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Qiu Y, Han Z, Liu N, Yu M, Zhang S, Chen H, Tang H, Zhao Z, Wang K, Lin Z, Han F, Ye X. Effects of Aegilops longissima chromosome 1S l on wheat bread-making quality in two types of translocation lines. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2023; 137:2. [PMID: 38072878 DOI: 10.1007/s00122-023-04504-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/12/2023] [Accepted: 11/15/2023] [Indexed: 12/18/2023]
Abstract
KEY MESSAGE Two wheat-Ae. longissima translocation chromosomes (1BS·1SlL and 1SlS·1BL) were transferred into three commercial wheat varieties, and the new advanced lines showed improved bread-making quality compared to their recurrent parents. Aegilops longissima chromosome 1Sl encodes specific types of gluten subunits that may positively affect wheat bread-making quality. The most effective method of introducing 1Sl chromosomal fragments containing the target genes into wheat is chromosome translocation. Here, a wheat-Ae. longissima 1BS·1SlL translocation line was developed using molecular marker-assisted chromosome engineering. Two types of translocation chromosomes developed in a previous study, 1BS·1SlL and 1SlS·1BL, were introduced into three commercial wheat varieties (Ningchun4, Ningchun50, and Westonia) via backcrossing with marker-assisted selection. Advanced translocation lines were confirmed through chromosome in situ hybridization and genotyping by target sequencing using the wheat 40 K system. Bread-making quality was found to be improved in the two types of advanced translocation lines compared to the corresponding recurrent parents. Furthermore, 1SlS·1BL translocation lines displayed better bread-making quality than 1BS·1SlL translocation lines in each genetic background. Further analysis revealed that high molecular weight glutenin subunit (HMW-GS) contents and expression levels of genes encoding low molecular weight glutenin subunits (LMW-GSs) were increased in 1SlS·1BL translocation lines. Gliadin and gluten-related transcription factors were also upregulated in the grains of the two types of advanced translocation lines compared to the recurrent parents. This study clarifies the impacts of specific glutenin subunits on bread-making quality and provides novel germplasm resources for further improvement of wheat quality through molecular breeding.
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Affiliation(s)
- Yuliang Qiu
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
- Institute of Cotton Sciences, Shanxi Agricultural University, Yuncheng, 044000, China
| | - Zhiyang Han
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Ningtao Liu
- Keshan Branch, Heilongjiang Academy of Agricultural Sciences, Qiqihar, 161600, China
| | - Mei Yu
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Shuangxi Zhang
- Crop Research Institute, Ningxia Academy of Agri-Forestry Sciences, Yinchuan, 750105, China
| | - Haiqiang Chen
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Huali Tang
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Zhiyong Zhao
- Institute of Cotton Sciences, Shanxi Agricultural University, Yuncheng, 044000, China
| | - Ke Wang
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Zhishan Lin
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Fangpu Han
- Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, 100101, China.
| | - Xingguo Ye
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081, China.
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Page R, Huang S, Ronen M, Sela H, Sharon A, Shrestha S, Poland J, Steffenson BJ. Genome-wide association mapping of rust resistance in Aegilops longissima. FRONTIERS IN PLANT SCIENCE 2023; 14:1196486. [PMID: 37575932 PMCID: PMC10413114 DOI: 10.3389/fpls.2023.1196486] [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: 03/29/2023] [Accepted: 06/30/2023] [Indexed: 08/15/2023]
Abstract
The rust diseases, including leaf rust caused by Puccinia triticina (Pt), stem rust caused by P. graminis f. sp. tritici (Pgt), and stripe rust caused by P. striiformis f. sp. tritici (Pst), are major limiting factors in wheat production worldwide. Identification of novel sources of rust resistance genes is key to developing cultivars resistant to rapidly evolving pathogen populations. Aegilops longissima is a diploid wild grass native to the Levant and closely related to the modern bread wheat D subgenome. To explore resistance genes in the species, we evaluated a large panel of Ae. longissima for resistance to several races of Pt, Pgt, and Pst, and conducted a genome-wide association study (GWAS) to map rust resistance loci in the species. A panel of 404 Ae. longissima accessions, mostly collected from Israel, were screened for seedling-stage resistance to four races of Pt, four races of Pgt, and three races of Pst. Out of the 404 accessions screened, two were found that were resistant to all 11 races of the three rust pathogens screened. The percentage of all accessions screened that were resistant to a given rust pathogen race ranged from 18.5% to 99.7%. Genotyping-by-sequencing (GBS) was performed on 381 accessions of the Ae. longissima panel, wherein 125,343 single nucleotide polymorphisms (SNPs) were obtained after alignment to the Ae. longissima reference genome assembly and quality control filtering. Genetic diversity analysis revealed the presence of two distinct subpopulations, which followed a geographic pattern of a northern and a southern subpopulation. Association mapping was performed in the genotyped portion of the collection (n = 381) and in each subpopulation (n = 204 and 174) independently via a single-locus mixed-linear model, and two multi-locus models, FarmCPU, and BLINK. A large number (195) of markers were significantly associated with resistance to at least one of 10 rust pathogen races evaluated, nine of which are key candidate markers for further investigation due to their detection via multiple models and/or their association with resistance to more than one pathogen race. The novel resistance loci identified will provide additional diversity available for use in wheat breeding.
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Affiliation(s)
- Rae Page
- Department of Plant Pathology, University of Minnesota, Saint Paul, MN, United States
| | - Shuyi Huang
- Department of Plant Pathology, University of Minnesota, Saint Paul, MN, United States
| | - Moshe Ronen
- Institute for Cereal Crops Research, Tel Aviv University, Tel Aviv, Israel
| | - Hanan Sela
- Institute for Cereal Crops Research, Tel Aviv University, Tel Aviv, Israel
| | - Amir Sharon
- Institute for Cereal Crops Research, Tel Aviv University, Tel Aviv, Israel
- School of Plant Sciences and Food Security, Tel Aviv University, Tel Aviv, Israel
| | - Sandesh Shrestha
- Department of Plant Pathology, Kansas State University, Manhattan, KS, United States
| | - Jesse Poland
- Department of Plant Pathology, Kansas State University, Manhattan, KS, United States
- Plant Science Program, Biological and Environmental Science and Engineering Division, King Abdullah University of Science and Technology (KAUST), Thuwal, Saudi Arabia
- KAUST Center for Desert Agriculture, King Abdullah University of Science and Technology, Thuwal, Saudi Arabia
| | - Brian J. Steffenson
- Department of Plant Pathology, University of Minnesota, Saint Paul, MN, United States
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Avni R, Lux T, Minz‐Dub A, Millet E, Sela H, Distelfeld A, Deek J, Yu G, Steuernagel B, Pozniak C, Ens J, Gundlach H, Mayer KFX, Himmelbach A, Stein N, Mascher M, Spannagl M, Wulff BBH, Sharon A. Genome sequences of three Aegilops species of the section Sitopsis reveal phylogenetic relationships and provide resources for wheat improvement. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2022; 110:179-192. [PMID: 34997796 PMCID: PMC10138734 DOI: 10.1111/tpj.15664] [Citation(s) in RCA: 33] [Impact Index Per Article: 16.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/12/2021] [Revised: 12/21/2021] [Accepted: 01/03/2022] [Indexed: 05/20/2023]
Abstract
Aegilops is a close relative of wheat (Triticum spp.), and Aegilops species in the section Sitopsis represent a rich reservoir of genetic diversity for the improvement of wheat. To understand their diversity and advance their utilization, we produced whole-genome assemblies of Aegilops longissima and Aegilops speltoides. Whole-genome comparative analysis, along with the recently sequenced Aegilops sharonensis genome, showed that the Ae. longissima and Ae. sharonensis genomes are highly similar and are most closely related to the wheat D subgenome. By contrast, the Ae. speltoides genome is more closely related to the B subgenome. Haplotype block analysis supported the idea that Ae. speltoides genome is closest to the wheat B subgenome, and highlighted variable and similar genomic regions between the three Aegilops species and wheat. Genome-wide analysis of nucleotide-binding leucine-rich repeat (NLR) genes revealed species-specific and lineage-specific NLR genes and variants, demonstrating the potential of Aegilops genomes for wheat improvement.
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Affiliation(s)
- Raz Avni
- Wise Faculty of Life Sciences, Institute for Cereal Crops Improvement and School of Plant Sciences and Food SecurityTel Aviv UniversityTel Aviv6997801Israel
- Present address: Leibniz Institute of Plant Genetics and Crop Plant Research (IPK) GaterslebenCorrensstrasse 3Seeland06466Germany
| | - Thomas Lux
- Plant Genome and Systems Biology (PGSB)Helmholtz‐Center MunichIngolstädter Landstraße 1NeuherbergD‐85764Germany
| | - Anna Minz‐Dub
- Wise Faculty of Life Sciences, Institute for Cereal Crops ImprovementTel Aviv UniversityTel Aviv6997801Israel
| | - Eitan Millet
- Wise Faculty of Life Sciences, Institute for Cereal Crops ImprovementTel Aviv UniversityTel Aviv6997801Israel
| | - Hanan Sela
- Wise Faculty of Life Sciences, Institute for Cereal Crops Improvement and School of Plant Sciences and Food SecurityTel Aviv UniversityTel Aviv6997801Israel
- Present address: Department of Evolutionary and Environmental Biology, Faculty of Natural Sciences, Institute of EvolutionUniversity of Haifa199 Aba Khoushy Ave., Mount CarmelHaifa3498838Israel
| | - Assaf Distelfeld
- Wise Faculty of Life Sciences, Institute for Cereal Crops Improvement and School of Plant Sciences and Food SecurityTel Aviv UniversityTel Aviv6997801Israel
- Present address: Department of Evolutionary and Environmental Biology, Faculty of Natural Sciences, Institute of EvolutionUniversity of Haifa199 Aba Khoushy Ave., Mount CarmelHaifa3498838Israel
| | - Jasline Deek
- Wise Faculty of Life Sciences, Institute for Cereal Crops Improvement and School of Plant Sciences and Food SecurityTel Aviv UniversityTel Aviv6997801Israel
| | - Guotai Yu
- John Innes CentreNorwich Research ParkNorwichNR4 7UHUK
- Present address: Center for Desert Agriculture, Biological and Environmental Science and Engineering Division (BESE)King Abdullah University of Science and Technology (KAUST)Thuwal23955‐6900Saudi Arabia
| | | | - Curtis Pozniak
- Department of Plant Sciences and Crop Development Centre, College of Agriculture and BioresourcesUniversity of SaskatchewanCampus Drive 51SaskatoonS7N 5A8Canada
| | - Jennifer Ens
- Department of Plant Sciences and Crop Development Centre, College of Agriculture and BioresourcesUniversity of SaskatchewanCampus Drive 51SaskatoonS7N 5A8Canada
| | - Heidrun Gundlach
- Plant Genome and Systems Biology (PGSB)Helmholtz‐Center MunichIngolstädter Landstraße 1NeuherbergD‐85764Germany
| | - Klaus F. X. Mayer
- Plant Genome and Systems Biology (PGSB)Helmholtz‐Center MunichIngolstädter Landstraße 1NeuherbergD‐85764Germany
- Faculty of Life SciencesTechnical University MunichWeihenstephanMunichD‐80333Germany
| | - Axel Himmelbach
- Center of Integrated Breeding Research (CiBreed), Department of Crop SciencesGeorg‐August‐UniversityVon Siebold Str. 8Göttingen37075Germany
| | - Nils Stein
- Center of Integrated Breeding Research (CiBreed), Department of Crop SciencesGeorg‐August‐UniversityVon Siebold Str. 8Göttingen37075Germany
- Leibniz‐Institute of Plant Genetics and Crop Plant Research (IPK) GaterslebenCorrensstrasse 3Seeland06466Germany
| | - Martin Mascher
- Leibniz‐Institute of Plant Genetics and Crop Plant Research (IPK) GaterslebenCorrensstrasse 3Seeland06466Germany
- German Centre for Integrative Biodiversity Research (iDiv) Halle‐Jena‐LeipzigPuschstrasse 4LeipzigD‐04103Germany
| | - Manuel Spannagl
- Plant Genome and Systems Biology (PGSB)Helmholtz‐Center MunichIngolstädter Landstraße 1NeuherbergD‐85764Germany
| | - Brande B. H. Wulff
- John Innes CentreNorwich Research ParkNorwichNR4 7UHUK
- Present address: Center for Desert Agriculture, Biological and Environmental Science and Engineering Division (BESE)King Abdullah University of Science and Technology (KAUST)Thuwal23955‐6900Saudi Arabia
| | - Amir Sharon
- Wise Faculty of Life Sciences, Institute for Cereal Crops Improvement and School of Plant Sciences and Food SecurityTel Aviv UniversityTel Aviv6997801Israel
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Aegilops sharonensis genome-assisted identification of stem rust resistance gene Sr62. Nat Commun 2022; 13:1607. [PMID: 35338132 PMCID: PMC8956640 DOI: 10.1038/s41467-022-29132-8] [Citation(s) in RCA: 39] [Impact Index Per Article: 19.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/09/2021] [Accepted: 02/24/2022] [Indexed: 02/06/2023] Open
Abstract
The wild relatives and progenitors of wheat have been widely used as sources of disease resistance (R) genes. Molecular identification and characterization of these R genes facilitates their manipulation and tracking in breeding programmes. Here, we develop a reference-quality genome assembly of the wild diploid wheat relative Aegilops sharonensis and use positional mapping, mutagenesis, RNA-Seq and transgenesis to identify the stem rust resistance gene Sr62, which has also been transferred to common wheat. This gene encodes a tandem kinase, homologues of which exist across multiple taxa in the plant kingdom. Stable Sr62 transgenic wheat lines show high levels of resistance against diverse isolates of the stem rust pathogen, highlighting the utility of Sr62 for deployment as part of a polygenic stack to maximize the durability of stem rust resistance. Aegilops sharonensis is a wild diploid relative of wheat. Here, the authors assemble the genome of Ae. sharonensis and use the assembly as an aid to clone the Ae. sharonensis-derived stem rust resistance gene Sr62 in the allohexaploid genome of wheat.
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Haas M, Schreiber M, Mascher M. Domestication and crop evolution of wheat and barley: Genes, genomics, and future directions. JOURNAL OF INTEGRATIVE PLANT BIOLOGY 2019; 61:204-225. [PMID: 30414305 DOI: 10.1111/jipb.12737] [Citation(s) in RCA: 54] [Impact Index Per Article: 10.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/27/2018] [Accepted: 10/27/2018] [Indexed: 05/02/2023]
Abstract
Wheat and barley are two of the founder crops of the agricultural revolution that took place 10,000 years ago in the Fertile Crescent and both crops remain among the world's most important crops. Domestication of these crops from their wild ancestors required the evolution of traits useful to humans, rather than survival in their natural environment. Of these traits, grain retention and threshability, yield improvement, changes to photoperiod sensitivity and nutritional value are most pronounced between wild and domesticated forms. Knowledge about the geographical origins of these crops and the genes responsible for domestication traits largely pre-dates the era of next-generation sequencing, although sequencing will lead to new insights. Molecular markers were initially used to calculate distance (relatedness), genetic diversity and to generate genetic maps which were useful in cloning major domestication genes. Both crops are characterized by large, complex genomes which were long thought to be beyond the scope of whole-genome sequencing. However, advances in sequencing technologies have improved the state of genomic resources for both wheat and barley. The availability of reference genomes for wheat and some of its progenitors, as well as for barley, sets the stage for answering unresolved questions in domestication genomics of wheat and barley.
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Affiliation(s)
- Matthew Haas
- Leibniz Institute of Plant Genetics and Crop Plant Research (IPK) Gatersleben, Corrensstraße 3, 06466 Seeland, Germany
| | - Mona Schreiber
- Leibniz Institute of Plant Genetics and Crop Plant Research (IPK) Gatersleben, Corrensstraße 3, 06466 Seeland, Germany
- Palaeogenetics Group, Institute of Organismic and Molecular Evolution, Johannes Gutenberg University Mainz, 55099 Mainz, Germany
| | - Martin Mascher
- Leibniz Institute of Plant Genetics and Crop Plant Research (IPK) Gatersleben, Corrensstraße 3, 06466 Seeland, Germany
- German Center for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig, 04103 Leipzig, Germany
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Olivera PD, Rouse MN, Jin Y. Identification of New Sources of Resistance to Wheat Stem Rust in Aegilops spp. in the Tertiary Genepool of Wheat. FRONTIERS IN PLANT SCIENCE 2018; 9:1719. [PMID: 30524466 PMCID: PMC6262079 DOI: 10.3389/fpls.2018.01719] [Citation(s) in RCA: 20] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/26/2018] [Accepted: 11/05/2018] [Indexed: 05/28/2023]
Abstract
Recent stem rust epidemics in eastern Africa and elsewhere demonstrated that wheat stem rust is a re-emerging disease posing a threat to wheat production worldwide. The cultivated wheat gene pool has a narrow genetic base for resistance to virulent races, such as races in the Ug99 race group. Wild relatives of wheat are a tractable source of stem rust resistance genes. Aegilops species in the tertiary genepool have not been exploited to any great extent as a source of stem rust resistance. We evaluated 1,422 accessions of Aegilops spp. for resistance to three highly virulent races (TTKSK, TRTTF, and TTTTF) of Puccinia graminis f. sp. tritici. Species studied include Ae. biuncialis, Ae. caudata, Ae. comosa, Ae. cylindrica, Ae. geniculata, Ae. neglecta, Ae. peregrina, Ae. triuncialis, and Ae. umbellulata that do not share common genomes with cultivated wheat. High frequencies of resistance were observed as 977 (68.8%), 927 (65.2%), and 850 (59.8%) accessions exhibited low infection types to races TTKSK, TTTTF, and TRTTF, respectively. Contingency table analyses showed strong association for resistance to different races in several Aegilops spp., indicating that for a given species, the resistance genes effective against multiple races. Inheritance studies in selected accessions showed that resistance to race TTKSK is simply inherited.
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Affiliation(s)
- Pablo D. Olivera
- Department of Plant Pathology, University of Minnesota, St. Paul, MN, United States
| | - Matthew N. Rouse
- Cereal Disease Laboratory, Agricultural Research Service, United States Department of Agriculture, St. Paul, MN, United States
| | - Yue Jin
- Cereal Disease Laboratory, Agricultural Research Service, United States Department of Agriculture, St. Paul, MN, United States
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Huang S, Steffenson BJ, Sela H, Stinebaugh K. Resistance of Aegilops longissima to the Rusts of Wheat. PLANT DISEASE 2018; 102:1124-1135. [PMID: 30673435 DOI: 10.1094/pdis-06-17-0880-re] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/28/2023]
Abstract
Stem rust (caused by Puccinia graminis f. sp. tritici), leaf rust (P. triticina), and stripe rust (P. striiformis f. sp. tritici) rank among the most important diseases of wheat worldwide. The development of resistant cultivars is the preferred method of controlling rust diseases because it is environmentally benign and also cost effective. However, new virulence types often arise in pathogen populations, rendering such cultivars vulnerable to losses. The identification of new sources of resistance is key to providing long-lasting disease control against the rapidly evolving rust pathogens. Thus, the objective of this research was to evaluate the wild wheat relative Aegilops longissima for resistance to stem rust, leaf rust, and stripe rust at the seedling stage in the greenhouse. A diverse collection of 394 accessions of the species, mostly from Israel, was assembled for the study, but the total number included in any one rust evaluation ranged from 308 to 379. With respect to stem rust resistance, 18.2 and 80.8% of accessions were resistant to the widely virulent U.S. and Kenyan P. graminis f. sp. tritici races of TTTTF and TTKSK, respectively. The percentage of accessions exhibiting resistance to the U.S. P. triticina races of THBJ and BBBD was 65.9 and 52.2%, respectively. Over half (50.1%) of the Ae. longissima accessions were resistant to the U.S. P. striiformis f. sp. tritici race PSTv-37. Ten accessions (AEG-683-23, AEG-725-15, AEG-803-49, AEG-1274-20, AEG-1276-22, AEG-1471-15, AEG-1475-19, AEG-2974-0, AEG-4005-20, and AEG-8705-10) were resistant to all races of the three rust pathogens used in this study. Distinct differences in the geographic distribution of resistance and susceptibility were found in Ae. longissima accessions from Israel in response to some rust races. To P. graminis f. sp. tritici race TTKSK, populations with a very high frequency of resistance were concentrated in the central and northern part of Israel, whereas populations with a comparatively higher frequency of susceptibility were concentrated in the southern part of the country. The reverse trend was observed with respect to P. striiformis f. sp. tritici race PSTv-37. The results from this study demonstrate that Ae. longissima is a rich source of rust resistance genes for wheat improvement.
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Affiliation(s)
- Shuyi Huang
- Department of Plant Pathology, University of Minnesota, St. Paul, 55108
| | | | - Hanan Sela
- Institute for Cereal Crops Improvement, Tel Aviv University, Tel Aviv 6139001, Israel
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