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Jabran M, Ali MA, Zahoor A, Muhae-Ud-Din G, Liu T, Chen W, Gao L. Intelligent reprogramming of wheat for enhancement of fungal and nematode disease resistance using advanced molecular techniques. FRONTIERS IN PLANT SCIENCE 2023; 14:1132699. [PMID: 37235011 PMCID: PMC10206142 DOI: 10.3389/fpls.2023.1132699] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/27/2022] [Accepted: 04/19/2023] [Indexed: 05/28/2023]
Abstract
Wheat (Triticum aestivum L.) diseases are major factors responsible for substantial yield losses worldwide, which affect global food security. For a long time, plant breeders have been struggling to improve wheat resistance against major diseases by selection and conventional breeding techniques. Therefore, this review was conducted to shed light on various gaps in the available literature and to reveal the most promising criteria for disease resistance in wheat. However, novel techniques for molecular breeding in the past few decades have been very fruitful for developing broad-spectrum disease resistance and other important traits in wheat. Many types of molecular markers such as SCAR, RAPD, SSR, SSLP, RFLP, SNP, and DArT, etc., have been reported for resistance against wheat pathogens. This article summarizes various insightful molecular markers involved in wheat improvement for resistance to major diseases through diverse breeding programs. Moreover, this review highlights the applications of marker assisted selection (MAS), quantitative trait loci (QTL), genome wide association studies (GWAS) and the CRISPR/Cas-9 system for developing disease resistance against most important wheat diseases. We also reviewed all reported mapped QTLs for bunts, rusts, smuts, and nematode diseases of wheat. Furthermore, we have also proposed how the CRISPR/Cas-9 system and GWAS can assist breeders in the future for the genetic improvement of wheat. If these molecular approaches are used successfully in the future, they can be a significant step toward expanding food production in wheat crops.
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Affiliation(s)
- Muhammad Jabran
- State Key Laboratory for Biology of Plant Diseases, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Muhammad Amjad Ali
- Department of Plant Pathology, University of Agriculture, Faisalabad, Pakistan
| | - Adil Zahoor
- Department of Biotechnology, Chonnam National University, Yeosu, Republic of Korea
| | - Ghulam Muhae-Ud-Din
- State Key Laboratory for Biology of Plant Diseases, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Taiguo Liu
- State Key Laboratory for Biology of Plant Diseases, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Wanquan Chen
- State Key Laboratory for Biology of Plant Diseases, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Li Gao
- State Key Laboratory for Biology of Plant Diseases, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, China
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Javadi H, Dadkhodaie A, Heidari B. Molecular Marker Analysis of Stem Rust Resistance Genes in Some Iranian Wheat Genotypes. CYTOL GENET+ 2021. [DOI: 10.3103/s0095452721050029] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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Megerssa SH, Sorrells ME, Ammar K, Acevedo M, Bergstrom GC, Olivera P, Brown-Guedira G, Ward B, Degete AG, Abeyo B. Genome-wide association mapping of seedling and adult plant response to stem rust in a durum wheat panel. THE PLANT GENOME 2021; 14:e20105. [PMID: 34145776 DOI: 10.1002/tpg2.20105] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/25/2020] [Accepted: 04/19/2021] [Indexed: 05/26/2023]
Abstract
Many of the major stem rust resistance genes deployed in commercial wheat (Triticum spp.) cultivars and breeding lines become ineffective over time because of the continuous emergence of virulent races. A genome-wide association study (GWAS) was conducted using 26,439 single nucleotide polymorphism (SNP) markers and 280 durum wheat [Triticum turgidum L. subsp. Durum (Desf.) Husnot] lines from CIMMYT to identify genomic regions associated with seedling resistance to races TTKSK, TKTTF, JRCQC, and TTRTF and field resistance to TKTTF and JRCQC. The phenotypic data analysis across environments revealed 61-91 and 59-77% of phenotypic variation was explained by the genotypic component for seedling and adult plant response of lines, respectively. For seedling resistance, mixed linear model (MLM) identified eight novel and nine previously reported quantitative trait loci (QTL) while a fixed and random model circulating probability unification (FarmCPU) detected 12 novel and eight previously reported QTL. For field resistance, MLM identified 12 novel and seven previously reported loci while FarmCPU identified seven novel and nine previously reported loci. The regions of Sr7a, Sr8155B1, Sr11, alleles of Sr13, Sr17, Sr22/Sr25, and Sr49 were identified. Novel loci on chromosomes 3B, 4A, 6A, 6B, 7A, and 7B could be used as sources of resistance to the races virulent on durum wheat. Two large-effect markers on chromosome 6A could potentially be used to differentiate resistant haplotypes of Sr13 (R1 and R3). Allelism tests for Sr13, breaking the deleterious effect associated with Sr22/Sr25 and retaining the resistance allele at the Sr49 locus, are needed to protect future varieties from emerging races.
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Affiliation(s)
- Shitaye H Megerssa
- Plant Breeding and Genetics Section, School of Integrative Plant Science, Cornell University, Ithaca, NY, USA
| | - Mark E Sorrells
- Plant Breeding and Genetics Section, School of Integrative Plant Science, Cornell University, Ithaca, NY, USA
| | - Karim Ammar
- International Maize and Wheat Improvement Center (CIMMYT), Mexico, DF, Mexico
| | - Maricelis Acevedo
- Department of Global Development, Cornell University, Ithaca, NY, USA
| | - Gary C Bergstrom
- School of Integrative Plant Science, Plant Pathology and Plant-Microbe Biology Section, Cornell University, Ithaca, NY, USA
| | - Pablo Olivera
- Department of Plant Pathology, University of Minnesota, St. Paul, MN, 55108, USA
| | | | - Brian Ward
- USDA-ARS Plant Science, Raleigh, NC, USA
| | - Ashenafi G Degete
- Debre Zeit Agricultural Research Center, Ethiopian Institute of Agricultural Research (EIAR), Debre Zeit, Ethiopia
| | - Bekele Abeyo
- International Maize and Wheat Improvement Center (CIMMYT), Addis Ababa, Ethiopia
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Jiang C, Kan J, Ordon F, Perovic D, Yang P. Bymovirus-induced yellow mosaic diseases in barley and wheat: viruses, genetic resistances and functional aspects. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2020; 133:1623-1640. [PMID: 32008056 DOI: 10.1007/s00122-020-03555-7] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/30/2019] [Accepted: 01/24/2020] [Indexed: 05/20/2023]
Abstract
Bymovirus-induced yellow mosaic diseases seriously threaten global production of autumn-sown barley and wheat, which are two of the presently most important crops around the world. Under natural field conditions, the diseases are caused by infection of soil-borne plasmodiophorid Polymyxa graminis-transmitted bymoviruses of the genus Bymovirus of the family Potyviridae. Focusing on barley and wheat, this article summarizes the achievements on taxonomy, geography and host specificity of these disease-conferring viruses, as well as the genetics of resistance in barley, wheat and wild relatives. Moreover, based on recent progress of barley and wheat genomics, germplasm resources and large-scale sequencing, the exploration and isolation of corresponding resistant genes from wheat and barley as well as relatives, no matter what a large and complicated genome is present, are becoming feasible and are discussed. Furthermore, the foreseen advances on cloning of the resistance or susceptibility-encoding genes, which will provide the possibility to explore the functional interaction between host plants and soil-borne viral pathogens, are discussed as well as the benefits for marker-assisted resistance breeding in barley and wheat.
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Affiliation(s)
- Congcong Jiang
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences (CAAS), Beijing, 100081, People's Republic of China
| | - Jinhong Kan
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences (CAAS), Beijing, 100081, People's Republic of China
| | - Frank Ordon
- Federal Research Centre for Cultivated Plants, Institute for Resistance Research and Stress Tolerance, Julius Kühn-Institute (JKI), 06484, Quedlinburg, Germany
| | - Dragan Perovic
- Federal Research Centre for Cultivated Plants, Institute for Resistance Research and Stress Tolerance, Julius Kühn-Institute (JKI), 06484, Quedlinburg, Germany
| | - Ping Yang
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences (CAAS), Beijing, 100081, People's Republic of China.
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Hundie B, Girma B, Tadesse Z, Edae E, Olivera P, Abera EH, Bulbula WD, Abeyo B, Badebo A, Cisar G, Brown-Guedira G, Gale S, Jin Y, Rouse MN. Characterization of Ethiopian Wheat Germplasm for Resistance to Four Puccinia graminis f. sp. tritici Races Facilitated by Single-Race Nurseries. PLANT DISEASE 2019; 103:2359-2366. [PMID: 31355733 PMCID: PMC7779970 DOI: 10.1094/pdis-07-18-1243-re] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/25/2023]
Abstract
In Ethiopia, breeding rust resistant wheat cultivars is a priority for wheat production. A stem rust epidemic during 2013 to 2014 on previously resistant cultivar Digalu highlighted the need to determine the effectiveness of wheat lines to multiple races of Puccinia graminis f. sp. tritici in Ethiopia. During 2014 and 2015, we evaluated a total of 97 bread wheat and 14 durum wheat genotypes against four P. graminis f. sp. tritici races at the seedling stage and in single-race field nurseries. Resistance genes were postulated using molecular marker assays. Bread wheat lines were resistant to race JRCQC, the race most virulent to durum wheat. Lines with stem rust resistance gene Sr24 possessed the most effective resistance to the four races. Only three lines with adult plant resistance possessed resistance effective to the four races comparable with cultivars with Sr24. Although responses of the wheat lines across races were positively correlated, wheat lines were identified that possessed adult plant resistance to race TTKSK but were relatively susceptible to race TKTTF. This study demonstrated the importance of testing wheat lines for response to multiple races of the stem rust pathogen to determine if lines possessed non-race-specific resistance. Copyright © 2019 The Author(s). This is an open access article distributed under the CC BY 4.0 International license.
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Affiliation(s)
- Bekele Hundie
- Kulumsa Agricultural Research Center, Ethiopian Institute of Agricultural Research, Kulumsa, Ethiopia
| | - Bedada Girma
- Kulumsa Agricultural Research Center, Ethiopian Institute of Agricultural Research, Kulumsa, Ethiopia
| | - Zerihun Tadesse
- Kulumsa Agricultural Research Center, Ethiopian Institute of Agricultural Research, Kulumsa, Ethiopia
| | - Erena Edae
- Department of Plant Pathology, University of Minnesota, St. Paul, MN 55108, U.S.A
| | - Pablo Olivera
- Department of Plant Pathology, University of Minnesota, St. Paul, MN 55108, U.S.A
| | - Endale Hailu Abera
- Ambo Plant Protection Research Center, Ethiopian Institute of Agricultural Research, Ambo, Ethiopia
| | - Worku Denbel Bulbula
- Debre Zeit Agricultural Research Center, Ethiopian Institute of Agricultural Research, Debre Zeit, Ethiopia
| | - Bekele Abeyo
- International Maize and Wheat Improvement Center, Addis Ababa, Ethiopia
| | - Ayele Badebo
- International Maize and Wheat Improvement Center, Addis Ababa, Ethiopia
| | - Gordon Cisar
- International Programs of the College of Agriculture and Life Sciences, Cornell University, Ithaca, NY 14853, U.S.A
| | - Gina Brown-Guedira
- Plant Science Research Unit, U.S. Department of Agriculture-Agricultural Research Service, Raleigh, NC 27695, U.S.A
| | - Sam Gale
- Cereal Disease Laboratory, U.S. Department of Agriculture-Agricultural Research Service, St. Paul, MN 55108, U.S.A
| | - Yue Jin
- Cereal Disease Laboratory, U.S. Department of Agriculture-Agricultural Research Service, St. Paul, MN 55108, U.S.A
| | - Matthew N Rouse
- Cereal Disease Laboratory, U.S. Department of Agriculture-Agricultural Research Service, St. Paul, MN 55108, U.S.A
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Randhawa MS, Singh RP, Dreisigacker S, Bhavani S, Huerta-Espino J, Rouse MN, Nirmala J, Sandoval-Sanchez M. Identification and Validation of a Common Stem Rust Resistance Locus in Two Bi-parental Populations. FRONTIERS IN PLANT SCIENCE 2018; 9:1788. [PMID: 30555507 PMCID: PMC6283910 DOI: 10.3389/fpls.2018.01788] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/17/2018] [Accepted: 11/16/2018] [Indexed: 05/28/2023]
Abstract
Races belonging to Ug99 lineage of stem rust fungus Puccinia graminis f. sp. tritici (Pgt) continue to pose a threat to wheat (Triticum aestivum L.) production in various African countries. Growing resistant varieties is the most economical and environmentally friendly control measure. Recombinant inbred line (RIL) populations from the crosses of susceptible parent 'Cacuke' with the resistant parents 'Huhwa' and 'Yaye' were phenotyped for resistance at the seedling stage to Pgt race TTKSK (Ug99) and in adult plants in field trials at Njoro, Kenya for two seasons in 2016. Using the Affymetrix Axiom breeders SNP array, two stem rust resistance genes, temporarily designated as SrH and SrY, were identified and mapped on chromosome arm 2BL through selective genotyping and bulked segregant analysis (BSA), respectively. Kompetitive allele specific polymorphism (KASP) markers and simple sequence repeat (SSR) markers were used to saturate chromosome arm 2BL in both RIL populations. SrH mapped between markers cim109 and cim114 at a distance of 0.9 cM proximal, and cim117 at 2.9 cM distal. SrY was flanked by markers cim109 and cim116 at 0.8 cM proximal, and IWB45932 at 1.9 cM distal. Two Ug99-effective stem rust resistance genes derived from bread wheat, Sr9h and Sr28, have been reported on chromosome arm 2BL. Infection types and map position in Huhwa and Yaye indicated that Sr28 was absent in both the parents. However, susceptible reactions produced by resistant lines from both populations against Sr9h-virulent race TTKSF+ confirmed the presence of a common resistance locus Sr9h in both lines. Test of allelism is required to establish genetic relationships between genes identified in present study and Sr9h. Marker cim117 linked to SrH was genotyped on set of wheat lines with Huhwa in the pedigree and is advised to be used for marker assisted selection for this gene, however, a combination of phenotypic and genotypic assays is desirable for both genes especially for selection of Sr9h in breeding programs.
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Affiliation(s)
| | - Ravi P. Singh
- International Maize and Wheat Improvement Center (CIMMYT), Mexico City, Mexico
| | | | - Sridhar Bhavani
- International Maize and Wheat Improvement Center (CIMMYT), Mexico City, Mexico
| | | | - Matthew N. Rouse
- Cereal Disease Laboratory, United States Department of Agriculture-Agricultural Research Service, St. Paul, MN, United States
| | - Jayaveeramuthu Nirmala
- Cereal Disease Laboratory, United States Department of Agriculture-Agricultural Research Service, St. Paul, MN, United States
| | - Maricarmen Sandoval-Sanchez
- International Maize and Wheat Improvement Center (CIMMYT), Mexico City, Mexico
- Colegio de Postgraduados, Texcoco, Mexico
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Qureshi N, Bariana HS, Zhang P, McIntosh R, Bansal UK, Wong D, Hayden MJ, Dubcovsky J, Shankar M. Genetic Relationship of Stripe Rust Resistance Genes Yr34 and Yr48 in Wheat and Identification of Linked KASP Markers. PLANT DISEASE 2018; 102:413-420. [PMID: 30673523 DOI: 10.1094/pdis-08-17-1144-re] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/09/2023]
Abstract
The Australian continent was free from wheat stripe rust caused by Puccinia striiformis f. sp. tritici until exotic incursions occurred in 1979 and 2002. The 2002 incursion enabled the identification of a new stripe rust resistance gene (Yr34) in the advanced breeding line WAWHT2046. In this study, we developed and validated markers closely linked with Yr34, which is located in the distal region in the long arm of chromosome 5A. Four kompetitive allele-specific polymerase chain reaction (KASP) and three sequence-tagged site (STS) markers derived from the International Wheat Genome Sequencing Consortium RefSeq v1.0 scaffold-77836 cosegregated with Yr34. Markers sun711, sun712, sun725, sunKASP_109, and sunKASP_112 were shown to be suitable for marker-assisted selection in a validation panel of 71 Australian spring wheat genotypes, with the exception of cultivar Orion that carried the Yr34-linked alleles for sunKASP_109 and sunKASP_112. Markers previously reported to be linked with adult plant stripe rust resistance gene Yr48 also cosegregated with Yr34. Wheat genotypes carrying Yr34 and Yr48 produced identical haplotypes for the Yr34-linked markers identified in this study and those previously reported to be linked with Yr48. Phenotypic testing of genotypes carrying Yr34 and Yr48 showed that both genes conferred similar seedling responses to pre-2002 and post-2002 P. striiformis f. sp. tritici pathotypes. Further testing of 600 F2 plants from a cross between WAWHT2046 and RIL143 (Yr48) with P. striiformis f. sp. tritici pathotype 134 E16A+Yr17+Yr27+ failed to reveal any susceptible segregants. Our results strongly suggest that Yr34 and Yr48 are the same gene, and that Yr48 should be considered a synonym of Yr34.
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Affiliation(s)
- N Qureshi
- The University of Sydney Plant Breeding Institute, Faculty of Science, Cobbitty, NSW 2570, Australia
| | - H S Bariana
- The University of Sydney Plant Breeding Institute, Faculty of Science, Cobbitty, NSW 2570, Australia
| | - P Zhang
- The University of Sydney Plant Breeding Institute, Faculty of Science, Cobbitty, NSW 2570, Australia
| | - R McIntosh
- The University of Sydney Plant Breeding Institute, Faculty of Science, Cobbitty, NSW 2570, Australia
| | - U K Bansal
- The University of Sydney Plant Breeding Institute, Faculty of Science, Cobbitty, NSW 2570, Australia
| | - D Wong
- Department of Economic Development, Jobs, Transport and Resources, AgriBio Centre, La Trobe Research and Development Park, Bundoora, VIC 3083, Australia
| | - M J Hayden
- Department of Economic Development, Jobs, Transport and Resources, AgriBio Centre, La Trobe Research and Development Park, Bundoora, VIC 3083, Australia
| | - J Dubcovsky
- Department of Plant Sciences, University of California, Davis 95616
| | - M Shankar
- Agriculture and Food, Department of Primary Industries and Regional Development, South Perth, WA 6151, Australia; and School of Agriculture and Environment, University of Western Australia, Crawley WA 6009, Australia
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Aktar-Uz-Zaman M, Tuhina-Khatun M, Hanafi MM, Sahebi M. Genetic analysis of rust resistance genes in global wheat cultivars: an overview. BIOTECHNOL BIOTEC EQ 2017. [DOI: 10.1080/13102818.2017.1304180] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022] Open
Affiliation(s)
- Md Aktar-Uz-Zaman
- Laboratory of Climate-Smart Food Crop Production, Institute of Tropical Agriculture and Food Security, Universiti Putra Malaysia, Serdang, Selangor, Malaysia
- Bangladesh Agricultural Research Institute, Gazipur, Bangladesh
| | - Mst Tuhina-Khatun
- Laboratory of Climate-Smart Food Crop Production, Institute of Tropical Agriculture and Food Security, Universiti Putra Malaysia, Serdang, Selangor, Malaysia
- Bangladesh Rice Research Institute, Gazipur, Bangladesh
| | - Mohamed Musa Hanafi
- Laboratory of Plantation Science and Technology, Institute of Plantation Studies, Universiti Putra Malaysia, Serdang, Selangor, Malaysia
- Department of Land Management, Faculty of Agriculture, Universiti Putra Malaysia, Serdang, Selangor, Malaysia
| | - Mahbod Sahebi
- Laboratory of Climate-Smart Food Crop Production, Institute of Tropical Agriculture and Food Security, Universiti Putra Malaysia, Serdang, Selangor, Malaysia
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Babiker EM, Gordon TC, Chao S, Rouse MN, Wanyera R, Acevedo M, Brown-Guedira G, Bonman JM. 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. PHYTOPATHOLOGY 2017; 107:208-215. [PMID: 27775500 DOI: 10.1094/phyto-08-16-0294-r] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
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. Goodness-of-fit tests indicated that two dominant genes in PI 177906 conditioned seedling resistance to TTKSK. Two major loci for seedling resistance were consistently mapped to the chromosome arms 2BL and 6DS. The BCCBC resistance was mapped to the same location on 2BL as the TTKSK resistance. Using field data from the three seasons, two major QTL were consistently detected at the same regions on 2BL and 6DS. Based on the mapping result, race specificity, and the infection type observed in PI 177906, the TTKSK resistance on 2BL is likely due to Sr28. One SNP marker (KASP_IWB1208) was found to be predictive for the presence of the TTKSK resistance locus on 2BL and Sr28.
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Affiliation(s)
- E M Babiker
- First, second, and eighth authors: U.S. Department of Agriculture-Agricultural Research Service (USDA-ARS), Small Grains and Potato Germplasm Research Unit, 1691 S 2700 W, Aberdeen, ID 83210; third author: USDA-ARS, Cereal Crops Research Unit, 1605 Albrecht Blvd., Fargo, ND 58102; fourth author: USDA-ARS, Cereal Disease Laboratory, 1551 Lindig Ave., St. Paul, MN 55108; fifth author: Kenya Agricultural and Livestock Research Organization, Njoro 20107, Kenya; sixth author: Department of Plant Sciences, North Dakota State University, P.O. Box 6050, Fargo 58108; and seventh author: USDA-ARS, Plant Science Research Unit, Raleigh, NC 27606
| | - T C Gordon
- First, second, and eighth authors: U.S. Department of Agriculture-Agricultural Research Service (USDA-ARS), Small Grains and Potato Germplasm Research Unit, 1691 S 2700 W, Aberdeen, ID 83210; third author: USDA-ARS, Cereal Crops Research Unit, 1605 Albrecht Blvd., Fargo, ND 58102; fourth author: USDA-ARS, Cereal Disease Laboratory, 1551 Lindig Ave., St. Paul, MN 55108; fifth author: Kenya Agricultural and Livestock Research Organization, Njoro 20107, Kenya; sixth author: Department of Plant Sciences, North Dakota State University, P.O. Box 6050, Fargo 58108; and seventh author: USDA-ARS, Plant Science Research Unit, Raleigh, NC 27606
| | - S Chao
- First, second, and eighth authors: U.S. Department of Agriculture-Agricultural Research Service (USDA-ARS), Small Grains and Potato Germplasm Research Unit, 1691 S 2700 W, Aberdeen, ID 83210; third author: USDA-ARS, Cereal Crops Research Unit, 1605 Albrecht Blvd., Fargo, ND 58102; fourth author: USDA-ARS, Cereal Disease Laboratory, 1551 Lindig Ave., St. Paul, MN 55108; fifth author: Kenya Agricultural and Livestock Research Organization, Njoro 20107, Kenya; sixth author: Department of Plant Sciences, North Dakota State University, P.O. Box 6050, Fargo 58108; and seventh author: USDA-ARS, Plant Science Research Unit, Raleigh, NC 27606
| | - M N Rouse
- First, second, and eighth authors: U.S. Department of Agriculture-Agricultural Research Service (USDA-ARS), Small Grains and Potato Germplasm Research Unit, 1691 S 2700 W, Aberdeen, ID 83210; third author: USDA-ARS, Cereal Crops Research Unit, 1605 Albrecht Blvd., Fargo, ND 58102; fourth author: USDA-ARS, Cereal Disease Laboratory, 1551 Lindig Ave., St. Paul, MN 55108; fifth author: Kenya Agricultural and Livestock Research Organization, Njoro 20107, Kenya; sixth author: Department of Plant Sciences, North Dakota State University, P.O. Box 6050, Fargo 58108; and seventh author: USDA-ARS, Plant Science Research Unit, Raleigh, NC 27606
| | - R Wanyera
- First, second, and eighth authors: U.S. Department of Agriculture-Agricultural Research Service (USDA-ARS), Small Grains and Potato Germplasm Research Unit, 1691 S 2700 W, Aberdeen, ID 83210; third author: USDA-ARS, Cereal Crops Research Unit, 1605 Albrecht Blvd., Fargo, ND 58102; fourth author: USDA-ARS, Cereal Disease Laboratory, 1551 Lindig Ave., St. Paul, MN 55108; fifth author: Kenya Agricultural and Livestock Research Organization, Njoro 20107, Kenya; sixth author: Department of Plant Sciences, North Dakota State University, P.O. Box 6050, Fargo 58108; and seventh author: USDA-ARS, Plant Science Research Unit, Raleigh, NC 27606
| | - M Acevedo
- First, second, and eighth authors: U.S. Department of Agriculture-Agricultural Research Service (USDA-ARS), Small Grains and Potato Germplasm Research Unit, 1691 S 2700 W, Aberdeen, ID 83210; third author: USDA-ARS, Cereal Crops Research Unit, 1605 Albrecht Blvd., Fargo, ND 58102; fourth author: USDA-ARS, Cereal Disease Laboratory, 1551 Lindig Ave., St. Paul, MN 55108; fifth author: Kenya Agricultural and Livestock Research Organization, Njoro 20107, Kenya; sixth author: Department of Plant Sciences, North Dakota State University, P.O. Box 6050, Fargo 58108; and seventh author: USDA-ARS, Plant Science Research Unit, Raleigh, NC 27606
| | - G Brown-Guedira
- First, second, and eighth authors: U.S. Department of Agriculture-Agricultural Research Service (USDA-ARS), Small Grains and Potato Germplasm Research Unit, 1691 S 2700 W, Aberdeen, ID 83210; third author: USDA-ARS, Cereal Crops Research Unit, 1605 Albrecht Blvd., Fargo, ND 58102; fourth author: USDA-ARS, Cereal Disease Laboratory, 1551 Lindig Ave., St. Paul, MN 55108; fifth author: Kenya Agricultural and Livestock Research Organization, Njoro 20107, Kenya; sixth author: Department of Plant Sciences, North Dakota State University, P.O. Box 6050, Fargo 58108; and seventh author: USDA-ARS, Plant Science Research Unit, Raleigh, NC 27606
| | - J M Bonman
- First, second, and eighth authors: U.S. Department of Agriculture-Agricultural Research Service (USDA-ARS), Small Grains and Potato Germplasm Research Unit, 1691 S 2700 W, Aberdeen, ID 83210; third author: USDA-ARS, Cereal Crops Research Unit, 1605 Albrecht Blvd., Fargo, ND 58102; fourth author: USDA-ARS, Cereal Disease Laboratory, 1551 Lindig Ave., St. Paul, MN 55108; fifth author: Kenya Agricultural and Livestock Research Organization, Njoro 20107, Kenya; sixth author: Department of Plant Sciences, North Dakota State University, P.O. Box 6050, Fargo 58108; and seventh author: USDA-ARS, Plant Science Research Unit, Raleigh, NC 27606
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Steuernagel B, Periyannan SK, Hernández-Pinzón I, Witek K, Rouse MN, Yu G, Hatta A, Ayliffe M, Bariana H, Jones JDG, Lagudah ES, Wulff BBH. Rapid cloning of disease-resistance genes in plants using mutagenesis and sequence capture. Nat Biotechnol 2016; 34:652-5. [PMID: 27111722 DOI: 10.1038/nbt.3543] [Citation(s) in RCA: 226] [Impact Index Per Article: 28.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/19/2015] [Accepted: 03/16/2016] [Indexed: 01/18/2023]
Abstract
Wild relatives of domesticated crop species harbor multiple, diverse, disease resistance (R) genes that could be used to engineer sustainable disease control. However, breeding R genes into crop lines often requires long breeding timelines of 5-15 years to break linkage between R genes and deleterious alleles (linkage drag). Further, when R genes are bred one at a time into crop lines, the protection that they confer is often overcome within a few seasons by pathogen evolution. If several cloned R genes were available, it would be possible to pyramid R genes in a crop, which might provide more durable resistance. We describe a three-step method (MutRenSeq)-that combines chemical mutagenesis with exome capture and sequencing for rapid R gene cloning. We applied MutRenSeq to clone stem rust resistance genes Sr22 and Sr45 from hexaploid bread wheat. MutRenSeq can be applied to other commercially relevant crops and their relatives, including, for example, pea, bean, barley, oat, rye, rice and maize.
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Affiliation(s)
| | - Sambasivam K Periyannan
- Commonwealth Scientific and Industrial Research Organization (CSIRO), Agriculture Flagship, Canberra, NSW, Australia
| | | | | | - Matthew N Rouse
- USDA-ARS Cereal Disease Laboratory and Department of Plant Pathology, University of Minnesota, St. Paul, Minnesota, USA
| | | | - Asyraf Hatta
- John Innes Centre, Norwich, UK
- Department of Agriculture Technology, Universiti Putra Malaysia, Serdang, Malaysia
| | - Mick Ayliffe
- Commonwealth Scientific and Industrial Research Organization (CSIRO), Agriculture Flagship, Canberra, NSW, Australia
| | - Harbans Bariana
- University of Sydney, Plant Breeding Institute, Cobbitty, NSW, Australia
| | | | - Evans S Lagudah
- Commonwealth Scientific and Industrial Research Organization (CSIRO), Agriculture Flagship, Canberra, NSW, Australia
| | - Brande B H Wulff
- The Sainsbury Laboratory, Norwich, UK
- John Innes Centre, Norwich, UK
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11
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Babiker EM, Gordon TC, Bonman JM, Chao S, Rouse MN, Brown-Guedira G, Williamson S, Pretorius ZA. Rapid Identification of Resistance Loci Effective Against Puccinia graminis f. sp. tritici Race TTKSK in 33 Spring Wheat Landraces. PLANT DISEASE 2016; 100:331-336. [PMID: 30694146 DOI: 10.1094/pdis-04-15-0466-re] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/09/2023]
Abstract
Wheat breeders worldwide are seeking new sources of resistance to Puccinia graminis f. sp. tritici race TTKSK. To prioritize field-resistant landraces for follow-up genetic studies to test for the presence of new resistance genes, seedling response to P. graminis f. sp. tritici race TTKSK, molecular markers linked to specific Sr genes, segregation ratios among progeny from crosses, and bulked segregant analyses (BSA) were used. In total, 33 spring wheat landraces with seedling resistance to P. graminis f. sp. tritici race TTKSK were crossed to a susceptible genotype, LMPG-6. The segregation ratios of stem rust reactions in F2 seedlings fit a single dominant gene model in 31 populations and progeny from two crosses gave ambiguous results. Using the 90K wheat single-nucleotide polymorphism genotyping platform, BSA showed that the seedling resistance in 29 accessions is probably controlled by loci on chromosome 2BL. For the three remaining accessions, BSA revealed that the seedling resistance is most likely controlled by previously unreported genes. For confirmation, two populations were advanced to the F2:3 and screened against P. graminis f. sp. tritici race TTKSK. Segregation of the F2:3 families fit a 1:2:1 ratio for a single dominant gene. Using the F2:3 families, BSA located the TTKSK locus on chromosome 6DS to the same location as Sr42.
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Affiliation(s)
- E M Babiker
- United States Department of Agriculture-Agricultural Research Service (USDA-ARS), Small Grains and Potato Germplasm Research Unit, Aberdeen, ID 83210
| | - T C Gordon
- United States Department of Agriculture-Agricultural Research Service (USDA-ARS), Small Grains and Potato Germplasm Research Unit, Aberdeen, ID 83210
| | - J M Bonman
- United States Department of Agriculture-Agricultural Research Service (USDA-ARS), Small Grains and Potato Germplasm Research Unit, Aberdeen, ID 83210
| | - S Chao
- USDA-ARS, Cereal Crops Research, Fargo, ND 58102
| | - M N Rouse
- USDA-ARS, Cereal Disease Laboratory, St. Paul, MN 55108
| | | | - S Williamson
- Department of Crop Science, North Carolina State University, Raleigh 27695
| | - Z A Pretorius
- Department of Plant Sciences, University of the Free State, Bloemfontein 9300, South Africa
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12
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Bajgain P, Rouse MN, Bulli P, Bhavani S, Gordon T, Wanyera R, Njau PN, Legesse W, Anderson JA, Pumphrey MO. Association mapping of North American spring wheat breeding germplasm reveals loci conferring resistance to Ug99 and other African stem rust races. BMC PLANT BIOLOGY 2015; 15:249. [PMID: 26467989 PMCID: PMC4606553 DOI: 10.1186/s12870-015-0628-9] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/06/2014] [Accepted: 09/28/2015] [Indexed: 05/03/2023]
Abstract
BACKGROUND The recently identified Puccinia graminis f. sp. tritici (Pgt) race TTKSK (Ug99) poses a severe threat to global wheat production because of its broad virulence on several widely deployed resistance genes. Additional virulences have been detected in the Ug99 group of races, and the spread of this race group has been documented across wheat growing regions in Africa, the Middle East (Yemen), and West Asia (Iran). Other broadly virulent Pgt races, such as TRTTF and TKTTF, present further difficulties in maintaining abundant genetic resistance for their effective use in wheat breeding against this destructive fungal disease of wheat. In an effort to identify loci conferring resistance to these races, a genome-wide association study was carried out on a panel of 250 spring wheat breeding lines from the International Maize and Wheat Improvement Center (CIMMYT), six wheat breeding programs in the United States and three wheat breeding programs in Canada. RESULTS The lines included in this study were grouped into two major clusters, based on the results of principal component analysis using 23,976 SNP markers. Upon screening for adult plant resistance (APR) to Ug99 during 2013 and 2014 in artificial stem rust screening nurseries at Njoro, Kenya and at Debre Zeit, Ethiopia, several wheat lines were found to exhibit APR. The lines were also screened for resistance at the seedling stage against races TTKSK, TRTTF, and TKTTF at USDA-ARS Cereal Disease Laboratory in St. Paul, Minnesota; and only 9 of the 250 lines displayed seedling resistance to all the races. Using a mixed linear model, 27 SNP markers associated with APR against Ug99 were detected, including markers linked with the known APR gene Sr2. Using the same model, 23, 86, and 111 SNP markers associated with seedling resistance against races TTKSK, TRTTF, and TKTTF were identified, respectively. These included markers linked to the genes Sr8a and Sr11 providing seedling resistance to races TRTTF and TKTTF, respectively. We also identified putatively novel Sr resistance genes on chromosomes 3B, 4D, 5A, 5B, 6A, 7A, and 7B. CONCLUSION Our results demonstrate that the North American wheat breeding lines have several resistance loci that provide APR and seedling resistance to highly virulent Pgt races. Using the resistant lines and the SNP markers identified in this study, marker-assisted resistance breeding can assist in development of varieties with elevated levels of resistance to virulent stem rust races including TTKSK.
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Affiliation(s)
- P Bajgain
- Department of Agronomy, Purdue University, 915 West State Street, West Lafayette, IN, 47907, USA.
- Department of Agronomy and Plant Genetics, University of Minnesota, St. Paul, MN, 55108, USA.
| | - M N Rouse
- United States Department of Agriculture-Agricultural Research Service (USDA-ARS), Cereal Disease Laboratory, St. Paul, MN, 55108, USA.
- Department of Plant Pathology, University of Minnesota, St. Paul, MN, 55108, USA.
| | - P Bulli
- Department of Crop and Soil Sciences, Washington State University, Pullman, WA, 99164, USA.
| | - S Bhavani
- International Maize and Wheat Improvement Center (CIMMYT), ICRAF House, United Nations Avenue, Gigiri, Nairobi, Kenya.
| | - T Gordon
- United States Department of Agriculture-Agricultural Research Service (USDA-ARS), Aberdeen, ID, 83210, USA.
| | - R Wanyera
- Kenya Agricultural and Livestock Research Organization (KALRO), Njoro, Kenya.
| | - P N Njau
- Kenya Agricultural and Livestock Research Organization (KALRO), Njoro, Kenya.
| | - W Legesse
- Ethiopian Institute of Agricultural Research (EIAR), Pawe, Ethiopia.
| | - J A Anderson
- Department of Agronomy and Plant Genetics, University of Minnesota, St. Paul, MN, 55108, USA.
| | - M O Pumphrey
- Department of Crop and Soil Sciences, Washington State University, Pullman, WA, 99164, USA.
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13
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Chhuneja P, Yadav B, Stirnweis D, Hurni S, Kaur S, Elkot AF, Keller B, Wicker T, Sehgal S, Gill BS, Singh K. Fine mapping of powdery mildew resistance genes PmTb7A.1 and PmTb7A.2 in Triticum boeoticum (Boiss.) using the shotgun sequence assembly of chromosome 7AL. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2015; 128:2099-2111. [PMID: 26160336 DOI: 10.1007/s00122-015-2570-5] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/04/2015] [Accepted: 06/19/2015] [Indexed: 06/04/2023]
Abstract
A novel powdery mildew resistance gene and a new allele of Pm1 were identified and fine mapped. DNA markers suitable for marker-assisted selection have been identified. Powdery mildew caused by Blumeria graminis is one of the most important foliar diseases of wheat and causes significant yield losses worldwide. Diploid A genome species are an important genetic resource for disease resistance genes. Two powdery mildew resistance genes, identified in Triticum boeoticum (A(b)A(b)) accession pau5088, PmTb7A.1 and PmTb7A.2 were mapped on chromosome 7AL. In the present study, shotgun sequence assembly data for chromosome 7AL were utilised for fine mapping of these Pm resistance genes. Forty SSR, 73 resistance gene analogue-based sequence-tagged sites (RGA-STS) and 36 single nucleotide polymorphism markers were designed for fine mapping of PmTb7A.1 and PmTb7A.2. Twenty-one RGA-STS, 8 SSR and 13 SNP markers were mapped to 7AL. RGA-STS markers Ta7AL-4556232 and 7AL-4426363 were linked to the PmTb7A.1 and PmTb7A.2, at a genetic distance of 0.6 and 6.0 cM, respectively. The present investigation established that PmTb7A.1 is a new powdery mildew resistance gene that confers resistance to a broad range of Bgt isolates, whereas PmTb7A.2 most probably is a new allele of Pm1 based on chromosomal location and screening with Bgt isolates showing differential reaction on lines with different Pm1 alleles. The markers identified to be linked to the two Pm resistance genes are robust and can be used for marker-assisted introgression of these genes to hexaploid wheat.
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Affiliation(s)
- Parveen Chhuneja
- School of Agricultural Biotechnology, Punjab Agricultural University, Ludhiana, 141 004, India
| | - Bharat Yadav
- School of Agricultural Biotechnology, Punjab Agricultural University, Ludhiana, 141 004, India
| | - Daniel Stirnweis
- Institute of Plant Biology, University of Zurich, Zurich, Switzerland
| | - Severine Hurni
- Institute of Plant Biology, University of Zurich, Zurich, Switzerland
| | - Satinder Kaur
- School of Agricultural Biotechnology, Punjab Agricultural University, Ludhiana, 141 004, India
| | - Ahmed Fawzy Elkot
- School of Agricultural Biotechnology, Punjab Agricultural University, Ludhiana, 141 004, India
- Wheat Research Department, Field Crops Research Institute, Agriculture Research Center, Giza, 12619, Egypt
| | - Beat Keller
- Institute of Plant Biology, University of Zurich, Zurich, Switzerland
| | - Thomas Wicker
- Institute of Plant Biology, University of Zurich, Zurich, Switzerland
| | - Sunish Sehgal
- Wheat Genetics Resource Center, Department of Plant Pathology, Kansas State University, Manhattan, KS, 66506, USA
- Department of Plant Science, South Dakota State University, Brookings, 57007, USA
| | - Bikram S Gill
- Wheat Genetics Resource Center, Department of Plant Pathology, Kansas State University, Manhattan, KS, 66506, USA
| | - Kuldeep Singh
- School of Agricultural Biotechnology, Punjab Agricultural University, Ludhiana, 141 004, India.
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Briggs J, Chen S, Zhang W, Nelson S, Dubcovsky J, Rouse MN. Mapping of SrTm4, a Recessive Stem Rust Resistance Gene from Diploid Wheat Effective to Ug99. PHYTOPATHOLOGY 2015; 105:1347-54. [PMID: 25844826 PMCID: PMC5102501 DOI: 10.1094/phyto-12-14-0382-r] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/17/2023]
Abstract
Race TTKSK (or Ug99) of Puccinia graminis f. sp. tritici, the causal agent of wheat stem rust, is a serious threat to wheat production worldwide. Diploid wheat, Triticum monococcum (genome Am), has been utilized previously for the introgression of stem rust resistance genes Sr21, Sr22, and Sr35. Multipathotype seedling tests of biparental populations demonstrated that T. monococcum accession PI 306540 collected in Romania contains a recessive resistance gene effective to all P. graminis f. sp. tritici races screened, including race TTKSK. We will refer to this gene as SrTm4, which is the fourth stem rust resistance gene characterized from T. monococcum. Using two mapping populations derived from crosses of PI 272557×PI 306540 and G3116×PI 306540, we mapped SrTm4 on chromosome arm 2AmL within a 2.1 cM interval flanked by sequence-tagged markers BQ461276 and DR732348, which corresponds to a 240-kb region in Brachypodium chromosome 5. The eight microsatellite and nine sequence-tagged markers linked to SrTm4 will facilitate the introgression and accelerate the deployment of SrTm4-mediated Ug99 resistance in wheat breeding programs.
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Affiliation(s)
- Jordan Briggs
- First, fourth, and sixth authors: Department of Plant Pathology, University of Minnesota, St. Paul 55108; second, third, and fifth author: Department of Plant Sciences, University of California, Davis 95616; second author: Triticeae Research Institute, Sichuan Agricultural University, Wenjiang, Chengdu, Sichuan, 611130, P.R. China; fifth author: Howard Hughes Medical Institute, Chevy Chase, MD 20815; and sixth author: USDA-ARS Cereal Disease Laboratory, St. Paul, MN 55108
| | - Shisheng Chen
- First, fourth, and sixth authors: Department of Plant Pathology, University of Minnesota, St. Paul 55108; second, third, and fifth author: Department of Plant Sciences, University of California, Davis 95616; second author: Triticeae Research Institute, Sichuan Agricultural University, Wenjiang, Chengdu, Sichuan, 611130, P.R. China; fifth author: Howard Hughes Medical Institute, Chevy Chase, MD 20815; and sixth author: USDA-ARS Cereal Disease Laboratory, St. Paul, MN 55108
| | - Wenjun Zhang
- First, fourth, and sixth authors: Department of Plant Pathology, University of Minnesota, St. Paul 55108; second, third, and fifth author: Department of Plant Sciences, University of California, Davis 95616; second author: Triticeae Research Institute, Sichuan Agricultural University, Wenjiang, Chengdu, Sichuan, 611130, P.R. China; fifth author: Howard Hughes Medical Institute, Chevy Chase, MD 20815; and sixth author: USDA-ARS Cereal Disease Laboratory, St. Paul, MN 55108
| | - Sarah Nelson
- First, fourth, and sixth authors: Department of Plant Pathology, University of Minnesota, St. Paul 55108; second, third, and fifth author: Department of Plant Sciences, University of California, Davis 95616; second author: Triticeae Research Institute, Sichuan Agricultural University, Wenjiang, Chengdu, Sichuan, 611130, P.R. China; fifth author: Howard Hughes Medical Institute, Chevy Chase, MD 20815; and sixth author: USDA-ARS Cereal Disease Laboratory, St. Paul, MN 55108
| | - Jorge Dubcovsky
- First, fourth, and sixth authors: Department of Plant Pathology, University of Minnesota, St. Paul 55108; second, third, and fifth author: Department of Plant Sciences, University of California, Davis 95616; second author: Triticeae Research Institute, Sichuan Agricultural University, Wenjiang, Chengdu, Sichuan, 611130, P.R. China; fifth author: Howard Hughes Medical Institute, Chevy Chase, MD 20815; and sixth author: USDA-ARS Cereal Disease Laboratory, St. Paul, MN 55108
| | - Matthew N Rouse
- First, fourth, and sixth authors: Department of Plant Pathology, University of Minnesota, St. Paul 55108; second, third, and fifth author: Department of Plant Sciences, University of California, Davis 95616; second author: Triticeae Research Institute, Sichuan Agricultural University, Wenjiang, Chengdu, Sichuan, 611130, P.R. China; fifth author: Howard Hughes Medical Institute, Chevy Chase, MD 20815; and sixth author: USDA-ARS Cereal Disease Laboratory, St. Paul, MN 55108
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15
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Pujol V, Forrest KL, Zhang P, Rouse MN, Hayden MJ, Huang L, Tabe L, Lagudah E. Identification of a stem rust resistance locus effective against Ug99 on wheat chromosome 7AL using a RAD-Seq approach. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2015; 128:1397-1405. [PMID: 25877521 DOI: 10.1007/s00122-015-2514-0] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/21/2014] [Accepted: 04/03/2015] [Indexed: 06/04/2023]
Abstract
A locus of major effect for stem rust resistance, effective against Ug99 and possibly a target of a suppressor on chromosome arm 7DL in wheat cultivar Canthatch, was mapped to 7AL. Wheat stem rust, caused by Puccinia graminis f. sp. tritici (Pgt), is responsible for major production losses around the world. The development of resistant cultivars is an effective and environmentally friendly way to manage the disease, but outbreaks can occur when new pathogen races overcome the existing host resistance genes. Ug99 (race TTKSK) and related Pgt races are virulent to the majority of existing cultivars, which presents a potential threat to global wheat production. The hexaploid wheat cultivar Canthatch has long been known to carry a suppressor of stem rust resistance on chromosome arm 7DL. Multiple "non-suppressor" mutants of Canthatch are reported to have gained resistance to Pgt races, including Ug99 (TTKSK) and related races TTKST and TTTSK. To genetically map the suppressor locus, a mapping population was developed from a cross between the susceptible cultivar Columbus, thought to possess the suppressor, and Columbus-NS766, a resistant, near-isogenic line believed to contain a mutant non-suppressor allele introgressed from Canthatch. Genetic mapping using a 9K SNP genotyping assay and restriction site-associated DNA sequencing (RAD-Seq) on bulked segregants led to the identification of markers linked to a locus of stem rust resistance. Surprisingly, genomic sequence information revealed the markers to be located on 7AL instead of 7DL, indicating that the resistance phenotype was due to a new resistance locus, rather than the inactivated suppressor. We suggest that the 7AL locus of resistance is most likely suppressed by the 7DL suppressor.
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Affiliation(s)
- Vincent Pujol
- CSIRO Plant Industry, GPO Box 1600, Canberra, ACT, 2601, Australia,
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16
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Elkot AFA, Chhuneja P, Kaur S, Saluja M, Keller B, Singh K. Marker Assisted Transfer of Two Powdery Mildew Resistance Genes PmTb7A.1 and PmTb7A.2 from Triticum boeoticum (Boiss.) to Triticum aestivum (L.). PLoS One 2015; 10:e0128297. [PMID: 26066332 PMCID: PMC4466026 DOI: 10.1371/journal.pone.0128297] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/04/2015] [Accepted: 04/27/2015] [Indexed: 11/24/2022] Open
Abstract
Powdery mildew (PM), caused by Blumeria graminis f. sp. tritici, is one of the important wheat diseases, worldwide. Two PM resistance genes, designated as PmTb7A.1 and PmTb7A.2, were identified in T. boeoticum acc. pau5088 and mapped on chromosome 7AL approximately 48cM apart. Two resistance gene analogue (RGA)-STS markers Ta7AL-4556232 and 7AL-4426363 were identified to be linked to the PmTb7A.1 and PmTb7A.2, at a distance of 0.6cM and 6.0cM, respectively. In the present study, following marker assisted selection (MAS), the two genes were transferred to T. aestivum using T. durum as bridging species. As many as 12,317 florets of F1 of the cross T. durum /T. boeoticum were pollinated with T. aestivum lines PBW343-IL and PBW621 to produce 61 and 65 seeds, respectively, of three-way F1. The resulting F1s of the cross T. durum/T. boeoticum//T. aestivum were screened with marker flanking both the PM resistance genes PmTb7A.1 and PmTb7A.2 (foreground selection) and the selected plants were backcrossed to generate BC1F1. Marker assisted selection was carried both in BC1F1 and the BC2F1 generations. Introgression of alien chromatin in BC2F1 plants varied from 15.4-62.9 percent. Out of more than 110 BC2F1 plants showing introgression for markers linked to the two PM resistance genes, 40 agronomically desirable plants were selected for background selection for the carrier chromosome to identify the plants with minimum of the alien introgression. Cytological analysis showed that most plants have chromosome number ranging from 40-42. The BC2F2 plants homozygous for the two genes have been identified. These will be crossed to generate lines combining both the PM resistance genes but with minimal of the alien introgression. The PM resistance gene PmTb7A.1 maps in a region very close to Sr22, a stem rust resistance gene effective against the race Ug99. Analysis of selected plants with markers linked to Sr22 showed introgression of Sr22 from T. boeoticum in several BC2F1 plants. Thus, in addition to PM resistance, these progeny might also carry resistance to stem rust race Ug99.
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Affiliation(s)
| | - Parveen Chhuneja
- School of Agricultural Biotechnology, Punjab Agricultural University, Ludhiana, 141 004, India
| | - Satinder Kaur
- School of Agricultural Biotechnology, Punjab Agricultural University, Ludhiana, 141 004, India
| | - Manny Saluja
- School of Agricultural Biotechnology, Punjab Agricultural University, Ludhiana, 141 004, India
| | - Beat Keller
- Institute of Plant Biology, University of Zurich, Zurich, Switzerland
| | - Kuldeep Singh
- School of Agricultural Biotechnology, Punjab Agricultural University, Ludhiana, 141 004, India
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17
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Babiker EM, Gordon TC, Chao S, Newcomb M, Rouse MN, Jin Y, Wanyera R, Acevedo M, Brown-Guedira G, Williamson S, Bonman JM. Mapping resistance to the Ug99 race group of the stem rust pathogen in a spring wheat landrace. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2015; 128:605-12. [PMID: 25599859 DOI: 10.1007/s00122-015-2456-6] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/05/2014] [Accepted: 01/06/2015] [Indexed: 05/20/2023]
Abstract
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. The DH lines were tested in field stem rust nurseries in Kenya and Ethiopia. The DH lines were genotyped with the 90K wheat iSelect SNP genotyping platform. Goodness-of-fit tests indicated that a single dominant gene in PI 374670 conditioned seedling resistance to the three Pgt races. The seedling resistance locus mapped to the long arm of chromosome 7A and this result was verified in the RIL population screened with the flanking SNP markers using KASP assays. In the same region, a major QTL for field resistance was detected in a 7.7 cM interval and explained 34-54 and 29-36% of the variation in Kenya and Ethiopia, respectively. Results from tests with specific Pgt races and the csIH81 marker showed that the resistance was not due to Sr22. Thus, a new stem rust resistance gene or allele, either closely linked or allelic to Sr15, is responsible for the seedling and field resistance of PI 374670 to Ug99.
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Affiliation(s)
- E M Babiker
- Small Grains and Potato Germplasm Research Unit, USDA-ARS, 1691 S 2700 W, Aberdeen, ID, 83210, USA,
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18
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Upadhyaya NM, Mago R, Staskawicz BJ, Ayliffe MA, Ellis JG, Dodds PN. A bacterial type III secretion assay for delivery of fungal effector proteins into wheat. MOLECULAR PLANT-MICROBE INTERACTIONS : MPMI 2014; 27:255-64. [PMID: 24156769 DOI: 10.1094/mpmi-07-13-0187-fi] [Citation(s) in RCA: 79] [Impact Index Per Article: 7.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/19/2023]
Abstract
Large numbers of candidate effectors from fungal pathogens are being identified through whole-genome sequencing and in planta expression studies. Although Agrobacterium-mediated transient expression has enabled high-throughput functional analysis of effectors in dicot plants, this assay is not effective in cereal leaves. Here, we show that a nonpathogenic Pseudomonas fluorescens engineered to express the type III secretion system (T3SS) of P. syringae and the wheat pathogen Xanthomonas translucens can deliver fusion proteins containing T3SS signals from P. syringae (AvrRpm1) and X. campestris (AvrBs2) avirulence (Avr) proteins, respectively, into wheat leaf cells. A calmodulin-dependent adenylate cyclase reporter protein was delivered effectively into wheat and barley by both bacteria. Absence of any disease symptoms with P. fluorescens makes it more suitable than X. translucens for detecting a hypersensitive response (HR) induced by an effector protein with avirulence activity. We further modified the delivery system by removal of the myristoylation site from the AvrRpm1 fusion to prevent its localization to the plasma membrane which could inhibit recognition of an Avr protein. Delivery of the flax rust AvrM protein by the modified delivery system into transgenic tobacco leaves expressing the corresponding M resistance protein induced a strong HR, indicating that the system is capable of delivering a functional rust Avr protein. In a preliminary screen of effectors from the stem rust fungus Puccinia graminis f. sp. tritici, we identified one effector that induced a host genotype-specific HR in wheat. Thus, the modified AvrRpm1:effector-Pseudomonas fluorescens system is an effective tool for large-scale screening of pathogen effectors for recognition in wheat.
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Ejaz M, Iqbal M, Shahzad A, Atiq‐ur‐Rehman, Ahmed I, Ali GM. Genetic Variation for Markers Linked to Stem Rust Resistance Genes in Pakistani Wheat Varieties. CROP SCIENCE 2012; 52:2638-2648. [DOI: 10.2135/cropsci2012.01.0040] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/07/2024]
Affiliation(s)
- Mahwish Ejaz
- Department of Plant Genomics and BiotechnologyPARC Institute of Advanced Studies in Agriculture, National Agricultural Research Centre (NARC)IslamabadPakistan
| | - Muhammad Iqbal
- Department of Plant Genomics and BiotechnologyPARC Institute of Advanced Studies in Agriculture, National Agricultural Research Centre (NARC)IslamabadPakistan
| | - Armghan Shahzad
- Department of Plant Genomics and BiotechnologyPARC Institute of Advanced Studies in Agriculture, National Agricultural Research Centre (NARC)IslamabadPakistan
| | | | - Iftikhar Ahmed
- Department of Plant Genomics and BiotechnologyPARC Institute of Advanced Studies in Agriculture, National Agricultural Research Centre (NARC)IslamabadPakistan
| | - Ghulam M. Ali
- Department of Plant Genomics and BiotechnologyPARC Institute of Advanced Studies in Agriculture, National Agricultural Research Centre (NARC)IslamabadPakistan
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20
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Liu W, Rouse M, Friebe B, Jin Y, Gill B, Pumphrey MO. Discovery and molecular mapping of a new gene conferring resistance to stem rust, Sr53, derived from Aegilops geniculata and characterization of spontaneous translocation stocks with reduced alien chromatin. Chromosome Res 2011; 19:669-82. [DOI: 10.1007/s10577-011-9226-3] [Citation(s) in RCA: 53] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/14/2011] [Revised: 05/27/2011] [Accepted: 06/16/2011] [Indexed: 02/05/2023]
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