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Li J, Guan H, Wang Y, Dong C, Trethowan R, McIntosh RA, Zhang P. Cytological and molecular characterization of wheat lines carrying leaf rust and stem rust resistance genes Lr24 and Sr24. Sci Rep 2024; 14:12816. [PMID: 38834653 DOI: 10.1038/s41598-024-63835-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/25/2024] [Accepted: 06/03/2024] [Indexed: 06/06/2024] Open
Abstract
Previous studies showed that Australian wheat cultivars Janz and Sunco carry leaf rust and stem rust resistance genes Lr24 and Sr24 derived from Thinopyrum ponticum chromosome arm 3AgL. However, the size of the alien segments carrying Lr24 and Sr24 in the lines were not determined. In this study, we used non-denaturing fluorescence in situ hybridization (ND-FISH), genomic in situ hybridization (GISH), and PCR-based landmark unique gene (PLUG) markers to visualize the alien segments in Janz and Sunco, and further compared them with the segments in US cultivars Agent and Amigo. The fraction length (FL) of the alien translocation in Agent was 0.70-1.00, whereas those in Janz, Sunco, and Amigo were smaller, at FL 0.85-1.00. It was deduced that the alien gene RAg encoding for red grain color and rust resistance genes Lr24 and Sr24 on chromosome arm 3AgL were in bins of FL 0.70-0.85 and 0.85-1.00, respectively. We retrieved and extracted nucleotide-binding site-leucine-rich repeat (NBS-LRR) receptor genes corresponding to the region of Lr24 and Sr24 on chromosomes 3E, and 3J, 3Js and 3St from the reference genome sequences of Th. elongatum and Th. intermedium, respectively. A set of molecular markers developed for Lr24 and Sr24 from those extracted NBS-LRR genes will provide valuable information for fine mapping and cloning of these genes.
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Affiliation(s)
- Jianbo Li
- Plant Breeding Institute, School of Life and Environment Sciences, The University of Sydney, 107 Cobbitty Road, Cobbitty, NSW, 2570, Australia
| | - Haixia Guan
- Plant Breeding Institute, School of Life and Environment Sciences, The University of Sydney, 107 Cobbitty Road, Cobbitty, NSW, 2570, Australia
| | - Yuqi Wang
- Plant Breeding Institute, School of Life and Environment Sciences, The University of Sydney, 107 Cobbitty Road, Cobbitty, NSW, 2570, Australia
- Triticeae Research Institute, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China
| | - Chongmei Dong
- Plant Breeding Institute, School of Life and Environment Sciences, The University of Sydney, 107 Cobbitty Road, Cobbitty, NSW, 2570, Australia
| | - Richard Trethowan
- Plant Breeding Institute, School of Life and Environment Sciences, The University of Sydney, 107 Cobbitty Road, Cobbitty, NSW, 2570, Australia
| | - Robert A McIntosh
- Plant Breeding Institute, School of Life and Environment Sciences, The University of Sydney, 107 Cobbitty Road, Cobbitty, NSW, 2570, Australia.
| | - Peng Zhang
- Plant Breeding Institute, School of Life and Environment Sciences, The University of Sydney, 107 Cobbitty Road, Cobbitty, NSW, 2570, Australia.
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Vishwakarma G, Saini A, Bhardwaj SC, Kumar S, Das BK. Comparative transcriptomics of stem rust resistance in wheat NILs mediated by Sr24 rust resistance gene. PLoS One 2023; 18:e0295202. [PMID: 38079439 PMCID: PMC10712884 DOI: 10.1371/journal.pone.0295202] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/26/2023] [Accepted: 11/16/2023] [Indexed: 12/18/2023] Open
Abstract
Stem rust of wheat is a deleterious fungal disease across the globe causing severe yield losses. Although, many stem rust resistance genes (Sr) are being used in wheat breeding programs, new emerging stem rust pathotypes are a challenge to important Sr genes. In recent years, multiple studies on leaf and yellow rust molecular mechanism have been done, however, for stem rust such studies are lacking. Current study investigated stem rust induced response in the susceptible wheat genotype C306 and its Near Isogenic Line (NIL) for Sr24 gene, HW2004, using microarray analysis to understand the transcriptomic differences at different stages of infection. Results showed that HW2004 has higher basal levels of several important genes involved in pathogen detection, defence, and display early activation of multiple defence mechanisms. Further Gene Ontology (GO) and pathway analysis identified important genes responsible for pathogen detection, downstream signalling cascades and transcription factors (TFs) involved in activation and mediation of defence responses. Results suggest that generation of Reactive Oxygen Species (ROS), cytoskeletal rearrangement, activation of multiple hydrolases, and lipid metabolism mediated biosynthesis of certain secondary metabolites are collectively involved in Sr24-mediated defence in HW2004, in response to stem rust infection. Novel and unannotated, but highly responsive genes were also identified, which may also contribute towards resistance phenotype. Furthermore, certain DEGs also mapped close to the Sr24-linked marker on Thinopyrum elongatum translocated fragment on wheat 3E chromosome, which advocate further investigations for better insights of the Sr24-mediated stem rust resistance.
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Affiliation(s)
- Gautam Vishwakarma
- Nuclear Agriculture and Biotechnology Division, Bhabha Atomic Research Centre, Trombay, Mumbai, Maharashtra, India
- Homi Bhabha National Institute, Mumbai, India
| | - Ajay Saini
- Homi Bhabha National Institute, Mumbai, India
- Molecular Biology Division, Bhabha Atomic Research Centre, Trombay, Mumbai, Maharashtra, India
| | | | - Satish Kumar
- ICAR—Indian Institute of Wheat and Barley Research, Karnal, Haryana, India
| | - Bikram Kishore Das
- Nuclear Agriculture and Biotechnology Division, Bhabha Atomic Research Centre, Trombay, Mumbai, Maharashtra, India
- Homi Bhabha National Institute, Mumbai, India
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Norman M, Chen C, Miah H, Patpour M, Sørensen C, Hovmøller M, Forrest K, Kumar S, Prasad P, Gangwar OP, Bhardwaj S, Bariana H, Periyannan S, Bansal U. Sr65: a widely effective gene for stem rust resistance in wheat. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2023; 137:1. [PMID: 38071267 DOI: 10.1007/s00122-023-04507-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/18/2023] [Accepted: 11/15/2023] [Indexed: 12/18/2023]
Abstract
KEY MESSAGE Sr65 in chromosome 1A of Indian wheat landrace Hango-2 is a potentially useful all-stage resistance gene that currently protects wheat from stem rust in Australia, India, Africa and Europe. Stem rust, caused by Puccinia graminis f. sp. tritici (Pgt), threatened global wheat production with the appearance of widely virulent races that included TTKSK and TTRTF. Indian landrace Hango-2 showed resistance to Pgt races in India and Australia. Screening of a Hango-2/Avocet 'S' (AvS) recombinant inbred line population identified two stem rust resistance genes, a novel gene (temporarily named as SrH2) from Hango-2 and Sr26 from AvS. A mapping population segregating for SrH2 alone was developed from two recombinant lines. SrH2 was mapped on the short arm of chromosome 1A, where it was flanked by KASP markers KASP_7944 (proximal) and KASP_12147 (distal). SrH2 was delimited to an interval of 1.8-2.3 Mb on chromosome arm 1AS. The failure to detect candidate genes through MutRenSeq and comparative genomic analysis with the pan-genome dataset indicated the necessity to generate a Hango-2 specific assembly for detecting the gene sequence linked with SrH2 resistance. MutRenSeq however enabled identification of SrH2-linked KASP marker sunCS_265. Markers KASP_12147 and sunCS_265 showed 92% and 85% polymorphism among an Australian cereal cultivar diversity panel and can be used for marker-assisted selection of SrH2 in breeding programs. The effectiveness of SrH2 against Pgt races from Europe, Africa, India, and Australia makes it a valuable resource for breeding stem rust-resistant wheat cultivars. Since no wheat-derived gene was previously located in chromosome arm 1AS, SrH2 represents a new locus and named as SR65.
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Affiliation(s)
- Michael Norman
- Plant Breeding Institute, School of Life and Environmental Sciences, Faculty of Science, The University of Sydney, 107 Cobbitty Road, Cobbitty, NSW, 2570, Australia
- Commonwealth Scientific and Industrial Research Organization Agriculture and Food, Canberra, ACT, 2601, Australia
| | - Chunhong Chen
- Commonwealth Scientific and Industrial Research Organization Agriculture and Food, Canberra, ACT, 2601, Australia
| | - Hanif Miah
- Plant Breeding Institute, School of Life and Environmental Sciences, Faculty of Science, The University of Sydney, 107 Cobbitty Road, Cobbitty, NSW, 2570, Australia
| | - Mehran Patpour
- Department of Agroecology, Aarhus University, Forsøgsvej 1, 4200, Slagelse, Denmark
| | - Chris Sørensen
- Department of Agroecology, Aarhus University, Forsøgsvej 1, 4200, Slagelse, Denmark
| | - Mogens Hovmøller
- Department of Agroecology, Aarhus University, Forsøgsvej 1, 4200, Slagelse, Denmark
| | - Kerrie Forrest
- Agriculture Victoria, Department of Energy, Environment and Climate Action, AgriBio, Centre for AgriBioscience, 5 Ring Rd., Bundoora, VIC, 3083, Australia
| | - Subodh Kumar
- Indian Council of Agricultural Research - Indian Institute of Wheat and Barley Research Regional Station, Flowerdale, Shimla, Himachal Pradesh, 171 002, India
| | - Pramod Prasad
- Indian Council of Agricultural Research - Indian Institute of Wheat and Barley Research Regional Station, Flowerdale, Shimla, Himachal Pradesh, 171 002, India
| | - Om Prakash Gangwar
- Indian Council of Agricultural Research - Indian Institute of Wheat and Barley Research Regional Station, Flowerdale, Shimla, Himachal Pradesh, 171 002, India
| | - Subhash Bhardwaj
- Indian Council of Agricultural Research - Indian Institute of Wheat and Barley Research Regional Station, Flowerdale, Shimla, Himachal Pradesh, 171 002, India
| | - Harbans Bariana
- Plant Breeding Institute, School of Life and Environmental Sciences, Faculty of Science, The University of Sydney, 107 Cobbitty Road, Cobbitty, NSW, 2570, Australia
- School of Science, Western Sydney University, Bourke Road, Richmond, NSW, 2753, Australia
| | - Sambasivam Periyannan
- Commonwealth Scientific and Industrial Research Organization Agriculture and Food, Canberra, ACT, 2601, Australia.
- School of Agriculture and Environmental Science, Centre for Crop Health, University of Southern Queensland, West Street, Toowoomba, QLD, 4350, Australia.
| | - Urmil Bansal
- Plant Breeding Institute, School of Life and Environmental Sciences, Faculty of Science, The University of Sydney, 107 Cobbitty Road, Cobbitty, NSW, 2570, Australia.
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Prasad P, Thakur R, Bhardwaj SC, Savadi S, Gangwar OP, Lata C, Adhikari S, Kumar S, Kundu S, Manjul AS, Prakasha TL, Navathe S, Hegde GM, Game BC, Mishra KK, Khan H, Gupta V, Mishra CN, Kumar S, Kumar S, Singh G. Virulence and genetic analysis of Puccinia graminis tritici in the Indian sub-continent from 2016 to 2022 and evaluation of wheat varieties for stem rust resistance. FRONTIERS IN PLANT SCIENCE 2023; 14:1196808. [PMID: 37521927 PMCID: PMC10376725 DOI: 10.3389/fpls.2023.1196808] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 03/30/2023] [Accepted: 06/20/2023] [Indexed: 08/01/2023]
Abstract
Wheat stem rust, caused by Puccinia graminis f. sp. tritici (Pgt), has re-emerged as one of the major concerns for global wheat production since the evolution of Ug99 and other virulent pathotypes of Pgt from East Africa, Europe, Central Asia, and other regions. Host resistance is the most effective, economic, and eco-friendly approach for managing stem rust. Understanding the virulence nature, genetic diversity, origin, distribution, and evolutionary pattern of Pgt pathotypes over time and space is a prerequisite for effectively managing newly emerging Pgt isolates through host resistance. In the present study, we monitored the occurrence of stem rust of wheat in India and neighboring countries from 2016 to 2022, collected 620 single-pustule isolates of Pgt from six states of India and Nepal, analyzed them on Indian stem rust differentials, and determined their virulence phenotypes and molecular genotypes. The Ug99 type of pathotypes did not occur in India. Pathotypes 11 and 40A were most predominant during these years. Virulence phenotyping of these isolates identified 14 Pgt pathotypes, which were genotyped using 37 Puccinia spp.-specific polymorphic microsatellites, followed by additional phylogenetic analyses using DARwin. These analyses identified three major molecular groups, demonstrating fewer lineages, clonality, and long-distance migration of Pgt isolates in India. Fourteen of the 40 recently released Indian wheat varieties exhibited complete resistance to all 23 Pgt pathotypes at the seedling stage. Twelve Sr genes were postulated in 39 varieties based on their seedling response to Pgt pathotypes. The values of slow rusting parameters i.e. coefficient of infection, area under disease progress curve, and infection rates, assessed at adult plant stage at five geographically different locations during two crop seasons, indicated the slow rusting behavior of several varieties. Six Sr genes (Sr2, Sr57, Sr58, Sr24, Sr31, and Sr38) were identified in 24 wheat varieties using molecular markers closely linked to these genes. These findings will guide future breeding programs toward more effective management of wheat stem rust.
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Affiliation(s)
- Pramod Prasad
- ICAR-Indian Institute of Wheat and Barley Research, Regional Station, Shimla, Himachal Pradesh, India
| | - Rajnikant Thakur
- ICAR-Indian Institute of Wheat and Barley Research, Regional Station, Shimla, Himachal Pradesh, India
| | - S. C. Bhardwaj
- ICAR-Indian Institute of Wheat and Barley Research, Regional Station, Shimla, Himachal Pradesh, India
| | - Siddanna Savadi
- Division of Crop Improvement, ICAR-Directorate of Cashew Research, Puttur, Karnataka, India
| | - O. P. Gangwar
- ICAR-Indian Institute of Wheat and Barley Research, Regional Station, Shimla, Himachal Pradesh, India
| | - Charu Lata
- ICAR-Indian Institute of Wheat and Barley Research, Regional Station, Shimla, Himachal Pradesh, India
| | - Sneha Adhikari
- ICAR-Indian Institute of Wheat and Barley Research, Regional Station, Shimla, Himachal Pradesh, India
| | - Subodh Kumar
- ICAR-Indian Institute of Wheat and Barley Research, Regional Station, Shimla, Himachal Pradesh, India
| | - Sonu Kundu
- ICAR-Indian Institute of Wheat and Barley Research, Regional Station, Shimla, Himachal Pradesh, India
| | - A. S. Manjul
- ICAR-Indian Institute of Wheat and Barley Research, Regional Station, Shimla, Himachal Pradesh, India
| | - T. L. Prakasha
- ICAR-Indian Agricultural Research Institute, Indore, Regional Station, Madhya Pradesh, India
| | - Sudhir Navathe
- Genetics and Plant Breeding Group, Agharkar Research Institute, Pune, India
| | - G. M. Hegde
- All India Coordinated Research Project on Wheat & Barley, University of Agricultural Sciences, Dharwad, Karnataka, India
| | - B. C. Game
- Mahatma Phule Krishi Vidyapeeth, Rahuri, Agricultural Research Station, Niphad, Maharashtra, India
| | - K. K. Mishra
- JNKVV, Zonal Agricultural Research Station, Powarkheda, Narmadapuram, Madhya Pradesh, India
| | - Hanif Khan
- Crop Improvement Division, ICAR-Indian Institute of Wheat and Barley Research, Karnal, Haryana, India
| | - Vikas Gupta
- Crop Improvement Division, ICAR-Indian Institute of Wheat and Barley Research, Karnal, Haryana, India
| | - C. N. Mishra
- Crop Improvement Division, ICAR-Indian Institute of Wheat and Barley Research, Karnal, Haryana, India
| | - Satish Kumar
- Crop Improvement Division, ICAR-Indian Institute of Wheat and Barley Research, Karnal, Haryana, India
| | - Sudheer Kumar
- Crop Improvement Division, ICAR-Indian Institute of Wheat and Barley Research, Karnal, Haryana, India
| | - Gyanendra Singh
- Crop Improvement Division, ICAR-Indian Institute of Wheat and Barley Research, Karnal, Haryana, India
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5
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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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Noweiska A, Bobrowska R, Spychała J, Tomkowiak A, Kwiatek MT. Multiplex PCR assay for the simultaneous identification of race specific and non-specific leaf resistance genes in wheat (Triticum aestivum L.). J Appl Genet 2023; 64:55-64. [PMID: 36577933 PMCID: PMC9837178 DOI: 10.1007/s13353-022-00745-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/11/2022] [Revised: 12/04/2022] [Accepted: 12/22/2022] [Indexed: 12/30/2022]
Abstract
Race-nonspecific resistance is a key to sustainable management of pathogens in bread wheat (Triticum aestivum L.) breeding. It is more durable compared to race-specific immunity, conferred by the major genes (R), which are often overcome by pathogens. The accumulation of the genes, which provide the resistance to a specific race of a pathogen, together with the introduction of race-non-specific resistance genes is the most effective strategy aimed at preventing the breakdown of genetically conditioned immunity. PCR markers improved the productivity and accuracy of classical plant breeding by means of marker-assisted selection (MAS). Multiplexing assays provide increased throughput, reduced reaction cost, and conservation of limited sample material, which are beneficial for breeding purposes. Here, we described the process of customizing multiplex PCR assay for the simultaneous identification of the major leaf rust resistance genes Lr19, Lr24, Lr26, and Lr38, as well as the slow rusting, race-nonspecific resistance genes: Lr34 and Lr68, in thirteen combinations. The adaptation of PCR markers for multiplex assays relied on: (1) selection of primers with an appropriate length; (2) selection of common annealing/extension temperature for given primers; and (3) PCR mixture modifications consisting of increased concentration of primers for the scanty band signals or decreased concentration of primers for the strong bands. These multiplex PCR protocols can be integrated into a marker-assisted selection of the leaf rust-resistant wheat genotypes.
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Affiliation(s)
- Aleksandra Noweiska
- Department of Genetics and Plant Breeding, Faculty of Agronomy, Horticulture and Bioengineering, Poznań University of Life Sciences, 11 Dojazd Str, 60-632 Poznań, Poland
| | - Roksana Bobrowska
- Department of Genetics and Plant Breeding, Faculty of Agronomy, Horticulture and Bioengineering, Poznań University of Life Sciences, 11 Dojazd Str, 60-632 Poznań, Poland
| | - Julia Spychała
- Department of Genetics and Plant Breeding, Faculty of Agronomy, Horticulture and Bioengineering, Poznań University of Life Sciences, 11 Dojazd Str, 60-632 Poznań, Poland
| | - Agnieszka Tomkowiak
- Department of Genetics and Plant Breeding, Faculty of Agronomy, Horticulture and Bioengineering, Poznań University of Life Sciences, 11 Dojazd Str, 60-632 Poznań, Poland
| | - Michał T. Kwiatek
- Department of Genetics and Plant Breeding, Faculty of Agronomy, Horticulture and Bioengineering, Poznań University of Life Sciences, 11 Dojazd Str, 60-632 Poznań, Poland
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Gultyaeva EI, Shaydayuk EL, Veselova VV, Smirnova RE, Zuev EV, Khakimova AG, Mitrofanova OP. Diversity of new Russian bread wheat cultivars according to leaf rust resistance genes. PROCEEDINGS ON APPLIED BOTANY, GENETICS AND BREEDING 2022. [DOI: 10.30901/2227-8834-2022-4-208-218] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
Abstract
Background. Cultivation of resistant cultivars is an effective method of wheat protection against leaf rust. The purpose of this work was to characterize the juvenile leaf rust resistance of bread wheat cultivars listed in the State Register for Selection Achievements in 2021 and identify their Lr genes using molecular markers.Materials and methods. The material included 18 cultivars of winter bread wheat and nine spring ones. Juvenile resistance in the seedling phase was assessed with two test clones (kLr9 и kLr19) and the Krasnodar population of Puccinia triticina Erikss. Molecular markers were used to identify 18 Lr genes.Results and discussion. A high level of resistance (score 0 or 0;) was shown by cvs. ‘Khamdan’, ‘Sharm’ and ‘Omskaya 44’; moderate resistance (score 2, 2+) by ‘Albidum 2030’. Reactions of ‘Polina’, ‘Rossyp’, ‘Status’, ‘Balkysh’ and ‘Bogema’ were variable. The studied cultivars did not contain juvenile genes Lr9, Lr24, Lr25, Lr28, Lr29, Lr39, Lr47 or Lr66 and adult plant resistance genes Lr21 and Lr35. Markers of identifiable genes were not detected in cv. ‘Sharm’, highly resistant to leaf rust. ‘Khamdan’ had an ineffective Lr10 gene and a partial resistance gene Lr34, which offered no protection in the seedling stage. These cultivars seem to contain additional resistance genes. A high level of resistance to leaf rust in ‘Omskaya 44’ is provided by a combination of the Lr19, Lr26, Lr1 and Lr3 genes. In ‘Nemchinovskaya 85’, the partially effective adult plant resistance gene Lr37 was identified. In other tested cultivars, Lr1, Lr3, Lr10, Lr26 and Lr34 were widely represented.
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Affiliation(s)
| | | | | | | | - E. V. Zuev
- N.I. Vavilov All-Russian Institute of Plant Genetic Resource
| | - A. G. Khakimova
- N.I. Vavilov All-Russian Institute of Plant Genetic Resource
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Sunilkumar V, Krishna H, Devate NB, Manjunath KK, Chauhan D, Singh S, Sinha N, Singh JB, Prakasha TL, Pal D, Sivasamy M, Jain N, Singh GP, Singh PK. Marker assisted improvement for leaf rust and moisture deficit stress tolerance in wheat variety HD3086. FRONTIERS IN PLANT SCIENCE 2022; 13:1035016. [PMID: 36352858 PMCID: PMC9638138 DOI: 10.3389/fpls.2022.1035016] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/02/2022] [Accepted: 10/03/2022] [Indexed: 06/16/2023]
Abstract
There is a significant yield reduction in the wheat crop as a result of different biotic and abiotic stresses, and changing climate, among them moisture deficit stress and leaf rust are the major ones affecting wheat worldwide. HD3086 is a high-yielding wheat variety that has been released for commercial cultivation under timely sown irrigated conditions in the Indo-Gangetic plains of India. Variety HD3086 provides a good, stable yield, and it is the choice of millions of farmers in India. It becomes susceptible to the most prevalent pathotypes 77-5 and 77-9 of Puccinia triticina (causing leaf rust) in the production environment and its potential yield cannot be realized under moisture deficit stress. The present study demonstrates the use of a marker-assisted back cross breeding approach to the successful transfer of leaf rust resistance gene Lr24 and QTLs linked to moisture deficit stress tolerance in the background of HD3086. The genotype HI1500 was used as a donor parent that possesses leaf rust-resistant gene Lr24, which confers resistance against the major pathotypes found in the production environment. It possesses inbuilt tolerance under abiotic stresses with superior quality traits. Foreground selection for gene Lr24 and moisture deficit stress tolerance QTLs linked to Canopy temperature (CT), Normal Differential Vegetation Index (NDVI) and Thousand Kernel Weight (TKW) in different generations of the backcrossing and selection. In BC2F2, foreground selection was carried out to identify homozygous lines based on the linked markers and were advanced following pedigree based phenotypic selection. The selected lines were evaluated against P. triticina pathotypes 77-5 and 77-9 under controlled conditions. Recurrent parent recovery of the selected lines ranged from 78-94%. The identified lines were evaluated for their tolerance to moisture stress under field conditions and their resistance to rust under artificial epiphytotic conditions for two years. In BC2F5 generation, eight positive lines for marker alleles were selected which showed resistance to leaf rust and recorded an improvement in component traits of moisture deficit stress tolerance such as CT, NDVI, TKW and yield compared to the recurrent parent HD3086. The derived line is named HD3471 and is nominated for national trials for testing and further release for commercial cultivation.
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Affiliation(s)
- V.P. Sunilkumar
- Division of Genetics, Icar- Indian Agricultural Research Institute, New Delhi, India
| | - Hari Krishna
- Division of Genetics, Icar- Indian Agricultural Research Institute, New Delhi, India
| | - Narayana Bhat Devate
- Division of Genetics, Icar- Indian Agricultural Research Institute, New Delhi, India
| | | | - Divya Chauhan
- Division of Genetics, Icar- Indian Agricultural Research Institute, New Delhi, India
| | - Shweta Singh
- Division of Genetics, Icar- Indian Agricultural Research Institute, New Delhi, India
| | - Nivedita Sinha
- Division of Genetics, Icar- Indian Agricultural Research Institute, New Delhi, India
| | - Jang Bahadur Singh
- Division of Genetics, Icar- Indian Agricultural Research Institute, New Delhi, India
| | - T. L. Prakasha
- Division of Genetics, Icar- Indian Agricultural Research Institute, New Delhi, India
| | - Dharam Pal
- Division of Genetics, Icar- Indian Agricultural Research Institute, New Delhi, India
| | - M. Sivasamy
- Division of Genetics, Icar- Indian Agricultural Research Institute, New Delhi, India
| | - Neelu Jain
- Division of Genetics, Icar- Indian Agricultural Research Institute, New Delhi, India
| | - G. P. Singh
- ICAR-Indian Institute of Wheat and Barley Research, Karnal, India
| | - P. K. Singh
- Division of Genetics, Icar- Indian Agricultural Research Institute, New Delhi, India
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9
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Karelov A, Kozub N, Sozinova O, Pirko Y, Sozinov I, Yemets A, Blume Y. Wheat Genes Associated with Different Types of Resistance against Stem Rust ( Puccinia graminis Pers.). Pathogens 2022; 11:pathogens11101157. [PMID: 36297214 PMCID: PMC9608978 DOI: 10.3390/pathogens11101157] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/01/2022] [Revised: 09/25/2022] [Accepted: 10/05/2022] [Indexed: 11/13/2022] Open
Abstract
Stem rust is one wheat's most dangerous fungal diseases. Yield losses caused by stem rust have been significant enough to cause famine in the past. Some races of stem rust are considered to be a threat to food security even nowadays. Resistance genes are considered to be the most rational environment-friendly and widely used way to control the spread of stem rust and prevent yield losses. More than 60 genes conferring resistance against stem rust have been discovered so far (so-called Sr genes). The majority of the Sr genes discovered have lost their effectiveness due to the emergence of new races of stem rust. There are some known resistance genes that have been used for over 50 years and are still effective against most known races of stem rust. The goal of this article is to outline the different types of resistance against stem rust as well as the effective and noneffective genes, conferring each type of resistance with a brief overview of their origin and usage.
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Affiliation(s)
- Anatolii Karelov
- Institute of Food Biotechnology and Genomics, National Academy of Sciences of Ukraine, 04123 Kyiv, Ukraine
- Institute of Plant Protection, National Academy of Agrarian Sciences of Ukraine, 03022 Kyiv, Ukraine
- Correspondence: (A.K.); (Y.B.)
| | - Natalia Kozub
- Institute of Food Biotechnology and Genomics, National Academy of Sciences of Ukraine, 04123 Kyiv, Ukraine
- Institute of Plant Protection, National Academy of Agrarian Sciences of Ukraine, 03022 Kyiv, Ukraine
| | - Oksana Sozinova
- Institute of Food Biotechnology and Genomics, National Academy of Sciences of Ukraine, 04123 Kyiv, Ukraine
- Institute of Plant Protection, National Academy of Agrarian Sciences of Ukraine, 03022 Kyiv, Ukraine
| | - Yaroslav Pirko
- Institute of Food Biotechnology and Genomics, National Academy of Sciences of Ukraine, 04123 Kyiv, Ukraine
| | - Igor Sozinov
- Institute of Plant Protection, National Academy of Agrarian Sciences of Ukraine, 03022 Kyiv, Ukraine
| | - Alla Yemets
- Institute of Food Biotechnology and Genomics, National Academy of Sciences of Ukraine, 04123 Kyiv, Ukraine
| | - Yaroslav Blume
- Institute of Food Biotechnology and Genomics, National Academy of Sciences of Ukraine, 04123 Kyiv, Ukraine
- Correspondence: (A.K.); (Y.B.)
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10
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Li M, Yuan Y, Ni F, Li X, Wang H, Bao Y. Characterization of Two Wheat- Thinopyrum ponticum Introgression Lines With Pyramiding Resistance to Powdery Mildew. FRONTIERS IN PLANT SCIENCE 2022; 13:943669. [PMID: 35909780 PMCID: PMC9335053 DOI: 10.3389/fpls.2022.943669] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 05/14/2022] [Accepted: 06/02/2022] [Indexed: 06/15/2023]
Abstract
Powdery mildew is one of the most devastating foliar diseases in wheat production. The wild relative Thinopyrum ponticum (2n = 10x = 70) has been widely used in wheat genetic improvement due to its superior resistance to both biotic and abiotic stresses. In the present study, two wheat-Th. ponticum introgression lines named SN0293-2 and SN0293-7 were developed from the progenies of a cross between the octoploid Trititrigia SNTE20 and common wheat, including the elite cultivar Jimai 22. They had a novel powdery mildew resistance gene (temporarily named PmSN0293) putatively from Th. ponticum pyramided with Pm2 and Pm52, exhibiting excellent Pm resistance at both the seedling and adult stages. Sequential GISH-FISH detected no signal of Th. ponticum in these two lines but a pair of T1BL·1RS in SN0293-2. Chromosomal structural variations were also observed obviously in SN0293-2 and SN0293-7. Through the Wheat 660K SNP array, 157 SNPs, 134 of which were on 6A, were found to be specific to Th. ponticum. Based on the data combined with DNA re-sequencing, seven specific markers, including one CAPS marker on 2B and six CAPS and Indel markers on 6A, were developed, confirming their wheat-Th. ponticum introgression nature. Furthermore, the two lines displayed positive plant height and produced more kernels and higher 1,000-grain weight. Excellent resistance with desirable agronomic traits makes them valuable in wheat breeding programs.
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Affiliation(s)
- Mingzhu Li
- State Key Laboratory of Crop Biology, Agronomy College of Shandong Agricultural University, Tai'an, China
- Bureau of Agriculture and Rural Affairs of Linqing, Liaocheng, China
| | - Yuanyuan Yuan
- Crop Research Institute, Jinan Academy of Agricultural Sciences, Jinan, China
| | - Fei Ni
- State Key Laboratory of Crop Biology, Agronomy College of Shandong Agricultural University, Tai'an, China
| | - Xingfeng Li
- State Key Laboratory of Crop Biology, Agronomy College of Shandong Agricultural University, Tai'an, China
| | - Honggang Wang
- State Key Laboratory of Crop Biology, Agronomy College of Shandong Agricultural University, Tai'an, China
| | - Yinguang Bao
- State Key Laboratory of Crop Biology, Agronomy College of Shandong Agricultural University, Tai'an, China
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11
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Li Y, Shi F, Lin Z, Robinson H, Moody D, Rattey A, Godoy J, Mullan D, Keeble-Gagnere G, Hayden MJ, Tibbits JFG, Daetwyler HD. Benefit of Introgression Depends on Level of Genetic Trait Variation in Cereal Breeding Programmes. FRONTIERS IN PLANT SCIENCE 2022; 13:786452. [PMID: 35783964 PMCID: PMC9240786 DOI: 10.3389/fpls.2022.786452] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/01/2021] [Accepted: 05/19/2022] [Indexed: 06/15/2023]
Abstract
We investigated the benefit from introgression of external lines into a cereal breeding programme and strategies that accelerated introgression of the favourable alleles while minimising linkage drag using stochastic computer simulation. We simulated genomic selection for disease resistance and grain yield in two environments with a high level of genotype-by-environment interaction (G × E) for the latter trait, using genomic data of a historical barley breeding programme as the base generation. Two populations (existing and external) were created from this base population with different allele frequencies for few (N = 10) major and many (N ~ 990) minor simulated disease quantitative trait loci (QTL). The major disease QTL only existed in the external population and lines from the external population were introgressed into the existing population which had minor disease QTL with low, medium and high allele frequencies. The study revealed that the benefit of introgression depended on the level of genetic variation for the target trait in the existing cereal breeding programme. Introgression of external resources into the existing population was beneficial only when the existing population lacked variation in disease resistance or when minor disease QTL were already at medium or high frequency. When minor disease QTL were at low frequencies, no extra genetic gain was achieved from introgression. More benefit in the disease trait was obtained from the introgression if the major disease QTL had larger effect sizes, more selection emphasis was applied on disease resistance, or more external lines were introgressed. While our strategies to increase introgression of major disease QTL were generally successful, most were not able to completely avoid negative impacts on selection for grain yield with the only exception being when major introgression QTL effects were very large. Breeding programmes are advised to carefully consider the level of genetic variation in a trait available in their breeding programme before deciding to introgress germplasms.
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Affiliation(s)
- Yongjun Li
- Agriculture Victoria, AgriBio, Centre for AgriBioscience, Bundoora, VIC, Australia
| | - Fan Shi
- Agriculture Victoria, AgriBio, Centre for AgriBioscience, Bundoora, VIC, Australia
| | - Zibei Lin
- Agriculture Victoria, AgriBio, Centre for AgriBioscience, Bundoora, VIC, Australia
| | | | | | | | | | | | | | - Matthew J. Hayden
- Agriculture Victoria, AgriBio, Centre for AgriBioscience, Bundoora, VIC, Australia
- School of Applied Systems Biology, La Trobe University, Bundoora, VIC, Australia
| | | | - Hans D. Daetwyler
- Agriculture Victoria, AgriBio, Centre for AgriBioscience, Bundoora, VIC, Australia
- School of Applied Systems Biology, La Trobe University, Bundoora, VIC, Australia
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12
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Discovery of the New Leaf Rust Resistance Gene Lr82 in Wheat: Molecular Mapping and Marker Development. Genes (Basel) 2022; 13:genes13060964. [PMID: 35741726 PMCID: PMC9222540 DOI: 10.3390/genes13060964] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/13/2022] [Revised: 05/21/2022] [Accepted: 05/23/2022] [Indexed: 02/04/2023] Open
Abstract
Breeding for leaf rust resistance has been successful worldwide and is underpinned by the discovery and characterisation of genetically diverse sources of resistance. An English scientist, Arthur Watkins, collected pre-Green Revolution wheat genotypes from 33 locations worldwide in the early part of the 20th Century and this collection is now referred to as the ‘Watkins Collection’. A common wheat genotype, Aus27352 from Yugoslavia, showed resistance to currently predominating Australian pathotypes of the wheat leaf rust pathogen. We crossed Aus27352 with a leaf rust susceptible wheat selection Avocet S and a recombinant inbred line (RIL) F6 population of 200 lines was generated. Initial screening at F3 generation showed monogenic segregation for seedling response to leaf rust in Aus27352. These results were confirmed by screening the Aus27352/Avocet S RIL population. The underlying locus was temporarily named LrAW2. Bulked segregant analysis using the 90K Infinium SNP array located LrAW2 in the long arm of chromosome 2B. Tests with molecular markers linked to two leaf rust resistance genes, Lr50 and Lr58, previously located in chromosome 2B, indicated the uniqueness of LrAW2 and it was formally designated Lr82. Kompetitive allele-specific polymerase chain reaction assays were developed for Lr82-linked SNPs. KASP_22131 mapped 0.8 cM proximal to Lr82 and KASP_11333 was placed 1.2 cM distal to this locus. KASP_22131 showed 91% polymorphism among a set of 89 Australian wheat cultivars. We recommend the use of KASP_22131 for marker assisted pyramiding of Lr82 in breeding programs following polymorphism check on parents.
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13
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Lapochkina IF, Gainullin NR, Baranova ОA, Kovalenko NM, Marchenkova LA, Pavlova OV, O V Mitroshina OV. Complex resistance of spring and winter bread wheat lines to biotic and abiotic stresses. Vavilovskii Zhurnal Genet Selektsii 2021; 25:723-731. [PMID: 34950843 PMCID: PMC8649750 DOI: 10.18699/vj21.082] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/23/2021] [Revised: 08/11/2021] [Accepted: 08/12/2021] [Indexed: 11/19/2022] Open
Abstract
An original initial material of spring and winter bread wheat with group resistance to stem and leaf rust was developed using new donors of resistance to stem rust: winter soft wheat GT 96/90 (Bulgaria) and accession 119/4-06rw with genetic material of the species Triticum migushovae and (Aegilops speltoides and Secale cereale), respectively, a line of spring wheat 113/00i-4 obtained using the species Ae. triuncialis and T. kiharae, as well as spring accession 145/00i with genetic material of the species Ae. speltoides resistant to leaf rust. The transfer of effective Sr- genes to progeny was monitored using molecular markers. New lines underwent a f ield assessment of resistance to leaf and stem rust in the
epiphytotic development of diseases in the Central Region of the Russian Federation, as well as in the North Caucasus
and Western Siberia, and showed high resistance to these pathogens. Fourteen genotypes of spring wheat with group
resistance to these diseases and parental forms that participated in the origin of the lines were evaluated for resistance
to spot blotch (Cochliobolus sativus) and tan spot (Pyrenophora tritici-repentis) using
isolates from Kazakhstan and Omsk
in laboratory conditions. A highly resistant parental form of winter soft wheat from “Arsenal” collection 119/4-06rw
(wheat-Ae. speltoides-rye hybrid 2n = 42) with group resistance to two spots, four medium-resistant genotypes to both
isolates of tan spot from Kazakhstan and Omsk populations of the pathogen, as well as genotypes resistant to the Omsk
isolate of P. tritici-repentis (parental form 113/00i-4 and lines 1-16i, 6-16i, 9-16i) were isolated. Among the lines of winter
wheat, four were identif ied with group resistance to spot blotch and tan spot. Additionally, the stress resistance of the
lines to NaCl salinization and prolonged f looding of seeds with water was evaluated at the early stages of ontogenesis
in laboratory conditions. Lines 33-16i, 37-16i, 32- 16i and 9-16i showed a high ability to withstand excess moisture. Lines
33-16i, 37-16i, 32-16i and 3-16i were characterized
by high salt tolerance, exceeding the average of 49.7 %. Among the
winter genotypes, lines were identif ied with increased resistance to hypoxia (37-19w, 32-19w, 16-19w, 90-19w) and with
increased salt tolerance (20- 19w, 9-19w, 37-19w, 90-19w), signif icantly exceeding the standard cv. Moskovskaya
39.
The listed lines are of interest as sources of resistance to anaerobic and salt stress, as well as donors of resistance to a
group of fungal diseases:
leaf and stem rust and tan spot. We attribute the increased level of resistance of the new initial
material to the presence of alien translocations in the original parental forms involved in the origin of the lines.
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Affiliation(s)
- I F Lapochkina
- Federal Research Center "Nemchinovka", Novoivanovskoe, Moscow region, Russia
| | - N R Gainullin
- Federal Research Center "Nemchinovka", Novoivanovskoe, Moscow region, Russia
| | - О A Baranova
- All-Russian Institute of Plant Protection, Pushkin, St. Petersburg, Russia
| | - N M Kovalenko
- All-Russian Institute of Plant Protection, Pushkin, St. Petersburg, Russia
| | - L A Marchenkova
- Federal Research Center "Nemchinovka", Novoivanovskoe, Moscow region, Russia
| | - O V Pavlova
- Federal Research Center "Nemchinovka", Novoivanovskoe, Moscow region, Russia
| | - O V O V Mitroshina
- Federal Research Center "Nemchinovka", Novoivanovskoe, Moscow region, Russia
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14
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Gordon T, Jin Y, Gale S, Rouse M, Stoxen S, Wanyera R, Macharia G, Randhawa M, Bhavani S, Brown-Guedira G, Marshall D, Babiker E, Bockelman H, Bonman JM. Identification of Winter Habit Bread Wheat Landraces in the National Small Grains Collection with Resistance to Emerging Stem Rust Pathogen Variants. PLANT DISEASE 2021; 105:3998-4005. [PMID: 34232053 DOI: 10.1094/pdis-04-21-0743-re] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/13/2023]
Abstract
Wheat stem rust caused by Puccinia graminis f. sp. tritici is a widespread and recurring threat to wheat production. Emerging P. graminis f. sp. tritici variants are rapidly overcoming major gene resistance deployed in wheat cultivars and new sources of race-nonspecific resistance are urgently needed. The National Small Grains Collection (NSGC) contains thousands of wheat landrace accessions that may harbor unique and broadly effective sources of resistance to emerging P. graminis f. sp. tritici variants. All NSGC available facultative and winter-habit bread wheat landraces were tested in a field nursery in St. Paul, Minnesota, against a bulk collection of six common U.S. P. graminis f. sp. tritici races. Infection response and severity data were collected on 9,192 landrace accessions at the soft-dough stage and resistant accessions were derived from single spikes. Derived accessions were tested in St. Paul a second time to confirm resistance and in a field nursery in Njoro, Kenya against emerging races of P. graminis f. sp. tritici with virulence to many known resistance genes including Sr24, Sr31, Sr38, and SrTmp. Accessions resistant in the St. Paul field were also tested at the seedling stage with up to 13 P. graminis f. sp. tritici races, including TTKSK and TKTTF, and with 19 molecular markers linked with known stem rust resistance genes or genes associated with modern breeding practices. Forty-five accessions were resistant in both U.S. and Kenya field nurseries and lacked alleles linked with known stem rust resistance genes. Accessions with either moderate or strong resistance in the U.S. and Kenya field nurseries and with novel seedling resistance will be prioritized for further study.
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Affiliation(s)
- Tyler Gordon
- U.S. Department of Agriculture, Agricultural Research Service, Small Grains and Potato Germplasm Research, Aberdeen, ID 83210, U.S.A
| | - Yue Jin
- U.S. Department of Agriculture, Agricultural Research Service, Cereal Disease Laboratory, St. Paul, MN 55108, U.S.A
| | - Samuel Gale
- U.S. Department of Agriculture, Agricultural Research Service, Cereal Disease Laboratory, St. Paul, MN 55108, U.S.A
| | - Matthew Rouse
- U.S. Department of Agriculture, Agricultural Research Service, Cereal Disease Laboratory, St. Paul, MN 55108, U.S.A
| | - Samuel Stoxen
- U.S. Department of Agriculture, Agricultural Research Service, Cereal Disease Laboratory, St. Paul, MN 55108, U.S.A
| | - Ruth Wanyera
- Kenya Agricultural and Livestock Research Organization, 20107 Njoro, Kenya
| | - Godwin Macharia
- Kenya Agricultural and Livestock Research Organization, 20107 Njoro, Kenya
| | - Mandeep Randhawa
- International Maize and Wheat Improvement Center-Kenya, 1041-00621 Nairobi, Kenya
| | - Sridhar Bhavani
- International Maize and Wheat Improvement Center, El Batán, Texcoco CP 56237, Edo. de México, Mexico
| | - Gina Brown-Guedira
- U.S. Department of Agriculture, Agricultural Research Service, Plant Science Research, Raleigh, NC 27695, U.S.A
| | - David Marshall
- U.S. Department of Agriculture, Agricultural Research Service, Plant Science Research, Raleigh, NC 27695, U.S.A
| | - Ebrahiem Babiker
- U.S. Department of Agriculture, Agricultural Research Service, Small Grains and Potato Germplasm Research, Aberdeen, ID 83210, U.S.A
- U.S. Department of Agriculture, Agricultural Research Service, Southern Horticultural Research Laboratory, Poplarville, MS 39470, U.S.A
| | - Harold Bockelman
- U.S. Department of Agriculture, Agricultural Research Service, Small Grains and Potato Germplasm Research, Aberdeen, ID 83210, U.S.A
| | - J Michael Bonman
- U.S. Department of Agriculture, Agricultural Research Service, Small Grains and Potato Germplasm Research, Aberdeen, ID 83210, U.S.A
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15
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Transcriptome profiling and differential gene expression analysis provides insights into Lr24-based resistance in wheat against Puccinia triticina. 3 Biotech 2021; 11:455. [PMID: 34631354 DOI: 10.1007/s13205-021-02972-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/19/2021] [Accepted: 08/23/2021] [Indexed: 10/20/2022] Open
Abstract
Leaf rust caused by Puccinia triticina is an important disease of wheat and Lr24 gene confers resistance to all known pathotypes of P. triticina in India. Transcripts associated with the Lr24 mediated resistance were identified through transcriptome sequencing and further expression analysis of differentially regulated genes was performed using qPCR technique. De novo transcriptome assembly showed 66,415 and 68,688 transcripts in resistant and susceptible genotypes, respectively. The study revealed that 5873 genes unique to resistant; 6782 genes unique to susceptible, while 10,841 genes were common to both. Gene Ontology distribution statistics showed 1030 and 1068 CDS in biological processes; 1234 and 1326 CDS in cellular processes; 1321 and 1352 CDS in molecular functions, respectively. A total of 659 genes were found to be differentially expressed, of which 349 were upregulated and 310 were downregulated in resistant genotype. Pathway analysis of transcripts appeared in resistant genotype revealed that 279 transcripts had homology with genes involved in signal transduction, 18 transcripts in membrane transport, one transcript in signaling molecules. Real-time PCR study showed that most of the up-regulated defense related genes expressed in early hours indicating that a cascade of defense starts early in Lr24 mediated resistance, which successfully inhibited pathogen establishment. SUPPLEMENTARY INFORMATION The online version contains supplementary material available at 10.1007/s13205-021-02972-9.
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16
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Yadav PK, Tiwari S, Kushwah A, Tripathi MK, Gupta N, Tomar RS, Kandalkar VS. Morpho-physiological characterization of bread wheat genotypes and their molecular validation for rust resistance genes Sr2, Sr31 and Lr24. PROCEEDINGS OF THE INDIAN NATIONAL SCIENCE ACADEMY 2021. [DOI: 10.1007/s43538-021-00049-y] [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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17
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Upadhyaya NM, Mago R, Panwar V, Hewitt T, Luo M, Chen J, Sperschneider J, Nguyen-Phuc H, Wang A, Ortiz D, Hac L, Bhatt D, Li F, Zhang J, Ayliffe M, Figueroa M, Kanyuka K, Ellis JG, Dodds PN. Genomics accelerated isolation of a new stem rust avirulence gene-wheat resistance gene pair. NATURE PLANTS 2021; 7:1220-1228. [PMID: 34294906 DOI: 10.1038/s41477-021-00971-5] [Citation(s) in RCA: 47] [Impact Index Per Article: 15.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/09/2020] [Accepted: 06/18/2021] [Indexed: 06/13/2023]
Abstract
Stem rust caused by the fungus Puccinia graminis f. sp. tritici (Pgt) is a devastating disease of the global staple crop wheat. Although this disease was largely controlled in the latter half of the twentieth century, new virulent strains of Pgt, such as Ug99, have recently evolved1,2. These strains have caused notable losses worldwide and their continued spread threatens global wheat production. Breeding for disease resistance provides the most cost-effective control of wheat rust diseases3. A number of rust resistance genes have been characterized in wheat and most encode immune receptors of the nucleotide-binding leucine-rich repeat (NLR) class4, which recognize pathogen effector proteins known as avirulence (Avr) proteins5. However, only two Avr genes have been identified in Pgt so far, AvrSr35 and AvrSr50 (refs. 6,7), and none in other cereal rusts8,9. The Sr27 resistance gene was first identified in a wheat line carrying an introgression of the 3R chromosome from Imperial rye10. Although not deployed widely in wheat, Sr27 is widespread in the artificial crop species Triticosecale (triticale), which is a wheat-rye hybrid and is a host for Pgt11,12. Sr27 is effective against Ug99 (ref. 13) and other recent Pgt strains14,15. Here, we identify both the Sr27 gene in wheat and the corresponding AvrSr27 gene in Pgt and show that virulence to Sr27 can arise experimentally and in the field through deletion mutations, copy number variation and expression level polymorphisms at the AvrSr27 locus.
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Affiliation(s)
- Narayana M Upadhyaya
- Commonwealth Scientific and Industrial Research Organisation, Agriculture and Food, Canberra, Australian Capital Territory, Australia
| | - Rohit Mago
- Commonwealth Scientific and Industrial Research Organisation, Agriculture and Food, Canberra, Australian Capital Territory, Australia
| | - Vinay Panwar
- Biointeractions and Crop Protection, Rothamsted Research, Harpenden, UK
| | - Tim Hewitt
- Commonwealth Scientific and Industrial Research Organisation, Agriculture and Food, Canberra, Australian Capital Territory, Australia
| | - Ming Luo
- Commonwealth Scientific and Industrial Research Organisation, Agriculture and Food, Canberra, Australian Capital Territory, Australia
| | - Jian Chen
- Commonwealth Scientific and Industrial Research Organisation, Agriculture and Food, Canberra, Australian Capital Territory, Australia
- Research School of Biology, Australian National University, Canberra, Australian Capital Territory, Australia
| | - Jana Sperschneider
- Biological Data Science Institute, Australian National University, Canberra, Australian Capital Territory, Australia
| | - Hoa Nguyen-Phuc
- Department of Ecology and Evolutionary Biology, Vietnam National University, Ho Chi Minh, Vietnam
| | - Aihua Wang
- Commonwealth Scientific and Industrial Research Organisation, Agriculture and Food, Canberra, Australian Capital Territory, Australia
| | - Diana Ortiz
- Commonwealth Scientific and Industrial Research Organisation, Agriculture and Food, Canberra, Australian Capital Territory, Australia
- Génétique et Amélioration des Fruits et Légumes, INRA, Montfavet Cedex, France
| | - Luch Hac
- Commonwealth Scientific and Industrial Research Organisation, Agriculture and Food, Canberra, Australian Capital Territory, Australia
| | - Dhara Bhatt
- Commonwealth Scientific and Industrial Research Organisation, Agriculture and Food, Canberra, Australian Capital Territory, Australia
| | - Feng Li
- Department of Biomedical Statistics and Informatics, Mayo Clinic, Rochester, MN, USA
| | - Jianping Zhang
- Commonwealth Scientific and Industrial Research Organisation, Agriculture and Food, Canberra, Australian Capital Territory, Australia
| | - Michael Ayliffe
- Commonwealth Scientific and Industrial Research Organisation, Agriculture and Food, Canberra, Australian Capital Territory, Australia
| | - Melania Figueroa
- Commonwealth Scientific and Industrial Research Organisation, Agriculture and Food, Canberra, Australian Capital Territory, Australia
| | - Kostya Kanyuka
- Biointeractions and Crop Protection, Rothamsted Research, Harpenden, UK
| | - Jeffrey G Ellis
- Commonwealth Scientific and Industrial Research Organisation, Agriculture and Food, Canberra, Australian Capital Territory, Australia
| | - Peter N Dodds
- Commonwealth Scientific and Industrial Research Organisation, Agriculture and Food, Canberra, Australian Capital Territory, Australia.
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18
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Xing L, Yuan L, Lv Z, Wang Q, Yin C, Huang Z, Liu J, Cao S, Zhang R, Chen P, Karafiátová M, Vrána J, Bartoš J, Doležel J, Cao A. Long-range assembly of sequences helps to unravel the genome structure and small variation of the wheat-Haynaldia villosa translocated chromosome 6VS.6AL. PLANT BIOTECHNOLOGY JOURNAL 2021; 19:1567-1578. [PMID: 33606347 PMCID: PMC8384597 DOI: 10.1111/pbi.13570] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/25/2020] [Accepted: 02/06/2021] [Indexed: 05/07/2023]
Abstract
Genomics studies in wild species of wheat have been limited due to the lack of references; however, new technologies and bioinformatics tools have much potential to promote genomic research. The wheat-Haynaldia villosa translocation line T6VS·6AL has been widely used as a backbone parent of wheat breeding in China. Therefore, revealing the genome structure of translocation chromosome 6VS·6AL will clarify how this chromosome formed and will help to determine how it affects agronomic traits. In this study, chromosome flow sorting, NGS sequencing and Chicago long-range linkage assembly were innovatively used to produce the assembled sequences of 6VS·6AL, and gene prediction and genome structure characterization at the molecular level were effectively performed. The analysis discovered that the short arm of 6VS·6AL was actually composed of a large distal segment of 6VS, a small proximal segment of 6AS and the centromere of 6A, while the collinear region in 6VS corresponding to 230-260 Mb of 6AS-Ta was deleted when the recombination between 6VS and 6AS occurred. In addition to the molecular mechanism of the increased grain weight and enhanced spike length produced by the translocation chromosome, it may be correlated with missing GW2-V and an evolved NRT-V cluster. Moreover, a fine physical bin map of 6VS was constructed by the high-throughput developed 6VS-specific InDel markers and a series of newly identified small fragment translocation lines involving 6VS. This study will provide essential information for mining of new alien genes carried by the 6VS·6AL translocation chromosome.
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Affiliation(s)
- Liping Xing
- National Key Laboratory of Crop Genetics and Germplasm EnhancementCytogenetics InstituteNanjing Agricultural University/JCIC‐MCPNanjingChina
| | - Lu Yuan
- National Key Laboratory of Crop Genetics and Germplasm EnhancementCytogenetics InstituteNanjing Agricultural University/JCIC‐MCPNanjingChina
| | - Zengshuai Lv
- National Key Laboratory of Crop Genetics and Germplasm EnhancementCytogenetics InstituteNanjing Agricultural University/JCIC‐MCPNanjingChina
| | - Qiang Wang
- National Key Laboratory of Crop Genetics and Germplasm EnhancementCytogenetics InstituteNanjing Agricultural University/JCIC‐MCPNanjingChina
| | - Chunhong Yin
- National Key Laboratory of Crop Genetics and Germplasm EnhancementCytogenetics InstituteNanjing Agricultural University/JCIC‐MCPNanjingChina
| | - Zhenpu Huang
- National Key Laboratory of Crop Genetics and Germplasm EnhancementCytogenetics InstituteNanjing Agricultural University/JCIC‐MCPNanjingChina
| | - Jiaqian Liu
- National Key Laboratory of Crop Genetics and Germplasm EnhancementCytogenetics InstituteNanjing Agricultural University/JCIC‐MCPNanjingChina
| | - Shuqi Cao
- National Key Laboratory of Crop Genetics and Germplasm EnhancementCytogenetics InstituteNanjing Agricultural University/JCIC‐MCPNanjingChina
| | - Ruiqi Zhang
- National Key Laboratory of Crop Genetics and Germplasm EnhancementCytogenetics InstituteNanjing Agricultural University/JCIC‐MCPNanjingChina
| | - Peidu Chen
- National Key Laboratory of Crop Genetics and Germplasm EnhancementCytogenetics InstituteNanjing Agricultural University/JCIC‐MCPNanjingChina
| | - Miroslava Karafiátová
- Institute of Experimental Botany of the Czech Academy of SciencesCentre of the Region Haná for Biotechnological and Agricultural ResearchOlomoucCzech Republic
| | - Jan Vrána
- Institute of Experimental Botany of the Czech Academy of SciencesCentre of the Region Haná for Biotechnological and Agricultural ResearchOlomoucCzech Republic
| | - Jan Bartoš
- Institute of Experimental Botany of the Czech Academy of SciencesCentre of the Region Haná for Biotechnological and Agricultural ResearchOlomoucCzech Republic
| | - Jaroslav Doležel
- Institute of Experimental Botany of the Czech Academy of SciencesCentre of the Region Haná for Biotechnological and Agricultural ResearchOlomoucCzech Republic
| | - Aizhong Cao
- National Key Laboratory of Crop Genetics and Germplasm EnhancementCytogenetics InstituteNanjing Agricultural University/JCIC‐MCPNanjingChina
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19
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Zhang J, Hewitt TC, Boshoff WHP, Dundas I, Upadhyaya N, Li J, Patpour M, Chandramohan S, Pretorius ZA, Hovmøller M, Schnippenkoetter W, Park RF, Mago R, Periyannan S, Bhatt D, Hoxha S, Chakraborty S, Luo M, Dodds P, Steuernagel B, Wulff BBH, Ayliffe M, McIntosh RA, Zhang P, Lagudah ES. A recombined Sr26 and Sr61 disease resistance gene stack in wheat encodes unrelated NLR genes. Nat Commun 2021; 12:3378. [PMID: 34099713 PMCID: PMC8184838 DOI: 10.1038/s41467-021-23738-0] [Citation(s) in RCA: 19] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/27/2019] [Accepted: 05/10/2021] [Indexed: 12/25/2022] Open
Abstract
The re-emergence of stem rust on wheat in Europe and Africa is reinforcing the ongoing need for durable resistance gene deployment. Here, we isolate from wheat, Sr26 and Sr61, with both genes independently introduced as alien chromosome introgressions from tall wheat grass (Thinopyrum ponticum). Mutational genomics and targeted exome capture identify Sr26 and Sr61 as separate single genes that encode unrelated (34.8%) nucleotide binding site leucine rich repeat proteins. Sr26 and Sr61 are each validated by transgenic complementation using endogenous and/or heterologous promoter sequences. Sr61 orthologs are absent from current Thinopyrum elongatum and wheat pan genome sequences, contrasting with Sr26 where homologues are present. Using gene-specific markers, we validate the presence of both genes on a single recombinant alien segment developed in wheat. The co-location of these genes on a small non-recombinogenic segment simplifies their deployment as a gene stack and potentially enhances their resistance durability. The tall wheat grass-derived stem rust resistance genes Sr26 and Sr61 are among a few ones that are effective to all current dominant races of stem rust, including Ug99. Here, the authors show that the two genes are present in a small non-recombinogenic segment but encode two unrelated NLR proteins.
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Affiliation(s)
- Jianping Zhang
- Plant Breeding Institute, School of Life and Environmental Sciences, University of Sydney, Cobbitty, NSW, Australia.,CSIRO Agriculture & Food, Canberra, ACT, Australia
| | - Timothy C Hewitt
- Plant Breeding Institute, School of Life and Environmental Sciences, University of Sydney, Cobbitty, NSW, Australia.,CSIRO Agriculture & Food, Canberra, ACT, Australia
| | - Willem H P Boshoff
- Department of Plant Sciences, University of the Free State, Bloemfontein, South Africa
| | - Ian Dundas
- School of Agriculture, Food and Wine, University of Adelaide, Urrbrae, SA, Australia
| | | | - Jianbo Li
- Plant Breeding Institute, School of Life and Environmental Sciences, University of Sydney, Cobbitty, NSW, Australia
| | - Mehran Patpour
- Department of Agroecology, Aarhus University, Slagelse, Denmark
| | | | - Zacharias A Pretorius
- Department of Plant Sciences, University of the Free State, Bloemfontein, South Africa
| | | | | | - Robert F Park
- Plant Breeding Institute, School of Life and Environmental Sciences, University of Sydney, Cobbitty, NSW, Australia
| | - Rohit Mago
- CSIRO Agriculture & Food, Canberra, ACT, Australia
| | | | - Dhara Bhatt
- CSIRO Agriculture & Food, Canberra, ACT, Australia
| | - Sami Hoxha
- Plant Breeding Institute, School of Life and Environmental Sciences, University of Sydney, Cobbitty, NSW, Australia
| | | | - Ming Luo
- CSIRO Agriculture & Food, Canberra, ACT, Australia
| | - Peter Dodds
- CSIRO Agriculture & Food, Canberra, ACT, Australia
| | | | | | | | - Robert A McIntosh
- Plant Breeding Institute, School of Life and Environmental Sciences, University of Sydney, Cobbitty, NSW, Australia
| | - Peng Zhang
- Plant Breeding Institute, School of Life and Environmental Sciences, University of Sydney, Cobbitty, NSW, Australia.
| | - Evans S Lagudah
- Plant Breeding Institute, School of Life and Environmental Sciences, University of Sydney, Cobbitty, NSW, Australia. .,CSIRO Agriculture & Food, Canberra, ACT, Australia.
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20
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Yang G, Boshoff WHP, Li H, Pretorius ZA, Luo Q, Li B, Li Z, Zheng Q. Chromosomal composition analysis and molecular marker development for the novel Ug99-resistant wheat-Thinopyrum ponticum translocation line WTT34. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2021; 134:1587-1599. [PMID: 33677639 DOI: 10.1007/s00122-021-03796-0] [Citation(s) in RCA: 15] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/12/2020] [Accepted: 02/16/2021] [Indexed: 05/12/2023]
Abstract
A novel Ug99-resistant wheat-Thinopyrum ponticum translocation line was produced, its chromosomal composition was analyzed and specific markers were developed. Stem rust caused by Puccinia graminis f. sp. tritici Eriks. & E. Henn (Pgt) has seriously threatened global wheat production since Ug99 race TTKSK was first detected in Uganda in 1998. Thinopyrum ponticum is near immune to Ug99 races and may be useful for enhancing wheat disease resistance. Therefore, developing new wheat-Th. ponticum translocation lines that are resistant to Ug99 is crucial. In this study, a novel wheat-Th. ponticum translocation line, WTT34, was produced. Seedling and field evaluation revealed that WTT34 is resistant to Ug99 race PTKST. The resistance was derived from the alien parent Th. ponticum. Screening WTT34 with markers linked to Sr24, Sr25, Sr26, Sr43, and SrB resulted in the amplification of different DNA fragments from Th. ponticum, implying WTT34 carries at least one novel stem rust resistance gene. Genomic in situ hybridization (GISH), multicolor fluorescence in situ hybridization (mc-FISH), and multi-color GISH (mc-GISH) analyses indicated that WTT34 carries a T5DS·5DL-Th translocation, which was consistent with wheat660K single-nucleotide polymorphism (SNP) array results. The SNP array also uncovered a deletion event in the terminal region of chromosome 1D. Additionally, the homeology between alien segments and the wheat chromosomes 2A and 5D was confirmed. Furthermore, 51 PCR-based markers derived from the alien segments of WTT34 were developed based on specific-locus amplified fragment sequencing (SLAF-seq). These markers may enable wheat breeders to rapidly trace Th. ponticum chromosomal segments carrying Ug99 resistance gene(s).
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Affiliation(s)
- Guotang Yang
- State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, The Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing, 100101, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Willem H P Boshoff
- Department of Plant Sciences, University of the Free State, Bloemfontein, 9300, South Africa
| | - Hongwei Li
- State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, The Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing, 100101, China
| | - Zacharias A Pretorius
- Department of Plant Sciences, University of the Free State, Bloemfontein, 9300, South Africa
| | - Qiaoling Luo
- State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, The Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing, 100101, China
| | - Bin Li
- State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, The Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing, 100101, China
| | - Zhensheng Li
- State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, The Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing, 100101, China
| | - Qi Zheng
- State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, The Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing, 100101, China.
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21
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Rai A, Ahlawat AK, Shukla RB, Jain N, Kumar RR, Mahendru-Singh A. Quality evaluation of near-isogenic line of the wheat variety HD2733 carrying the Lr24/Sr24 genomic region. 3 Biotech 2021; 11:130. [PMID: 33680695 DOI: 10.1007/s13205-021-02679-x] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/29/2020] [Accepted: 02/04/2021] [Indexed: 01/23/2023] Open
Abstract
A near-isogenic line (NIL) of the Indian wheat variety HD2733, carrying an introgressed Lr24/Sr24 genomic region was used for studying the effect of this introgression on quality traits. Data on the grain yield and 21 quality traits were recorded in this NIL and its recurrent parent (RP), both of which were grown in a randomized block design for two consecutive years. The statistical analysis revealed that grain yield was on par between the NIL and the RP. The NIL and its RP were both hard grained but the NIL showed a grain hardness index reduced by 9.7%. However, quality traits such as grain weight, protein content, sedimentation value, gluten traits, and solvent retention capacity were significantly higher in the NIL. The NIL also showed an increase in dough stability, a lower degree of softening and a higher farinograph quality number. These results indicated that the NIL could be utilized for hard grain, high protein and strong gluten-based products. An overall improvement in the quality of the NIL over its recurrent parent and without any yield penalty suggests that the Lr24/Sr24 genomic region could be gainfully utilized in wheat breeding for improving the industrial quality of wheat without jeopardising grain yield. The authors suggest that the improved quality of the NIL may be due to the genomic segment carried along with the Lr24/Sr24 genes. SUPPLEMENTARY INFORMATION The online version contains supplementary material available at 10.1007/s13205-021-02679-x.
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Affiliation(s)
- Anjali Rai
- Department of Biotechnology, Amity Institute of Biotechnology, Amity University, Noida, 201313 India
- Division of Genetics, ICAR-Indian Agricultural Research Institute, New Delhi, 110012 India
| | - Arvind K Ahlawat
- Division of Genetics, ICAR-Indian Agricultural Research Institute, New Delhi, 110012 India
| | - R B Shukla
- Division of Genetics, ICAR-Indian Agricultural Research Institute, New Delhi, 110012 India
| | - Neelu Jain
- Division of Genetics, ICAR-Indian Agricultural Research Institute, New Delhi, 110012 India
| | - Rajeev Ranjan Kumar
- Division of Forecasting and Agricultural System Modelling, ICAR-Indian Agricultural Statistics Research Institute, New Delhi, 110012 India
| | - Anju Mahendru-Singh
- Division of Genetics, ICAR-Indian Agricultural Research Institute, New Delhi, 110012 India
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22
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Hatta MAM, Arora S, Ghosh S, Matny O, Smedley MA, Yu G, Chakraborty S, Bhatt D, Xia X, Steuernagel B, Richardson T, Mago R, Lagudah ES, Patron NJ, Ayliffe M, Rouse MN, Harwood WA, Periyannan S, Steffenson BJ, Wulff BB. The wheat Sr22, Sr33, Sr35 and Sr45 genes confer resistance against stem rust in barley. PLANT BIOTECHNOLOGY JOURNAL 2021; 19:273-284. [PMID: 32744350 PMCID: PMC7868974 DOI: 10.1111/pbi.13460] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/12/2018] [Accepted: 06/17/2020] [Indexed: 05/16/2023]
Abstract
In the last 20 years, stem rust caused by the fungus Puccinia graminis f. sp. tritici (Pgt), has re-emerged as a major threat to wheat and barley production in Africa and Europe. In contrast to wheat with 60 designated stem rust (Sr) resistance genes, barley's genetic variation for stem rust resistance is very narrow with only ten resistance genes genetically identified. Of these, only one complex locus consisting of three genes is effective against TTKSK, a widely virulent Pgt race of the Ug99 tribe which emerged in Uganda in 1999 and has since spread to much of East Africa and parts of the Middle East. The objective of this study was to assess the functionality, in barley, of cloned wheat Sr genes effective against race TTKSK. Sr22, Sr33, Sr35 and Sr45 were transformed into barley cv. Golden Promise using Agrobacterium-mediated transformation. All four genes were found to confer effective stem rust resistance. The barley transgenics remained susceptible to the barley leaf rust pathogen Puccinia hordei, indicating that the resistance conferred by these wheat Sr genes was specific for Pgt. Furthermore, these transgenic plants did not display significant adverse agronomic effects in the absence of disease. Cloned Sr genes from wheat are therefore a potential source of resistance against wheat stem rust in barley.
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Affiliation(s)
- M. Asyraf Md Hatta
- John Innes CentreNorwich Research ParkNorwichUK
- Department of Agriculture TechnologyFaculty of AgricultureUniversiti Putra MalaysiaSerdangMalaysia
| | - Sanu Arora
- John Innes CentreNorwich Research ParkNorwichUK
| | - Sreya Ghosh
- John Innes CentreNorwich Research ParkNorwichUK
| | - Oadi Matny
- Department of Plant PathologyStakman Borlaug Center for Sustainable Plant HealthUniversity of MinnesotaSt. PaulMNUSA
| | | | - Guotai Yu
- John Innes CentreNorwich Research ParkNorwichUK
| | - Soma Chakraborty
- Commonwealth Scientific and Industrial Research Organization (CSIRO)Agriculture and FoodCanberraACTAustralia
| | - Dhara Bhatt
- Commonwealth Scientific and Industrial Research Organization (CSIRO)Agriculture and FoodCanberraACTAustralia
| | - Xiaodi Xia
- Commonwealth Scientific and Industrial Research Organization (CSIRO)Agriculture and FoodCanberraACTAustralia
| | | | - Terese Richardson
- Commonwealth Scientific and Industrial Research Organization (CSIRO)Agriculture and FoodCanberraACTAustralia
| | - Rohit Mago
- Commonwealth Scientific and Industrial Research Organization (CSIRO)Agriculture and FoodCanberraACTAustralia
| | - Evans S. Lagudah
- Commonwealth Scientific and Industrial Research Organization (CSIRO)Agriculture and FoodCanberraACTAustralia
| | | | - Michael Ayliffe
- Commonwealth Scientific and Industrial Research Organization (CSIRO)Agriculture and FoodCanberraACTAustralia
| | - Matthew N. Rouse
- Department of Plant PathologyStakman Borlaug Center for Sustainable Plant HealthUniversity of MinnesotaSt. PaulMNUSA
- USDA‐ARS Cereal Disease LaboratorySt. PaulMNUSA
| | | | - Sambasivam Periyannan
- Commonwealth Scientific and Industrial Research Organization (CSIRO)Agriculture and FoodCanberraACTAustralia
| | - Brian J. Steffenson
- Department of Plant PathologyStakman Borlaug Center for Sustainable Plant HealthUniversity of MinnesotaSt. PaulMNUSA
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23
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Kelbin VN, Skolotneva ES, Salina EA. Challenges and prospects for developing genetic resistance in common wheat against stem rust in Western Siberia. Vavilovskii Zhurnal Genet Selektsii 2020; 24:821-828. [PMID: 35087994 PMCID: PMC8763719 DOI: 10.18699/vj20.679] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/23/2020] [Revised: 10/15/2020] [Accepted: 10/15/2020] [Indexed: 11/21/2022] Open
Abstract
Современные исследования проблемы устойчивости мягкой пшеницы к стеблевой ржавчине
включают два основных направления: оценку устойчивости коллекций мягкой пшеницы к заболеванию с
помощью молекулярных маркеров к известным генам устойчивости в дополнение к полевому скринингу материала и лабораторным тестам к образцам различных популяций гриба; поиск источников и доноров новых
генов и генных локусов, в том числе среди культурных и дикорастущих родичей пшеницы. Для достижения
адекватного генетического контроля заболевания важен интегральный подход, включающий как данные об
источниках устойчивости, так и актуальные сведения о действующих в регионе патогенных популяциях, их
расовом составе и динамике генов вирулентности. Результаты анализа экспериментальных данных полевого
скрининга устойчивости к стеблевой ржавчине сортов мягкой пшеницы из коллекции питомников CIMMYT
в условиях Омской и Новосибирской областей, а также лабораторного тестирования образцов инфекции на
международном наборе пшеничных линий-дифференциаторов позволяют предполагать, что на территории
Западной Сибири и Алтайского края существует обособленная, «азиатская», популяция Puccinia graminis f. sp.
tritici. При этом практический интерес для современных программ опережающей селекции пшеницы на иммунитет к стеблевой ржавчине в условиях Западной Сибири представляют гены устойчивости Sr2, Sr6Ai#2,
Sr24, Sr25, Sr26, Sr31, Sr39, Sr40, Sr44 и Sr57. В настоящем обзоре проанализированы источники генов, сохраняющих эффективность к западносибирской популяции P. graminis, с целью упрощения первичного этапа отбора селекционного материала для создания устойчивого генотипа путем пирамидирования генов. Описаны
основные требования, предъявляемые к фитопатологическому тестированию селекционного материала.
Составлен список молекулярных маркеров к указанным генам устойчивости – как широко применяющихся
в маркер-ориентированной селекции, так и требующих верификации.
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Affiliation(s)
- V. N. Kelbin
- Institute of Cytology and Genetics of Siberian Branch of the Russian Academy of Sciences
| | - E. S. Skolotneva
- Institute of Cytology and Genetics of Siberian Branch of the Russian Academy of Sciences
| | - E. A. Salina
- Institute of Cytology and Genetics of Siberian Branch of the Russian Academy of Sciences
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24
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Babu P, Baranwal DK, Harikrishna, Pal D, Bharti H, Joshi P, Thiyagarajan B, Gaikwad KB, Bhardwaj SC, Singh GP, Singh A. Application of Genomics Tools in Wheat Breeding to Attain Durable Rust Resistance. FRONTIERS IN PLANT SCIENCE 2020; 11:567147. [PMID: 33013989 PMCID: PMC7516254 DOI: 10.3389/fpls.2020.567147] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/29/2020] [Accepted: 08/12/2020] [Indexed: 11/13/2023]
Abstract
Wheat is an important source of dietary protein and calories for the majority of the world's population. It is one of the largest grown cereal in the world occupying over 215 M ha. Wheat production globally is challenged by biotic stresses such as pests and diseases. Of the 50 diseases of wheat that are of economic importance, the three rust diseases are the most ubiquitous causing significant yield losses in the majority of wheat production environments. Under severe epidemics they can lead to food insecurity threats amid the continuous evolution of new races of the pathogens, shifts in population dynamics and their virulence patterns, thereby rendering several effective resistance genes deployed in wheat breeding programs vulnerable. This emphasizes the need to identify, characterize, and deploy effective rust-resistant genes from diverse sources into pre-breeding lines and future wheat varieties. The use of genetic resistance has been marked as eco-friendly and to curb the further evolution of rust pathogens. Deployment of multiple rust resistance genes including major and minor genes in wheat lines could enhance the durability of resistance thereby reducing pathogen evolution. Advances in next-generation sequencing (NGS) platforms and associated bioinformatics tools have revolutionized wheat genomics. The sequence alignment of the wheat genome is the most important landmark which will enable genomics to identify marker-trait associations, candidate genes and enhanced breeding values in genomic selection (GS) studies. High throughput genotyping platforms have demonstrated their role in the estimation of genetic diversity, construction of the high-density genetic maps, dissecting polygenic traits, and better understanding their interactions through GWAS (genome-wide association studies) and QTL mapping, and isolation of R genes. Application of breeder's friendly KASP assays in the wheat breeding program has expedited the identification and pyramiding of rust resistance alleles/genes in elite lines. The present review covers the evolutionary trends of the rust pathogen and contemporary wheat varieties, and how these research strategies galvanized to control the wheat killer genus Puccinia. It will also highlight the outcome and research impact of cost-effective NGS technologies and cloning of rust resistance genes amid the public availability of common and tetraploid wheat reference genomes.
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Affiliation(s)
- Prashanth Babu
- Indian Agricultural Research Institute (ICAR), New Delhi, India
| | | | - Harikrishna
- Indian Agricultural Research Institute (ICAR), New Delhi, India
| | - Dharam Pal
- Indian Agricultural Research Institute (ICAR), New Delhi, India
| | - Hemlata Bharti
- Directorate of Medicinal and Aromatic Plants Research (ICAR), Anand, India
| | - Priyanka Joshi
- Department of Plant Pathology, Washington State University, Pullman, WA, United States
| | | | | | | | | | - Anupam Singh
- DCM SHRIRAM-Bioseed Research India, ICRISAT, Hyderabad, India
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25
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Joukhadar R, Hollaway G, Shi F, Kant S, Forrest K, Wong D, Petkowski J, Pasam R, Tibbits J, Bariana H, Bansal U, Spangenberg G, Daetwyler H, Gendall T, Hayden M. Genome-wide association reveals a complex architecture for rust resistance in 2300 worldwide bread wheat accessions screened under various Australian conditions. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2020; 133:2695-2712. [PMID: 32504212 DOI: 10.1007/s00122-020-03626-9] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/19/2019] [Accepted: 05/25/2020] [Indexed: 05/13/2023]
Abstract
We utilized 2300 wheat accessions including worldwide landraces, cultivars and primary synthetic-derived germplasm with three Australian cultivars: Annuello, Yitpi and Correll, to investigate field-based resistance to leaf (Lr) rust, stem (Sr) rust and stripe (Yr) rust diseases across a range of Australian wheat agri-production zones. Generally, the resistance in the modern Australian cultivars, synthetic derivatives, South and North American materials outperformed other geographical subpopulations. Different environments for each trait showed significant correlations, with average r values of 0.53, 0.23 and 0.66 for Lr, Sr and Yr, respectively. Single-trait genome-wide association studies (GWAS) revealed several environment-specific and multi-environment quantitative trait loci (QTL). Multi-trait GWAS confirmed a cluster of Yr QTL on chromosome 3B within a 4.4-cM region. Linkage disequilibrium and comparative mapping showed that at least three Yr QTL exist within the 3B cluster including the durable rust resistance gene Yr30. An Sr/Lr QTL on chromosome 3D was found mainly in the synthetic-derived germplasm from Annuello background which is known to carry the Agropyron elongatum 3D translocation involving the Sr24/Lr24 resistance locus. Interestingly, estimating the SNP effects using a BayesR method showed that the correlation among the highest 1% of QTL effects across environments (excluding GWAS QTL) had significant correlations, with average r values of 0.26, 0.16 and 0.55 for Lr, Sr and Yr, respectively. These results indicate the importance of small effect QTL in achieving durable rust resistance which can be captured using genomic selection.
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Affiliation(s)
- Reem Joukhadar
- Agriculture Victoria, AgriBio, Centre for AgriBiosciences, Bundoora, VIC, Australia.
- Department of Animal, Plant and Soil Sciences, La Trobe University, Bundoora, VIC, Australia.
| | - Grant Hollaway
- Agriculture Victoria, Natimuk Road, Horsham, VIC, 3401, Australia
| | - Fan Shi
- Agriculture Victoria, AgriBio, Centre for AgriBiosciences, Bundoora, VIC, Australia
| | - Surya Kant
- Agriculture Victoria, Natimuk Road, Horsham, VIC, 3401, Australia
| | - Kerrie Forrest
- Agriculture Victoria, AgriBio, Centre for AgriBiosciences, Bundoora, VIC, Australia
| | - Debbie Wong
- Agriculture Victoria, AgriBio, Centre for AgriBiosciences, Bundoora, VIC, Australia
| | - Joanna Petkowski
- Agriculture Victoria, AgriBio, Centre for AgriBiosciences, Bundoora, VIC, Australia
| | - Raj Pasam
- Agriculture Victoria, AgriBio, Centre for AgriBiosciences, Bundoora, VIC, Australia
| | - Josquin Tibbits
- Agriculture Victoria, AgriBio, Centre for AgriBiosciences, Bundoora, VIC, Australia
| | - Harbans Bariana
- Faculty of Agriculture and Environment, Plant Breeding Institute-Cobbitty, The University of Sydney, PMB4011, Narellan, NSW, 2567, Australia
| | - Urmil Bansal
- Faculty of Agriculture and Environment, Plant Breeding Institute-Cobbitty, The University of Sydney, PMB4011, Narellan, NSW, 2567, Australia
| | - German Spangenberg
- Agriculture Victoria, AgriBio, Centre for AgriBiosciences, Bundoora, VIC, Australia
- School of Applied Systems Biology, La Trobe University, Bundoora, VIC, Australia
| | - Hans Daetwyler
- Agriculture Victoria, AgriBio, Centre for AgriBiosciences, Bundoora, VIC, Australia
- School of Applied Systems Biology, La Trobe University, Bundoora, VIC, Australia
| | - Tony Gendall
- Department of Animal, Plant and Soil Sciences, La Trobe University, Bundoora, VIC, Australia
| | - Matthew Hayden
- Agriculture Victoria, AgriBio, Centre for AgriBiosciences, Bundoora, VIC, Australia
- School of Applied Systems Biology, La Trobe University, Bundoora, VIC, Australia
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26
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Wu XX, Lin QJ, Ni XY, Sun Q, Chen RZ, Xu XF, Qiu YC, Li TY. Characterization of Wheat Monogenic Lines with Known Sr Genes and Wheat Lines with Resistance to the Ug99 Race Group for Resistance to Prevalent Races of Puccinia graminis f. sp. tritici in China. PLANT DISEASE 2020; 104:1939-1943. [PMID: 32396054 DOI: 10.1094/pdis-12-19-2736-re] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/20/2023]
Abstract
Wheat stem rust, caused by Puccinia graminis f. sp. tritici, is one of the most serious fungal diseases in wheat production, seriously threatening the global supply of wheat and endangering food security. The present study was conducted to evaluate wheat monogenic lines with known Sr genes to the most prevalent P. graminis f. sp. tritici races in China. In addition, wheat lines introduced from the International Maize and Wheat improvement Center (CIMMYT) with resistance to the Ug99 race group were also evaluated with the prevalent Chinese P. graminis f. sp. tritici races. The monogenic lines containing Sr9e, Sr21, Sr26, Sr31, Sr33, Sr35, Sr37, Sr38, Sr47, and SrTt3 were effective against races 21C3CTTTM, 34C0MRGSM, and 34C3MTGQM at both seedling and adult-plant stages. In contrast, monogenic lines containing Sr6, Sr7b, Sr8a, Sr9a, Sr9b, Sr9d, Sr9f, Sr9g, Sr13, Sr16, Sr18, Sr19, Sr20, Sr24, Sr28, Sr29, and Sr34 were highly susceptible to these races at both seedling and adult-plant stages. Lines with Sr5, Sr10, Sr13, Sr14, Sr15, Sr17, Sr21, Sr22, Sr23, Sr25, Sr27, Sr29, Sr30, Sr32, Sr36, and Sr39 were resistant to one or more of the tested races. Among the 123 CIMMYT lines, 38 (30.9%) showed varying levels of susceptibility to Chinese P. graminis f. sp. tritici races. The results should be useful for breeding wheat cultivars with resistance to stem rust.
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Affiliation(s)
- Xian Xin Wu
- College of Plant Protection, Shenyang Agricultural University, Shenyang, Liaoning 110866, China
| | - Qiu Jun Lin
- College of Plant Protection, Shenyang Agricultural University, Shenyang, Liaoning 110866, China
| | - Xin Yu Ni
- College of Plant Protection, Shenyang Agricultural University, Shenyang, Liaoning 110866, China
| | - Qian Sun
- College of Plant Protection, Shenyang Agricultural University, Shenyang, Liaoning 110866, China
| | - Rong Zhen Chen
- College of Plant Protection, Shenyang Agricultural University, Shenyang, Liaoning 110866, China
| | - Xiao Feng Xu
- College of Plant Protection, Shenyang Agricultural University, Shenyang, Liaoning 110866, China
| | - Yong Chun Qiu
- College of Plant Protection, Shenyang Agricultural University, Shenyang, Liaoning 110866, China
| | - Tian Ya Li
- College of Plant Protection, Shenyang Agricultural University, Shenyang, Liaoning 110866, China
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Kosgey ZC, Edae EA, Dill-Macky R, Jin Y, Bulbula WD, Gemechu A, Macharia G, Bhavani S, Randhawa MS, Rouse MN. Mapping and Validation of Stem Rust Resistance Loci in Spring Wheat Line CI 14275. FRONTIERS IN PLANT SCIENCE 2020; 11:609659. [PMID: 33510752 PMCID: PMC7835402 DOI: 10.3389/fpls.2020.609659] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/23/2020] [Accepted: 12/08/2020] [Indexed: 05/22/2023]
Abstract
Stem rust caused by Puccinia graminis f. sp. tritici (Pgt) remains a constraint to wheat production in East Africa. In this study, we characterized the genetics of stem rust resistance, identified QTLs, and described markers associated with stem rust resistance in the spring wheat line CI 14275. The 113 recombinant inbred lines, together with their parents, were evaluated at the seedling stage against Pgt races TTKSK, TRTTF, TPMKC, TTTTF, and RTQQC. Screening for resistance to Pgt races in the field was undertaken in Kenya, Ethiopia, and the United States in 2016, 2017, and 2018. One gene conferred seedling resistance to race TTTTF, likely Sr7a. Three QTL were identified that conferred field resistance. QTL QSr.cdl-2BS.2, that conferred resistance in Kenya and Ethiopia, was validated, and the marker Excalibur_c7963_1722 was shown to have potential to select for this QTL in marker-assisted selection. The QTL QSr.cdl-3B.2 is likely Sr12, and QSr.cdl-6A appears to be a new QTL. This is the first study to both detect and validate an adult plant stem rust resistance QTL on chromosome arm 2BS. The combination of field QTL QSr.cdl-2BS.2, QSr.cdl-3B.2, and QSr.cdl-6A has the potential to be used in wheat breeding to improve stem rust resistance of wheat varieties.
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Affiliation(s)
- Zennah C. Kosgey
- Kenya Agricultural and Livestock Research Organization, Njoro, Kenya
- Department of Plant Pathology, University of Minnesota, Saint Paul, MN, United States
- *Correspondence: Zennah C. Kosgey,
| | - Erena A. Edae
- Department of Plant Pathology, University of Minnesota, Saint Paul, MN, United States
| | - Ruth Dill-Macky
- Department of Plant Pathology, University of Minnesota, Saint Paul, MN, United States
| | - Yue Jin
- Department of Plant Pathology, University of Minnesota, Saint Paul, MN, United States
- Cereal Disease Laboratory, United States Department of Agriculture-Agricultural Research Service, Saint Paul, MN, United States
| | - Worku Denbel Bulbula
- Department of Plant Pathology, University of Minnesota, Saint Paul, MN, United States
- Debre Zeit Agricultural Research Center, Ethiopian Institute of Agricultural Research, Bishoftu, Ethiopia
| | - Ashenafi Gemechu
- Debre Zeit Agricultural Research Center, Ethiopian Institute of Agricultural Research, Bishoftu, Ethiopia
| | - Godwin Macharia
- Kenya Agricultural and Livestock Research Organization, Njoro, Kenya
| | - Sridhar Bhavani
- International Maize and Wheat Improvement Center (CIMMYT), Texcoco, Mexico
| | | | - Matthew N. Rouse
- Department of Plant Pathology, University of Minnesota, Saint Paul, MN, United States
- Cereal Disease Laboratory, United States Department of Agriculture-Agricultural Research Service, Saint Paul, MN, United States
- Matthew N. Rouse,
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Laroche A, Frick M, Graf RJ, Larsen J, Laurie JD. Pyramiding disease resistance genes in elite winter wheat germplasm for Western Canada. ACTA ACUST UNITED AC 2019. [DOI: 10.1016/j.cj.2019.08.005] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
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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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Mourad AMI, Sallam A, Belamkar V, Wegulo S, Bai G, Mahdy E, Bakheit B, Abo El-Wafa A, Jin Y, Baenziger PS. Molecular marker dissection of stem rust resistance in Nebraska bread wheat germplasm. Sci Rep 2019; 9:11694. [PMID: 31406132 PMCID: PMC6691005 DOI: 10.1038/s41598-019-47986-9] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/21/2019] [Accepted: 07/23/2019] [Indexed: 12/20/2022] Open
Abstract
Stem rust (caused by Puccinia graminis f. sp. tritici) is a major disease of wheat. To understand the genetic basis of stem rust resistance in Nebraska winter wheat, a set of 330 genotypes representing two nurseries (DUP2015 and TRP2015) were evaluated for resistance to a Nebraska stem rust race (QFCSC) in two replications. The TRP2015 nursery was also evaluated for its resistance to an additional 13 stem rust races. The analysis of variance revealed significant variation among genotypes in both populations for stem rust resistance. Nine stem rust genes, Sr6, Sr31, Sr1RSAmigo, Sr24, Sr36, SrTmp, Sr7b, Sr9b, and Sr38, were expected and genotyped using gene-specific markers. The results of genetic analysis confirmed the presence of seven stem rust resistance genes. One genotype (NE15680) contained target alleles for five stem rust resistance genes and had a high level of stem rust resistance against different races. Single marker analysis indicated that Sr24 and Sr38 were highly significantly associated with stem rust resistance in the DUP2015 and TRP2015 nurseries, respectively. Linkage disequilibrium analysis identified the presence of 17 SNPs in high linkage with the Sr38-specific marker. These SNPs potentially tagging the Sr38 gene could be used in marker-assisted selection after validating them in additional genetic backgrounds.
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Affiliation(s)
- Amira M I Mourad
- Department of Agronomy and Horticulture, Plant Science Hall, UNL, Lincoln, NE, USA. .,Agronomy Department, Faculty of Agriculture, Assiut University, Assiut, Egypt.
| | - Ahmed Sallam
- Department of Agronomy and Horticulture, Plant Science Hall, UNL, Lincoln, NE, USA.,Department of Genetics, Faculty of Agriculture, Assiut University, Assiut, Egypt
| | - Vikas Belamkar
- Department of Agronomy and Horticulture, Plant Science Hall, UNL, Lincoln, NE, USA
| | - Stephen Wegulo
- Department of Plant Pathology, Plant Science Hall, UNL, Lincoln, NE, USA
| | - Guihua Bai
- USDA-ARS Hard Winter Wheat Genetics Research Unit, 4008 Throckmorton Hall, Manhattan, KS, USA
| | - Ezzat Mahdy
- Agronomy Department, Faculty of Agriculture, Assiut University, Assiut, Egypt
| | - Bahy Bakheit
- Agronomy Department, Faculty of Agriculture, Assiut University, Assiut, Egypt
| | - Atif Abo El-Wafa
- Agronomy Department, Faculty of Agriculture, Assiut University, Assiut, Egypt
| | - Yue Jin
- USDA-ARS Cereal Disease Lab, St. Paul, MN, USA
| | - P Stephen Baenziger
- Department of Agronomy and Horticulture, Plant Science Hall, UNL, Lincoln, NE, USA
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Mago R, Zhang P, Xia X, Zhang J, Hoxha S, Lagudah E, Graner A, Dundas I. Transfer of stem rust resistance gene SrB from Thinopyrum ponticum into wheat and development of a closely linked PCR-based marker. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2019; 132:371-382. [PMID: 30377705 DOI: 10.1007/s00122-018-3224-1] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/29/2018] [Accepted: 10/25/2018] [Indexed: 05/10/2023]
Abstract
We report transfer of a rust resistance gene named SrB, on the 6Ae#3 chromosome, to wheat by recombination with the 6Ae#1 segment carrying Sr26 and development of a linked marker. A stem rust resistance gene from a South African wheat W3757, temporarily named SrB, has been transferred onto chromosome 6A. Line W3757 is a 6Ae#3 (6D) substitution line in which the Thinopyrum ponticum chromosomes carry SrB. Crosses were made between W3757 and a T6AS·6AL-6Ae#1 recombinant line named WA-5 carrying the stem rust resistance gene Sr26 on a chromosome segment from another accession of Th. ponticum. The 6Ae#1 and 6Ae#3 chromosomes had previously been shown to pair at meiosis and were polymorphic for the distally located RFLP probes BCD001 and MWG798. A recombinant plant (Type A) was identified carrying a distal chromosome segment from the 6Ae#3 chromosome and a sub-terminal segment from the 6Ae#1 chromosome. Rust tests on the recombinant Type A showed the infection type for SrB. Segregation and linkage data combined with genomic in situ hybridization studies demonstrated that SrB had been transferred to wheat chromosome arm 6AL by recombination between the Thinopyrum chromosome segments. A recombinant positive for the 6Ae#1-6Ae#3 chromosome showed enhanced stem rust resistance compared to the 6Ae#3 addition line in repeated rust tests. A diagnostic PCR-based marker was developed for the 6Ae#3 chromosome segment on the Type A recombinant carrying SrB that distinguishes it from the Sr26-containing segment. A stem rust resistant line which combines SrB with Sr26 would be a great addition to the pool of resistant germplasm for wheat breeders to achieve more durable and effective control of stem rust because virulence has not been found for either of these two genes.
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Affiliation(s)
- Rohit Mago
- CSIRO Agriculture and Food, GPO Box 1700, Canberra, ACT, 2601, Australia
| | - Peng Zhang
- Plant Breeding Institute, Cobbitty (PBIC), The University of Sydney, Sydney, NSW, 2570, Australia
| | - Xiaodi Xia
- CSIRO Agriculture and Food, GPO Box 1700, Canberra, ACT, 2601, Australia
| | - Jianping Zhang
- CSIRO Agriculture and Food, GPO Box 1700, Canberra, ACT, 2601, Australia
- Plant Breeding Institute, Cobbitty (PBIC), The University of Sydney, Sydney, NSW, 2570, Australia
| | - Sami Hoxha
- Plant Breeding Institute, Cobbitty (PBIC), The University of Sydney, Sydney, NSW, 2570, Australia
| | - Evans Lagudah
- CSIRO Agriculture and Food, GPO Box 1700, Canberra, ACT, 2601, Australia
| | - Andreas Graner
- Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), OT Gatersleben, Corrensstr. 3, 06466, Seeland, Germany
| | - Ian Dundas
- School of Agriculture, Food and Wine, The University of Adelaide, Waite Campus, Glen Osmond, SA, 5064, Australia.
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Zhang J, Zhang P, Hewitt T, Li J, Dundas I, Schnippenkoetter W, Hoxha S, Chen C, Park R, Lagudah E. A strategy for identifying markers linked with stem rust resistance in wheat harbouring an alien chromosome introgression from a non-sequenced genome. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2019; 132:125-135. [PMID: 30327843 DOI: 10.1007/s00122-018-3201-8] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/14/2018] [Accepted: 10/08/2018] [Indexed: 06/08/2023]
Abstract
A set of molecular markers was developed for Sr26 from comparative genomic analysis. The comparative genomic approach also enabled the identification of a previously uncharacterised wheat chromosome that carried Sr26. Stem rust of wheat, a biotic stress caused by a fungal pathogen, continues to pose significant threats to wheat production. Considerable effort has been directed at surveillance and breeding approaches to minimize the impact of the widely virulent race of the stem rust pathogen (Puccinia graminis f. sp. tritici, Pgt) commonly known as Ug99 (TTKSK) and other races in its lineage. The stem rust resistance gene Sr26, derived from Thinopyrum ponticum, is an excellent example of the successful utilization of a gene from a wild relative of a crop plant and remains one of the few durable sources of resistance currently effective against all known field isolates of Pgt. We explored comparative genomic analysis of the nucleotide binding leucine rich repeat (NLR) genes of the diploid D genome and bread wheat genomes to target the Sr26 region from the non-sequenced Th. ponticum genome. A chromosomal interval harboring NLR genes in the distal end of homoeologous group 6 chromosomes was used to demarcate the Sr26 locus. A set of closely linked PCR-based molecular markers was developed for Sr26. Furthermore, the comparative analysis approach enabled the unambiguous identification of a previously uncharacterised wheat chromosome that carried Sr26 in an introgressed Th. ponticum segment and was validated by fluorescent and genomic in situ hybridisation (FISH/GISH) experiments. The genetic information generated from the target interval based on this study will benefit future related studies on group 6 chromosomes of wheat, including 6Dt from Aegilops tauschii, and chromosome 6Ae#1 from Th. ponticum.
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Affiliation(s)
- Jianping Zhang
- University of Sydney, Plant Breeding Institute Cobbitty, Cobbitty, NSW, 2570, Australia.
- CSIRO Agriculture & Food, GPO Box 1700, Canberra, ACT, 2601, Australia.
- Henan Tianmin Seed Company Ltd., South Industrial District, Lankao, 475300, Henan, People's Republic of China.
| | - Peng Zhang
- University of Sydney, Plant Breeding Institute Cobbitty, Cobbitty, NSW, 2570, Australia.
| | - Timothy Hewitt
- University of Sydney, Plant Breeding Institute Cobbitty, Cobbitty, NSW, 2570, Australia
- CSIRO Agriculture & Food, GPO Box 1700, Canberra, ACT, 2601, Australia
| | - Jianbo Li
- University of Sydney, Plant Breeding Institute Cobbitty, Cobbitty, NSW, 2570, Australia
- School of Life Science and Technology, University of Electronic Science and Technology of China, Chengdu, 610054, Sichuan, People's Republic of China
| | - Ian Dundas
- School of Agriculture, Food and Wine, The University of Adelaide, Urrbrae, SA, 5064, Australia
| | | | - Sami Hoxha
- University of Sydney, Plant Breeding Institute Cobbitty, Cobbitty, NSW, 2570, Australia
| | - Chunhong Chen
- CSIRO Agriculture & Food, GPO Box 1700, Canberra, ACT, 2601, Australia
| | - Robert Park
- University of Sydney, Plant Breeding Institute Cobbitty, Cobbitty, NSW, 2570, Australia
| | - Evans Lagudah
- University of Sydney, Plant Breeding Institute Cobbitty, Cobbitty, NSW, 2570, Australia
- CSIRO Agriculture & Food, GPO Box 1700, Canberra, ACT, 2601, Australia
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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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Xu X, Yuan D, Li D, Gao Y, Wang Z, Liu Y, Wang S, Xuan Y, Zhao H, Li T, Wu Y. Identification of stem rust resistance genes in wheat cultivars in China using molecular markers. PeerJ 2018; 6:e4882. [PMID: 29844997 PMCID: PMC5971096 DOI: 10.7717/peerj.4882] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/16/2018] [Accepted: 05/11/2018] [Indexed: 11/20/2022] Open
Abstract
Wheat stem rust caused by Puccinia graminis f. sp. tritici Eriks. & E. Henn. (Pgt), is a major disease that has been effectively controlled using resistance genes. The appearance and spread of Pgt races such as Ug99, TKTTF, and TTTTF, which are virulent to most stem rust-resistant genes currently deployed in wheat breeding programs, renewed the interest in breeding cultivars resistant to wheat stem rust. It is therefore important to investigate the levels of resistance or vulnerability of wheat cultivars to Pgt races. Resistance to Pgt races 21C3CTHQM, 34MKGQM, and 34C3RTGQM was evaluated in 136 Chinese wheat cultivars at the seedling stage. A total of 124 cultivars (91.2%) were resistant to the three races. Resistance genes Sr2, Sr24, Sr25, Sr26, Sr31, and Sr38 were analyzed using molecular markers closely linked to them, and 63 of the 136 wheat cultivars carried at least one of these genes: 21, 25, and 28 wheat cultivars likely carried Sr2, Sr31, and Sr38, respectively. Cultivars "Kehan 3" and "Jimai 22" likely carried Sr25. None of the cultivars carried Sr24 or Sr26. These cultivars with known stem rust resistance genes provide valuable genetic material for breeding resistant wheat cultivars.
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Affiliation(s)
- Xiaofeng Xu
- College of Plant Protection, Shenyang Agricultural University, Shenyang, China
| | - Depeng Yuan
- College of Plant Protection, Shenyang Agricultural University, Shenyang, China
| | - Dandan Li
- College of Plant Protection, Shenyang Agricultural University, Shenyang, China
| | - Yue Gao
- College of Plant Protection, Shenyang Agricultural University, Shenyang, China
| | - Ziyuan Wang
- College of Plant Protection, Shenyang Agricultural University, Shenyang, China
| | - Yang Liu
- College of Plant Protection, Shenyang Agricultural University, Shenyang, China
| | - Siting Wang
- College of Plant Protection, Shenyang Agricultural University, Shenyang, China
| | - Yuanhu Xuan
- College of Plant Protection, Shenyang Agricultural University, Shenyang, China
| | - Hui Zhao
- Henan Academy of Agricultural Science, Institute of Plant Protection, Henan, China
| | - Tianya Li
- College of Plant Protection, Shenyang Agricultural University, Shenyang, China
| | - Yuanhua Wu
- College of Plant Protection, Shenyang Agricultural University, Shenyang, China
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Xu XF, Li DD, Liu Y, Gao Y, Wang ZY, Ma YC, Yang S, Cao YY, Xuan YH, Li TY. Evaluation and identification of stem rust resistance genes Sr2, Sr24, Sr25, Sr26, Sr31 and Sr38 in wheat lines from Gansu Province in China. PeerJ 2017; 5:e4146. [PMID: 30038849 PMCID: PMC6055087 DOI: 10.7717/peerj.4146] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/18/2017] [Accepted: 11/16/2017] [Indexed: 11/20/2022] Open
Abstract
Wheat stem rust, caused by Puccinia granimis f. sp. tritici, severely affects wheat production, but it has been effectively controlled in China since the 1970s. However, the appearance and spread of wheat stem rust races Ug99 (TTKSK, virulence to Sr31), TKTTF (virulence to SrTmp) and TTTTF (virulence to the cultivars carrying Sr9e and Sr13) have received attention. It is important to clarify the effectiveness of resistance genes in a timely manner, especially for the purpose of using new resistance genes in wheat cultivars for durable-resistance. However, little is known about the stem rust resistance genes present in widely used wheat cultivars from Gansu. This study aimed to determine the resistance level at the seedling stage of the main wheat cultivars in Gansu Province. A secondary objective was to assess the prevalence of Sr2, Sr24, Sr25, Sr26, Sr31, and Sr38 using molecular markers. The results of the present study indicated that 38 (50.7%) wheat varieties displayed resistance to all the tested races of Puccinia graminis f. sp. tritici. The molecular marker analysis showed that 13 out of 75 major wheat cultivars likely carried Sr2; 25 wheat cultivars likely carried Sr31; and nine wheat cultivars likely carried Sr38. No cultivar was found to have Sr25 and Sr26, as expected. Surprisingly, no wheat cultivars carried Sr24. The wheat lines with known stem rust resistance genes could be used as donor parent for further breeding programs.
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Affiliation(s)
- Xiao Feng Xu
- College of Plant Protection, Shenyang Agricultural University, Shenyang, China
| | - Dan Dan Li
- College of Plant Protection, Shenyang Agricultural University, Shenyang, China
| | - Yang Liu
- College of Plant Protection, Shenyang Agricultural University, Shenyang, China
| | - Yue Gao
- College of Plant Protection, Shenyang Agricultural University, Shenyang, China
| | - Zi Yuan Wang
- College of Plant Protection, Shenyang Agricultural University, Shenyang, China
| | - Yu Chen Ma
- College of Plant Protection, Shenyang Agricultural University, Shenyang, China
| | - Shuo Yang
- College of Plant Protection, Shenyang Agricultural University, Shenyang, China
| | - Yuan Yin Cao
- College of Plant Protection, Shenyang Agricultural University, Shenyang, China
| | - Yuan Hu Xuan
- College of Plant Protection, Shenyang Agricultural University, Shenyang, China
| | - Tian Ya Li
- College of Plant Protection, Shenyang Agricultural University, Shenyang, China
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Muleta KT, Rouse MN, Rynearson S, Chen X, Buta BG, Pumphrey MO. Characterization of molecular diversity and genome-wide mapping of loci associated with resistance to stripe rust and stem rust in Ethiopian bread wheat accessions. BMC PLANT BIOLOGY 2017; 17:134. [PMID: 28778144 PMCID: PMC5545024 DOI: 10.1186/s12870-017-1082-7] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/15/2016] [Accepted: 07/21/2017] [Indexed: 05/06/2023]
Abstract
BACKGROUND The narrow genetic basis of resistance in modern wheat cultivars and the strong selection response of pathogen populations have been responsible for periodic and devastating epidemics of the wheat rust diseases. Characterizing new sources of resistance and incorporating multiple genes into elite cultivars is the most widely accepted current mechanism to achieve durable varietal performance against changes in pathogen virulence. Here, we report a high-density molecular characterization and genome-wide association study (GWAS) of stripe rust and stem rust resistance in 190 Ethiopian bread wheat lines based on phenotypic data from multi-environment field trials and seedling resistance screening experiments. A total of 24,281 single nucleotide polymorphism (SNP) markers filtered from the wheat 90 K iSelect genotyping assay was used to survey Ethiopian germplasm for population structure, genetic diversity and marker-trait associations. RESULTS Upon screening for field resistance to stripe rust in the Pacific Northwest of the United States and Ethiopia over multiple growing seasons, and against multiple races of stripe rust and stem rust at seedling stage, eight accessions displayed resistance to all tested races of stem rust and field resistance to stripe rust in all environments. Our GWAS results show 15 loci were significantly associated with seedling and adult plant resistance to stripe rust at false discovery rate (FDR)-adjusted probability (P) <0.10. GWAS also detected 9 additional genomic regions significantly associated (FDR-adjusted P < 0.10) with seedling resistance to stem rust in the Ethiopian wheat accessions. Many of the identified resistance loci were mapped close to previously identified rust resistance genes; however, three loci on the short arms of chromosomes 5A and 7B for stripe rust resistance and two on chromosomes 3B and 7B for stem rust resistance may be novel. CONCLUSION Our results demonstrate that considerable genetic variation resides within the landrace accessions that can be utilized to broaden the genetic base of rust resistance in wheat breeding germplasm. The molecular markers identified in this study should be useful in efficiently targeting the associated resistance loci in marker-assisted breeding for rust resistance in Ethiopia and other countries.
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Affiliation(s)
- Kebede T Muleta
- Department of Crop and Soil Sciences, Washington State University, Pullman, WA, 99164-6420, USA
| | - Matthew N Rouse
- USDA-ARS Cereal Disease Laboratory, Department of Plant Pathology, University of Minnesota, St. Paul, MN, 55108, USA
| | - Sheri Rynearson
- Department of Crop and Soil Sciences, Washington State University, Pullman, WA, 99164-6420, USA
| | - Xianming Chen
- USDA-ARS, Wheat Health, Genetics, and Quality Research Unit, and Department of Plant Pathology, Washington State University, Pullman, WA 99164-6430, Pullman, WA, 99164-6430, USA
| | - Bedada G Buta
- Ethiopian Institute of Agricultural Research, Kulumsa Agricultural Research Center, P. O. Box 489, Assela, Ethiopia
| | - Michael O Pumphrey
- Department of Crop and Soil Sciences, Washington State University, Pullman, WA, 99164-6420, USA.
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Sibikeev SN, Badaeva ED, Gultyaeva EI, Druzhin AE, Shishkina AA, Dragovich AY, Kroupin PY, Karlov GI, Khuat TM, Divashuk MG. Comparative analysis of Agropyron intermedium (Host) Beauv 6Agi and 6Agi2 chromosomes in bread wheat cultivars and lines with wheat–wheatgrass substitutions. RUSS J GENET+ 2017. [DOI: 10.1134/s1022795417030115] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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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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Kumar S, Archak S, Tyagi RK, Kumar J, VK V, Jacob SR, Srinivasan K, Radhamani J, Parimalan R, Sivaswamy M, Tyagi S, Yadav M, Kumari J, Deepali, Sharma S, Bhagat I, Meeta M, Bains NS, Chowdhury AK, Saha BC, Bhattacharya PM, Kumari J, Singh MC, Gangwar OP, Prasad P, Bharadwaj SC, Gogoi R, Sharma JB, GM SK, Saharan MS, Bag M, Roy A, Prasad TV, Sharma RK, Dutta M, Sharma I, Bansal KC. Evaluation of 19,460 Wheat Accessions Conserved in the Indian National Genebank to Identify New Sources of Resistance to Rust and Spot Blotch Diseases. PLoS One 2016; 11:e0167702. [PMID: 27942031 PMCID: PMC5153299 DOI: 10.1371/journal.pone.0167702] [Citation(s) in RCA: 29] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/07/2016] [Accepted: 11/20/2016] [Indexed: 11/21/2022] Open
Abstract
A comprehensive germplasm evaluation study of wheat accessions conserved in the Indian National Genebank was conducted to identify sources of rust and spot blotch resistance. Genebank accessions comprising three species of wheat-Triticum aestivum, T. durum and T. dicoccum were screened sequentially at multiple disease hotspots, during the 2011-14 crop seasons, carrying only resistant accessions to the next step of evaluation. Wheat accessions which were found to be resistant in the field were then assayed for seedling resistance and profiled using molecular markers. In the primary evaluation, 19,460 accessions were screened at Wellington (Tamil Nadu), a hotspot for wheat rusts. We identified 4925 accessions to be resistant and these were further evaluated at Gurdaspur (Punjab), a hotspot for stripe rust and at Cooch Behar (West Bengal), a hotspot for spot blotch. The second round evaluation identified 498 accessions potentially resistant to multiple rusts and 868 accessions potentially resistant to spot blotch. Evaluation of rust resistant accessions for seedling resistance against seven virulent pathotypes of three rusts under artificial epiphytotic conditions identified 137 accessions potentially resistant to multiple rusts. Molecular analysis to identify different combinations of genetic loci imparting resistance to leaf rust, stem rust, stripe rust and spot blotch using linked molecular markers, identified 45 wheat accessions containing known resistance genes against all three rusts as well as a QTL for spot blotch resistance. The resistant germplasm accessions, particularly against stripe rust, identified in this study can be excellent potential candidates to be employed for breeding resistance into the background of high yielding wheat cultivars through conventional or molecular breeding approaches, and are expected to contribute toward food security at national and global levels.
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Affiliation(s)
- Sundeep Kumar
- ICAR-National Bureau of Plant Genetic Resources, Pusa Campus, New Delhi, India
| | - Sunil Archak
- ICAR-National Bureau of Plant Genetic Resources, Pusa Campus, New Delhi, India
| | - R. K. Tyagi
- ICAR-National Bureau of Plant Genetic Resources, Pusa Campus, New Delhi, India
| | - Jagdish Kumar
- ICAR-Indian Agricultural Research Institute, Regional Station, Wellington, Tamil Nadu, India
| | - Vikas VK
- ICAR-Indian Agricultural Research Institute, Regional Station, Wellington, Tamil Nadu, India
| | - Sherry R. Jacob
- ICAR-National Bureau of Plant Genetic Resources, Pusa Campus, New Delhi, India
| | - Kalyani Srinivasan
- ICAR-National Bureau of Plant Genetic Resources, Pusa Campus, New Delhi, India
| | - J. Radhamani
- ICAR-National Bureau of Plant Genetic Resources, Pusa Campus, New Delhi, India
| | - R. Parimalan
- ICAR-National Bureau of Plant Genetic Resources, Pusa Campus, New Delhi, India
| | - M. Sivaswamy
- ICAR-Indian Agricultural Research Institute, Regional Station, Wellington, Tamil Nadu, India
| | - Sandhya Tyagi
- ICAR-National Bureau of Plant Genetic Resources, Pusa Campus, New Delhi, India
| | - Mamata Yadav
- ICAR-National Bureau of Plant Genetic Resources, Pusa Campus, New Delhi, India
| | - Jyotisna Kumari
- ICAR-National Bureau of Plant Genetic Resources, Pusa Campus, New Delhi, India
| | - Deepali
- ICAR-National Bureau of Plant Genetic Resources, Pusa Campus, New Delhi, India
| | - Sandeep Sharma
- ICAR-National Bureau of Plant Genetic Resources, Pusa Campus, New Delhi, India
| | - Indoo Bhagat
- Punjab Agricultural University, Regional Station, Gurdaspur, Punjab, India
| | - Madhu Meeta
- Punjab Agricultural University, Ludhiana, Punjab, India
| | - N. S. Bains
- Punjab Agricultural University, Ludhiana, Punjab, India
| | - A. K. Chowdhury
- North Bengal Agricultural University, Cooch Behar, West Bengal, India
| | - B. C. Saha
- North Bengal Agricultural University, Cooch Behar, West Bengal, India
| | | | - Jyoti Kumari
- ICAR-National Bureau of Plant Genetic Resources, Pusa Campus, New Delhi, India
| | - M. C. Singh
- ICAR-National Bureau of Plant Genetic Resources, Pusa Campus, New Delhi, India
| | - O. P. Gangwar
- ICAR-Indian Institute of Wheat and Barley Research, Regional Station, Flowerdale, Himachal Pradesh, India
| | - P. Prasad
- ICAR-Indian Institute of Wheat and Barley Research, Regional Station, Flowerdale, Himachal Pradesh, India
| | - S. C. Bharadwaj
- ICAR-Indian Institute of Wheat and Barley Research, Regional Station, Flowerdale, Himachal Pradesh, India
| | - Robin Gogoi
- ICAR-Indian Agricultural Research Institute, New Delhi, India
| | - J. B. Sharma
- ICAR-Indian Agricultural Research Institute, New Delhi, India
| | - Sandeep Kumar GM
- ICAR-Indian Agricultural Research Institute, Regional Station, Katrain, Himachal Pradesh, India
| | - M. S. Saharan
- ICAR-Indian Institute of Wheat and Barley Research, Karnal, Haryana, India
| | - Manas Bag
- ICAR-National Bureau of Plant Genetic Resources, Pusa Campus, New Delhi, India
| | - Anirban Roy
- ICAR-National Bureau of Plant Genetic Resources, Pusa Campus, New Delhi, India
| | - T. V. Prasad
- ICAR-National Bureau of Plant Genetic Resources, Pusa Campus, New Delhi, India
| | - R. K. Sharma
- ICAR-National Bureau of Plant Genetic Resources, Pusa Campus, New Delhi, India
| | - M. Dutta
- ICAR-National Bureau of Plant Genetic Resources, Pusa Campus, New Delhi, India
| | - Indu Sharma
- ICAR-Indian Institute of Wheat and Barley Research, Karnal, Haryana, India
| | - K. C. Bansal
- ICAR-National Bureau of Plant Genetic Resources, Pusa Campus, New Delhi, India
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40
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Li TY, Cao YY, Wu XX, Xu XF, Wang WL. Seedling Resistance to Stem Rust and Molecular Marker Analysis of Resistance Genes in Wheat Cultivars of Yunnan, China. PLoS One 2016; 11:e0165640. [PMID: 27792757 PMCID: PMC5085093 DOI: 10.1371/journal.pone.0165640] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/24/2016] [Accepted: 10/14/2016] [Indexed: 11/21/2022] Open
Abstract
Stem rust is one of the most potentially harmful wheat diseases, but has been effectively controlled in China since 1970s. However, the interest in breeding wheat with durable resistance to stem rust has been renewed with the emergence of Ug99 (TTKSK) virulent to the widely used resistance gene Sr31, and by which the wheat stem rust was controlled for 40 years in wheat production area worldwide. Yunnan Province, located on the Southwest border of China, is one of the main wheat growing regions, playing a pivotal role in the wheat stem rust epidemic in China. This study investigated the levels of resistance in key wheat cultivars (lines) of Yunnan Province. In addition, the existence of Sr25, Sr26, Sr28, Sr31, Sr32, and Sr38 genes in 119 wheat cultivars was assessed using specific DNA markers. The results indicated that 77 (64.7%) tested wheat varieties showed different levels of resistance to all the tested races of Puccinia graminis f. sp. tritici. Using molecular markers, we identified the resistance gene Sr31 in 43 samples; Sr38 in 10 samples; Sr28 in 12 samples, and one sample which was resistant against Ug99 (avirulent to Sr32). No Sr25 or Sr26 (effective against Ug99) was identified in any cultivars tested. Furthermore, 5 out of 119 cultivars tested carried both Sr31 and Sr38 and eight contained both Sr31 and Sr28. The results enable the development of appropriate strategies to breed varieties resistant to stem rust.
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Affiliation(s)
- Tian Ya Li
- College of Plant Protection, Shenyang Agricultural University, Shenyang, Liaoning, China
| | - Yuan Yin Cao
- College of Plant Protection, Shenyang Agricultural University, Shenyang, Liaoning, China
| | - Xian Xin Wu
- College of Plant Protection, Shenyang Agricultural University, Shenyang, Liaoning, China
| | - Xiao Feng Xu
- College of Plant Protection, Shenyang Agricultural University, Shenyang, Liaoning, China
| | - Wan Lin Wang
- College of Plant Protection, Shenyang Agricultural University, Shenyang, Liaoning, China
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41
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Mondal S, Rutkoski JE, Velu G, Singh PK, Crespo-Herrera LA, Guzmán C, Bhavani S, Lan C, He X, Singh RP. Harnessing Diversity in Wheat to Enhance Grain Yield, Climate Resilience, Disease and Insect Pest Resistance and Nutrition Through Conventional and Modern Breeding Approaches. FRONTIERS IN PLANT SCIENCE 2016; 7:991. [PMID: 27458472 PMCID: PMC4933717 DOI: 10.3389/fpls.2016.00991] [Citation(s) in RCA: 32] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/14/2016] [Accepted: 06/22/2016] [Indexed: 05/19/2023]
Abstract
Current trends in population growth and consumption patterns continue to increase the demand for wheat, a key cereal for global food security. Further, multiple abiotic challenges due to climate change and evolving pathogen and pests pose a major concern for increasing wheat production globally. Triticeae species comprising of primary, secondary, and tertiary gene pools represent a rich source of genetic diversity in wheat. The conventional breeding strategies of direct hybridization, backcrossing and selection have successfully introgressed a number of desirable traits associated with grain yield, adaptation to abiotic stresses, disease resistance, and bio-fortification of wheat varieties. However, it is time consuming to incorporate genes conferring tolerance/resistance to multiple stresses in a single wheat variety by conventional approaches due to limitations in screening methods and the lower probabilities of combining desirable alleles. Efforts on developing innovative breeding strategies, novel tools and utilizing genetic diversity for new genes/alleles are essential to improve productivity, reduce vulnerability to diseases and pests and enhance nutritional quality. New technologies of high-throughput phenotyping, genome sequencing and genomic selection are promising approaches to maximize progeny screening and selection to accelerate the genetic gains in breeding more productive varieties. Use of cisgenic techniques to transfer beneficial alleles and their combinations within related species also offer great promise especially to achieve durable rust resistance.
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42
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Rahmatov M, Rouse MN, Nirmala J, Danilova T, Friebe B, Steffenson BJ, Johansson E. A new 2DS·2RL Robertsonian translocation transfers stem rust resistance gene Sr59 into wheat. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2016; 129:1383-1392. [PMID: 27025509 DOI: 10.1007/s00122-016-2710-6] [Citation(s) in RCA: 41] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/23/2016] [Accepted: 03/17/2016] [Indexed: 05/28/2023]
Abstract
A new stem rust resistance gene Sr59 from Secale cereale was introgressed into wheat as a 2DS·2RL Robertsonian translocation. Emerging new races of the wheat stem rust pathogen (Puccinia graminis f. sp. tritici), from Africa threaten global wheat (Triticum aestivum L.) production. To broaden the resistance spectrum of wheat to these widely virulent African races, additional resistance genes must be identified from all possible gene pools. From the screening of a collection of wheat-rye (Secale cereale L.) chromosome substitution lines developed at the Swedish University of Agricultural Sciences, we described the line 'SLU238' 2R (2D) as possessing resistance to many races of P. graminis f. sp. tritici, including the widely virulent race TTKSK (isolate synonym Ug99) from Africa. The breakage-fusion mechanism of univalent chromosomes was used to produce a new Robertsonian translocation: T2DS·2RL. Molecular marker analysis and stem rust seedling assays at multiple generations confirmed that the stem rust resistance from 'SLU238' is present on the rye chromosome arm 2RL. Line TA5094 (#101) was derived from 'SLU238' and was found to be homozygous for the T2DS·2RL translocation. The stem rust resistance gene on chromosome 2RL arm was designated as Sr59. Although introgressions of rye chromosome arms into wheat have most often been facilitated by irradiation, this study highlights the utility of the breakage-fusion mechanism for rye chromatin introgression. Sr59 provides an additional asset for wheat improvement to mitigate yield losses caused by stem rust.
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Affiliation(s)
- Mahbubjon Rahmatov
- Department of Plant Breeding, Swedish University of Agricultural Sciences, PO Box 101, 23053, Alnarp, Sweden.
- Department of Plant Pathology, University of Minnesota, St. Paul, MN, 55108, USA.
- Tajik Agrarian University, 146, Rudaki Ave., Dushanbe, 734017, Tajikistan.
| | - Matthew N Rouse
- United States Department of Agriculture, Agricultural Research Service, Cereal Disease Laboratory, St. Paul, MN, 55108, USA
- Department of Plant Pathology, University of Minnesota, St. Paul, MN, 55108, USA
| | - Jayaveeramuthu Nirmala
- United States Department of Agriculture, Agricultural Research Service, Cereal Disease Laboratory, St. Paul, MN, 55108, USA
| | - Tatiana Danilova
- Department of Plant Pathology, Wheat Genetic Resources Center, Throckmorton Plant Sciences Center, Kansas State University, Manhattan, KS, 66506-5502, USA
| | - Bernd Friebe
- Department of Plant Pathology, Wheat Genetic Resources Center, Throckmorton Plant Sciences Center, Kansas State University, Manhattan, KS, 66506-5502, USA
| | - Brian J Steffenson
- Department of Plant Pathology, University of Minnesota, St. Paul, MN, 55108, USA
| | - Eva Johansson
- Department of Plant Breeding, Swedish University of Agricultural Sciences, PO Box 101, 23053, Alnarp, Sweden
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Henkrar F, El-Haddoury J, Ouabbou H, Bendaou N, Udupa SM. Genetic characterization of Moroccan and the exotic bread wheat cultivars using functional and random DNA markers linked to the agronomic traits for genomics-assisted improvement. 3 Biotech 2016; 6:97. [PMID: 28330167 PMCID: PMC4823230 DOI: 10.1007/s13205-016-0413-y] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/16/2015] [Accepted: 03/21/2016] [Indexed: 01/21/2023] Open
Abstract
Genetic characterization, diversity analysis and estimate of the genetic relationship among varieties using functional and random DNA markers linked to agronomic traits can provide relevant guidelines in selecting parents and designing new breeding strategies for marker-assisted wheat cultivar improvement. Here, we characterize 20 Moroccan and 19 exotic bread wheat (Triticum aestivum L.) cultivars using 47 functional and 7 linked random DNA markers associated with 21 loci of the most important traits for wheat breeding. The functional marker analysis revealed that 35, 45, and 10 % of the Moroccan cultivars, respectively have the rust resistance genes (Lr34/Yr18/Pm38), dwarfing genes (Rht1b or Rht2b alleles) and the leaf rust resistance gene (Lr68). The marker alleles for genes Lr37/Yr17/Sr38, Sr24 and Yr36 were present only in the exotic cultivars and absent in Moroccan cultivars. 25 % of cultivars had 1BL.1RS translocation. 70 % of the wheat cultivars had Ppo-D1a and Ppo-A1b associated with low polyphenol oxidase activity. 10 % of cultivars showed presence of a random DNA marker allele (175 bp) linked to Hessian fly resistance gene H22. The majority of the Moroccan cultivars were carrying alleles that impart good bread making quality. Neighbor joining (NJ) and principal coordinate analysis based on the marker data revealed a clear differentiation between elite Moroccan and exotic wheat cultivars. The results of this study are useful for selecting suitable parents for making targeted crosses in marker-assisted wheat breeding and enhancing genetic diversity in the wheat cultivars.
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Affiliation(s)
- Fatima Henkrar
- ICARDA-INRA Cooperative Research Project, International Center for Agricultural Research in the Dry Areas (ICARDA), B.P. 6299, Rabat, Morocco
- Institut National de la Recherche Agronomique (INRA), B.P. 415, Rabat, Morocco
- Institut National de la Recherche Agronomique (INRA), B.P. 589, Settat, Morocco
- Laboratoire de Physiologie et Biotechnologie Végétale, Faculté des Sciences, Université Mohammed V, B.P. 1014, Rabat, Morocco
| | - Jamal El-Haddoury
- Institut National de la Recherche Agronomique (INRA), B.P. 589, Settat, Morocco
| | - Hassan Ouabbou
- Institut National de la Recherche Agronomique (INRA), B.P. 589, Settat, Morocco
| | - Najib Bendaou
- Laboratoire de Physiologie et Biotechnologie Végétale, Faculté des Sciences, Université Mohammed V, B.P. 1014, Rabat, Morocco
| | - Sripada M Udupa
- ICARDA-INRA Cooperative Research Project, International Center for Agricultural Research in the Dry Areas (ICARDA), B.P. 6299, Rabat, Morocco.
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Rahmatov M, Rouse MN, Steffenson BJ, Andersson SC, Wanyera R, Pretorius ZA, Houben A, Kumarse N, Bhavani S, Johansson E. Sources of Stem Rust Resistance in Wheat-Alien Introgression Lines. PLANT DISEASE 2016; 100:1101-1109. [PMID: 30682285 DOI: 10.1094/pdis-12-15-1448-re] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/13/2023]
Abstract
Stem rust is one of the most devastating diseases of wheat. Widely virulent races of the pathogen in the Ug99 lineage (e.g., TTKSK) are threatening wheat production worldwide; therefore, there is an urgent need to enhance the diversity of resistance genes in the crop. The objectives of this study were to identify new sources of resistance in wheat-alien introgression derivatives from Secale cereale, Leymus mollis, L. racemosus, and Thinopyrum junceiforme, postulate genes conferring the resistance, and verify the postulated genes by use of molecular markers. From seedling tests conducted in the greenhouse, the presence of seven known stem rust resistance genes (Sr7b, Sr8a, Sr9d, Sr10, Sr31, Sr36, and SrSatu) was postulated in the wheat-alien introgression lines. More lines possessed a high level of resistance in the field compared with the number of lines that were resistant at the seedling stage. Three 2R (2D) wheat-rye substitution lines (SLU210, SLU238, and SLU239) seemed likely to possess new genes for resistance to stem rust based on their resistance pattern to 13 different stem rust races but the genes responsible could not be identified. Wheat-rye, wheat-L. racemosus, and wheat-L. mollis substitutions or translocations with single and multiple interchanges of chromosomes, in particular of the B and D chromosomes of wheat, were verified by a combination of genomic in situ hybridization and molecular markers. Thus, the present study identified novel resistance genes originating from different alien introgressions into the wheat genome of the evaluated lines. Such genes may prove useful in enhancing the diversity of stem rust resistance in wheat against widely virulent pathogen races such as those in the Ug99 lineage.
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Affiliation(s)
- Mahbubjon Rahmatov
- Department of Plant Breeding, Swedish University of Agricultural Sciences, SE-23053 Alnarp, Sweden; Department of Plant Pathology, University of Minnesota, St. Paul 55108; and Tajik Agrarian University, Dushanbe, 734017, Tajikistan
| | - Matthew N Rouse
- United States Department of Agriculture-Agricultural Research Service, Cereal Disease Laboratory, St. Paul, MN 55108; and Department of Plant Pathology, University of Minnesota
| | | | | | - Ruth Wanyera
- Kenyan Agricultural and Livestock Research Organization Food Crops Research Center, Njoro, Kenya
| | - Zacharias A Pretorius
- Department of Plant Sciences, University of Free State, Bloemfontein 9300, South Africa
| | - Andreas Houben
- Leibniz Institute of Plant Genetics and Crop Plant Research, Gatersleben, 06466 Stadt Seeland, Germany
| | - Nazari Kumarse
- Regional Cereal Rust Research Center, Aegean Agricultural Research Institute, Menemen, Izmir, Turkey
| | - Sridhar Bhavani
- International Maize and Wheat Improvement Center, ICRAF House, Nairobi, Kenya
| | - Eva Johansson
- Department of Plant Breeding, Swedish University of Agricultural Sciences
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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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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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Kielsmeier-Cook J, Danilova TV, Friebe B, Rouse MN. Resistance to the Ug99 Race Group of Puccinia graminis f. sp. tritici in Wheat-Intra/intergeneric Hybrid Derivatives. PLANT DISEASE 2015; 99:1317-1325. [PMID: 30690994 DOI: 10.1094/pdis-09-14-0922-re] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/28/2023]
Abstract
New races of Puccinia graminis f. sp. tritici, the causal agent of stem rust, threaten global wheat production. In particular, races belonging to the Ug99 race group significantly contribute to yield loss in several African nations. Genetic resistance remains the most effective means of controlling this disease. A collection of 546 wheat-intra- and intergeneric hybrids developed by W. J. Sando (United States Department of Agriculture, Beltsville, MD) was screened with eight races of P. graminis f. sp. tritici, including races TTKSK, TTKST, TTTSK, TRTTF, TTTTF, TPMKC, RKQQC, and QTHJC. There were 152 accessions resistant to one or more races and 29 accessions resistant to TTKSK, TTKST, and TTTSK. Of these 29 accessions, 9 were resistant to all races, 14 had infection type patterns that were indistinguishable from cultivars possessing Sr9h and Sr42, 2 were indistinguishable from accessions with SrTmp, and 4 did not display resistant patterns of accessions with any known Sr gene. Three accessions (604981, 605286, and 611932) characterized cytogenetically were disomic substitution lines, each with a single Thinopyrum ponticum chromosome pair. One accession (606057) was a disomic substitution or addition line with two pairs of T. ponticum chromosomes. In total, seven accessions are postulated to contain novel stem rust resistance genes. This research indicates the value of extant collections of wheat-intergeneric hybrids as sources of disease resistance genes.
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Affiliation(s)
| | - Tatiana V Danilova
- Wheat Genetics Resource Center, Department of Plant Pathology, Kansas State University, Manhattan 66506
| | - Bernd Friebe
- Wheat Genetics Resource Center, Department of Plant Pathology, Kansas State University, Manhattan 66506
| | - Matthew N Rouse
- Cereal Disease Laboratory, United States Department of Agriculture, St. Paul, MN and Department of Plant Pathology, University of Minnesota, St. Paul
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Goutam U, Kukreja S, Yadav R, Salaria N, Thakur K, Goyal AK. Recent trends and perspectives of molecular markers against fungal diseases in wheat. Front Microbiol 2015; 6:861. [PMID: 26379639 PMCID: PMC4548237 DOI: 10.3389/fmicb.2015.00861] [Citation(s) in RCA: 35] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/01/2015] [Accepted: 08/06/2015] [Indexed: 01/24/2023] Open
Abstract
Wheat accounts for 19% of the total production of major cereal crops in the world. In view of ever increasing population and demand for global food production, there is an imperative need of 40-60% increase in wheat production to meet the requirement of developing world in coming 40 years. However, both biotic and abiotic stresses are major hurdles for attaining the goal. Among the most important diseases in wheat, fungal diseases pose serious threat for widening the gap between actual and attainable yield. Fungal disease management, mainly, depends on the pathogen detection, genetic and pathological variability in population, development of resistant cultivars and deployment of effective resistant genes in different epidemiological regions. Wheat protection and breeding of resistant cultivars using conventional methods are time-consuming, intricate and slow processes. Molecular markers offer an excellent alternative in development of improved disease resistant cultivars that would lead to increase in crop yield. They are employed for tagging the important disease resistance genes and provide valuable assistance in increasing selection efficiency for valuable traits via marker assisted selection (MAS). Plant breeding strategies with known molecular markers for resistance and functional genomics enable a breeder for developing resistant cultivars of wheat against different fungal diseases.
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Affiliation(s)
- Umesh Goutam
- Department of Biotechnology, Lovely Professional University, PhagwaraPunjab, India
| | - Sarvjeet Kukreja
- Department of Biotechnology, Lovely Professional University, PhagwaraPunjab, India
| | - Rakesh Yadav
- Department of Bio and Nano technology, Guru Jambheshwar University of Science and TechnologyHisar, India
| | - Neha Salaria
- Department of Biotechnology, Lovely Professional University, PhagwaraPunjab, India
| | - Kajal Thakur
- Department of Biotechnology, Lovely Professional University, PhagwaraPunjab, India
| | - Aakash K. Goyal
- International Center for Agriculture Research in the Dry Areas (ICARDA)Morocco
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Zhang D, Bowden RL, Yu J, Carver BF, Bai G. Association analysis of stem rust resistance in U.S. winter wheat. PLoS One 2014; 9:e103747. [PMID: 25072699 PMCID: PMC4114971 DOI: 10.1371/journal.pone.0103747] [Citation(s) in RCA: 44] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/21/2014] [Accepted: 07/01/2014] [Indexed: 11/18/2022] Open
Abstract
Stem rust has become a renewed threat to global wheat production after the emergence and spread of race TTKSK (also known as Ug99) and related races from Africa. To elucidate U.S. winter wheat resistance genes to stem rust, association mapping was conducted using a panel of 137 lines from cooperative U.S. winter wheat nurseries from 2008 and simple sequence repeat (SSR) and sequence tagged site (STS) markers across the wheat genome. Seedling infection types were evaluated in a greenhouse experiment using six U.S. stem rust races (QFCSC, QTHJC, RCRSC, RKQQC, TPMKC and TTTTF) and TTKSK, and adult plant responses to bulked U.S. races were evaluated in a field experiment. A linearization algorithm was used to convert the qualitative Stakman scale seedling infection types for quantitative analysis. Association mapping successfully detected six known stem rust seedling resistance genes in U.S. winter wheat lines with frequencies: Sr6 (12%), Sr24 (9%), Sr31 (15%), Sr36 (9%), Sr38 (19%), and Sr1RSAmigo (8%). Adult plant resistance gene Sr2 was present in 4% of lines. SrTmp was postulated to be present in several hard winter wheat lines, but the frequency could not be accurately determined. Sr38 was the most prevalent Sr gene in both hard and soft winter wheat and was the most effective Sr gene in the adult plant field test. Resistance to TTKSK was associated with nine markers on chromosome 2B that were in linkage disequilibrium and all of the resistance was attributed to the Triticum timopheevii chromosome segment carrying Sr36. Potential novel rust resistance alleles were associated with markers Xwmc326-203 on 3BL, Xgwm160-195 and Xwmc313-225 on 4AL near Sr7, Xgwm495-182 on 4BL, Xwmc622-147 and Xgwm624-146 on 4DL, and Xgwm334-123 on 6AS near Sr8. Xwmc326-203 was associated with adult plant resistance to bulked U.S. races and Xgwm495-182 was associated with seedling resistance to TTKSK.
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Affiliation(s)
- Dadong Zhang
- Department of Agronomy, Kansas State University, Manhattan, Kansas, United States of America
| | - Robert L. Bowden
- USDA–ARS Hard Winter Wheat Genetics Research Unit, Manhattan, Kansas, United States of America
| | - Jianming Yu
- Department of Agronomy, Iowa State University, Ames, Iowa, United States of America
| | - Brett F. Carver
- Plant Science Department, Oklahoma State University, Stillwater, Oklahoma, United States of America
| | - Guihua Bai
- Department of Agronomy, Kansas State University, Manhattan, Kansas, United States of America
- USDA–ARS Hard Winter Wheat Genetics Research Unit, Manhattan, Kansas, United States of America
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Rouse MN, Talbert LE, Singh D, Sherman JD. Complementary epistasis involving Sr12 explains adult plant resistance to stem rust in Thatcher wheat (Triticum aestivum L.). TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2014; 127:1549-59. [PMID: 24838645 DOI: 10.1007/s00122-014-2319-6] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/31/2014] [Accepted: 04/24/2014] [Indexed: 05/20/2023]
Abstract
Quantitative trait loci conferring adult plant resistance to Ug99 stem rust in Thatcher wheat display complementary gene action suggesting multiple quantitative trait loci are needed for effective resistance. Adult plant resistance (APR) in wheat (Triticum aestivum L.) to stem rust, caused by Puccinia graminis f. sp. tritici (Pgt), is desirable because this resistance can be Pgt race non-specific. Resistance derived from cultivar Thatcher can confer high levels of APR to the virulent Pgt race TTKSK (Ug99) when combined with stem rust resistance gene Sr57 (Lr34). To identify the loci conferring APR in Thatcher, we evaluated 160 RILs derived from Thatcher crossed to susceptible cultivar McNeal for field stem rust reaction in Kenya for two seasons and in St. Paul for one season. All RILs and parents were susceptible as seedlings to race TTKSK. However, adult plant stem rust severities in Kenya varied from 5 to 80 %. Composite interval mapping identified four quantitative trait loci (QTL). Three QTL were inherited from Thatcher and one, Sr57, was inherited from McNeal. The markers closest to the QTL peaks were used in an ANOVA to determine the additive and epistatic effects. A QTL on 3BS was detected in all three environments and explained 27-35 % of the variation. The peak of this QTL was at the same location as the Sr12 seedling resistance gene effective to race SCCSC. Epistatic interactions were significant between Sr12 and QTL on chromosome arms 1AL and 2BS. Though Sr12 cosegregated with the largest effect QTL, lines with Sr12 were not always resistant. The data suggest that Sr12 or a linked gene, though not effective to race TTKSK alone, confers APR when combined with other resistance loci.
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Affiliation(s)
- Matthew N Rouse
- Cereal Disease Laboratory, United States Department of Agriculture-Agricultural Research Service (USDA-ARS), 1551 Lindig Street, St. Paul, MN, 55108, USA,
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