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Lin J, Ruan S, Guo Q, Zhang Y, Fang M, Li T, Luo G, Tian Z, Zhang Y, Tandayu E, Chen C, Lu J, Ma C, Si H. Comprehensive genome-wide analysis of wheat xylanase inhibitor protein (XIP) genes: unveiling their role in Fusarium head blight resistance and plant immune mechanisms. BMC PLANT BIOLOGY 2024; 24:462. [PMID: 38802731 PMCID: PMC11129392 DOI: 10.1186/s12870-024-05176-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/04/2024] [Accepted: 05/20/2024] [Indexed: 05/29/2024]
Abstract
In this comprehensive genome-wide study, we identified and classified 83 Xylanase Inhibitor Protein (XIP) genes in wheat, grouped into five distinct categories, to enhance understanding of wheat's resistance to Fusarium head blight (FHB), a significant fungal threat to global wheat production. Our analysis reveals the unique distribution of XIP genes across wheat chromosomes, particularly at terminal regions, suggesting their role in the evolutionary expansion of the gene family. Several XIP genes lack signal peptides, indicating potential alternative secretion pathways that could be pivotal in plant defense against FHB. The study also uncovers the sequence homology between XIPs and chitinases, hinting at a functional diversification within the XIP gene family. Additionally, the research explores the association of XIP genes with plant immune mechanisms, particularly their linkage with plant hormone signaling pathways like abscisic acid and jasmonic acid. XIP-7A3, in particular, demonstrates a significant increase in expression upon FHB infection, highlighting its potential as a key candidate gene for enhancing wheat's resistance to this disease. This research not only enriches our understanding of the XIP gene family in wheat but also provides a foundation for future investigations into their role in developing FHB-resistant wheat cultivars. The findings offer significant implications for wheat genomics and breeding, contributing to the development of more resilient crops against fungal diseases.
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Affiliation(s)
- Juan Lin
- College of Agronomy, Anhui Agricultural University, Hefei, 230036, China
- Key Laboratory of Wheat Biology and Genetic Improvement on Southern Yellow and Huai River Valley, Ministry of Agriculture and Rural Affairs, Hefei, 230036, China
| | - Shuang Ruan
- College of Agronomy, Anhui Agricultural University, Hefei, 230036, China
- Key Laboratory of Wheat Biology and Genetic Improvement on Southern Yellow and Huai River Valley, Ministry of Agriculture and Rural Affairs, Hefei, 230036, China
| | - Qi Guo
- Faculty of Science and Engineering, Southern Cross University, Lismore, NSW, 2480, Australia
| | - Yonglin Zhang
- College of Agronomy, Anhui Agricultural University, Hefei, 230036, China
- Key Laboratory of Wheat Biology and Genetic Improvement on Southern Yellow and Huai River Valley, Ministry of Agriculture and Rural Affairs, Hefei, 230036, China
| | - Mengyuan Fang
- College of Agronomy, Anhui Agricultural University, Hefei, 230036, China
- Key Laboratory of Wheat Biology and Genetic Improvement on Southern Yellow and Huai River Valley, Ministry of Agriculture and Rural Affairs, Hefei, 230036, China
| | - Tiantian Li
- College of Agronomy, Anhui Agricultural University, Hefei, 230036, China
- Key Laboratory of Wheat Biology and Genetic Improvement on Southern Yellow and Huai River Valley, Ministry of Agriculture and Rural Affairs, Hefei, 230036, China
| | - Gan Luo
- College of Agronomy, Anhui Agricultural University, Hefei, 230036, China
- Key Laboratory of Wheat Biology and Genetic Improvement on Southern Yellow and Huai River Valley, Ministry of Agriculture and Rural Affairs, Hefei, 230036, China
| | - Zhuangbo Tian
- College of Agronomy, Anhui Agricultural University, Hefei, 230036, China
- Key Laboratory of Wheat Biology and Genetic Improvement on Southern Yellow and Huai River Valley, Ministry of Agriculture and Rural Affairs, Hefei, 230036, China
| | - Yi Zhang
- College of Agronomy, Anhui Agricultural University, Hefei, 230036, China
- Key Laboratory of Wheat Biology and Genetic Improvement on Southern Yellow and Huai River Valley, Ministry of Agriculture and Rural Affairs, Hefei, 230036, China
| | - Erwin Tandayu
- Faculty of Science and Engineering, Southern Cross University, Lismore, NSW, 2480, Australia
| | - Can Chen
- College of Agronomy, Anhui Agricultural University, Hefei, 230036, China
- Key Laboratory of Wheat Biology and Genetic Improvement on Southern Yellow and Huai River Valley, Ministry of Agriculture and Rural Affairs, Hefei, 230036, China
| | - Jie Lu
- College of Agronomy, Anhui Agricultural University, Hefei, 230036, China
- Key Laboratory of Wheat Biology and Genetic Improvement on Southern Yellow and Huai River Valley, Ministry of Agriculture and Rural Affairs, Hefei, 230036, China
| | - Chuanxi Ma
- College of Agronomy, Anhui Agricultural University, Hefei, 230036, China
- Key Laboratory of Wheat Biology and Genetic Improvement on Southern Yellow and Huai River Valley, Ministry of Agriculture and Rural Affairs, Hefei, 230036, China
| | - Hongqi Si
- College of Agronomy, Anhui Agricultural University, Hefei, 230036, China.
- Key Laboratory of Wheat Biology and Genetic Improvement on Southern Yellow and Huai River Valley, Ministry of Agriculture and Rural Affairs, Hefei, 230036, China.
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Berraies S, Ruan Y, Knox R, DePauw R, Bokore F, Cuthbert R, Blackwell B, Henriquez MA, Konkin D, Yu B, Pozniak C, Meyer B. Genetic mapping of deoxynivalenol and fusarium damaged kernel resistance in an adapted durum wheat population. BMC PLANT BIOLOGY 2024; 24:183. [PMID: 38475749 DOI: 10.1186/s12870-023-04708-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/19/2023] [Accepted: 12/26/2023] [Indexed: 03/14/2024]
Abstract
BACKGROUND Fusarium head blight (FHB) infection results in Fusarium damaged kernels (FDK) and deoxynivalenol (DON) contamination that are downgrading factors at the Canadian elevators. Durum wheat (Triticum turgidum L. var. durum Desf.) is particularly susceptible to FHB and most of the adapted Canadian durum wheat cultivars are susceptible to moderately susceptible to this disease. However, the durum line DT696 is less susceptible to FHB than commercially grown cultivars. Little is known about genetic variation for durum wheat ability to resist FDK infection and DON accumulation. This study was undertaken to map genetic loci conferring resistance to DON and FDK resistance using a SNP high-density genetic map of a DT707/DT696 DH population and to identify SNP markers useful in marker-assisted breeding. One hundred twenty lines were grown in corn spawn inoculated nurseries near Morden, MB in 2015, 2016 and 2017 and the harvested seeds were evaluated for DON. The genetic map of the population was used in quantitative trait locus analysis performed with MapQTL.6® software. RESULTS Four DON accumulation resistance QTL detected in two of the three years were identified on chromosomes 1 A, 5 A (2 loci) and 7 A and two FDK resistance QTL were identified on chromosomes 5 and 7 A in single environments. Although not declared significant due to marginal LOD values, the QTL for FDK on the 5 and 7 A were showing in other years suggesting their effects were real. DT696 contributed the favourable alleles for low DON and FDK on all the chromosomes. Although no resistance loci contributed by DT707, transgressive segregant lines were identified resulting in greater resistance than DT696. Breeder-friendly KASP markers were developed for two of the DON and FDK QTL detected on chromosomes 5 and 7 A. Markers flanking each QTL were physically mapped against the durum wheat reference sequence and candidate genes which might be involved in FDK and DON resistance were identified within the QTL intervals. CONCLUSIONS The DH lines harboring the desired resistance QTL will serve as useful resources in breeding for FDK and DON resistance in durum wheat. Furthermore, breeder-friendly KASP markers developed during this study will be useful for the selection of durum wheat varieties with low FDK and DON levels in durum wheat breeding programs.
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Affiliation(s)
- Samia Berraies
- Swift Current Research and Development Center, Agriculture and Agri-Food Canada, Swift Current, SK, S9H 3X2, Canada.
| | - Yuefeng Ruan
- Swift Current Research and Development Center, Agriculture and Agri-Food Canada, Swift Current, SK, S9H 3X2, Canada.
| | - Ron Knox
- Swift Current Research and Development Center, Agriculture and Agri-Food Canada, Swift Current, SK, S9H 3X2, Canada
| | - Ron DePauw
- Agriculture and Agri-Food Canada (Retired), Ottawa, Canada
- Advancing Wheat Technologies, Calgary, AB, T3H 1P3, Canada
| | - Firdissa Bokore
- Swift Current Research and Development Center, Agriculture and Agri-Food Canada, Swift Current, SK, S9H 3X2, Canada
| | - Richard Cuthbert
- Swift Current Research and Development Center, Agriculture and Agri-Food Canada, Swift Current, SK, S9H 3X2, Canada
| | - Barbara Blackwell
- Ottawa Research and Development Centre, Agriculture and Agri-Food Canada, Ottawa, ON, K1A 0C6, Canada
| | - Maria Antonia Henriquez
- Morden Research and Development Centre, Agriculture and Agri-Food Canada, Morden, MB, R6M 1Y5, Canada
| | - David Konkin
- National Research Council Canada, Aquatic and Crop Resource Development, Saskatoon, SK, S7N 0W9, Canada
| | - Bianyun Yu
- National Research Council Canada, Aquatic and Crop Resource Development, Saskatoon, SK, S7N 0W9, Canada
| | - Curtis Pozniak
- Crop Development Centre, Department of Plant Science, University of Saskatchewan, Saskatoon, SK, S7N 5A8, Canada
| | - Brad Meyer
- Swift Current Research and Development Center, Agriculture and Agri-Food Canada, Swift Current, SK, S9H 3X2, Canada
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Walker PL, Belmonte MF, McCallum BD, McCartney CA, Randhawa HS, Henriquez MA. Dual RNA-sequencing of Fusarium head blight resistance in winter wheat. FRONTIERS IN PLANT SCIENCE 2024; 14:1299461. [PMID: 38239218 PMCID: PMC10794533 DOI: 10.3389/fpls.2023.1299461] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/22/2023] [Accepted: 11/29/2023] [Indexed: 01/22/2024]
Abstract
Fusarium head blight (FHB) is a devastating fungal disease responsible for significant yield losses in wheat and other cereal crops across the globe. FHB infection of wheat spikes results in grain contamination with mycotoxins, reducing both grain quality and yield. Breeding strategies have resulted in the production of FHB-resistant cultivars, however, the underlying molecular mechanisms of resistance in the majority of these cultivars are still poorly understood. To improve our understanding of FHB-resistance, we performed a transcriptomic analysis of FHB-resistant AC Emerson, FHB-moderately resistant AC Morley, and FHB-susceptible CDC Falcon in response to Fusarium graminearum. Wheat spikelets located directly below the point of inoculation were collected at 7-days post inoculation (dpi), where dual RNA-sequencing was performed to explore differential expression patterns between wheat cultivars in addition to the challenging pathogen. Differential expression analysis revealed distinct defense responses within FHB-resistant cultivars including the enrichment of physical defense through the lignin biosynthesis pathway, and DON detoxification through the activity of UDP-glycosyltransferases. Nucleotide sequence variants were also identified broadly between these cultivars with several variants being identified within differentially expressed putative defense genes. Further, F. graminearum demonstrated differential expression of mycotoxin biosynthesis pathways during infection, leading to the identification of putative pathogenicity factors.
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Affiliation(s)
- Philip L. Walker
- Morden Research and Development Centre, Agriculture and Agri-Food Canada, Morden, MB, Canada
| | - Mark F. Belmonte
- Department of Biological Sciences, University of Manitoba, Winnipeg, MB, Canada
| | - Brent D. McCallum
- Morden Research and Development Centre, Agriculture and Agri-Food Canada, Morden, MB, Canada
| | - Curt A. McCartney
- Department of Plant Sciences, University of Manitoba, Winnipeg, MB, Canada
| | - Harpinder S. Randhawa
- Lethbridge Research and Development Centre, Agriculture and Agri-Food Canada, Lethbridge, AB, Canada
| | - Maria A. Henriquez
- Morden Research and Development Centre, Agriculture and Agri-Food Canada, Morden, MB, Canada
- Department of Plant Sciences, University of Manitoba, Winnipeg, MB, Canada
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Berraies S, Cuthbert R, Knox R, Singh A, DePauw R, Ruan Y, Bokore F, Henriquez MA, Kumar S, Burt A, Pozniak C, N’Diaye A, Meyer B. High-density genetic mapping of Fusarium head blight resistance and agronomic traits in spring wheat. FRONTIERS IN PLANT SCIENCE 2023; 14:1134132. [PMID: 37284725 PMCID: PMC10241073 DOI: 10.3389/fpls.2023.1134132] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/29/2022] [Accepted: 04/03/2023] [Indexed: 06/08/2023]
Abstract
Fusarium head blight (FHB) has rapidly become a major challenge to successful wheat production and competitive end-use quality in western Canada. Continuous effort is required to develop germplasm with improved FHB resistance and understand how to incorporate the material into crossing schemes for marker-assisted selection and genomic selection. The aim of this study was to map quantitative trait loci (QTL) responsible for the expression of FHB resistance in two adapted cultivars and to evaluate their co-localization with plant height, days to maturity, days to heading, and awnedness. A large doubled haploid population of 775 lines developed from cultivars Carberry and AC Cadillac was assessed for FHB incidence and severity in nurseries near Portage la Prairie, Brandon, and Morden in different years, and for plant height, awnedness, days to heading, and days to maturity near Swift Current. An initial linkage map using a subset of 261 lines was constructed using 634 polymorphic DArT and SSR markers. QTL analysis revealed five resistance QTL on chromosomes 2A, 3B (two loci), 4B, and 5A. A second genetic map with increased marker density was constructed using the Infinium iSelect 90k SNP wheat array in addition to the previous DArT and SSR markers, which revealed two additional QTL on 6A and 6D. The complete population was genotyped, and a total of 6,806 Infinium iSelect 90k SNP polymorphic markers were used to identify 17 putative resistance QTL on 14 different chromosomes. As with the smaller population size and fewer markers, large-effect QTL were detected on 3B, 4B, and 5A that were consistently expressed across environments. FHB resistance QTL were co-localized with plant height QTL on chromosomes 4B, 6D, and 7D; days to heading on 2B, 3A, 4A, 4B, and 5A; and maturity on 3A, 4B, and 7D. A major QTL for awnedness was identified as being associated with FHB resistance on chromosome 5A. Nine small-effect QTL were not associated with any of the agronomic traits, whereas 13 QTL that were associated with agronomic traits did not co-localize with any of the FHB traits. There is an opportunity to select for improved FHB resistance within adapted cultivars by using markers associated with complementary QTL.
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Affiliation(s)
- Samia Berraies
- Swift Current Research and Development Center, Agriculture and Agri-Food Canada, Swift Current, SK, Canada
| | - Richard Cuthbert
- Swift Current Research and Development Center, Agriculture and Agri-Food Canada, Swift Current, SK, Canada
| | - Ron Knox
- Swift Current Research and Development Center, Agriculture and Agri-Food Canada, Swift Current, SK, Canada
| | - Arti Singh
- Department of Agronomy, Iowa State University, Ames, IA, United States
| | | | - Yuefeng Ruan
- Swift Current Research and Development Center, Agriculture and Agri-Food Canada, Swift Current, SK, Canada
| | - Firdissa Bokore
- Swift Current Research and Development Center, Agriculture and Agri-Food Canada, Swift Current, SK, Canada
| | - Maria Antonia Henriquez
- Morden Research and Development Centre, Agriculture and Agri-Food Canada, Morden, MB, Canada
| | - Santosh Kumar
- Brandon Research and Development Centre, Agriculture and Agri-Food Canada, Brandon, MB, Canada
| | - Andrew Burt
- Ottawa Research and Development Centre, Agriculture and Agri-Food Canada, Ottawa, ON, Canada
| | - Curtis Pozniak
- Department of Plant Sciences, University of Saskatchewan, Saskatoon, SK, Canada
| | - Amidou N’Diaye
- Department of Plant Sciences, University of Saskatchewan, Saskatoon, SK, Canada
| | - Brad Meyer
- Swift Current Research and Development Center, Agriculture and Agri-Food Canada, Swift Current, SK, Canada
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Rosa SB, Humphreys G, Langille L, Voldeng H, Henriquez MA, Burt AJ, Randhawa HS, Fetch T, Hiebert CW, Blackwell B, Zegeye T, Cummiskey A, Fortier E, Scheeren PL, Turra C, McCallum B. Characterization of Brazilian spring wheat germplasm and its potential for increasing wheat genetic diversity in Canada. Front Genet 2023; 14:1125940. [PMID: 37007938 PMCID: PMC10063806 DOI: 10.3389/fgene.2023.1125940] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/16/2022] [Accepted: 03/06/2023] [Indexed: 03/19/2023] Open
Abstract
In the present era of climate instability, Canadian wheat production has been frequently affected by abiotic stresses and by dynamic populations of pathogens and pests that are more virulent and aggressive over time. Genetic diversity is fundamental to guarantee sustainable and improved wheat production. In the past, the genetics of Brazilian cultivars, such as Frontana, have been studied by Canadian researchers and consequently, Brazilian germplasm has been used to breed Canadian wheat cultivars. The objective of this study was to characterize a collection of Brazilian germplasm under Canadian growing conditions, including the reaction of the Brazilian germplasm to Canadian isolates/pathogens and to predict the presence of certain genes in an effort to increase genetic diversity, improve genetic gain and resilience of Canadian wheat. Over 100 Brazilian hard red spring wheat cultivars released from 1986 to 2016 were evaluated for their agronomic performance in eastern Canada. Some cultivars showed good adaptability, with several cultivars being superior or statistically equal to the highest yielding Canadian checks. Several Brazilian cultivars had excellent resistance to leaf rust, even though only a few of these tested positive for the presence of either Lr34 or Lr16, two of the most common resistance genes in Canadian wheat. Resistance for stem rust, stripe rust and powdery mildew was variable among the Brazilian cultivars. However, many Brazilian cultivars had high levels of resistance to Canadian and African - Ug99 strains of stem rust. Many Brazilian cultivars had good Fusarium head blight (FHB) resistance, which appears to be derived from Frontana. In contrast FHB resistance in Canadian wheat is largely based on the Chinese variety, Sumai-3. The Brazilian germplasm is a valuable source of semi-dwarf (Rht) genes, and 75% of the Brazilian collection possessed Rht-B1b. Many cultivars in the Brazilian collection were found to be genetically distinct from Canadian wheat, making them a valuable resource to increase the disease resistance and genetic variability in Canada and elsewhere.
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Affiliation(s)
- Silvia Barcellos Rosa
- Centre de recherche sur les grains (CÉROM), Saint-Mathieu-de-Beloeil, QC, Canada
- *Correspondence: Silvia Barcellos Rosa,
| | - Gavin Humphreys
- Ottawa Research and Development Centre, Agriculture and Agri-Food Canada, Ottawa, ON, Canada
| | - Linda Langille
- Ottawa Research and Development Centre, Agriculture and Agri-Food Canada, Ottawa, ON, Canada
| | - Harvey Voldeng
- Ottawa Research and Development Centre, Agriculture and Agri-Food Canada, Ottawa, ON, Canada
| | - Maria Antonia Henriquez
- Morden Research and Development Centre, Agriculture and Agri-Food Canada, Morden, MB, Canada
| | - Andrew James Burt
- Ottawa Research and Development Centre, Agriculture and Agri-Food Canada, Ottawa, ON, Canada
| | - Harpinder Singh Randhawa
- Lethbridge Research and Development Centre, Agriculture and Agri-Food Canada, Lethbridge, AB, Canada
| | - Tom Fetch
- Brandon Research and Development Centre, Agriculture and Agri-Food Canada, Brandon, MB, Canada
| | - Colin W. Hiebert
- Morden Research and Development Centre, Agriculture and Agri-Food Canada, Morden, MB, Canada
| | - Barbara Blackwell
- Ottawa Research and Development Centre, Agriculture and Agri-Food Canada, Ottawa, ON, Canada
| | - Taye Zegeye
- Morden Research and Development Centre, Agriculture and Agri-Food Canada, Morden, MB, Canada
| | - Allan Cummiskey
- Charlottetown Research and Development Center, Agriculture and Agri-Food Canada, Charlottetown, PEI, Canada
| | - Eric Fortier
- Centre de recherche sur les grains (CÉROM), Saint-Mathieu-de-Beloeil, QC, Canada
| | - Pedro Luiz Scheeren
- Empresa Brasileira de Pesquisa Agropecuaria (EMBRAPA) Trigo, Passo Fundo, Brazil
| | - Camila Turra
- OR Melhoramento de Sementes, Passo Fundo, Brazil
| | - Brent McCallum
- Morden Research and Development Centre, Agriculture and Agri-Food Canada, Morden, MB, Canada
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Huang S, Zhang Y, Ren H, Zhang X, Yu R, Liu S, Zeng Q, Wang Q, Yuan F, Singh RP, Bhavani S, Wu J, Han D, Kang Z. High density mapping of wheat stripe rust resistance gene QYrXN3517-1BL using QTL mapping, BSE-Seq and candidate gene analysis. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2023; 136:39. [PMID: 36897402 DOI: 10.1007/s00122-023-04282-5] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/16/2022] [Accepted: 11/21/2022] [Indexed: 06/18/2023]
Abstract
Fine mapping of a major stripe rust resistance locus QYrXN3517-1BL to a 336 kb region that includes 12 candidate genes. Utilization of genetic resistance is an effective strategy to control stripe rust disease in wheat. Cultivar XINONG-3517 (XN3517) has remained highly resistant to stripe rust since its release in 2008. To understand the genetic architecture of stripe rust resistance, Avocet S (AvS) × XN3517 F6 RIL population was assessed for stripe rust severity in five field environments. The parents and RILs were genotyped by using the GenoBaits Wheat 16 K Panel. Four stable QTL from XINONG-3517 were detected on chromosome arms 1BL, 2AL, 2BL, and 6BS, named as QYrXN3517-1BL, QYrXN3517-2AL, QYrXN3517-2BL, and QYrXN3517-6BS, respectively. Based on the Wheat 660 K array and bulked segregant exome sequencing (BSE-Seq), the most effective QTL on chromosome 1BL is most likely different from the known adult plant resistance gene Yr29 and was mapped to a 1.7 cM region [336 kb, including twelve candidate genes in International Wheat Genome Sequencing Consortium (IWGSC) RefSeq version 1.0]. The 6BS QTL was identified as Yr78, and the 2AL QTL was probably same as QYr.caas-2AL or QYrqin.nwafu-2AL. The novel QTL on 2BL was effective in seedling stage against the races used in phenotyping. In addition, allele-specifc quantitative PCR (AQP) marker nwafu.a5 was developed for QYrXN3517-1BL to assist marker-assisted breeding.
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Affiliation(s)
- Shuo Huang
- State Key Laboratory of Crop Stress Biology for Arid Areas, Plant Protection, Northwest A&F University, Yangling, 712100, Shaanxi, People's Republic of China
| | - Yibo Zhang
- State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi, People's Republic of China
| | - Hui Ren
- State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi, People's Republic of China
| | - Xin Zhang
- State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi, People's Republic of China
| | - Rui Yu
- State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi, People's Republic of China
| | - Shengjie Liu
- State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi, People's Republic of China
| | - Qingdong Zeng
- State Key Laboratory of Crop Stress Biology for Arid Areas, Plant Protection, Northwest A&F University, Yangling, 712100, Shaanxi, People's Republic of China
| | - Qilin Wang
- State Key Laboratory of Crop Stress Biology for Arid Areas, Plant Protection, Northwest A&F University, Yangling, 712100, Shaanxi, People's Republic of China
| | - Fengping Yuan
- State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi, People's Republic of China
| | - Ravi P Singh
- International Maize and Wheat Improvement Center (CIMMYT), El Batan, 56237, Texcoco, Estado de Mexico, Mexico
| | - Sridhar Bhavani
- International Maize and Wheat Improvement Center (CIMMYT), El Batan, 56237, Texcoco, Estado de Mexico, Mexico
| | - Jianhui Wu
- State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi, People's Republic of China.
| | - Dejun Han
- State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi, People's Republic of China.
| | - Zhensheng Kang
- State Key Laboratory of Crop Stress Biology for Arid Areas, Plant Protection, Northwest A&F University, Yangling, 712100, Shaanxi, People's Republic of China.
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7
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Hu W, Gao D, Zhang Y, Zheng X, Lu C, Wu H, Xu W, Cheng S, Jia J. Mapping Quantitative Trait Loci for Type II Fusarium Head Blight Resistance in Two Wheat Recombinant Inbred Line Populations Derived from Yangmai 4 and Yangmai 5. PLANT DISEASE 2023; 107:422-430. [PMID: 35881872 DOI: 10.1094/pdis-06-22-1338-re] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
Fusarium head blight (FHB) is a destructive wheat disease worldwide and significantly affects grain yield and quality in wheat. To understand the genetic basis underlying type II FHB resistance in two elite wheat cultivars-Yangmai 4 (YM4) and Yangmai 5 (YM5)-quantitative trait loci (QTL) mapping was conducted in two recombinant inbred line (RIL) populations derived from the crosses of YM4 and YM5 with susceptible cultivar Yanzhan 1 (YZ1), respectively. A survey with markers linked to Fhb1, Fhb2, Fhb4, and Fhb5 in landrace Wangshuibai indicated the nonexistence of these known FHB resistance genes or QTL in YM4, YM5, and YZ1. One overlapped resistance QTL was identified in both RIL populations (namely, QFhb.Y4.2D/QFhb.Y5.2D) with a large effect on FHB resistance. One novel resistance QTL (QFhb.Y4.5A) mapped on chromosome 5A was detected only in the YM4/YZ1 population. The resistance alleles of both QFhb.Y4.2D/QFhb.Y5.2D and QFhb.Y4.5A did not increase the plant height and did not significantly affect the heading date and flowering date. Kompetitive allele-specific PCR markers for QFhb.Y4.2D/QFhb.Y5.2D and QFhb.Y4.5A had been developed to verify in an additional set of 244 geographically diverse cultivars or lines. Pyramiding of the two resistance alleles decreased the percentage of symptomatic spikelets by 51.77% relative to the cultivars or lines without these two resistance alleles. QFhb.Y4.2D/QFhb.Y5.2D and QFhb.Y4.5A were shown to be useful alternatives in FHB resistance breeding programs. The results will facilitate marker-assisted selection for introgression of the favorable alleles for improving FHB resistance in breeding programs.
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Affiliation(s)
- Wenjing Hu
- College of Agronomy & Center for Crop Genome Engineering, Henan Agricultural University, Zhengzhou, Henan 450046, China
- Key Laboratory of Wheat Biology and Genetic Improvement for Low & Middle Yangtze Valley, Ministry of Agriculture and Rural Affairs, Lixiahe Institute of Agricultural Sciences, Yangzhou, Jiangsu 225007, China
| | - Derong Gao
- Key Laboratory of Wheat Biology and Genetic Improvement for Low & Middle Yangtze Valley, Ministry of Agriculture and Rural Affairs, Lixiahe Institute of Agricultural Sciences, Yangzhou, Jiangsu 225007, China
| | - Yong Zhang
- Key Laboratory of Wheat Biology and Genetic Improvement for Low & Middle Yangtze Valley, Ministry of Agriculture and Rural Affairs, Lixiahe Institute of Agricultural Sciences, Yangzhou, Jiangsu 225007, China
| | - Xu Zheng
- College of Agronomy & Center for Crop Genome Engineering, Henan Agricultural University, Zhengzhou, Henan 450046, China
| | - Chengbin Lu
- Key Laboratory of Wheat Biology and Genetic Improvement for Low & Middle Yangtze Valley, Ministry of Agriculture and Rural Affairs, Lixiahe Institute of Agricultural Sciences, Yangzhou, Jiangsu 225007, China
| | - Hongya Wu
- Key Laboratory of Wheat Biology and Genetic Improvement for Low & Middle Yangtze Valley, Ministry of Agriculture and Rural Affairs, Lixiahe Institute of Agricultural Sciences, Yangzhou, Jiangsu 225007, China
| | - Weigang Xu
- Institute of Crop Molecular Breeding/National Engineering Laboratory of Wheat/Key Laboratory of Wheat Biology and Genetic Breeding in Central Huanghuai Area/Ministry of Agriculture/Henan Key Laboratory of Wheat Germplasm Resources Innovation and Improvement, Henan Academy of Agricultural Sciences, Zhengzhou, Henan 450002, China
| | - Shunhe Cheng
- Key Laboratory of Wheat Biology and Genetic Improvement for Low & Middle Yangtze Valley, Ministry of Agriculture and Rural Affairs, Lixiahe Institute of Agricultural Sciences, Yangzhou, Jiangsu 225007, China
| | - Jizeng Jia
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences (CAAS), Beijing 100081, China
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Akohoue F, Koch S, Plieske J, Miedaner T. Separation of the effects of two reduced height (Rht) genes and genomic background to select for less Fusarium head blight of short-strawed winter wheat (Triticum aestivum L.) varieties. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2022; 135:4303-4326. [PMID: 36152062 PMCID: PMC9734223 DOI: 10.1007/s00122-022-04219-4] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 06/13/2022] [Accepted: 09/08/2022] [Indexed: 06/16/2023]
Abstract
FHB resistance shared pleiotropic loci with plant height and anther retention. Genomic prediction allows to select for genomic background reducing FHB susceptibility in the presence of the dwarfing allele Rht-D1b. With the high interest for semi-dwarf cultivars in wheat, finding locally adapted resistance sources against Fusarium head blight (FHB) and FHB-neutral reduced height (Rht) genes is of utmost relevance. In this study, 401 genotypes of European origin without/with dwarfing alleles of Rht-D1 and/or Rht24 were analysed across five environments on FHB severity and the morphological traits such as plant height (PH), anther retention (AR), number of spikelets per ear, ear length and ear density. Data were analysed by combined correlation and path analyses, association mapping and coupling single- and multi-trait genome-wide association studies (ST-GWAS and MT-GWAS, respectively) and genomic prediction (GP). All FHB data were corrected for flowering date or heading stage. High genotypic correlation (rg = 0.74) and direct path effect (0.57) were detected between FHB severity and anther retention (AR). Moderate correlation (rg = - 0.55) was found between FHB severity and plant height (PH) with a high indirect path via AR (- 0.31). Indirect selection for FHB resistance should concentrate on AR and PH. ST-GWAS identified 25 quantitative trait loci (QTL) for FHB severity, PH and AR, while MT-GWAS detected six QTL across chromosomes 2A, 4D, 5A, 6B and 7B conveying pleiotropic effects on the traits. Rht-D1b was associated with high AR and FHB susceptibility. Our study identified a promising positively acting pleiotropic QTL on chromosome 7B which can be utilized to improve FHB resistance while reducing PH and AR. Rht-D1b genotypes having a high resistance genomic background exhibited lower FHB severity and AR. The use of GP for estimating the genomic background was more effective than selection of GWAS-detected markers. We demonstrated that GP has a great potential and should be exploited by selecting for semi-dwarf winter wheat genotypes with higher FHB resistance due to their genomic background.
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Affiliation(s)
- Félicien Akohoue
- State Plant Breeding Institute, University of Hohenheim, Stuttgart, Germany
| | - Silvia Koch
- State Plant Breeding Institute, University of Hohenheim, Stuttgart, Germany
| | - Jörg Plieske
- SGS INSTITUT FRESENIUS GmbH, TraitGenetics Section, Am Schwabeplan 1b, 06466, Seeland OT Gatersleben, Germany
| | - Thomas Miedaner
- State Plant Breeding Institute, University of Hohenheim, Stuttgart, Germany.
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9
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Hay WT, Anderson JA, Garvin DF, McCormick SP, Vaughan MM. Fhb1 disease resistance QTL does not exacerbate wheat grain protein loss at elevated CO 2. FRONTIERS IN PLANT SCIENCE 2022; 13:1034406. [PMID: 36518513 PMCID: PMC9742602 DOI: 10.3389/fpls.2022.1034406] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/01/2022] [Accepted: 11/11/2022] [Indexed: 06/17/2023]
Abstract
Fusarium head blight, a devastating cereal crop disease, can cause significant yield losses and contaminate grain with hazardous fungal toxins. Concerningly, recent evidence indicates that substantial grain protein content loss is likely to occur in wheat that is moderately resistant to head blight when it is grown at elevated CO2. Although wheat breeders in North America utilize a number of resistance sources and genes to reduce pathogen damage, the Fhb1 gene is widely deployed. To determine whether Fhb1 is associated with the protein content loss at elevated CO2, twelve near-isogenic spring wheat lines from either a susceptible or moderately susceptible genetic background, and with, or without the Fhb1 QTL, were grown at ambient and elevated CO2 conditions. The near-isogenic lines were evaluated for differences in physiology, productivity, and grain protein content. Our results showed that the Fhb1 QTL did not have any significant effect on plant growth, development, yield, or grain protein content at ambient or elevated CO2. Therefore, other factors in the moderately susceptible wheat genetic background are likely responsible for the more severe grain protein loss at elevated CO2.
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Affiliation(s)
- William T. Hay
- Mycotoxin Prevention and Applied Microbiology Unit, National Center for Agricultural Utilization Research, Agricultural Research Service, USDA, Peoria, IL, United States
| | - James A. Anderson
- Department of Agronomy & Plant Genetics, University of Minnesota, St. Paul, MN, United States
| | - David F. Garvin
- Department of Agronomy & Plant Genetics, University of Minnesota, St. Paul, MN, United States
| | - Susan P. McCormick
- Mycotoxin Prevention and Applied Microbiology Unit, National Center for Agricultural Utilization Research, Agricultural Research Service, USDA, Peoria, IL, United States
| | - Martha M. Vaughan
- Mycotoxin Prevention and Applied Microbiology Unit, National Center for Agricultural Utilization Research, Agricultural Research Service, USDA, Peoria, IL, United States
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10
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Wu L, He X, He Y, Jiang P, Xu K, Zhang X, Singh PK. Genetic sources and loci for Fusarium head blight resistance in bread wheat. Front Genet 2022; 13:988264. [PMID: 36246592 PMCID: PMC9561102 DOI: 10.3389/fgene.2022.988264] [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: 07/07/2022] [Accepted: 09/13/2022] [Indexed: 11/13/2022] Open
Abstract
Fusarium head blight (FHB) of wheat is an important disease worldwide, affecting the yield, end-use quality and threatening food safety. Genetic resources or stable loci for FHB resistance are still limited in breeding programs. A panel of 265 bread wheat accessions from China, CIMMYT-Mexico and other countries was screened for FHB resistance under 5 field experiments in Mexico and China, and a genome-wide association analysis was performed to identify QTLs associated with FHB resistance. The major locus Fhb1 was significantly associated with FHB severity and Deoxynivalenol content in grains. FHB screening experiments in multiple environments showed that Fhb1-harbouring accessions Sumai3, Sumai5, Ningmai9, Yangmai18 and Tokai66 had low FHB index, disease severity and DON content in grains in response to different Fusarium species and ecological conditions in Mexico and China. Accessions Klein Don Enrique, Chuko and Yumai34 did not have Fhb1 but still showed good FHB resistance and low mycotoxin accumulation. Sixteen loci associated with FHB resistance or DON content in grains were identified on chromosomes 1A, 1B, 2B, 3A, 3D, 4B, 4D, 5A, 5B, 7A, and 7B in multiple environments, explaining phenotypic variation of 4.43–10.49%. The sources with good FHB resistance reported here could be used in breeding programs for resistance improvement in Mexico and China, and the significant loci could be further studied and introgressed for resistance improvement against FHB and mycotoxin accumulation in grains.
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Affiliation(s)
- Lei Wu
- CIMMYT-JAAS Joint Center for Wheat Diseases, Jiangsu Academy of Agricultural Sciences, Nanjing, China
| | - Xinyao He
- International Maize and Wheat Improvement Center (CIMMYT), Texcoco, Mexico
| | - Yi He
- CIMMYT-JAAS Joint Center for Wheat Diseases, Jiangsu Academy of Agricultural Sciences, Nanjing, China
| | - Peng Jiang
- CIMMYT-JAAS Joint Center for Wheat Diseases, Jiangsu Academy of Agricultural Sciences, Nanjing, China
| | - Kaijie Xu
- Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang, China
| | - Xu Zhang
- CIMMYT-JAAS Joint Center for Wheat Diseases, Jiangsu Academy of Agricultural Sciences, Nanjing, China
- *Correspondence: Xu Zhang, ; Pawan K. Singh,
| | - Pawan K. Singh
- International Maize and Wheat Improvement Center (CIMMYT), Texcoco, Mexico
- *Correspondence: Xu Zhang, ; Pawan K. Singh,
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11
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Breeding Tools for Assessing and Improving Resistance and Limiting Mycotoxin Production by Fusarium graminearum in Wheat. PLANTS 2022; 11:plants11151933. [PMID: 35893637 PMCID: PMC9330798 DOI: 10.3390/plants11151933] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Received: 05/30/2022] [Revised: 07/19/2022] [Accepted: 07/20/2022] [Indexed: 01/18/2023]
Abstract
The recently adopted conservation and minimum tillage practices in wheat-production systems coupled with the concomitant warming of the Earth are believed to have caused the upsurges in Fusarium head blight (FHB) prevalence in major wheat-producing regions of the world. Measures to counter this effect include breeding for resistance to both initial infection of wheat and spread of the disease. Cases of mycotoxicosis caused by ingestion of wheat by-products contaminated with FHB mycotoxins have necessitated the need for resistant wheat cultivars that can limit mycotoxin production by the dominant causal pathogen, Fusarium graminearum. This manuscript reviews breeding tools for assessing and improving resistance as well as limiting mycotoxin contamination in wheat to reflect on the current state of affairs. Combining these aspects in wheat research and development promotes sustainable quality grain production and safeguards human and livestock health from mycotoxicosis.
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12
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Buerstmayr M, Buerstmayr H. The effect of the Rht1 haplotype on Fusarium head blight resistance in relation to type and level of background resistance and in combination with Fhb1 and Qfhs.ifa-5A. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2022; 135:1985-1996. [PMID: 35396946 PMCID: PMC9205817 DOI: 10.1007/s00122-022-04088-x] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/07/2022] [Accepted: 03/17/2022] [Indexed: 06/14/2023]
Abstract
The effect of the Rht1-genes on FHB resistance depends on anther extrusion and level of background resistance. Qfhs.ifa-5A increases resistance and anther extrusion as efficiently as semi-dwarfing alleles decrease it. The semi-dwarfing reduced height alleles Rht-D1b and Rht-B1b have been deployed in modern wheat cultivars throughout the world, but they increase susceptibility to Fusarium head blight (FHB). Here, we investigated the impact of the Rht1 genes on anther retention (AR) in relation to FHB resistance using four different sets of near-isogenic lines (NILs) with contrasting levels and types of background FHB resistance. NILs were evaluated for FHB severity, plant height and AR in three greenhouse and three field trials using artificial spray inoculation. Rht-B1b and Rht-D1b alleles increased AR and FHB susceptibility in all genetic backgrounds. The magnitude of the effects differed between NIL groups. Increased FHB susceptibility largely followed increased AR. Differences in FHB susceptibility between tall and dwarf haplotypes were largest in the NIL group with the highest changes in AR. In the most resistant NIL group, dwarfed lines had only slightly higher AR than tall lines and maintained good resistance, while both tall and dwarf lines had high levels of retained anthers in the most susceptible NIL group. We further investigated the effect of the major Fusarium resistance QTL Fhb1 and Qfhs.ifa-5A in combination with the Rht1 genes. Qfhs.ifa-5A enhanced anther extrusion in tall as well as semi-dwarf haplotypes, whereas Fhb1 did not affect AR. Qfhs.ifa-5A supported FHB resistance more efficiently than Fhb1 in lines that were more responsive to AR, while both Fhb1 and Qfhs.ifa-5A were equally efficient in NILs that had high background resistance and low response to AR.
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Affiliation(s)
- Maria Buerstmayr
- Department of Agrobiotechnology, Institute of Biotechnology in Plant Production, University of Natural Resources and Life Sciences Vienna, Konrad Lorenz Str. 20, 3430, Tulln, Austria.
| | - Hermann Buerstmayr
- Department of Agrobiotechnology, Institute of Biotechnology in Plant Production, University of Natural Resources and Life Sciences Vienna, Konrad Lorenz Str. 20, 3430, Tulln, Austria
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13
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Huang Y, Yin L, Sallam AH, Heinen S, Li L, Beaubien K, Dill-Macky R, Dong Y, Steffenson BJ, Smith KP, Muehlbauer GJ. Genetic dissection of a pericentromeric region of barley chromosome 6H associated with Fusarium head blight resistance, grain protein content and agronomic traits. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2021; 134:3963-3981. [PMID: 34455452 DOI: 10.1007/s00122-021-03941-9] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/26/2021] [Accepted: 08/18/2021] [Indexed: 06/13/2023]
Abstract
Fine mapping of barley 6H pericentromeric region identified FHB QTL with opposite effects, and high grain protein content was associated with increased FHB severity. Resistance to Fusarium head blight (FHB), kernel discoloration (KD), deoxynivalenol (DON) accumulation and grain protein content (GPC) are important traits for breeding malting barley varieties. Previous work mapped a Chevron-derived FHB QTL to the pericentromeric region of 6H, coinciding with QTL for KD resistance and GPC. The Chevron allele reduced FHB and KD, but unfavorably increased GPC. To determine whether the correlations are caused by linkage or pleiotropy, a fine mapping approach was used to dissect the QTL underlying these quality and disease traits. Two populations, referred to as Gen10 and Gen10/Lacey, derived from a recombinant near-isogenic line (rNIL) were developed. Recombinants were phenotyped for FHB, KD, DON, GPC and other agronomic traits. Three FHB, two DON and two KD QTLs were identified. One of the three FHB QTLs, one DON QTL and one KD QTL were coincident with the GPC QTL, which contains the Hv-NAM1 locus affecting grain protein accumulation. The Chevron allele at the GPC QTL increased GPC and FHB and decreased DON and KD. The other two FHB QTL and the other DON and KD QTL were identified in the regions flanking the Hv-NAM1 locus, and the Chevron alleles decreased FHB, DON and KD. Our results suggested that the QTL associated with FHB, KD, DON and GPC in the pericentromeric region of 6H was controlled by both pleiotropy and tightly linked loci. The rNILs identified in this study with low FHB severity and moderate GPC may be used for breeding malting barley cultivars.
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Affiliation(s)
- Yadong Huang
- Department of Agronomy and Plant Genetics, University of Minnesota, St. Paul, MN, 55108, USA
| | - Lu Yin
- Department of Agronomy and Plant Genetics, University of Minnesota, St. Paul, MN, 55108, USA
| | - Ahmad H Sallam
- Department of Agronomy and Plant Genetics, University of Minnesota, St. Paul, MN, 55108, USA
| | - Shane Heinen
- Department of Agronomy and Plant Genetics, University of Minnesota, St. Paul, MN, 55108, USA
| | - Lin Li
- Department of Agronomy and Plant Genetics, University of Minnesota, St. Paul, MN, 55108, USA
- National Key Laboratory of Crop Genetic Improvement, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, China
| | - Karen Beaubien
- Department of Agronomy and Plant Genetics, University of Minnesota, St. Paul, MN, 55108, USA
| | - Ruth Dill-Macky
- Department of Plant Pathology, University of Minnesota, St. Paul, MN, 55108, USA
| | - Yanhong Dong
- Department of Plant Pathology, University of Minnesota, St. Paul, MN, 55108, USA
| | - Brian J Steffenson
- Department of Plant Pathology, University of Minnesota, St. Paul, MN, 55108, USA
| | - Kevin P Smith
- Department of Agronomy and Plant Genetics, University of Minnesota, St. Paul, MN, 55108, USA
| | - Gary J Muehlbauer
- Department of Agronomy and Plant Genetics, University of Minnesota, St. Paul, MN, 55108, USA.
- Department of Plant and Microbial Biology, University of Minnesota, St. Paul, MN, 55108, USA.
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14
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Malla KB, Thapa G, Doohan FM. Mitochondrial phosphate transporter and methyltransferase genes contribute to Fusarium head blight Type II disease resistance and grain development in wheat. PLoS One 2021; 16:e0258726. [PMID: 34648604 PMCID: PMC8516198 DOI: 10.1371/journal.pone.0258726] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/12/2021] [Accepted: 10/04/2021] [Indexed: 11/18/2022] Open
Abstract
Fusarium head blight (FHB) is an economically important disease of wheat that results in yield loss and grain contaminated with fungal mycotoxins that are harmful to human and animal health. Herein we characterised two wheat genes involved in the FHB response in wheat: a wheat mitochondrial phosphate transporter (TaMPT) and a methyltransferase (TaSAM). Wheat has three sub-genomes (A, B, and D) and gene expression studies demonstrated that TaMPT and TaSAM homoeologs were differentially expressed in response to FHB infection and the mycotoxigenic Fusarium virulence factor deoxynivalenol (DON) in FHB resistant wheat cv. CM82036 and susceptible cv. Remus. Virus-induced gene silencing (VIGS) of either TaMPT or TaSAM enhanced the susceptibility of cv. CM82036 to FHB disease, reducing disease spread (Type II disease resistance). VIGS of TaMPT and TaSAM significantly reduced grain number and grain weight. This indicates TaSAM and TaMPT genes also contribute to grain development in wheat and adds to the increasing body of evidence linking FHB resistance genes to grain development. Hence, Fusarium responsive genes TaSAM and TaMPT warrant further study to determine their potential to enhance both disease resistance and grain development in wheat.
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Affiliation(s)
- Keshav B. Malla
- UCD Earth Institute, UCD Institute of Food and Health and UCD School of Biology and Environmental Sciences, UCD Science Centre East, University College Dublin, Belfield, Dublin, Ireland
| | - Ganesh Thapa
- UCD Earth Institute, UCD Institute of Food and Health and UCD School of Biology and Environmental Sciences, UCD Science Centre East, University College Dublin, Belfield, Dublin, Ireland
| | - Fiona M. Doohan
- UCD Earth Institute, UCD Institute of Food and Health and UCD School of Biology and Environmental Sciences, UCD Science Centre East, University College Dublin, Belfield, Dublin, Ireland
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15
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Yan H, Li G, Shi J, Tian S, Zhang X, Cheng R, Wang X, Yuan Y, Cao S, Zhou J, Kong Z, Jia H, Ma Z. Genetic control of Fusarium head blight resistance in two Yangmai 158-derived recombinant inbred line populations. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2021; 134:3037-3049. [PMID: 34110431 DOI: 10.1007/s00122-021-03876-1] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/31/2020] [Accepted: 05/28/2021] [Indexed: 06/12/2023]
Abstract
Stably expressed type I and type II resistance QTL were identified using two Yangmai 158-derived RIL populations, and plant-height and flowering-time QTL intervals detected did not contribute to the FHB resistance variations. Yangmai 158 (Y158) is an elite wheat cultivar widely grown in China with stable Fusarium head blight (FHB) resistance. To enrich the genetic basis underlying FHB resistance, QTL mapping was conducted using two recombinant inbred line (RIL) populations derived from crosses of Y158 with susceptible lines Annong 8455 and Veery. Survey with makers linked to Fhb1, Fhb2, Fhb4 and Fhb5 in resistance cultivar Wangshuibai indicated that both Y158 and the susceptible lines do not contain these QTL. The RIL populations were surveyed with 65 PCR markers and 55 K chip, which generated 23,159 valid marker data, to produce genetic maps for whole genome scanning of quantitative trait loci (QTL). A total of six QTL, all with the Y158 alleles for better resistance and including one stably expressed QTL for type I resistance (Qfhi.nau-2D) and one stably expressed QTL for type II resistance (Qfhs.nau-2A), were identified. Moreover, taking advantage of the great genetic variations in plant height and flowering time, QTL conditioning these two traits were determined. Of six plant-height QTL and three flowering-time QTL intervals detected, none were associated with FHB resistance. The FHB resistance QTL in Y158 were shown to be useful alternatives in FHB resistance breeding programs. The SNP markers flanking Qfhs.nau-2A and Qfhi.nau-2D have been converted to breeder-friendly PCR-based markers to facilitate their applications.
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Affiliation(s)
- Haisheng Yan
- Crop Genomics and Bioinformatics Center and National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, 210095, Jiangsu, China
| | - Guoqiang Li
- Crop Genomics and Bioinformatics Center and National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, 210095, Jiangsu, China
| | - Jinxing Shi
- Crop Genomics and Bioinformatics Center and National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, 210095, Jiangsu, China
| | - ShunShun Tian
- Crop Genomics and Bioinformatics Center and National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, 210095, Jiangsu, China
| | - Xiaoqiu Zhang
- Crop Genomics and Bioinformatics Center and National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, 210095, Jiangsu, China
| | - Rui Cheng
- Crop Genomics and Bioinformatics Center and National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, 210095, Jiangsu, China
| | - Xin Wang
- Crop Genomics and Bioinformatics Center and National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, 210095, Jiangsu, China
| | - Yang Yuan
- Crop Genomics and Bioinformatics Center and National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, 210095, Jiangsu, China
| | - Shouyang Cao
- Crop Genomics and Bioinformatics Center and National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, 210095, Jiangsu, China
| | - Jiyang Zhou
- College of Life Science and Technology, Xinjiang University, Urumqi, 830046, Xinjiang, China
| | - Zhongxin Kong
- Crop Genomics and Bioinformatics Center and National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, 210095, Jiangsu, China
| | - Haiyan Jia
- Crop Genomics and Bioinformatics Center and National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, 210095, Jiangsu, China.
| | - Zhengqiang Ma
- Crop Genomics and Bioinformatics Center and National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, 210095, Jiangsu, China.
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16
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Gaire R, Brown-Guedira G, Dong Y, Ohm H, Mohammadi M. Genome-Wide Association Studies for Fusarium Head Blight Resistance and Its Trade-Off With Grain Yield in Soft Red Winter Wheat. PLANT DISEASE 2021; 105:2435-2444. [PMID: 33560886 DOI: 10.1094/pdis-06-20-1361-re] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
Identification of quantitative trait loci for Fusarium head blight (FHB) resistance from different sources and pyramiding them into cultivars could provide effective protection against FHB. The objective of this study was to characterize a soft red winter wheat (SRWW) breeding population that has been subjected to intense germplasm introduction and alien introgression for FHB resistance in the past. The population was evaluated under misted FHB nurseries inoculated with Fusarium graminearum-infested corn spawn for two years. Phenotypic data included disease incidence (INC), disease severity (SEV), Fusarium damaged kernels (FDK), FHB index (FHBdx), and deoxynivalenol concentration (DON). Genome-wide association studies using 13,784 SNP markers identified 25 genomic regions at -logP ≥ 4.0 that were associated with five FHB-related traits. Of these 25, the marker trait associations that explained more than 5% phenotypic variation were localized on chromosomes 1A, 2B, 3B, 5A, 7A, 7B, and 7D, and from diverse sources including adapted SRWW lines such as Truman and Bess, and unadapted common wheat lines such as Ning7840 and Fundulea 201R. Furthermore, individuals with favorable alleles at the four loci Fhb1, Qfhb.nc-2B.1 (Q2B.1), Q7D.1, and Q7D.2 showed better FDK and DON scores (but not INC, SEV, and FHBdx) compared with other allelic combinations. Our data also showed while pyramiding multiple loci provides protection against FHB disease, it has a significant trade-off with grain yield.
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Affiliation(s)
- Rupesh Gaire
- Agronomy Department, Purdue University, West Lafayette, IN 47907
| | - Gina Brown-Guedira
- USDA-ARS Plant Science Research, Department of Crop Science, North Carolina State University, Raleigh, NC 27695
| | - Yanhong Dong
- Department of Plant Pathology, University of Minnesota, St. Paul, MN 55108
| | - Herbert Ohm
- Agronomy Department, Purdue University, West Lafayette, IN 47907
| | - Mohsen Mohammadi
- Agronomy Department, Purdue University, West Lafayette, IN 47907
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17
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Zhang Y, Yang Z, Ma H, Huang L, Ding F, Du Y, Jia H, Li G, Kong Z, Ran C, Gu Z, Ma Z. Pyramiding of Fusarium Head Blight Resistance Quantitative Trait Loci, Fhb1, Fhb4, and Fhb5, in Modern Chinese Wheat Cultivars. FRONTIERS IN PLANT SCIENCE 2021; 12:694023. [PMID: 34335661 PMCID: PMC8317056 DOI: 10.3389/fpls.2021.694023] [Citation(s) in RCA: 18] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/12/2021] [Accepted: 06/10/2021] [Indexed: 05/31/2023]
Abstract
Wheat production is increasingly threatened by the fungal disease, Fusarium head blight (FHB), caused by Fusarium spp. The introduction of resistant varieties is considered to be an effective measure for containment of this disease. Mapping of FHB-resistance quantitative trait locus (QTL) has promoted marker-assisted breeding for FHB resistance, which has been difficult through traditional breeding due to paucity of resistance genes and quantitative nature of the resistance. The lab of Ma previously cloned Fhb1, which inhibits FHB spread within spikes, and fine mapped Fhb4 and Fhb5, which condition resistance to initial infection of Fusarium spp., from FHB-resistant indigenous line Wangshuibai (WSB). In this study, these three QTLs were simultaneously introduced into five modern Chinese wheat cultivars or lines with different ecological adaptations through marker-assisted backcross in early generations. A total of 14 introgression lines were obtained. All these lines showed significantly improved resistance to the fungal infection and disease spread in 2-year field trials after artificial inoculation. In comparison with the respective recipient lines, the Fhb1, Fhb4, and Fhb5 pyramiding could reduce the disease severity by 95% and did not systematically affect plant height, productive tiller number, kernel number per spike, thousand grain weight, flowering time, and unit yield (without Fusarium inoculation). These results indicated the great value of FHB-resistance QTLs Fhb1, Fhb4, and Fhb5 derived from WSB, and the feasibility and effectiveness of early generation selection for FHB resistance solely based on linked molecular markers.
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Affiliation(s)
- Yiduo Zhang
- Crop Genomics and Bioinformatics Center, Nanjing Agricultural University, Nanjing, China
- National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, China
| | - Zibo Yang
- Huaiyin Institute of Agriculture Sciences of Xuhuai Region in Jiangsu, Huaian, China
| | - Haicai Ma
- Crop Genomics and Bioinformatics Center, Nanjing Agricultural University, Nanjing, China
- National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, China
| | - Liying Huang
- Crop Genomics and Bioinformatics Center, Nanjing Agricultural University, Nanjing, China
- National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, China
| | - Feng Ding
- Crop Genomics and Bioinformatics Center, Nanjing Agricultural University, Nanjing, China
- National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, China
| | - Yingying Du
- Huaiyin Institute of Agriculture Sciences of Xuhuai Region in Jiangsu, Huaian, China
| | - Haiyan Jia
- Crop Genomics and Bioinformatics Center, Nanjing Agricultural University, Nanjing, China
- National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, China
| | - Guoqiang Li
- Crop Genomics and Bioinformatics Center, Nanjing Agricultural University, Nanjing, China
- National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, China
| | - Zhongxin Kong
- Crop Genomics and Bioinformatics Center, Nanjing Agricultural University, Nanjing, China
- National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, China
| | - Congfu Ran
- Crop Genomics and Bioinformatics Center, Nanjing Agricultural University, Nanjing, China
- National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, China
| | - Zhengzhong Gu
- Huaiyin Institute of Agriculture Sciences of Xuhuai Region in Jiangsu, Huaian, China
| | - Zhengqiang Ma
- Crop Genomics and Bioinformatics Center, Nanjing Agricultural University, Nanjing, China
- National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, China
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18
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Taagen E, Tanaka J, Gul A, Sorrells ME. Positional-based cloning 'fail-safe' approach is overpowered by wheat chromosome structural variation. THE PLANT GENOME 2021; 14:e20106. [PMID: 34197040 DOI: 10.1002/tpg2.20106] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/25/2021] [Accepted: 04/19/2021] [Indexed: 06/13/2023]
Abstract
Positional-based cloning is a foundational method for understanding the genes and gene networks that control valuable agronomic traits such as grain yield components. In this study, we sought to positionally clone the causal genetic variant of a 1000-grain weight (TGW) quantitative trait loci (QTL) on wheat (Triticum aestivum L.) chromosome arm 5AL. We developed heterogenous inbred families (HIFs) (>5,000 plants) for enhanced genotypic resolution and fine-mapped the QTL to a 10-Mbp region. The transcriptome of developing grains from positive and negative control HIF haplotypes revealed presence-absence chromosome arm 5AS structural variation and unexpectedly no differential expression of genes within the chromosome arm 5AL candidate region. Evaluation of genomic, transcriptomic, and phenotypic data, and predicted function of genes, identified that the 5AL QTL was the result of strong linkage disequilibrium (LD) with chromosome arm 5AS presence or absence (HIF r2 = 0.91). Structural variation is common in wheat, and our results highlight that the redundant polyploid genome's masking of such variation is a significant barrier to positional cloning. We propose recommendations for more efficient and robust detection of structural variation, including transitioning from a single nucleotide polymorphism (SNP) to a haplotype-based approach to identify positional cloning targets. We also present nine candidate genes for grain yield components based on chromosome arm 5AS presence or absence, which may unveil hidden variation of homoeolog dosage-dependent genes across the group five chromosome short arms. Taken together, our discovery demonstrates the phenotypic resiliency of polyploid genomic structural variation and highlights a considerable challenge to routine positional cloning in wheat.
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Affiliation(s)
- Ella Taagen
- Plant Breeding and Genetics Section, School of Integrative Plant Science, Cornell University, Ithaca, NY, 14853, USA
| | - James Tanaka
- Plant Breeding and Genetics Section, School of Integrative Plant Science, Cornell University, Ithaca, NY, 14853, USA
| | - Alvina Gul
- Atta-ur-Rahman School of Applied Biosciences, National University of Sciences and Technology, Islamabad, Pakistan
| | - Mark E Sorrells
- Plant Breeding and Genetics Section, School of Integrative Plant Science, Cornell University, Ithaca, NY, 14853, USA
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19
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Buerstmayr M, Wagner C, Nosenko T, Omony J, Steiner B, Nussbaumer T, Mayer KFX, Buerstmayr H. Fusarium head blight resistance in European winter wheat: insights from genome-wide transcriptome analysis. BMC Genomics 2021; 22:470. [PMID: 34167474 PMCID: PMC8228913 DOI: 10.1186/s12864-021-07800-1] [Citation(s) in RCA: 13] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/22/2021] [Accepted: 06/07/2021] [Indexed: 12/24/2022] Open
Abstract
Background Fusarium head blight (FHB) is a devastating disease of wheat worldwide. Resistance to FHB is quantitatively controlled by the combined effects of many small to medium effect QTL. Flowering traits, especially the extent of extruded anthers, are strongly associated with FHB resistance. Results To characterize the genetic basis of FHB resistance, we generated and analyzed phenotypic and gene expression data on the response to Fusarium graminearum (Fg) infection in 96 European winter wheat genotypes, including several lines containing introgressions from the highly resistant Asian cultivar Sumai3. The 96 lines represented a broad range in FHB resistance and were assigned to sub-groups based on their phenotypic FHB severity score. Comparative analyses were conducted to connect sub-group-specific expression profiles in response to Fg infection with FHB resistance level. Collectively, over 12,300 wheat genes were Fusarium responsive. The core set of genes induced in response to Fg was common across different resistance groups, indicating that the activation of basal defense response mechanisms was largely independent of the resistance level of the wheat line. Fg-induced genes tended to have higher expression levels in more susceptible genotypes. Compared to the more susceptible non-Sumai3 lines, the Sumai3-derivatives demonstrated higher constitutive expression of genes associated with cell wall and plant-type secondary cell wall biogenesis and higher constitutive and Fg-induced expression of genes involved in terpene metabolism. Gene expression analysis of the FHB QTL Qfhs.ifa-5A identified a constitutively expressed gene encoding a stress response NST1-like protein (TraesCS5A01G211300LC) as a candidate gene for FHB resistance. NST1 genes are key regulators of secondary cell wall biosynthesis in anther endothecium cells. Whether the stress response NST1-like gene affects anther extrusion, thereby affecting FHB resistance, needs further investigation. Conclusion Induced and preexisting cell wall components and terpene metabolites contribute to resistance and limit fungal colonization early on. In contrast, excessive gene expression directs plant defense response towards programmed cell death which favors necrotrophic growth of the Fg pathogen and could thus lead to increased fungal colonization. Supplementary Information The online version contains supplementary material available at 10.1186/s12864-021-07800-1.
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Affiliation(s)
- Maria Buerstmayr
- University of Natural Resources and Life Sciences, Austria, Department of Agrobiotechnology - IFA Tulln, Institute of Biotechnology in Plant Production, Konrad Lorenz Str 20, Tulln, Austria.
| | - Christian Wagner
- University of Natural Resources and Life Sciences, Austria, Department of Agrobiotechnology - IFA Tulln, Institute of Biotechnology in Plant Production, Konrad Lorenz Str 20, Tulln, Austria
| | - Tetyana Nosenko
- Helmholtz Zentrum München, Germany, PGSB Plant Genome and Systems Biology, German Research Center for Environmental Health, Neuherberg, Germany.,Helmholtz Zentrum München, Germany, Research Unit Environmental Simulation (EUS) at the Institute of Biochemical Plant Pathology (BIOP), Ingolstädter Landstraße 1, 85764, Neuherberg, Germany
| | - Jimmy Omony
- Helmholtz Zentrum München, Germany, PGSB Plant Genome and Systems Biology, German Research Center for Environmental Health, Neuherberg, Germany.,Helmholtz Zentrum München, Germany, Institut für Asthma- und Allergieprävention (IAP), Deutsches Forschungszentrum für Gesundheit und Umwelt (GmbH), Munich, Germany
| | - Barbara Steiner
- University of Natural Resources and Life Sciences, Austria, Department of Agrobiotechnology - IFA Tulln, Institute of Biotechnology in Plant Production, Konrad Lorenz Str 20, Tulln, Austria
| | - Thomas Nussbaumer
- Helmholtz Zentrum München, Germany, Institute of Network Biology (INET), Ingolstädter Landstraße 1, 85764, Neuherberg, Germany.,Helmholtz Zentrum München, Germany, Institute of Environmental Medicine UNIKA-T, Technical University and Helmholtz Zentrum München, Augsburg, Germany
| | - Klaus F X Mayer
- Helmholtz Zentrum München, Germany, PGSB Plant Genome and Systems Biology, German Research Center for Environmental Health, Neuherberg, Germany
| | - Hermann Buerstmayr
- University of Natural Resources and Life Sciences, Austria, Department of Agrobiotechnology - IFA Tulln, Institute of Biotechnology in Plant Production, Konrad Lorenz Str 20, Tulln, Austria
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20
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Colasuonno P, Marcotuli I, Gadaleta A, Soriano JM. From Genetic Maps to QTL Cloning: An Overview for Durum Wheat. PLANTS (BASEL, SWITZERLAND) 2021; 10:315. [PMID: 33562160 PMCID: PMC7914919 DOI: 10.3390/plants10020315] [Citation(s) in RCA: 20] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 01/11/2021] [Revised: 01/26/2021] [Accepted: 02/02/2021] [Indexed: 12/17/2022]
Abstract
Durum wheat is one of the most important cultivated cereal crops, providing nutrients to humans and domestic animals. Durum breeding programs prioritize the improvement of its main agronomic traits; however, the majority of these traits involve complex characteristics with a quantitative inheritance (quantitative trait loci, QTL). This can be solved with the use of genetic maps, new molecular markers, phenotyping data of segregating populations, and increased accessibility to sequences from next-generation sequencing (NGS) technologies. This allows for high-density genetic maps to be developed for localizing candidate loci within a few Kb in a complex genome, such as durum wheat. Here, we review the identified QTL, fine mapping, and cloning of QTL or candidate genes involved in the main traits regarding the quality and biotic and abiotic stresses of durum wheat. The current knowledge on the used molecular markers, sequence data, and how they changed the development of genetic maps and the characterization of QTL is summarized. A deeper understanding of the trait architecture useful in accelerating durum wheat breeding programs is envisioned.
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Affiliation(s)
- Pasqualina Colasuonno
- Department of Agricultural and Environmental Science, University of Bari ‘Aldo Moro’, Via G. Amendola 165/A, 70126 Bari, Italy; (P.C.); (I.M.)
| | - Ilaria Marcotuli
- Department of Agricultural and Environmental Science, University of Bari ‘Aldo Moro’, Via G. Amendola 165/A, 70126 Bari, Italy; (P.C.); (I.M.)
| | - Agata Gadaleta
- Department of Agricultural and Environmental Science, University of Bari ‘Aldo Moro’, Via G. Amendola 165/A, 70126 Bari, Italy; (P.C.); (I.M.)
| | - Jose Miguel Soriano
- Sustainable Field Crops Programme, IRTA (Institute for Food and Agricultural Research and Technology), 25198 Lleida, Spain
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21
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Fabre F, Urbach S, Roche S, Langin T, Bonhomme L. Proteomics-Based Data Integration of Wheat Cultivars Facing Fusarium graminearum Strains Revealed a Core-Responsive Pattern Controlling Fusarium Head Blight. FRONTIERS IN PLANT SCIENCE 2021; 12:644810. [PMID: 34135919 PMCID: PMC8201412 DOI: 10.3389/fpls.2021.644810] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/21/2020] [Accepted: 04/07/2021] [Indexed: 05/03/2023]
Abstract
Fusarium head blight (FHB), mainly occurring upon Fusarium graminearum infection in a wide variety of small-grain cereals, is supposed to be controlled by a range of processes diverted by the fungal pathogen, the so-called susceptibility factors. As a mean to provide relevant information about the molecular events involved in FHB susceptibility in bread wheat, we studied an extensive proteome of more than 7,900 identified wheat proteins in three cultivars of contrasting susceptibilities during their interaction with three F. graminearum strains of different aggressiveness. No cultivar-specific proteins discriminated the three wheat genotypes, demonstrating the establishment of a core proteome regardless of unequivocal FHB susceptibility differences. Quantitative protein analysis revealed that most of the FHB-induced molecular adjustments were shared by wheat cultivars and occurred independently of the F. graminearum strain aggressiveness. Although subtle abundance changes evidenced genotype-dependent responses to FHB, cultivar distinction was found to be mainly due to basal abundance differences, especially regarding the chloroplast functions. Integrating these data with previous proteome mapping of the three F. graminearum strains facing the three same wheat cultivars, we demonstrated strong correlations between the wheat protein abundance changes and the adjustments of fungal proteins supposed to interfere with host molecular functions. Together, these results provide a resourceful dataset that expands our understanding of the specific molecular events taking place during the wheat-F. graminearum interaction.
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Affiliation(s)
- Francis Fabre
- Université Clermont Auvergne, INRAE, UMR 1095 Génétique Diversité Ecophysiologie des Céréales, Clermont-Ferrand, France
| | - Serge Urbach
- Institut de Génomique Fonctionnelle, Université de Montpellier, CNRS, INSERM, Montpellier, France
| | - Sylvie Roche
- INRAE, Unité Experimentale 1375, Phénotypage au Champ des Céréales (PHACC), Clermont-Ferrand, France
| | - Thierry Langin
- Université Clermont Auvergne, INRAE, UMR 1095 Génétique Diversité Ecophysiologie des Céréales, Clermont-Ferrand, France
| | - Ludovic Bonhomme
- Université Clermont Auvergne, INRAE, UMR 1095 Génétique Diversité Ecophysiologie des Céréales, Clermont-Ferrand, France
- *Correspondence: Ludovic Bonhomme,
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22
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Adhikari A, Basnet BR, Crossa J, Dreisigacker S, Camarillo F, Bhati PK, Jarquin D, Manes Y, Ibrahim AMH. Genome-Wide Association Mapping and Genomic Prediction of Anther Extrusion in CIMMYT Hybrid Wheat Breeding Program via Modeling Pedigree, Genomic Relationship, and Interaction With the Environment. Front Genet 2020; 11:586687. [PMID: 33363570 PMCID: PMC7755068 DOI: 10.3389/fgene.2020.586687] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/23/2020] [Accepted: 10/13/2020] [Indexed: 11/13/2022] Open
Abstract
Anther extrusion (AE) is the most important male floral trait for hybrid wheat seed production. AE is a complex quantitative trait that is difficult to phenotype reliably in field experiments not only due to high genotype-by-environment effects but also due to the short expression window in the field condition. In this study, we conducted a genome-wide association scan (GWAS) and explored the possibility of applying genomic prediction (GP) for AE in the CIMMYT hybrid wheat breeding program. An elite set of male lines (n = 603) were phenotype for anther count (AC) and anther visual score (VS) across three field experiments in 2017–2019 and genotyped with the 20K Infinitum is elect SNP array. GWAS produced five marker trait associations with small effects. For GP, the main effects of lines (L), environment (E), genomic (G) and pedigree relationships (A), and their interaction effects with environments were used to develop seven statistical models of incremental complexity. The base model used only L and E, whereas the most complex model included L, E, G, A, and G × E and A × E. These models were evaluated in three cross-validation scenarios (CV0, CV1, and CV2). In cross-validation CV0, data from two environments were used to predict an untested environment; in random cross-validation CV1, the test set was never evaluated in any environment; and in CV2, the genotypes in the test set were evaluated in only a subset of environments. The prediction accuracies ranged from −0.03 to 0.74 for AC and −0.01 to 0.54 for VS across different models and CV schemes. For both traits, the highest prediction accuracies with low variance were observed in CV2, and inclusion of the interaction effects increased prediction accuracy for AC only. In CV0, the prediction accuracy was 0.73 and 0.45 for AC and VS, respectively, indicating the high reliability of across environment prediction. Genomic prediction appears to be a very reliable tool for AE in hybrid wheat breeding. Moreover, high prediction accuracy in CV0 demonstrates the possibility of implementing genomic selection across breeding cycles in related germplasm, aiding the rapid breeding cycle.
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Affiliation(s)
- Anil Adhikari
- Texas A&M University, College Station, TX, United States.,Department of Horticulture, University of Wisconsin, Madison, WI, United States
| | - Bhoja Raj Basnet
- International Maize and Wheat Improvement Center (CIMMYT), Texcoco, Mexico
| | - Jose Crossa
- International Maize and Wheat Improvement Center (CIMMYT), Texcoco, Mexico
| | | | - Fatima Camarillo
- International Maize and Wheat Improvement Center (CIMMYT), Texcoco, Mexico
| | | | - Diego Jarquin
- Department of Agronomy and Horticulture, University of Nebraska, Lincoln, NE, United States
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23
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Updating the Breeding Philosophy of Wheat to Fusarium Head Blight (FHB): Resistance Components, QTL Identification, and Phenotyping-A Review. PLANTS 2020; 9:plants9121702. [PMID: 33287353 PMCID: PMC7761804 DOI: 10.3390/plants9121702] [Citation(s) in RCA: 25] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/21/2020] [Revised: 11/29/2020] [Accepted: 11/30/2020] [Indexed: 01/09/2023]
Abstract
Fusarium head blight has posed continuous risks to wheat production worldwide due to its effects on yield, and the fungus provides additional risks with production of toxins. Plant resistance is thought to be the most powerful method. The host plant resistance is complex, Types I–V were reported. From the time of spraying inoculation (Type I), all resistance types can be identified and used to determine the total resistance. Type II resistance (at point inoculation) describes the spread of head blight from the ovary to the other parts of the head. Therefore, it cannot solve the resistance problem alone. Type II QTL (quantitative trait locus) Fhb1 on 3BS from Sumai 3 descendant CM82036 secures about the same resistance level as Type I QTL does on 5AS and 5ASc in terms of visual symptoms, FDK (Fusarium damaged kernel), and deoxynivalenol response. Recently, increasing evidence supports the association of deoxynivalenol (DON) content and low kernel infection with FHB (Fusarium head blight) resistance (Types III and IV), as QTL for individual resistance types has been identified. In plant breeding practice, the role of visual selection remains vital, but the higher correlations for FDK/DON make it possible to select low-DON genotypes via FDK value. For phenotyping, the use of more independent inocula (isolates or mixtures) makes resistance evaluation more reliable. The large heterogeneity of the mapping populations is a serious source of underestimating genetic effects. Therefore, the increasing of homogeneity is a necessity. As no wheat varieties exist with full resistance to FHB, crops must be supported by proper agronomy and fungicide use.
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24
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Zhang W, Boyle K, Brûlé-Babel AL, Fedak G, Gao P, Robleh Djama Z, Polley B, Cuthbert RD, Randhawa HS, Jiang F, Eudes F, Fobert PR. Genetic Characterization of Multiple Components Contributing to Fusarium Head Blight Resistance of FL62R1, a Canadian Bread Wheat Developed Using Systemic Breeding. FRONTIERS IN PLANT SCIENCE 2020; 11:580833. [PMID: 33193525 PMCID: PMC7649146 DOI: 10.3389/fpls.2020.580833] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/07/2020] [Accepted: 09/16/2020] [Indexed: 05/07/2023]
Abstract
Fusarium head blight (FHB) is a devastating fungal disease of small-grain cereals that results in severe yield and quality losses. FHB resistance is controlled by resistance components including incidence, field severity, visual rating index, Fusarium damaged kernels (FDKs), and the accumulation of the mycotoxin deoxynivalenol (DON). Resistance conferred by each of these components is partial and must be combined to achieve resistance sufficient to protect wheat from yield losses. In this study, two biparental mapping populations were analyzed in Canadian FHB nurseries and quantitative trait loci (QTL) mapped for the traits listed above. Nine genomic loci, on 2AS, 2BS, 3BS, 4AS, 4AL, 4BS, 5AS, 5AL, and 5BL, were enriched for the majority of the QTL controlling FHB resistance. The previously validated FHB resistance QTL on 3BS and 5AS affected resistance to severity, FDK, and DON in these populations. The remaining seven genomic loci colocalize with flowering time and/or plant height QTL. The QTL on 4B was a major contributor to all field resistance traits and plant height in the field. QTL on 4AL showed contrasting effects for FHB resistance between Eastern and Western Canada, indicating a local adapted resistance to FHB. In addition, we also found that the 2AS QTL contributed a major effect for DON, and the 2BS for FDK, while the 5AL conferred mainly effect for both FDK/DON. Results presented here provide insight into the genetic architecture underlying these resistant components and insight into how FHB resistance in wheat is controlled by a complex network of interactions between genes controlling flowering time, plant height, local adaption, and FHB resistance components.
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Affiliation(s)
- Wentao Zhang
- Aquatic and Crop Resources Development, National Research Council of Canada, Saskatoon, SK, Canada
| | - Kerry Boyle
- Aquatic and Crop Resources Development, National Research Council of Canada, Saskatoon, SK, Canada
| | | | - George Fedak
- Ottawa Research and Development Centre, Agriculture and Agri-Food Canada, Ottawa, ON, Canada
| | - Peng Gao
- Aquatic and Crop Resources Development, National Research Council of Canada, Saskatoon, SK, Canada
| | - Zeinab Robleh Djama
- Ottawa Research and Development Centre, Agriculture and Agri-Food Canada, Ottawa, ON, Canada
- Aquatic and Crop Resources Development, National Research Council of Canada, Ottawa, ON, Canada
| | - Brittany Polley
- Aquatic and Crop Resources Development, National Research Council of Canada, Saskatoon, SK, Canada
| | - Richard D. Cuthbert
- Swift Current Research and Development Centre, Agriculture and Agri-Food Canada, Swift Current, SK, Canada
| | - Harpinder S. Randhawa
- Lethbridge Research and Development Centre, Agriculture and Agri-Food Canada, Lethbridge, AB, Canada
| | - Fengying Jiang
- Lethbridge Research and Development Centre, Agriculture and Agri-Food Canada, Lethbridge, AB, Canada
| | - François Eudes
- Lethbridge Research and Development Centre, Agriculture and Agri-Food Canada, Lethbridge, AB, Canada
| | - Pierre R. Fobert
- Aquatic and Crop Resources Development, National Research Council of Canada, Saskatoon, SK, Canada
- Aquatic and Crop Resources Development, National Research Council of Canada, Ottawa, ON, Canada
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25
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Thambugala D, Brûlé-Babel AL, Blackwell BA, Fedak G, Foster AJ, MacEachern D, Gilbert J, Henriquez MA, Martin RA, McCallum BD, Spaner D, Iqbal M, Pozniak CJ, N'Diaye A, McCartney CA. Genetic analyses of native Fusarium head blight resistance in two spring wheat populations identifies QTL near the B1, Ppd-D1, Rht-1, Vrn-1, Fhb1, Fhb2, and Fhb5 loci. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2020; 133:2775-2796. [PMID: 32556394 DOI: 10.1007/s00122-020-03631-y] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/18/2019] [Accepted: 06/02/2020] [Indexed: 06/11/2023]
Abstract
QTL analyses of two bi-parental mapping populations with AC Barrie as a parent revealed numerous FHB-resistance QTL unique to each population and uncovered novel variation near Fhb1. Fusarium head blight (FHB) is a destructive disease of wheat worldwide, leading to severe yield and quality losses. The genetic basis of native FHB resistance was examined in two populations: a recombinant inbred line population from the cross Cutler/AC Barrie and a doubled haploid (DH) population from the cross AC Barrie/Reeder. Numerous QTL were detected among the two mapping populations with many being cross-specific. Photoperiod insensitivity at Ppd-D1 and dwarfing at Rht-B1 and Rht-D1 was associated with increased FHB susceptibility. Anthesis date QTL at or near the Vrn-A1 and Vrn-B1 loci co-located with major FHB-resistance QTL in the AC Barrie/Reeder population. The loci were epistatic for both traits, such that DH lines with both late alleles were considerably later to anthesis and had reduced FHB symptoms (i.e., responsible for the epistatic interaction). Interestingly, AC Barrie contributed FHB resistance near the Fhb1 locus in the Cutler population and susceptibility in the Reeder population. Analyses of the Fhb1 candidate genes PFT and TaHRC confirmed that AC Barrie, Cutler, and Reeder do not carry the Sumai-3 Fhb1 gene. Resistance QTL were also detected at the expected locations of Fhb2 and Fhb5. The native FHB-resistance QTL detected near Fhb1, Fhb2, and Fhb5 do not appear to be as effective as Fhb1, Fhb2, and Fhb5 from Sumai-3. The presence of awns segregated at the B1 awn inhibitor locus in both populations, but was only associated with FHB resistance in the Cutler/AC Barrie population suggesting linkage caused the association rather than pleiotropy.
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Affiliation(s)
- Dinushika Thambugala
- Morden Research and Development Centre, Agriculture and Agri-Food Canada, Morden, MB, R6M 1Y5, Canada
| | - Anita L Brûlé-Babel
- Department of Plant Science, University of Manitoba, Winnipeg, MB, R3T 2N2, Canada
| | - Barbara A Blackwell
- Ottawa Research and Development Centre, Agriculture and Agri-Food Canada, Ottawa, ON, K1A 0C6, Canada
| | - George Fedak
- Ottawa Research and Development Centre, Agriculture and Agri-Food Canada, Ottawa, ON, K1A 0C6, Canada
| | - Adam J Foster
- Charlottetown Research and Development Centre, Agriculture and Agri-Food Canada, Charlottetown, PEI, C1A 4N6, Canada
| | - Dan MacEachern
- Charlottetown Research and Development Centre, Agriculture and Agri-Food Canada, Charlottetown, PEI, C1A 4N6, Canada
| | - Jeannie Gilbert
- Morden Research and Development Centre, Agriculture and Agri-Food Canada, Morden, MB, R6M 1Y5, Canada
| | - Maria Antonia Henriquez
- Morden Research and Development Centre, Agriculture and Agri-Food Canada, Morden, MB, R6M 1Y5, Canada
| | - Richard A Martin
- Charlottetown Research and Development Centre, Agriculture and Agri-Food Canada, Charlottetown, PEI, C1A 4N6, Canada
| | - Brent D McCallum
- Morden Research and Development Centre, Agriculture and Agri-Food Canada, Morden, MB, R6M 1Y5, Canada
| | - Dean Spaner
- Faculty of Agricultural, Life and Environmental Sciences, University of Alberta, Edmonton, AB, T6G 2P5, Canada
| | - Muhammad Iqbal
- Faculty of Agricultural, Life and Environmental Sciences, University of Alberta, Edmonton, AB, T6G 2P5, Canada
| | - Curtis J Pozniak
- Crop Development Centre, University of Saskatchewan, Saskatoon, SK, S7N 5A8, Canada
| | - Amidou N'Diaye
- Crop Development Centre, University of Saskatchewan, Saskatoon, SK, S7N 5A8, Canada
| | - Curt A McCartney
- Morden Research and Development Centre, Agriculture and Agri-Food Canada, Morden, MB, R6M 1Y5, Canada.
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26
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Carmack WJ, Clark A, Dong Y, Brown-Guedira G, Van Sanford D. Optical Sorter-Based Selection Effectively Identifies Soft Red Winter Wheat Breeding Lines With Fhb1 and Enhances FHB Resistance in Lines With and Without Fhb1. FRONTIERS IN PLANT SCIENCE 2020; 11:1318. [PMID: 32983207 PMCID: PMC7479218 DOI: 10.3389/fpls.2020.01318] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 03/22/2020] [Accepted: 08/11/2020] [Indexed: 06/11/2023]
Abstract
Previous results from our lab have shown that using an optical sorter to identify Fusarium head blight (FHB) resistant breeding lines was effective at reducing the toxin deoxynivalenol (DON) and FHB-associated kernel damage. In this paper we quantified the proportion of desirable genotypes at FHB resistance QTL in lines from three selection cycles of optical sorting. Breeding lines were genotyped at loci on chromosomes 3BS, 2DL, and 5A using the following DNA markers: TaHRC, CFD233, and GWM304. TaHRC is a KASP marker for Fhb1, a major FHB resistance QTL on chromosome 3BS. CFD233 is an SSR marker for Qfhs.nau-2DL on chromosome 2DL. GWM304 is an SSR marker for Qfhs.ifa-5A on chromosome 5A. Sorter selection was effective at identifying lines that had the resistant genotype at TaHRC; in other words, the sorter was able to identify lines with resistance alleles at Fhb1. The sorter was less effective at selecting for the resistant genotype at CFD233 and GWM304. However, the proportion of lines with resistant genotypes at GWM304 did increase with additional sorter selection, just not to the degree that was observed for the Fhb1-associated marker. The proportion of lines with resistant alleles at CFD233 did not show a consistent trend. In addition to increasing the proportion of lines with Fhb1 and Qfhs.ifa-5A each selection cycle, optical sorter-based mass selection enhanced FHB resistance in different marker genotype combinations evaluated in this study. For example, there were net reductions in DON and kernel damage after two cycles of sorter selection in 15X110601S07002, a line with Fhb1, with Qfhs.nau-2DL, and with Qfhs.ifa-5A; final C3 DON levels were 63% of the resistant check (KY02C-3005-25). Kernel damage was also reduced in 15X110601A08221 a line without Fhb1, without Qfhs.nau-2DL, and without Qfhs.ifa-5A. Our findings suggest the increased resistance observed in different marker genotype combinations was conferred by QTL other than Fhb1, QFhs.nau-2DL, and Qfhs.ifa-5, and validate our previous results that the optical sorter is effective at selecting FHB-resistant breeding material.
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Affiliation(s)
- W. Jesse Carmack
- Department of Plant and Soil Science, University of Kentucky, Lexington, KY, United States
| | - Anthony Clark
- Department of Plant and Soil Science, University of Kentucky, Lexington, KY, United States
| | - Yanhong Dong
- Department of Plant Pathology, University of Minnesota, St. Paul, MN, United States
| | - Gina Brown-Guedira
- Plant Science Research Unit, USDA-Agricultural Research Service, Raleigh, NC, United States
| | - David Van Sanford
- Department of Plant and Soil Science, University of Kentucky, Lexington, KY, United States
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27
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Borghi M, Fernie AR. Outstanding questions in flower metabolism. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2020; 103:1275-1288. [PMID: 32410253 DOI: 10.1111/tpj.14814] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/13/2020] [Revised: 04/29/2020] [Accepted: 05/05/2020] [Indexed: 06/11/2023]
Abstract
The great diversity of flowers, their color, odor, taste, and shape, is mostly a result of the metabolic processes that occur in this reproductive organ when the flower and its tissues develop, grow, and finally die. Some of these metabolites serve to advertise flowers to animal pollinators, other confer protection towards abiotic stresses, and a large proportion of the molecules of the central metabolic pathways have bioenergetic and signaling functions that support growth and the transition to fruits and seeds. Although recent studies have advanced our general understanding of flower metabolism, several questions still await an answer. Here, we have compiled a list of open questions on flower metabolism encompassing molecular aspects, as well as topics of relevance for agriculture and the ecosystem. These questions include the study of flower metabolism through development, the biochemistry of nectar and its relevance to promoting plant-pollinator interaction, recycling of metabolic resources after flowers whiter and die, as well as the manipulation of flower metabolism by pathogens. We hope with this review to stimulate discussion on the topic of flower metabolism and set a reference point to return to in the future when assessing progress in the field.
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Affiliation(s)
- Monica Borghi
- Max Planck Institute of Molecular Plant Physiology, Am Mühlenberg 1, Potsdam, 14476, Germany
| | - Alisdair R Fernie
- Max Planck Institute of Molecular Plant Physiology, Am Mühlenberg 1, Potsdam, 14476, Germany
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28
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Castro Aviles A, Alan Harrison S, Joseph Arceneaux K, Brown-Guidera G, Esten Mason R, Baisakh N. Identification of QTLs for Resistance to Fusarium Head Blight Using a Doubled Haploid Population Derived from Southeastern United States Soft Red Winter Wheat Varieties AGS 2060 and AGS 2035. Genes (Basel) 2020; 11:genes11060699. [PMID: 32630440 PMCID: PMC7349885 DOI: 10.3390/genes11060699] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/26/2020] [Revised: 06/22/2020] [Accepted: 06/23/2020] [Indexed: 02/07/2023] Open
Abstract
Fusarium head blight (FHB), caused primarily by the fungus Fusarium graminearum, is one of the most damaging diseases of wheat, causing significant loss of yield and quality worldwide. Warm and wet conditions during flowering, a lack of resistant wheat varieties, and high inoculum pressure from corn stubble contribute to frequent FHB epidemics in the southern United States. The soft red winter wheat variety AGS 2060 is moderately susceptible (as opposed to susceptible) to FHB and regularly found in pedigrees of resistant breeding lines. AGS 2060 does not carry any known resistance genes or quantitative trait loci (QTL). A QTL mapping study was conducted to determine the location and genetic effect of its resistance using a doubled haploid mapping population produced from a cross between wheat varieties AGS 2060 and AGS 2035 (FHB susceptible). The population was genotyped using the Illumina iSelect single nucleotide polymorphism (SNP) array for wheat and phenotyped in Baton Rouge and Winnsboro, Louisiana and Newport, Arkansas in 2018 and 2019. The effect of genotype was significant for Fusarium damaged kernels (FDK) and deoxynivalenol (DON) content across all locations and years, indicating genetic variation in the population. The study detected 13 QTLs (one each on chromosome 1A, 1B, 1D, 2A, 2B, 6A, 6B, 7A, and 7B, and two each on 5A and 5B) responsible for the reduction of FDK and/or DON. Of these, nine QTLs for FHB resistance were identified in Winnsboro, Louisiana, in 2019. QTLs on chromosomes 2A and 7A could be valuable sources of resistance to both DON and FDK over several environments and were likely the best candidates for use in marker-assisted selection. Consistently expressed QTLs on chromosomes 5A, 6B, and 7A were potentially newly identified sources of resistance to FHB in soft red winter wheat.
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Affiliation(s)
- Alejandro Castro Aviles
- School of Plant, Environmental and Soil Sciences, Louisiana State University Agricultural Center, Baton Rouge, LA 70803, USA; (A.C.A.); (S.A.H.); (K.J.A.)
| | - Stephen Alan Harrison
- School of Plant, Environmental and Soil Sciences, Louisiana State University Agricultural Center, Baton Rouge, LA 70803, USA; (A.C.A.); (S.A.H.); (K.J.A.)
| | - Kelly Joseph Arceneaux
- School of Plant, Environmental and Soil Sciences, Louisiana State University Agricultural Center, Baton Rouge, LA 70803, USA; (A.C.A.); (S.A.H.); (K.J.A.)
| | | | - Richard Esten Mason
- Crop, Soil and Environmental Science, University of Arkansas, Fayetteville, AR 72701, USA;
| | - Niranjan Baisakh
- School of Plant, Environmental and Soil Sciences, Louisiana State University Agricultural Center, Baton Rouge, LA 70803, USA; (A.C.A.); (S.A.H.); (K.J.A.)
- Correspondence:
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29
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Sari E, Knox RE, Ruan Y, Henriquez MA, Kumar S, Burt AJ, Cuthbert RD, Konkin DJ, Walkowiak S, Campbell HL, Singh AK, Ross J, Lokuruge P, Hsueh E, Boyle K, Sidebottom C, Condie J, Yates S, Pozniak CJ, Fobert PR. Historic recombination in a durum wheat breeding panel enables high-resolution mapping of Fusarium head blight resistance quantitative trait loci. Sci Rep 2020; 10:7567. [PMID: 32372012 PMCID: PMC7200731 DOI: 10.1038/s41598-020-64399-1] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/20/2020] [Accepted: 04/15/2020] [Indexed: 11/09/2022] Open
Abstract
The durum wheat line DT696 is a source of moderate Fusarium head blight (FHB) resistance. Previous analysis using a bi-parental population identified two FHB resistance quantitative trait loci (QTL) on chromosome 5A: 5A1 was co-located with a plant height QTL, and 5A2 with a major maturity QTL. A Genome-Wide Association Study (GWAS) of DT696 derivative lines from 72 crosses based on multi-environment FHB resistance, plant height, and maturity phenotypic data was conducted to improve the mapping resolution and further elucidate the genetic relationship of height and maturity with FHB resistance. The Global Tetraploid Wheat Collection (GTWC) was exploited to identify durum wheat lines with DT696 allele and additional recombination events. The 5A2 QTL was confirmed in the derivatives, suggesting the expression stability of the 5A2 QTL in various genetic backgrounds. The GWAS led to an improved mapping resolution rendering the 5A2 interval 10 Mbp shorter than the bi-parental QTL mapping interval. Haplotype analysis using SNPs within the 5A2 QTL applied to the GTWC identified novel haplotypes and recombination breakpoints, which could be exploited for further improvement of the mapping resolution. This study suggested that GWAS of derivative breeding lines is a credible strategy for improving mapping resolution.
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Affiliation(s)
- Ehsan Sari
- Aquatic and Crop Resource Development Centre, National Research Council, Saskatoon, SK, Canada.,Department of Plant Sciences, University of Saskatchewan, Saskatoon, SK, Canada
| | - Ron E Knox
- Swift Current Research and Development Centre, Agriculture and Agri-Food Canada, Swift Current, SK, Canada.
| | - Yuefeng Ruan
- Swift Current Research and Development Centre, Agriculture and Agri-Food Canada, Swift Current, SK, Canada.
| | - Maria Antonia Henriquez
- Morden Research and Development Centre, Agriculture and Agri-Food Canada, Morden, MB, Canada
| | - Santosh Kumar
- Brandon Research and Development Centre, Agriculture and Agri-Food Canada, Brandon, MB, Canada
| | - Andrew J Burt
- Ottawa Research and Development Centre, Agriculture and Agri-Food Canada, Ottawa, ON, Canada
| | - Richard D Cuthbert
- Swift Current Research and Development Centre, Agriculture and Agri-Food Canada, Swift Current, SK, Canada
| | - David J Konkin
- Aquatic and Crop Resource Development Centre, National Research Council, Saskatoon, SK, Canada
| | - Sean Walkowiak
- Department of Plant Sciences, University of Saskatchewan, Saskatoon, SK, Canada.,Canadian Grain Commission, Winnipeg, MB, Canada
| | - Heather L Campbell
- Swift Current Research and Development Centre, Agriculture and Agri-Food Canada, Swift Current, SK, Canada
| | - Asheesh K Singh
- Department of Agronomy, Iowa State University, Ames, Iowa, United States of America
| | - Jay Ross
- Swift Current Research and Development Centre, Agriculture and Agri-Food Canada, Swift Current, SK, Canada
| | - Prabhath Lokuruge
- Swift Current Research and Development Centre, Agriculture and Agri-Food Canada, Swift Current, SK, Canada
| | - Emma Hsueh
- Aquatic and Crop Resource Development Centre, National Research Council, Saskatoon, SK, Canada
| | - Kerry Boyle
- Aquatic and Crop Resource Development Centre, National Research Council, Saskatoon, SK, Canada
| | - Christine Sidebottom
- Aquatic and Crop Resource Development Centre, National Research Council, Saskatoon, SK, Canada
| | - Janet Condie
- Aquatic and Crop Resource Development Centre, National Research Council, Saskatoon, SK, Canada
| | - Shawn Yates
- Swift Current Research and Development Centre, Agriculture and Agri-Food Canada, Swift Current, SK, Canada
| | - Curtis J Pozniak
- Department of Plant Sciences, University of Saskatchewan, Saskatoon, SK, Canada
| | - Pierre R Fobert
- Aquatic and Crop Resource Development Centre, National Research Council, Ottawa, ON, Canada
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30
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Ma Z, Xie Q, Li G, Jia H, Zhou J, Kong Z, Li N, Yuan Y. Germplasms, genetics and genomics for better control of disastrous wheat Fusarium head blight. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2020; 133:1541-1568. [PMID: 31900498 DOI: 10.1007/s00122-019-03525-8] [Citation(s) in RCA: 74] [Impact Index Per Article: 18.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/29/2019] [Accepted: 12/23/2019] [Indexed: 05/20/2023]
Abstract
Fusarium head blight (FHB), or scab, for its devastating nature to wheat production and food security, has stimulated worldwide attention. Multidisciplinary efforts have been made to fight against FHB for a long time, but the great progress has been achieved only in the genomics era of the past 20 years, particularly in the areas of resistance gene/QTL discovery, resistance mechanism elucidation and molecular breeding for better resistance. This review includes the following nine main sections, (1) FHB incidence, epidemic and impact, (2) causal Fusarium species, distribution and virulence, (3) types of host resistance to FHB, (4) germplasm exploitation for FHB resistance, (5) genetic control of FHB resistance, (6) fine mapping of Fhb1, Fhb2, Fhb4 and Fhb5, (7) cloning of Fhb1, (8) omics-based gene discovery and resistance mechanism study and (9) breeding for better FHB resistance. The advancements that have been made are outstanding and exciting; however, judged by the complicated nature of resistance to hemi-biotrophic pathogens like Fusarium species and lack of immune germplasm, it is still a long way to go to overcome FHB.
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Affiliation(s)
- Zhengqiang Ma
- Crop Genomics and Bioinformatics Center and National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, Jiangsu, China.
| | - Quan Xie
- Crop Genomics and Bioinformatics Center and National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, Jiangsu, China
| | - Guoqiang Li
- Crop Genomics and Bioinformatics Center and National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, Jiangsu, China
| | - Haiyan Jia
- Crop Genomics and Bioinformatics Center and National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, Jiangsu, China
| | - Jiyang Zhou
- Crop Genomics and Bioinformatics Center and National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, Jiangsu, China
| | - Zhongxin Kong
- Crop Genomics and Bioinformatics Center and National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, Jiangsu, China
| | - Na Li
- Crop Genomics and Bioinformatics Center and National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, Jiangsu, China
| | - Yang Yuan
- Crop Genomics and Bioinformatics Center and National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, Jiangsu, China
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Abstract
Mycotoxins are secondary metabolites of microscopic fungi, which commonly contaminate cereal grains. Contamination of small-grain cereals and maize with toxic metabolites of fungi, both pathogenic and saprotrophic, is one of the particularly important problems in global agriculture. Fusarium species are among the dangerous cereal pathogens with a high toxicity potential. Secondary metabolites of these fungi, such as deoxynivalenol, zearalenone and fumonisin B1 are among five most important mycotoxins on a European and world scale. The use of various methods to limit the development of Fusarium cereal head diseases and grain contamination with mycotoxins, before and after harvest, is an important element of sustainable agriculture and production of safe food. The applied strategies utilize chemical and non-chemical methods, including agronomic, physical and biological treatments. Biological methods now occupy a special place in plant protection as an element of biocontrol of fungal pathogens by inhibiting their development and reducing mycotoxins in grain. According to the literature, Good Agricultural Practices are the best line of defense for controlling Fusarium toxin contamination of cereal and maize grains. However, fluctuations in weather conditions can significantly reduce the effectiveness of plants protection methods against infection with Fusarium spp. and grain accumulation of mycotoxins.
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32
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Khan MK, Pandey A, Athar T, Choudhary S, Deval R, Gezgin S, Hamurcu M, Topal A, Atmaca E, Santos PA, Omay MR, Suslu H, Gulcan K, Inanc M, Akkaya MS, Kahraman A, Thomas G. Fusarium head blight in wheat: contemporary status and molecular approaches. 3 Biotech 2020; 10:172. [PMID: 32206506 PMCID: PMC7080935 DOI: 10.1007/s13205-020-2158-x] [Citation(s) in RCA: 40] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/04/2019] [Accepted: 02/28/2020] [Indexed: 02/07/2023] Open
Abstract
Fusarium head blight (FHB) disease that occurs in wheat is caused by Fusarium graminearum and is a major risk to wheat yield. Although several research efforts focusing on FHB have been conducted in the past several decades, conditions have become more critical due to the increase in its virulent forms. In such a scenario, conferring complete resistance in plants seems to be difficult for handling this issue. The phenotyping for FHB and finding a solution for it at the genetic level comprises a long-term process as FHB infection is largely affected by environmental conditions. Modern molecular strategies have played a crucial role in revealing the host-pathogen interaction in FHB. The integration of molecular biology-based methods such as genome-wide association studies and marker-based genomic selection has provided potential cultivars for breeding programs. In this review, we aim at outlining the contemporary status of the studies conducted on FHB in wheat. The influence of FHB in wheat on animals and human health is also discussed. In addition, a summary of the advancement in the molecular technologies for identifying and developing the FHB-resistant wheat genetic resources is provided. It also suggests the future measures that are required to reduce the world's vulnerability to FHB which was one of the main goals of the US Wheat and Barley Scab Initiative.
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Affiliation(s)
- Mohd. Kamran Khan
- Department of Soil Science and Plant Nutrition, Faculty of Agriculture, Selcuk University, Konya, 42079 Turkey
| | - Anamika Pandey
- Department of Soil Science and Plant Nutrition, Faculty of Agriculture, Selcuk University, Konya, 42079 Turkey
| | - Tabinda Athar
- Faculty of Agriculture, Institute of Soil and Environmental Sciences, University of Agriculture Faisalabad, Faisalabad, 38040 Pakistan
| | - Saumya Choudhary
- Department of Molecular and Cellular Engineering, Sam Higginbottom University of Agriculture, Technology and Sciences, Allahabad, 211007 India
- Biomedical Informatics Centre, National Institute of Pathology–Indian Council of Medical Research, New Delhi, 110029 India
| | - Ravi Deval
- Department of Biotechnology, Invertis University, Bareilly, India
| | - Sait Gezgin
- Department of Soil Science and Plant Nutrition, Faculty of Agriculture, Selcuk University, Konya, 42079 Turkey
| | - Mehmet Hamurcu
- Department of Soil Science and Plant Nutrition, Faculty of Agriculture, Selcuk University, Konya, 42079 Turkey
| | - Ali Topal
- Department of Field Crops, Selcuk University, Konya, 42079 Turkey
| | - Emel Atmaca
- Department of Soil Science and Plant Nutrition, Faculty of Agriculture, Selcuk University, Konya, 42079 Turkey
| | - Pamela Aracena Santos
- Department of Soil Science and Plant Nutrition, Faculty of Agriculture, Selcuk University, Konya, 42079 Turkey
| | - Makbule Rumeysa Omay
- Department of Soil Science and Plant Nutrition, Faculty of Agriculture, Selcuk University, Konya, 42079 Turkey
| | - Hatice Suslu
- Department of Soil Science and Plant Nutrition, Faculty of Agriculture, Selcuk University, Konya, 42079 Turkey
| | - Kamer Gulcan
- Department of Soil Science and Plant Nutrition, Faculty of Agriculture, Selcuk University, Konya, 42079 Turkey
| | - Merve Inanc
- Department of Soil Science and Plant Nutrition, Faculty of Agriculture, Selcuk University, Konya, 42079 Turkey
| | - Mahinur S. Akkaya
- School of Bioengineering, Dalian University of Technology, No. 2 Linggong Road, Dalian, 116023 Liaoning China
| | - Abdullah Kahraman
- Department of Field Crops, Faculty of Agriculture, Harran University, Sanliurfa, 63300 Turkey
| | - George Thomas
- Department of Molecular and Cellular Engineering, Sam Higginbottom University of Agriculture, Technology and Sciences, Allahabad, 211007 India
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33
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Zhu Z, Chen L, Zhang W, Yang L, Zhu W, Li J, Liu Y, Tong H, Fu L, Liu J, Rasheed A, Xia X, He Z, Hao Y, Gao C. Genome-Wide Association Analysis of Fusarium Head Blight Resistance in Chinese Elite Wheat Lines. FRONTIERS IN PLANT SCIENCE 2020; 11:206. [PMID: 32174947 PMCID: PMC7056811 DOI: 10.3389/fpls.2020.00206] [Citation(s) in RCA: 26] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/15/2019] [Accepted: 02/11/2020] [Indexed: 05/03/2023]
Abstract
Fusarium head blight (FHB) is a devastating wheat disease worldwide. To decipher the genetic architecture of FHB resistance in Chinese germplasm, a Wheat Association Panel for Scab Research (WAPS) consisting of 240 leading Chinese wheat cultivars and elite lines was genotyped using the 90K single nucleotide polymorphism (SNP) arrays. The FHB response was evaluated in the field nurseries in Wuhan in Hubei Province over four consecutive years from 2014 to 2017. Five quantitative trait loci (QTL) were consistently identified on chromosome arms 1AS, 2DL, 5AS, 5AL, and 7DS using a mixed linear model (MLM), explaining 5.6, 10.3, 5.7, 5.4, and 5.6% of phenotypic variation, respectively. The QTL on 5AS, 5AL, and 7DS QTL are probably novel. The allelic frequency analysis indicated that cultivars from the Middle and Lower Yangtze River Valleys harbored more favorable alleles and were therefore more resistant than those from other regions. To facilitate in-house germplasm screening and marker-assisted selection (MAS), SNP-derived PCR markers were developed for the QTL regions on 1AS, 5AS, and 5AL QTL. In addition to the above five QTL, the WAPS population had a very low frequency of Fhb1, confirming that the gene is not widely used in Chinese wheat breeding programs. The resistant lines and molecular markers developed in this study are resources and information for enhancing FHB resistance in breeding populations by marker-assisted recurrent selection and gene stacking.
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Affiliation(s)
- Zhanwang Zhu
- Hubei Key Laboratory of Food Crop Germplasm and Genetic Improvement, Food Crops Institute, Hubei Academy of Agricultural Sciences/Hubei Engineering and Technology Research Center of Wheat/Wheat Disease Biology Research Station for Central China, Wuhan, China
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences (CAAS), Beijing, China
| | - Ling Chen
- Hubei Key Laboratory of Food Crop Germplasm and Genetic Improvement, Food Crops Institute, Hubei Academy of Agricultural Sciences/Hubei Engineering and Technology Research Center of Wheat/Wheat Disease Biology Research Station for Central China, Wuhan, China
| | - Wei Zhang
- Department of Plant Sciences, North Dakota State University, Fargo, ND, United States
| | - Lijun Yang
- Institute of Plant Protection and Soil Science, Hubei Academy of Agricultural Sciences, Wuhan, China
| | - Weiwei Zhu
- Hubei Key Laboratory of Food Crop Germplasm and Genetic Improvement, Food Crops Institute, Hubei Academy of Agricultural Sciences/Hubei Engineering and Technology Research Center of Wheat/Wheat Disease Biology Research Station for Central China, Wuhan, China
| | - Junhui Li
- Hubei Key Laboratory of Food Crop Germplasm and Genetic Improvement, Food Crops Institute, Hubei Academy of Agricultural Sciences/Hubei Engineering and Technology Research Center of Wheat/Wheat Disease Biology Research Station for Central China, Wuhan, China
| | - Yike Liu
- Hubei Key Laboratory of Food Crop Germplasm and Genetic Improvement, Food Crops Institute, Hubei Academy of Agricultural Sciences/Hubei Engineering and Technology Research Center of Wheat/Wheat Disease Biology Research Station for Central China, Wuhan, China
| | - Hanwen Tong
- Hubei Key Laboratory of Food Crop Germplasm and Genetic Improvement, Food Crops Institute, Hubei Academy of Agricultural Sciences/Hubei Engineering and Technology Research Center of Wheat/Wheat Disease Biology Research Station for Central China, Wuhan, China
| | - Luping Fu
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences (CAAS), Beijing, China
| | - Jindong Liu
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences (CAAS), Beijing, China
| | - Awais Rasheed
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences (CAAS), Beijing, China
- CIMMYT-China Office, Beijing, China
| | - Xianchun Xia
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences (CAAS), Beijing, China
| | - Zhonghu He
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences (CAAS), Beijing, China
- CIMMYT-China Office, Beijing, China
| | - Yuanfeng Hao
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences (CAAS), Beijing, China
| | - Chunbao Gao
- Hubei Key Laboratory of Food Crop Germplasm and Genetic Improvement, Food Crops Institute, Hubei Academy of Agricultural Sciences/Hubei Engineering and Technology Research Center of Wheat/Wheat Disease Biology Research Station for Central China, Wuhan, China
- Hubei Collaborative Innovation Center for Grain Industry, Yangtze University, Jingzhou, China
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Ollier M, Talle V, Brisset AL, Le Bihan Z, Duerr S, Lemmens M, Goudemand E, Robert O, Hilbert JL, Buerstmayr H. QTL mapping and successful introgression of the spring wheat-derived QTL Fhb1 for Fusarium head blight resistance in three European triticale populations. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2020; 133:457-477. [PMID: 31960090 PMCID: PMC6985197 DOI: 10.1007/s00122-019-03476-0] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/03/2019] [Accepted: 11/07/2019] [Indexed: 05/11/2023]
Abstract
KEY MESSAGE The spring wheat-derived QTL Fhb1 was successfully introgressed into triticale and resulted in significantly improved FHB resistance in the three triticale mapping populations. Fusarium head blight (FHB) is a major problem in cereal production particularly because of mycotoxin contaminations. Here we characterized the resistance to FHB in triticale breeding material harboring resistance factors from bread wheat. A highly FHB-resistant experimental line which derives from a triticale × wheat cross was crossed to several modern triticale cultivars. Three populations of recombinant inbred lines were generated and evaluated in field experiments for FHB resistance using spray inoculations during four seasons and were genotyped with genotyping-by-sequencing and SSR markers. FHB severity was assessed in the field by visual scorings and on the harvested grain samples using digital picture analysis for quantifying the whitened kernel surface (WKS). Four QTLs with major effects on FHB resistance were identified, mapping to chromosomes 2B, 3B, 5R, and 7A. Those QTLs were detectable with both Fusarium severity traits. Measuring of WKS allows easy and fast grain symptom quantification and appears as an effective scoring tool for FHB resistance. The QTL on 3B collocated with Fhb1, and the QTL on 5R with the dwarfing gene Ddw1. This is the first report demonstrating the successful introgression of Fhb1 into triticale. It comprises a significant step forward for enhancing FHB resistance in this crop.
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Affiliation(s)
- Marine Ollier
- Department of Agrobiotechnology, IFA-Tulln, Institute of Biotechnology in Plant Production, BOKU-University of Natural Resources and Life Sciences Vienna, Konrad Lorenz Str. 20, 3430, Tulln, Austria.
- EA 7394, USC INRA 1411, Institut Charles Viollette (ICV), Agro-Food and Biotechnology Research Institute, Université de Lille, INRA, ISA, Univ. Artois, Univ. Littoral Côte d'Opale, Cité Scientifique, 59655, Villeneuve d'Ascq, France.
- Florimond-Desprez Veuve & Fils SAS, 3 rue Florimond-Desprez, BP 41, 59242, Cappelle-en-Pévèle, France.
- Bayer Crop Science, Le petit Boissay, Toury, France.
| | - Vincent Talle
- Department of Agrobiotechnology, IFA-Tulln, Institute of Biotechnology in Plant Production, BOKU-University of Natural Resources and Life Sciences Vienna, Konrad Lorenz Str. 20, 3430, Tulln, Austria
| | - Anne-Laure Brisset
- Department of Agrobiotechnology, IFA-Tulln, Institute of Biotechnology in Plant Production, BOKU-University of Natural Resources and Life Sciences Vienna, Konrad Lorenz Str. 20, 3430, Tulln, Austria
| | - Zoé Le Bihan
- Department of Agrobiotechnology, IFA-Tulln, Institute of Biotechnology in Plant Production, BOKU-University of Natural Resources and Life Sciences Vienna, Konrad Lorenz Str. 20, 3430, Tulln, Austria
| | - Simon Duerr
- Department of Agrobiotechnology, IFA-Tulln, Institute of Biotechnology in Plant Production, BOKU-University of Natural Resources and Life Sciences Vienna, Konrad Lorenz Str. 20, 3430, Tulln, Austria
- Saatzucht Donau GmbH & Co KG, Breeding Station, Reichersberg, Austria
| | - Marc Lemmens
- Department of Agrobiotechnology, IFA-Tulln, Institute of Biotechnology in Plant Production, BOKU-University of Natural Resources and Life Sciences Vienna, Konrad Lorenz Str. 20, 3430, Tulln, Austria
| | - Ellen Goudemand
- Florimond-Desprez Veuve & Fils SAS, 3 rue Florimond-Desprez, BP 41, 59242, Cappelle-en-Pévèle, France
| | - Olivier Robert
- Florimond-Desprez Veuve & Fils SAS, 3 rue Florimond-Desprez, BP 41, 59242, Cappelle-en-Pévèle, France
| | - Jean-Louis Hilbert
- EA 7394, USC INRA 1411, Institut Charles Viollette (ICV), Agro-Food and Biotechnology Research Institute, Université de Lille, INRA, ISA, Univ. Artois, Univ. Littoral Côte d'Opale, Cité Scientifique, 59655, Villeneuve d'Ascq, France
| | - Hermann Buerstmayr
- Department of Agrobiotechnology, IFA-Tulln, Institute of Biotechnology in Plant Production, BOKU-University of Natural Resources and Life Sciences Vienna, Konrad Lorenz Str. 20, 3430, Tulln, Austria
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35
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Adhikari A, Basnet BR, Crossa J, Dreisigacker S, Camarillo F, Bhati PK, Jarquin D, Manes Y, Ibrahim AMH. Genome-Wide Association Mapping and Genomic Prediction of Anther Extrusion in CIMMYT Hybrid Wheat Breeding Program via Modeling Pedigree, Genomic Relationship, and Interaction With the Environment. Front Genet 2020. [PMID: 33363570 DOI: 10.3389/fgene.2020.586687.\] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/06/2023] Open
Abstract
Anther extrusion (AE) is the most important male floral trait for hybrid wheat seed production. AE is a complex quantitative trait that is difficult to phenotype reliably in field experiments not only due to high genotype-by-environment effects but also due to the short expression window in the field condition. In this study, we conducted a genome-wide association scan (GWAS) and explored the possibility of applying genomic prediction (GP) for AE in the CIMMYT hybrid wheat breeding program. An elite set of male lines (n = 603) were phenotype for anther count (AC) and anther visual score (VS) across three field experiments in 2017-2019 and genotyped with the 20K Infinitum is elect SNP array. GWAS produced five marker trait associations with small effects. For GP, the main effects of lines (L), environment (E), genomic (G) and pedigree relationships (A), and their interaction effects with environments were used to develop seven statistical models of incremental complexity. The base model used only L and E, whereas the most complex model included L, E, G, A, and G × E and A × E. These models were evaluated in three cross-validation scenarios (CV0, CV1, and CV2). In cross-validation CV0, data from two environments were used to predict an untested environment; in random cross-validation CV1, the test set was never evaluated in any environment; and in CV2, the genotypes in the test set were evaluated in only a subset of environments. The prediction accuracies ranged from -0.03 to 0.74 for AC and -0.01 to 0.54 for VS across different models and CV schemes. For both traits, the highest prediction accuracies with low variance were observed in CV2, and inclusion of the interaction effects increased prediction accuracy for AC only. In CV0, the prediction accuracy was 0.73 and 0.45 for AC and VS, respectively, indicating the high reliability of across environment prediction. Genomic prediction appears to be a very reliable tool for AE in hybrid wheat breeding. Moreover, high prediction accuracy in CV0 demonstrates the possibility of implementing genomic selection across breeding cycles in related germplasm, aiding the rapid breeding cycle.
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Affiliation(s)
- Anil Adhikari
- Texas A&M University, College Station, TX, United States
- Department of Horticulture, University of Wisconsin, Madison, WI, United States
| | - Bhoja Raj Basnet
- International Maize and Wheat Improvement Center (CIMMYT), Texcoco, Mexico
| | - Jose Crossa
- International Maize and Wheat Improvement Center (CIMMYT), Texcoco, Mexico
| | | | - Fatima Camarillo
- International Maize and Wheat Improvement Center (CIMMYT), Texcoco, Mexico
| | | | - Diego Jarquin
- Department of Agronomy and Horticulture, University of Nebraska, Lincoln, NE, United States
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Ruan Y, Zhang W, Knox RE, Berraies S, Campbell HL, Ragupathy R, Boyle K, Polley B, Henriquez MA, Burt A, Kumar S, Cuthbert RD, Fobert PR, Buerstmayr H, DePauw RM. Characterization of the Genetic Architecture for Fusarium Head Blight Resistance in Durum Wheat: The Complex Association of Resistance, Flowering Time, and Height Genes. FRONTIERS IN PLANT SCIENCE 2020; 11:592064. [PMID: 33424887 PMCID: PMC7786293 DOI: 10.3389/fpls.2020.592064] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/06/2020] [Accepted: 11/30/2020] [Indexed: 05/22/2023]
Abstract
Durum wheat is an economically important crop for Canadian farmers. Fusarium head blight (FHB) is one of the most destructive diseases that threatens durum production in Canada. FHB reduces yield and end-use quality and most commonly contaminates the grain with the fungal mycotoxin deoxynivalenol, also known as DON. Serious outbreaks of FHB can occur in durum wheat in Canada, and combining genetic resistance with fungicide application is a cost effective approach to control this disease. However, there is limited variation for genetic resistance to FHB in elite Canadian durum cultivars. To explore and identify useful genetic FHB resistance variation for the improvement of Canadian durum wheat, we assembled an association mapping (AM) panel of diverse durum germplasms and performed genome wide association analysis (GWAS). Thirty-one quantitative trait loci (QTL) across all 14 chromosomes were significantly associated with FHB resistance. On 3BS, a stable QTL with a larger effect for resistance was located close to the centromere of 3BS. Three haplotypes of Fhb1 QTL were identified, with an emmer wheat haplotype contributing to disease susceptibility. The large number of QTL identified here can provide a rich resource to improve FHB resistance in commercially grown durum wheat. Among the 31 QTL most were associated with plant height and/or flower time. QTL 1A.1, 1A.2, 3B.2, 5A.1, 6A.1, 7A.3 were associated with FHB resistance and not associated or only weakly associated with flowering time nor plant height. These QTL have features that would make them good targets for FHB resistance breeding.
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Affiliation(s)
- Yuefeng Ruan
- Swift Current Research and Development Centre, Agriculture and Agri-Food Canada, Swift Current, SK, Canada
| | - Wentao Zhang
- Aquatic and Crop Resource Development Research Centre, National Research Council of Canada, Saskatoon, SK, Canada
- *Correspondence: Wentao Zhang,
| | - Ron E. Knox
- Swift Current Research and Development Centre, Agriculture and Agri-Food Canada, Swift Current, SK, Canada
| | - Samia Berraies
- Swift Current Research and Development Centre, Agriculture and Agri-Food Canada, Swift Current, SK, Canada
| | - Heather L. Campbell
- Swift Current Research and Development Centre, Agriculture and Agri-Food Canada, Swift Current, SK, Canada
| | - Raja Ragupathy
- Lethbridge Research and Development Centre, Agriculture and Agri-Food Canada, Lethbridge, AB, Canada
| | - Kerry Boyle
- Aquatic and Crop Resource Development Research Centre, National Research Council of Canada, Saskatoon, SK, Canada
| | - Brittany Polley
- Aquatic and Crop Resource Development Research Centre, National Research Council of Canada, Saskatoon, SK, Canada
| | - Maria Antonia Henriquez
- Morden Research and Development Centre, Agriculture and Agri-Food Canada, Morden, MB, Canada
| | - Andrew Burt
- Ottawa Research and Development Centre, Agriculture and Agri-Food Canada, Ottawa, ON, Canada
| | - Santosh Kumar
- Brandon Research and Development Centre, Agriculture and Agri-Food Canada, Brandon, MB, Canada
| | - Richard D. Cuthbert
- Swift Current Research and Development Centre, Agriculture and Agri-Food Canada, Swift Current, SK, Canada
| | - Pierre R. Fobert
- Aquatic and Crop Resource Development Research Centre, National Research Council of Canada, Ottawa, ON, Canada
| | | | - Ron M. DePauw
- Advancing Wheat Technology, Swift Current, SK, Canada
- Retired from Swift Current Research and Development Centre, Agriculture and Agri-Food Canada, Swift Current, SK, Canada
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Fauteux F, Wang Y, Rocheleau H, Liu Z, Pan Y, Fedak G, McCartney C, Ouellet T. Characterization of QTL and eQTL controlling early Fusarium graminearum infection and deoxynivalenol levels in a Wuhan 1 x Nyubai doubled haploid wheat population. BMC PLANT BIOLOGY 2019; 19:536. [PMID: 31795937 PMCID: PMC6892237 DOI: 10.1186/s12870-019-2149-4] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/05/2019] [Accepted: 11/19/2019] [Indexed: 05/28/2023]
Abstract
BACKGROUND Fusarium head blight (FHB) is a major disease of cereal crops, caused by the fungal pathogen Fusarium graminearum and related species. Breeding wheat for FHB resistance contributes to increase yields and grain quality and to reduce the use of fungicides. The identification of genes and markers for FHB resistance in different wheat genotypes has nevertheless proven challenging. RESULTS In this study, early infection by F. graminearum was analyzed in a doubled haploid population derived from the cross of the moderately resistant wheat genotypes Wuhan 1 and Nyubai. Three quantitative trait loci (QTL) were identified: 1AL was associated with lower deoxynivalenol content, and 4BS and 5A were associated with reduced F. graminearum infection at 2 days post inoculation. Early resistance alleles were inherited from Wuhan 1 for QTL 1AL and 4BS and inherited from Nyubai for the 5A QTL. Cis and trans expression QTL (eQTL) were identified using RNA-seq data from infected head samples. Hotspots for trans eQTL were identified in the vicinity of the 1AL and 4BS QTL peaks. Among differentially expressed genes with cis eQTL within the QTL support intervals, nine genes had higher expression associated with FHB early resistance, and four genes had higher expression associated with FHB early susceptibility. CONCLUSIONS Our analysis of genotype and gene expression data of wheat infected by F. graminearum identified three QTL associated with FHB early resistance, and linked genes with eQTL and differential expression patterns to those QTL. These findings may have applications in breeding wheat for early resistance to FHB.
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Affiliation(s)
- François Fauteux
- Digital Technologies Research Centre, National Research Council Canada, Ottawa, Ontario Canada
| | - Yunli Wang
- Digital Technologies Research Centre, National Research Council Canada, Ottawa, Ontario Canada
| | - Hélène Rocheleau
- Ottawa Research and Development Centre, Agriculture and Agri-Food Canada, Ottawa, Ontario Canada
| | - Ziying Liu
- Digital Technologies Research Centre, National Research Council Canada, Ottawa, Ontario Canada
| | - Youlian Pan
- Digital Technologies Research Centre, National Research Council Canada, Ottawa, Ontario Canada
| | - George Fedak
- Ottawa Research and Development Centre, Agriculture and Agri-Food Canada, Ottawa, Ontario Canada
| | - Curt McCartney
- Morden Research and Development Centre, Agriculture and Agri-Food Canada, Morden, Manitoba Canada
| | - Thérèse Ouellet
- Ottawa Research and Development Centre, Agriculture and Agri-Food Canada, Ottawa, Ontario Canada
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