2b-in-cultivar-napo-63-using-snp-genotyping-arrays
#6
Jianhui Wu, Qilin Wang, Shengjie Liu, Shuo Huang, Jingmei Mu, Qingdong Zeng, Lili Huang, Dejun Han, Zhensheng Kang
Stripe rust or yellow rust (YR), caused by Puccinia striiformis f. sp. tritici (Pst), is one of the most important diseases of wheat (Triticum aestivum L.). Widespread deployment of resistant cultivars is the best means of achieving durable disease control. The red grain, spring wheat cultivar Napo 63 produced by CIMMYT in the 1960s shows a high level of adult-plant resistance to stripe rust in the field. To elucidate the genetic basis of resistance in this cultivar we evaluated 224 F2:3 lines and 175 F2:6 recombinant inbred lines (RILs) derived from a cross between Napo 63 and the Pst-susceptible line Avocet S...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28255671/identification-of-pm58-from-aegilops-tauschii
#7
Andrew T Wiersma, Jane A Pulman, Linda K Brown, Christina Cowger, Eric L Olson
A novel powdery mildew-resistance gene, designated Pm58, was introgressed directly from Aegilops tauschii to hexaploid wheat, mapped to chromosome 2DS, and confirmed to be effective under field conditions. Selectable KASP™ markers were developed for MAS. Powdery mildew caused by Blumeria graminis (DC.) f. sp. tritici (Bgt) remains a significant threat to wheat (Triticum aestivum L.) production. The rapid breakdown of race-specific resistance to Bgt reinforces the need to identify novel sources of resistance...
June 2017: TAG. Theoretical and Applied Genetics. Theoretische und Angewandte Genetik
https://www.readbyqxmd.com/read/28241006/identification-and-validation-of-single-nucleotide-polymorphic-markers-linked-to-ug99-stem-rust-resistance-in-spring-wheat
#8
Long-Xi Yu, Shiaoman Chao, Ravi P Singh, Mark E Sorrells
Wheat stem rust (Puccinia graminis f. sp. tritici Eriks. and E. Henn.) is one of the most destructive diseases world-wide. Races belonging to Ug99 (or TTKSK) continue to cause crop losses in East Africa and threaten global wheat production. Developing and deploying wheat varieties with multiple race-specific genes or complex adult plant resistance is necessary to achieve durability. In the present study, we applied genome-wide association studies (GWAS) for identifying loci associated with the Ug99 stem rust resistance (SR) in a panel of wheat lines developed at the International Maize and Wheat Improvement Center (CIMMYT)...
2017: PloS One
https://www.readbyqxmd.com/read/28202046/highly-predictive-snp-markers-for-efficient-selection-of-the-wheat-leaf-rust-resistance-gene-lr16
#9
Mulualem T Kassa, Frank M You, Colin W Hiebert, Curtis J Pozniak, Pierre R Fobert, Andrew G Sharpe, James G Menzies, D Gavin Humphreys, Nicole Rezac Harrison, John P Fellers, Brent D McCallum, Curt A McCartney
BACKGROUND: Lr16 is a widely deployed leaf rust resistance gene in wheat (Triticum aestivum L.) that is highly effective against the North American Puccinia triticina population when pyramided with the gene Lr34. Lr16 is a seedling leaf rust resistance gene conditioning an incompatible interaction with a distinct necrotic ring surrounding the uredinium. Lr16 was previously mapped to the telomeric region of the short arm of wheat chromosome 2B. The goals of this study were to develop numerous single nucleotide polymorphism (SNP) markers for the Lr16 region and identify diagnostic gene-specific SNP marker assays for marker-assisted selection (MAS)...
February 15, 2017: BMC Plant Biology
https://www.readbyqxmd.com/read/27775500/molecular-mapping-of-stem-rust-resistance-loci-effective-against-the-ug99-race-group-of-the-stem-rust-pathogen-and-validation-of-a-single-nucleotide-polymorphism-marker-linked-to-stem-rust-resistance-gene-sr28
#10
E M Babiker, T C Gordon, S Chao, M N Rouse, R Wanyera, M Acevedo, G Brown-Guedira, J M Bonman
Wheat landrace PI 177906 has seedling resistance to stem rust caused by Puccinia graminis f. sp. tritici races TTKSK, TTKST, and BCCBC and field resistance to the Ug99 race group. Parents, 140 recombinant inbred lines, and 138 double haploid (DH) lines were evaluated for seedling resistance to races TTKSK and BCCBC. Parents and the DH population were evaluated for field resistance to Ug99 in Kenya. The 90K wheat single nucleotide polymorphism (SNP) genotyping platform was used to genotype the parents and populations...
February 2017: Phytopathology
https://www.readbyqxmd.com/read/27744491/qtl-mapping-identifies-a-major-locus-for-resistance-in-wheat-to-sunn-pest-eurygaster-integriceps-feeding-at-the-vegetative-growth-stage
#11
L C Emebiri, M-K Tan, M El-Bouhssini, O Wildman, A Jighly, W Tadesse, F C Ogbonnaya
This research provides the first report of a major locus controlling wheat resistance to Sunn pest. It developed and validated SNP markers that will be useful for marker-assisted selection. Sunn pest (Eurygaster integriceps Puton) is the most destructive insect pest of bread wheat and durum wheat in West and Central Asia and East Europe. Breeding for resistance at the vegetative stage of growth is vital in reducing the damage caused by overwintered adult populations that feed on shoot and leaves of seedlings, and in reducing the next generation of pest populations (nymphs and adults), which can cause damage to grain quality by feeding on spikes...
February 2017: TAG. Theoretical and Applied Genetics. Theoretische und Angewandte Genetik
https://www.readbyqxmd.com/read/27544524/genetic-mapping-of-resistance-to-the-ug99-race-group-of-puccinia-graminis-f-sp-tritici-in-a-spring-wheat-landrace-citr-4311
#12
E M Babiker, T C Gordon, S Chao, M N Rouse, R Wanyera, M Newcomb, G Brown-Guedira, Z A Pretorius, J M Bonman
A gene for Ug99 resistance from wheat landrace CItr 4311 was detected on the long arm of chromosome 2B. Wheat landrace CItr 4311 has seedling resistance to stem rust caused by Puccinia graminis f. sp. tritici race TTKSK and field resistance to the Ug99 race group. Parents, F1 seedlings, 121 doubled haploid (DH) lines, and 124 recombinant inbred lines (RILs) developed from a cross between CItr 4311 and the susceptible line LMPG-6 were evaluated for seedling resistance to race TTKSK. Goodness-of-fit tests indicated that a single dominant gene in CItr 4311 conditioned the TTKSK resistance...
November 2016: TAG. Theoretical and Applied Genetics. Theoretische und Angewandte Genetik
https://www.readbyqxmd.com/read/27359266/markers-linked-to-wheat-stem-rust-resistance-gene-sr11-effective-to-puccinia-graminis-f-sp-tritici-race-tkttf
#13
Jayaveeramuthu Nirmala, Shiaoman Chao, Pablo Olivera, Ebrahiem M Babiker, Bekele Abeyo, Zerihun Tadesse, Muhammad Imtiaz, Luther Talbert, Nancy K Blake, Eduard Akhunov, Michael O Pumphrey, Yue Jin, Matthew N Rouse
Wheat stem rust, caused by Puccinia graminis f. sp. tritici, can cause severe yield losses on susceptible wheat varieties and cultivars. Although stem rust can be controlled by the use of genetic resistance, population dynamics of P. graminis f. sp. tritici can frequently lead to defeat of wheat stem rust resistance genes. P. graminis f. sp. tritici race TKTTF caused a severe epidemic in Ethiopia on Ug99-resistant 'Digalu' in 2013 and 2014. The gene Sr11 confers resistance to race TKTTF and is present in 'Gabo 56'...
November 2016: Phytopathology
https://www.readbyqxmd.com/read/26821936/comparison-of-snp-and-caps-markers-application-in-genetic-research-in-wheat-and-barley
#14
REVIEW
Yuri Shavrukov
BACKGROUND: Barley and bread wheat show large differences in frequencies of Single Nucleotide Polymorphism (SNP) as determined from genome-wide studies. These frequencies have been estimated as 2.4-3 times higher in the entire barley genome than within each diploid genomes of wheat (A, B or D). However, barley SNPs within individual genes occur significantly more frequently than quoted. Differences between wheat and barley are based on the origin and evolutionary history of the species...
January 27, 2016: BMC Plant Biology
https://www.readbyqxmd.com/read/26714310/genome-wide-linkage-mapping-of-qtl-for-adult-plant-resistance-to-stripe-rust-in-a-chinese-wheat-population-linmai-2-%C3%A3-zhong-892
#15
Jindong Liu, Zhonghu He, Ling Wu, Bin Bai, Weie Wen, Chaojie Xie, Xianchun Xia
Stripe rust is one of the most devastating diseases of wheat (Triticum aestivum) worldwide. Adult-plant resistance (APR) is an efficient approach to provide long-term protection of wheat from the disease. The Chinese winter wheat cultivar Zhong 892 has a moderate level of APR to stripe rust in the field. To determine the inheritance of the APR resistance in this cultivar, 273 F6 recombinant inbred lines (RILs) were developed from a cross between Linmai 2 and Zhong 892. The RILs were evaluated for maximum disease severity (MDS) in two sites during the 2011-2012, 2012-2013 and 2013-2014 cropping seasons, providing data for five environments...
2015: PloS One
https://www.readbyqxmd.com/read/26625271/using-next-generation-sequencing-for-multiplexed-trait-linked-markers-in-wheat
#16
Amy Bernardo, Shan Wang, Paul St Amand, Guihua Bai
With the advent of next generation sequencing (NGS) technologies, single nucleotide polymorphisms (SNPs) have become the major type of marker for genotyping in many crops. However, the availability of SNP markers for important traits of bread wheat (Triticum aestivum L.) that can be effectively used in marker-assisted selection (MAS) is still limited and SNP assays for MAS are usually uniplex. A shift from uniplex to multiplex assays will allow the simultaneous analysis of multiple markers and increase MAS efficiency...
2015: PloS One
https://www.readbyqxmd.com/read/25851002/genotyping-by-sequencing-gbs-identified-snp-tightly-linked-to-qtl-for-pre-harvest-sprouting-resistance
#17
Meng Lin, Shibin Cai, Shan Wang, Shubing Liu, Guorong Zhang, Guihua Bai
Using a GBS-SNP map, a QTL for pre-harvest sprouting resistance on 4AL of Totoumai A was delimited to 2.9-cM interval, and SNP closely linked to several other QTL were identified. Pre-harvest sprouting (PHS) of wheat is a major constraint to wheat production in many wheat-growing areas worldwide, because it reduces both wheat grain yield and the end-use quality. To identify markers tightly linked to the quantitative trait loci (QTL) for PHS resistance and seed dormancy (SD), we evaluated 155 recombinant inbred lines (RIL) derived from a cross between a PHS-resistant parent 'Tutoumai A' and a PHS-susceptible parent 'Siyang 936' for single-nucleotide polymorphisms (SNP) using genotyping-by-sequencing (GBS), and for PHS resistance and SD using both field and greenhouse grown plants...
July 2015: TAG. Theoretical and Applied Genetics. Theoretische und Angewandte Genetik
https://www.readbyqxmd.com/read/25599859/mapping-resistance-to-the-ug99-race-group-of-the-stem-rust-pathogen-in-a-spring-wheat-landrace
#18
E M Babiker, T C Gordon, S Chao, M Newcomb, M N Rouse, Y Jin, R Wanyera, M Acevedo, G Brown-Guedira, S Williamson, J M Bonman
A new gene for Ug99 resistance from wheat landrace PI 374670 was detected on the long arm of chromosome 7A. Wheat landrace PI 374670 has seedling and field resistance to stem rust caused by Puccinia graminis f. sp tritici Eriks. & E. Henn (Pgt) race TTKSK. To elucidate the inheritance of resistance, 216 BC1F2 families, 192 double haploid (DH) lines, and 185 recombinant inbred lines (RILs) were developed by crossing PI 374670 and the susceptible line LMPG-6. The parents and progeny were evaluated for seedling resistance to Pgt races TTKSK, MCCFC, and TPMKC...
April 2015: TAG. Theoretical and Applied Genetics. Theoretische und Angewandte Genetik
https://www.readbyqxmd.com/read/25432597/identification-of-candidate-genes-regions-and-markers-for-pre-harvest-sprouting-resistance-in-wheat-triticum-aestivum-l
#19
Adrian L Cabral, Mark C Jordan, Curt A McCartney, Frank M You, D Gavin Humphreys, Ron MacLachlan, Curtis J Pozniak
BACKGROUND: Pre-harvest sprouting (PHS) of wheat grain leads to a reduction in grain yield and quality. The availability of markers for marker-assisted selection (MAS) of PHS resistance will serve to enhance breeding selection and advancement of lines for cultivar development. The aim of this study was to identify candidate regions and develop molecular markers for PHS resistance in wheat. This was achieved via high density mapping of single nucleotide polymorphism (SNP) markers from an Illumina 90 K Infinium Custom Beadchip in a doubled haploid (DH) population derived from a RL4452/'AC Domain' cross and subsequent detection of quantitative trait loci (QTL) for PHS related traits (falling number [FN], germination index [GI] and sprouting index [SI])...
2014: BMC Plant Biology
https://www.readbyqxmd.com/read/25382230/rna-seq-bulked-segregant-analysis-enables-the-identification-of-high-resolution-genetic-markers-for-breeding-in-hexaploid-wheat
#20
Ricardo H Ramirez-Gonzalez, Vanesa Segovia, Nicholas Bird, Paul Fenwick, Sarah Holdgate, Simon Berry, Peter Jack, Mario Caccamo, Cristobal Uauy
The identification of genetic markers linked to genes of agronomic importance is a major aim of crop research and breeding programmes. Here, we identify markers for Yr15, a major disease resistance gene for wheat yellow rust, using a segregating F2 population. After phenotyping, we implemented RNA sequencing (RNA-Seq) of bulked pools to identify single-nucleotide polymorphisms (SNP) associated with Yr15. Over 27 000 genes with SNPs were identified between the parents, and then classified based on the results from the sequenced bulks...
June 2015: Plant Biotechnology Journal
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