1
|
Wang C, Sun M, Zhang P, Ren X, Zhao S, Li M, Ren Z, Yuan M, Ma L, Liu Z, Wang K, Chen F, Li Z, Wang X. Genome-Wide Association Studies on Chinese Wheat Cultivars Reveal a Novel Fusarium Crown Rot Resistance Quantitative Trait Locus on Chromosome 3BL. PLANTS (BASEL, SWITZERLAND) 2024; 13:856. [PMID: 38592894 PMCID: PMC10974656 DOI: 10.3390/plants13060856] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/28/2024] [Revised: 03/13/2024] [Accepted: 03/13/2024] [Indexed: 04/11/2024]
Abstract
Fusarium crown rot (FCR), primarily caused by Fusarium pseudograminearum, has emerged as a new threat to wheat production and quality in North China. Genetic enhancement of wheat resistance to FCR remains the most effective approach for disease control. In this study, we phenotyped 435 Chinese wheat cultivars through FCR inoculation at the seedling stage in a greenhouse. Our findings revealed that only approximately 10.8% of the wheat germplasms displayed moderate or high resistance to FCR. A genome-wide association study (GWAS) using high-density 660K SNP led to the discovery of a novel quantitative trait locus on the long arm of chromosome 3B, designated as Qfcr.hebau-3BL. A total of 12 significantly associated SNPs were closely clustered within a 1.05 Mb physical interval. SNP-based molecular markers were developed to facilitate the practical application of Qfcr.hebau-3BL. Among the five candidate FCR resistance genes within the Qfcr.hebau-3BL, we focused on TraesCS3B02G307700, which encodes a protein kinase, due to its expression pattern. Functional validation revealed two transcripts, TaSTK1.1 and TaSTK1.2, with opposing roles in plant resistance to fungal disease. These findings provide insights into the genetic basis of FCR resistance in wheat and offer valuable resources for breeding resistant varieties.
Collapse
Affiliation(s)
- Chuyuan Wang
- State Key Laboratory of North China Crop Improvement and Regulation, College of Plant Protection, Hebei Agricultural University, Baoding 071000, China; (C.W.); (M.S.); (P.Z.); (X.R.); (S.Z.); (M.L.); (Z.R.); (M.Y.); (L.M.); (Z.L.); (K.W.)
| | - Manli Sun
- State Key Laboratory of North China Crop Improvement and Regulation, College of Plant Protection, Hebei Agricultural University, Baoding 071000, China; (C.W.); (M.S.); (P.Z.); (X.R.); (S.Z.); (M.L.); (Z.R.); (M.Y.); (L.M.); (Z.L.); (K.W.)
| | - Peipei Zhang
- State Key Laboratory of North China Crop Improvement and Regulation, College of Plant Protection, Hebei Agricultural University, Baoding 071000, China; (C.W.); (M.S.); (P.Z.); (X.R.); (S.Z.); (M.L.); (Z.R.); (M.Y.); (L.M.); (Z.L.); (K.W.)
| | - Xiaopeng Ren
- State Key Laboratory of North China Crop Improvement and Regulation, College of Plant Protection, Hebei Agricultural University, Baoding 071000, China; (C.W.); (M.S.); (P.Z.); (X.R.); (S.Z.); (M.L.); (Z.R.); (M.Y.); (L.M.); (Z.L.); (K.W.)
| | - Shuqing Zhao
- State Key Laboratory of North China Crop Improvement and Regulation, College of Plant Protection, Hebei Agricultural University, Baoding 071000, China; (C.W.); (M.S.); (P.Z.); (X.R.); (S.Z.); (M.L.); (Z.R.); (M.Y.); (L.M.); (Z.L.); (K.W.)
| | - Mengyu Li
- State Key Laboratory of North China Crop Improvement and Regulation, College of Plant Protection, Hebei Agricultural University, Baoding 071000, China; (C.W.); (M.S.); (P.Z.); (X.R.); (S.Z.); (M.L.); (Z.R.); (M.Y.); (L.M.); (Z.L.); (K.W.)
| | - Zhuang Ren
- State Key Laboratory of North China Crop Improvement and Regulation, College of Plant Protection, Hebei Agricultural University, Baoding 071000, China; (C.W.); (M.S.); (P.Z.); (X.R.); (S.Z.); (M.L.); (Z.R.); (M.Y.); (L.M.); (Z.L.); (K.W.)
| | - Meng Yuan
- State Key Laboratory of North China Crop Improvement and Regulation, College of Plant Protection, Hebei Agricultural University, Baoding 071000, China; (C.W.); (M.S.); (P.Z.); (X.R.); (S.Z.); (M.L.); (Z.R.); (M.Y.); (L.M.); (Z.L.); (K.W.)
| | - Linfei Ma
- State Key Laboratory of North China Crop Improvement and Regulation, College of Plant Protection, Hebei Agricultural University, Baoding 071000, China; (C.W.); (M.S.); (P.Z.); (X.R.); (S.Z.); (M.L.); (Z.R.); (M.Y.); (L.M.); (Z.L.); (K.W.)
| | - Zihan Liu
- State Key Laboratory of North China Crop Improvement and Regulation, College of Plant Protection, Hebei Agricultural University, Baoding 071000, China; (C.W.); (M.S.); (P.Z.); (X.R.); (S.Z.); (M.L.); (Z.R.); (M.Y.); (L.M.); (Z.L.); (K.W.)
| | - Kaixuan Wang
- State Key Laboratory of North China Crop Improvement and Regulation, College of Plant Protection, Hebei Agricultural University, Baoding 071000, China; (C.W.); (M.S.); (P.Z.); (X.R.); (S.Z.); (M.L.); (Z.R.); (M.Y.); (L.M.); (Z.L.); (K.W.)
| | - Feng Chen
- Agronomy College, National Key Laboratory of Wheat and Maize Crop Science, CIMMYT-China (Henan) Joint Center of Wheat and Maize, Henan Agricultural University, Zhengzhou 450002, China
| | - Zaifeng Li
- State Key Laboratory of North China Crop Improvement and Regulation, College of Plant Protection, Hebei Agricultural University, Baoding 071000, China; (C.W.); (M.S.); (P.Z.); (X.R.); (S.Z.); (M.L.); (Z.R.); (M.Y.); (L.M.); (Z.L.); (K.W.)
| | - Xiaodong Wang
- State Key Laboratory of North China Crop Improvement and Regulation, College of Plant Protection, Hebei Agricultural University, Baoding 071000, China; (C.W.); (M.S.); (P.Z.); (X.R.); (S.Z.); (M.L.); (Z.R.); (M.Y.); (L.M.); (Z.L.); (K.W.)
| |
Collapse
|
2
|
Xu X, Su Y, Yang J, Li J, Gao Y, Li C, Wang X, Gou L, Zheng Z, Xie C, Ma J, Ma J. A novel QTL conferring Fusarium crown rot resistance on chromosome 2A in a wheat EMS mutant. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2024; 137:49. [PMID: 38349579 DOI: 10.1007/s00122-024-04557-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/21/2023] [Accepted: 01/16/2024] [Indexed: 02/15/2024]
Abstract
KEY MESSAGE A novel QTL on chromosome 2A for Fusarium crown rot resistance was identified and validated in wheat. Fusarium crown rot (FCR) is a fungal disease that causes significant yield losses in many cereal growing regions in the world. In this study, genetic analysis was conducted for a wheat EMS mutant C549 which showed stable resistance to FCR at seedling stage. A total of 10 QTL were detected on chromosomes 1A, 2A, 3B, 4A, 6B, and 7B using a population of 138 F7 recombinant inbred lines (RILs) derived from a cross between C549 and a Chinese germplasm 3642. A novel locus Qfcr.cau-2A, which accounted for up to 24.42% of the phenotypic variation with a LOD value of 12.78, was consistently detected across all six trials conducted. Furthermore, possible effects of heading date (HD) and plant height on FCR severity were also investigated in the mapping population. While plant height had no effects on FCR resistance, a weak and negative association between FCR resistance and HD was observed. A QTL for HD (Qhd.cau-2A.2) was coincident with Qfcr.cau-2A. Conditional QTL mapping indicated that although Qfcr.cau-2A and Qhd.cau-2A.2 had significant interactions, Qfcr.cau-2A remained significant after the effects of HD was removed. It is unlikely that genes underlying these two loci are same. Nevertheless, the stable expression of Qfcr.cau-2A in the validation population of 148 F7 RILs developed between C549 and its wild parent Chuannong 16 demonstrated the potential value of this locus in FCR resistance breeding programs.
Collapse
Affiliation(s)
- Xiangru Xu
- College of Agronomy and Biotechnology, China Agricultural University, Beijing, 100193, China
| | - Yuqing Su
- College of Agronomy and Biotechnology, China Agricultural University, Beijing, 100193, China
| | - Jiatian Yang
- College of Agronomy and Biotechnology, China Agricultural University, Beijing, 100193, China
| | - Jinlong Li
- College of Agronomy and Biotechnology, China Agricultural University, Beijing, 100193, China
| | - Yutian Gao
- College of Agronomy and Biotechnology, China Agricultural University, Beijing, 100193, China
| | - Cong Li
- State Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, Triticeae Research Institute, Sichuan Agricultural University, Chengdu, 611130, China
| | - Xingyi Wang
- College of Agronomy, Hebei Agricultural University, Baoding, 071001, China
| | - Lulu Gou
- State Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, Triticeae Research Institute, Sichuan Agricultural University, Chengdu, 611130, China
| | - Zhi Zheng
- CSIRO Agriculture and Food, Canberra, ACT, 2601, Australia
| | - Chaojie Xie
- College of Agronomy and Biotechnology, China Agricultural University, Beijing, 100193, China
| | - Jian Ma
- State Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, Triticeae Research Institute, Sichuan Agricultural University, Chengdu, 611130, China.
| | - Jun Ma
- College of Agronomy and Biotechnology, China Agricultural University, Beijing, 100193, China.
| |
Collapse
|
3
|
Li J, Zhai S, Xu X, Su Y, Yu J, Gao Y, Yang J, Zheng Z, Li B, Sun Q, Xie C, Ma J. Dissecting the genetic basis of Fusarium crown rot resistance in wheat by genome wide association study. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2024; 137:43. [PMID: 38321245 DOI: 10.1007/s00122-024-04553-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/01/2023] [Accepted: 01/10/2024] [Indexed: 02/08/2024]
Abstract
KEY MESSAGE A locus conferring Fusarium crown rot resistance was identified on chromosome arm 3DL through genome wide association study and further validated in two recombinant inbred lines populations. Fusarium crown rot (FCR) is a severe soil borne disease in many wheat growing regions of the world. In this study, we attempted to detect loci conferring FCR resistance through a new seedling inoculation assay. A total of 223 wheat accessions from different geography origins were used to assemble an association panel for GWAS analysis. Four genotypes including Heng 4332, Luwanmai, Pingan 998 and Yannong 24 showed stable resistance to FCR. A total of 54 SNPs associated with FCR resistance were identified. Among the 10 putative QTLs represented by these SNPs, seven QTLs on chromosome 2B, 3A, 3D, 4A, 7A and 7B were novel and were consistently detected in at least two of the three trials conducted. Qfcr.cau.3D-3, which was targeted by 38 SNPs clustered within a genomic region of approximately 5.57 Mb (609.12-614.69 Mb) on chromosome arm 3DL, was consistently detected in all the three trials. The effects of Qfcr.cau.3D-3 were further validated in two recombinant inbred line populations. The presence of this locus reduced FCR severity up to 21.55%. Interestingly, the collinear positions of sequences containing the four SNPs associated with two FCR loci (Qfcr.cau.3A and Qfcr.cau.3B) were within the regions of Qfcr.cau.3D-3, suggesting that genes underlying these three loci may be homologous. Our results provide useful information for improving FCR resistance in wheat.
Collapse
Affiliation(s)
- Jinlong Li
- College of Agronomy and Biotechnology, China Agricultural University, Beijing, 100193, China
| | - Shanshan Zhai
- College of Agronomy and Biotechnology, China Agricultural University, Beijing, 100193, China
| | - Xiangru Xu
- College of Agronomy and Biotechnology, China Agricultural University, Beijing, 100193, China
| | - Yuqing Su
- College of Agronomy and Biotechnology, China Agricultural University, Beijing, 100193, China
| | - Jiazheng Yu
- College of Agronomy and Biotechnology, China Agricultural University, Beijing, 100193, China
| | - Yutian Gao
- College of Agronomy and Biotechnology, China Agricultural University, Beijing, 100193, China
| | - Jiatian Yang
- College of Agronomy and Biotechnology, China Agricultural University, Beijing, 100193, China
| | - Zhi Zheng
- CSIRO Agriculture and Food, Canberra, ACT, 2601, Australia
| | - Baoyun Li
- College of Agronomy and Biotechnology, China Agricultural University, Beijing, 100193, China
| | - Qixin Sun
- College of Agronomy and Biotechnology, China Agricultural University, Beijing, 100193, China
| | - Chaojie Xie
- College of Agronomy and Biotechnology, China Agricultural University, Beijing, 100193, China
| | - Jun Ma
- College of Agronomy and Biotechnology, China Agricultural University, Beijing, 100193, China.
| |
Collapse
|
4
|
Milgate A, Baxter B, Simpfendorfer S, Herdina, Giblot-Ducray D, Yang N, Orchard B, Ovenden B. Improved quantification of Fusarium pseudograminearum (Fusarium crown rot) using qPCR measurement of infection in multi-species winter cereal experiments. FRONTIERS IN PLANT SCIENCE 2023; 14:1225283. [PMID: 37600176 PMCID: PMC10433387 DOI: 10.3389/fpls.2023.1225283] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 05/19/2023] [Accepted: 07/14/2023] [Indexed: 08/22/2023]
Abstract
Fusarium crown rot (FCR) causes significant grain yield loss in winter cereals around the world. Breeding for resistance and/or tolerance to FCR has been slow with relatively limited success. In this study, multi-species experiments were used to demonstrate an improved method to quantify FCR infection levels at plant maturity using quantitative PCR (qPCR), as well as the genotype yield retention using residual regression deviation. Using qPCR to measure FCR infection allowed a higher degree of resolution between genotypes than traditional visual stem basal browning assessments. The results were consistent across three environments with different levels of disease expression. The improved measure of FCR infection along with genotype yield retention allows for partitioning of both tolerance and partial resistance. Together these methods offer new insights into FCR partial resistance and its relative importance to tolerance in bread wheat and barley. This new approach offers a more robust, unbiased way to select for both FCR traits within breeding programs. Key message: Genetic gain for tolerance and partial resistance against Fusarium crown rot (FCR) in winter cereals has been impeded by laborious and variable visual measures of infection severity. This paper presents results of an improved method to quantify FCR infection that are strongly correlated to yield loss and reveal previously unrecognised partial resistance in barley and wheat varieties.
Collapse
Affiliation(s)
- Andrew Milgate
- NSW Department of Primary Industries, Wagga Wagga Agricultural Institute, Wagga Wagga, NSW, Australia
| | - Brad Baxter
- NSW Department of Primary Industries, Wagga Wagga Agricultural Institute, Wagga Wagga, NSW, Australia
| | - Steven Simpfendorfer
- NSW Department of Primary Industries, Tamworth Agricultural Institute, Tamworth, NSW, Australia
| | - Herdina
- South Australian Research and Development Institute, Plant Research Centre, Urrbrae, SA, Australia
| | - Daniele Giblot-Ducray
- South Australian Research and Development Institute, Plant Research Centre, Urrbrae, SA, Australia
| | - Nannan Yang
- NSW Department of Primary Industries, Wagga Wagga Agricultural Institute, Wagga Wagga, NSW, Australia
| | - Beverly Orchard
- NSW Department of Primary Industries, Wagga Wagga Agricultural Institute, Wagga Wagga, NSW, Australia
| | - Ben Ovenden
- NSW Department of Primary Industries, Wagga Wagga Agricultural Institute, Wagga Wagga, NSW, Australia
| |
Collapse
|
5
|
Gao S, Jiang Y, Zhou H, Liu Y, Li H, Liu C, Zheng Z. Fine mapping of a Fusarium crown rot resistant locus on chromosome arm 6HL in barley by exploiting near isogenic lines, transcriptome profiling, and a large near isogenic line-derived population. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2023; 136:137. [PMID: 37233855 DOI: 10.1007/s00122-023-04387-x] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Grants] [Subscribe] [Scholar Register] [Received: 02/02/2023] [Accepted: 05/12/2023] [Indexed: 05/27/2023]
Abstract
KEY MESSAGE This study reported validation and fine mapping of a Fusarium crown rot resistant locus on chromosome arm 6HL in barley using near isogenic lines, transcriptome sequences, and a large near isogenic line-derived population. Fusarium crown rot (FCR), caused by Fusarium pseudograminearum, is a chronic and serious disease affecting cereal production in semi-arid regions globally. The increasing prevalence of this disease in recent years is attributed to the widespread adoption of minimum tillage and stubble retention practices. In the study reported here, we generated eight pairs of near isogenic lines (NILs) targeting a putative QTL (Qcrs.caf-6H) conferring FCR resistance in barley. Assessing the NILs confirmed the large effect of this locus. Aimed to develop markers that can be reliably used in incorporating this resistant allele into breeding programs and identify candidate genes, transcriptomic analyses were conducted against three of the NIL pairs and a large NIL-derived population consisting of 1085 F7 recombinant inbred lines generated. By analyzing the transcriptomic data and the fine mapping population, Qcrs.caf-6H was delineated into an interval of 0.9 cM covering a physical distance of ~ 547 kb. Six markers co-segregating with this locus were developed. Based on differential gene expression and SNP variations between the two isolines among the three NIL pairs, candidate genes underlying the resistance at this locus were detected. These results would improve the efficiency of incorporating the targeted locus into barley breeding programs and facilitate the cloning of causal gene(s) responsible for the resistance.
Collapse
Affiliation(s)
- Shang Gao
- CSIRO Agriculture and Food, 306 Carmody Road, St Lucia, QLD, 4067, Australia
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, CIMMYT-China Office, 12 Zhongguancun South Street, Beijing, 100081, China
- Nanfan Research Institute, Chinese Academy of Agricultural Sciences, Sanya, 572024, Hainan, China
| | - Yunfeng Jiang
- CSIRO Agriculture and Food, 306 Carmody Road, St Lucia, QLD, 4067, Australia
- Triticeae Research Institute, Sichuan Agricultural University, Wenjiang, Chengdu, 611130, China
| | - Hong Zhou
- CSIRO Agriculture and Food, 306 Carmody Road, St Lucia, QLD, 4067, Australia
- Triticeae Research Institute, Sichuan Agricultural University, Wenjiang, Chengdu, 611130, China
| | - Yaxi Liu
- Triticeae Research Institute, Sichuan Agricultural University, Wenjiang, Chengdu, 611130, China
| | - Huihui Li
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, CIMMYT-China Office, 12 Zhongguancun South Street, Beijing, 100081, China
- Nanfan Research Institute, Chinese Academy of Agricultural Sciences, Sanya, 572024, Hainan, China
| | - Chunji Liu
- CSIRO Agriculture and Food, 306 Carmody Road, St Lucia, QLD, 4067, Australia.
| | - Zhi Zheng
- CSIRO Agriculture and Food, 306 Carmody Road, St Lucia, QLD, 4067, Australia.
| |
Collapse
|
6
|
Hou S, Lin Y, Yu S, Yan N, Chen H, Shi H, Li C, Wang Z, Liu Y. Genome-wide association analysis of Fusarium crown rot resistance in Chinese wheat landraces. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2023; 136:101. [PMID: 37027037 DOI: 10.1007/s00122-023-04289-y] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/06/2022] [Accepted: 12/28/2022] [Indexed: 05/13/2023]
Abstract
KEY MESSAGE A novel locus for Fusarium crown rot (FCR) resistance was identified on chromosome 1B at 641.36-645.13 Mb using GWAS and could averagely increase 39.66% of FCR resistance in a biparental population. Fusarium crown rot can cause considerable yield losses. Developing and growing resistance cultivars is one of the most effective approaches for controlling this disease. In this study, 361 Chinese wheat landraces were evaluated for FCR resistance, and 27 with the disease index lower than 30.00 showed potential in wheat breeding programs. Using a genome-wide association study approach, putative quantitative trait loci (QTL) for FCR resistance was identified. A total of 21 putative loci on chromosomes 1A, 1B, 2B, 2D, 3B, 3D, 4B, 5A, 5B, 7A, and 7B were significantly associated with FCR resistance. Among these, a major locus Qfcr.sicau.1B-4 was consistently identified among all the trials on chromosome 1B with the physical regions from 641.36 to 645.13 Mb. A polymorphism kompetitive allele-specific polymerase (KASP) marker was developed and used to validate its effect in an F2:3 population consisting of 136 lines. The results showed the presence of this resistance allele could explain up to 39.66% of phenotypic variance compared to its counterparts. In addition, quantitative real-time polymerase chain reaction showed that two candidate genes of Qfcr.sicau.1B-4 were differently expressed after inoculation. Our study provided useful information for improving FCR resistance in wheat.
Collapse
Affiliation(s)
- Shuai Hou
- State Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, Wenjiang, Chengdu, 611130, China
- Triticeae Research Institute, Sichuan Agricultural University, Wenjiang, Chengdu, 611130, China
| | - Yu Lin
- State Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, Wenjiang, Chengdu, 611130, China
- Triticeae Research Institute, Sichuan Agricultural University, Wenjiang, Chengdu, 611130, China
| | - Shifan Yu
- State Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, Wenjiang, Chengdu, 611130, China
- Triticeae Research Institute, Sichuan Agricultural University, Wenjiang, Chengdu, 611130, China
| | - Ning Yan
- State Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, Wenjiang, Chengdu, 611130, China
- Triticeae Research Institute, Sichuan Agricultural University, Wenjiang, Chengdu, 611130, China
| | - Hao Chen
- State Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, Wenjiang, Chengdu, 611130, China
- Triticeae Research Institute, Sichuan Agricultural University, Wenjiang, Chengdu, 611130, China
| | - Haoran Shi
- Chengdu Academy of Agriculture and Forestry Sciences, Wenjiang, Chengdu, 611130, China
| | - Caixia Li
- State Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, Wenjiang, Chengdu, 611130, China
- Triticeae Research Institute, Sichuan Agricultural University, Wenjiang, Chengdu, 611130, China
| | - Zhiqiang Wang
- State Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, Wenjiang, Chengdu, 611130, China
- Triticeae Research Institute, Sichuan Agricultural University, Wenjiang, Chengdu, 611130, China
| | - Yaxi Liu
- State Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, Wenjiang, Chengdu, 611130, China.
- Triticeae Research Institute, Sichuan Agricultural University, Wenjiang, Chengdu, 611130, China.
| |
Collapse
|
7
|
Lv G, Zhang Y, Ma L, Yan X, Yuan M, Chen J, Cheng Y, Yang X, Qiao Q, Zhang L, Niaz M, Sun X, Zhang Q, Zhong S, Chen F. A cell wall invertase modulates resistance to fusarium crown rot and sharp eyespot in common wheat. JOURNAL OF INTEGRATIVE PLANT BIOLOGY 2023. [PMID: 36912577 DOI: 10.1111/jipb.13478] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/09/2022] [Accepted: 03/09/2023] [Indexed: 05/09/2023]
Abstract
Fusarium crown rot (FCR) and sharp eyespot (SE) are serious soil-borne diseases in wheat and its relatives that have been reported to cause wheat yield losses in many areas. In this study, the expression of a cell wall invertase gene, TaCWI-B1, was identified to be associated with FCR resistance through a combination of bulk segregant RNA sequencing and genome resequencing in a recombinant inbred line population. Two bi-parental populations were developed to further verify TaCWI-B1 association with FCR resistance. Overexpression lines and ethyl methanesulfonate (EMS) mutants revealed TaCWI-B1 positively regulating FCR resistance. Determination of cell wall thickness and components showed that the TaCWI-B1-overexpression lines exhibited considerably increased thickness and pectin and cellulose contents. Furthermore, we found that TaCWI-B1 directly interacted with an alpha-galactosidase (TaGAL). EMS mutants showed that TaGAL negatively modulated FCR resistance. The expression of TaGAL is negatively correlated with TaCWI-B1 levels, thus may reduce mannan degradation in the cell wall, consequently leading to thickening of the cell wall. Additionally, TaCWI-B1-overexpression lines and TaGAL mutants showed higher resistance to SE; however, TaCWI-B1 mutants were more susceptible to SE than controls. This study provides insights into a FCR and SE resistance gene to combat soil-borne diseases in common wheat.
Collapse
Affiliation(s)
- Guoguo Lv
- National Key Laboratory of Wheat and Maize Crop Science/CIMMYT-China Wheat and Maize Joint Research Center/Agronomy College, Henan Agricultural University, Zhengzhou, 450000, China
| | - Yixiao Zhang
- National Key Laboratory of Wheat and Maize Crop Science/CIMMYT-China Wheat and Maize Joint Research Center/Agronomy College, Henan Agricultural University, Zhengzhou, 450000, China
| | - Lin Ma
- National Key Laboratory of Wheat and Maize Crop Science/CIMMYT-China Wheat and Maize Joint Research Center/Agronomy College, Henan Agricultural University, Zhengzhou, 450000, China
| | - Xiangning Yan
- National Key Laboratory of Wheat and Maize Crop Science/CIMMYT-China Wheat and Maize Joint Research Center/Agronomy College, Henan Agricultural University, Zhengzhou, 450000, China
| | - Mingjie Yuan
- National Key Laboratory of Wheat and Maize Crop Science/CIMMYT-China Wheat and Maize Joint Research Center/Agronomy College, Henan Agricultural University, Zhengzhou, 450000, China
| | - Jianhui Chen
- National Key Laboratory of Wheat and Maize Crop Science/CIMMYT-China Wheat and Maize Joint Research Center/Agronomy College, Henan Agricultural University, Zhengzhou, 450000, China
| | - Yongzhen Cheng
- National Key Laboratory of Wheat and Maize Crop Science/CIMMYT-China Wheat and Maize Joint Research Center/Agronomy College, Henan Agricultural University, Zhengzhou, 450000, China
| | - Xi Yang
- National Key Laboratory of Wheat and Maize Crop Science/CIMMYT-China Wheat and Maize Joint Research Center/Agronomy College, Henan Agricultural University, Zhengzhou, 450000, China
| | - Qi Qiao
- National Key Laboratory of Wheat and Maize Crop Science/CIMMYT-China Wheat and Maize Joint Research Center/Agronomy College, Henan Agricultural University, Zhengzhou, 450000, China
| | - Leilei Zhang
- National Key Laboratory of Wheat and Maize Crop Science/CIMMYT-China Wheat and Maize Joint Research Center/Agronomy College, Henan Agricultural University, Zhengzhou, 450000, China
| | - Mohsin Niaz
- National Key Laboratory of Wheat and Maize Crop Science/CIMMYT-China Wheat and Maize Joint Research Center/Agronomy College, Henan Agricultural University, Zhengzhou, 450000, China
| | - Xiaonan Sun
- National Key Laboratory of Wheat and Maize Crop Science/CIMMYT-China Wheat and Maize Joint Research Center/Agronomy College, Henan Agricultural University, Zhengzhou, 450000, China
| | - Qijun Zhang
- Department of Plant Pathology, North Dakota State University, Fargo, North Dakota, USA
| | - Shaobin Zhong
- Department of Plant Pathology, North Dakota State University, Fargo, North Dakota, USA
| | - Feng Chen
- National Key Laboratory of Wheat and Maize Crop Science/CIMMYT-China Wheat and Maize Joint Research Center/Agronomy College, Henan Agricultural University, Zhengzhou, 450000, China
| |
Collapse
|
8
|
Zhao J, Li X, Qiao L, Zheng X, Wu B, Guo M, Feng M, Qi Z, Yang W, Zheng J. Identification of structural variations related to drought tolerance in wheat (Triticum aestivum L.). TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2023; 136:37. [PMID: 36897407 DOI: 10.1007/s00122-023-04283-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/18/2022] [Accepted: 11/07/2022] [Indexed: 06/18/2023]
Abstract
Structural variations are common in plant genomes, affecting meiotic recombination and distorted segregation in wheat. And presence/absence variations can significantly affect drought tolerance in wheat. Drought is a major abiotic stress limiting wheat production. Common wheat has a complex genome with three sub-genomes, which host large numbers of structural variations (SVs). SVs play critical roles in understanding the genetic contributions of plant domestication and phenotypic plasticity, but little is known about their genomic characteristics and their effects on drought tolerance. In the present study, high-resolution karyotypes of 180 doubled haploids (DHs) were developed. Signal polymorphisms between the parents involved with 8 presence-absence variations (PAVs) of tandem repeats (TR) distributed on the 7 (2A, 4A, 5A, 7A, 3B, 7B, and 2D) of 21 chromosomes. Among them, PAV on chromosome 2D showed distorted segregation, others transmit normal conforming to a 1:1 segregation ration in the population; and a PAVs recombination occurred on chromosome 2A. Association analysis of PAV and phenotypic traits under different water regimes, we found PAVs on chromosomes 4A, 5A, and 7B showed negative effect on grain length (GL) and grain width (GW); PAV.7A had opposite effect on grain thickness (GT) and spike length (SL), with the effect on traits differing under different water regimes. PAVs on linkage group 2A, 4A, 7A, 2D, and 7B associated with the drought tolerance coefficients (DTCs), and significant negative effect on drought resistance values (D values) were detected in PAV.7B. Additionally, quantitative trait loci (QTL) associated with phenotypic traits using the 90 K SNP array showed QTL for DTCs and grain-related traits in chromosomes 4A, and 5A, 3B were co-localized in differential regions of PAVs. These PAVs can cause the differentiation of the target region of SNP and could be used for genetic improvement of agronomic traits under drought stress via marker-assisted selection (MAS) breeding.
Collapse
Affiliation(s)
- Jiajia Zhao
- College of Agriculture, State Key Laboratory of Sustainable Dryland Agriculture, Shanxi Agricultural University, Taigu, China
- Institute of Wheat Research, Shanxi Agricultural University, Linfen, China
- State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, China
| | - Xiaohua Li
- Institute of Wheat Research, Shanxi Agricultural University, Linfen, China
| | - Ling Qiao
- Institute of Wheat Research, Shanxi Agricultural University, Linfen, China
| | - Xingwei Zheng
- Institute of Wheat Research, Shanxi Agricultural University, Linfen, China
| | - Bangbang Wu
- Institute of Wheat Research, Shanxi Agricultural University, Linfen, China
| | - Meijun Guo
- College of Agriculture, State Key Laboratory of Sustainable Dryland Agriculture, Shanxi Agricultural University, Taigu, China
- Jinzhong University, Jinzhong, China
| | - Meichen Feng
- College of Agriculture, State Key Laboratory of Sustainable Dryland Agriculture, Shanxi Agricultural University, Taigu, China
| | - Zengjun Qi
- State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, China
| | - Wude Yang
- College of Agriculture, State Key Laboratory of Sustainable Dryland Agriculture, Shanxi Agricultural University, Taigu, China.
| | - Jun Zheng
- Institute of Wheat Research, Shanxi Agricultural University, Linfen, China.
| |
Collapse
|
9
|
Li J, Xu X, Ma Y, Sun Q, Xie C, Ma J. An Improved Inoculation Method to Detect Wheat and Barley Genotypes for Resistance to Fusarium Crown Rot. PLANT DISEASE 2022; 106:1122-1127. [PMID: 35341329 DOI: 10.1094/pdis-09-21-1871-re] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/14/2023]
Abstract
Fusarium crown rot (FCR), caused by Fusarium species, is a serious soilborne fungal disease in many wheat growing regions in the world. A reliable FCR assessment method is essential for germplasm screening and host resistance studies. Here, we report a new assay in which we inoculated wheat seedlings grown in a glasshouse for FCR by injecting spore suspensions into the seedling stems. The effects of inoculum concentration and injection time points on disease severity were investigated. Of different treatments, the injection of 107 macroconidia/ml suspension at one leaf and one heart stage gave best results. A collection of 92 emmer-derived hexaploid bread wheats, 43 barley germplasms, and four wheat genotypes with known resistance levels to FCR was used to validate this new method. Repeatability of the two trials in the validation experiments was high (r = 0.97, P < 0.01). Two emmer-derived hexaploid bread wheat and three Chinese barley germplasms showed consistent resistance to FCR in multiple rounds of selection. The short timeframe of this assay for phenotypic screening makes it a valuable tool to eliminate germplasms with undesirable susceptibility to FCR at seedling stage before costly field assays.
Collapse
Affiliation(s)
- Jinlong Li
- College of Agronomy and Biotechnology, China Agricultural University, Beijing 100193, China
| | - Xiangru Xu
- College of Agronomy and Biotechnology, China Agricultural University, Beijing 100193, China
| | - Yanling Ma
- The Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Qixin Sun
- College of Agronomy and Biotechnology, China Agricultural University, Beijing 100193, China
| | - Chaojie Xie
- College of Agronomy and Biotechnology, China Agricultural University, Beijing 100193, China
| | - Jun Ma
- College of Agronomy and Biotechnology, China Agricultural University, Beijing 100193, China
| |
Collapse
|
10
|
Wu T, Guo F, Xu G, Yu J, Zhang L, Wei X, Zhu X, Zhang Z. The Receptor-like Kinase TaCRK-7A Inhibits Fusarium pseudograminearum Growth and Mediates Resistance to Fusarium Crown Rot in Wheat. BIOLOGY 2021; 10:biology10111122. [PMID: 34827115 PMCID: PMC8614996 DOI: 10.3390/biology10111122] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/29/2021] [Revised: 10/25/2021] [Accepted: 10/29/2021] [Indexed: 01/08/2023]
Abstract
The fungus F. pseudograminearum can cause the destructive disease Fusarium crown rot (FCR) of wheat, an important staple crop. Functional roles of FCR resistance genes in wheat are largely unknown. In the current research, we characterized the antifungal activity and positive-regulatory function of the cysteine-rich repeat receptor-like kinase TaCRK-7A in the defense against F. pseudograminearum in wheat. Antifungal assays showed that the purified TaCRK-7A protein inhibited the growth of F. pseudograminearum. TaCRK-7A transcript abundance was elevated after F. pseudograminearum attack and was positively related to FCR-resistance levels of wheat cultivars. Intriguingly, knocking down of TaCRK-7A transcript increased susceptibility of wheat to FCR and decreased transcript levels of defense-marker genes in wheat. Furthermore, the transcript abundances of TaCRK-7A and its modulated-defense genes were responsive to exogenous jasmonate treatment. Taken together, these results suggest that TaCRK-7A can directly inhibit F. pseudograminearum growth and mediates FCR-resistance by promoting the expression of wheat defense genes in the jasmonate pathway. Thus, TaCRK-7A is a potential gene resource in FCR-resistant wheat breeding program.
Collapse
Affiliation(s)
- Tianci Wu
- Institute of Crop Sciences, The National Key Facility for Crop Gene Resources and Genetic Improvement, Chinese Academy of Agricultural Sciences, Beijing 100081, China; (T.W.); (F.G.); (X.W.)
- The Laboratory of Forestry Genetics, Central South University of Forestry and Technology, Changsha 410004, China;
| | - Feilong Guo
- Institute of Crop Sciences, The National Key Facility for Crop Gene Resources and Genetic Improvement, Chinese Academy of Agricultural Sciences, Beijing 100081, China; (T.W.); (F.G.); (X.W.)
- The Laboratory of Forestry Genetics, Central South University of Forestry and Technology, Changsha 410004, China;
| | - Gangbiao Xu
- The Laboratory of Forestry Genetics, Central South University of Forestry and Technology, Changsha 410004, China;
| | - Jinfeng Yu
- College of Plant Protection, Shandong Agricultural University, Tai’an 271018, China; (J.Y.); (L.Z.)
| | - Li Zhang
- College of Plant Protection, Shandong Agricultural University, Tai’an 271018, China; (J.Y.); (L.Z.)
| | - Xuening Wei
- Institute of Crop Sciences, The National Key Facility for Crop Gene Resources and Genetic Improvement, Chinese Academy of Agricultural Sciences, Beijing 100081, China; (T.W.); (F.G.); (X.W.)
| | - Xiuliang Zhu
- Institute of Crop Sciences, The National Key Facility for Crop Gene Resources and Genetic Improvement, Chinese Academy of Agricultural Sciences, Beijing 100081, China; (T.W.); (F.G.); (X.W.)
- Correspondence: (X.Z.); (Z.Z.)
| | - Zengyan Zhang
- Institute of Crop Sciences, The National Key Facility for Crop Gene Resources and Genetic Improvement, Chinese Academy of Agricultural Sciences, Beijing 100081, China; (T.W.); (F.G.); (X.W.)
- Correspondence: (X.Z.); (Z.Z.)
| |
Collapse
|
11
|
Su J, Zhao J, Zhao S, Li M, Pang S, Kang Z, Zhen W, Chen S, Chen F, Wang X. Genetics of Resistance to Common Root Rot (Spot Blotch), Fusarium Crown Rot, and Sharp Eyespot in Wheat. Front Genet 2021; 12:699342. [PMID: 34249110 PMCID: PMC8260946 DOI: 10.3389/fgene.2021.699342] [Citation(s) in RCA: 19] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/23/2021] [Accepted: 05/21/2021] [Indexed: 12/05/2022] Open
Abstract
Due to soil changes, high density planting, and the use of straw-returning methods, wheat common root rot (spot blotch), Fusarium crown rot (FCR), and sharp eyespot (sheath blight) have become severe threats to global wheat production. Only a few wheat genotypes show moderate resistance to these root and crown rot fungal diseases, and the genetic determinants of wheat resistance to these devastating diseases are poorly understood. This review summarizes recent results of genetic studies of wheat resistance to common root rot, Fusarium crown rot, and sharp eyespot. Wheat germplasm with relatively higher resistance are highlighted and genetic loci controlling the resistance to each disease are summarized.
Collapse
Affiliation(s)
- Jun Su
- State Key Laboratory of North China Crop Improvement and Regulation, College of Plant Protection, Hebei Agricultural University, Baoding, China
| | - Jiaojie Zhao
- State Key Laboratory of North China Crop Improvement and Regulation, College of Plant Protection, Hebei Agricultural University, Baoding, China
| | - Shuqing Zhao
- State Key Laboratory of North China Crop Improvement and Regulation, College of Plant Protection, Hebei Agricultural University, Baoding, China
| | - Mengyu Li
- State Key Laboratory of North China Crop Improvement and Regulation, College of Plant Protection, Hebei Agricultural University, Baoding, China
| | - Shuyong Pang
- State Key Laboratory of North China Crop Improvement and Regulation, College of Plant Protection, Hebei Agricultural University, Baoding, China
| | - Zhensheng Kang
- State Key Laboratory of Crop Stress Biology for Arid Areas, College of Plant Protection, Northwest A&F University, Xianyang, China
| | - Wenchao Zhen
- College of Agronomy, Hebei Agricultural University, Baoding, China
| | - Shisheng Chen
- Institute of Advanced Agricultural Sciences, Peking University, Weifang, China
| | - Feng Chen
- National Key Laboratory of Wheat and Maize Crop Science, Agronomy College, Henan Agricultural University, Zhengzhou, China
| | - Xiaodong Wang
- State Key Laboratory of North China Crop Improvement and Regulation, College of Plant Protection, Hebei Agricultural University, Baoding, China
| |
Collapse
|
12
|
Malosetti M, Zwep LB, Forrest K, van Eeuwijk FA, Dieters M. Lessons from a GWAS study of a wheat pre-breeding program: pyramiding resistance alleles to Fusarium crown rot. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2021; 134:897-908. [PMID: 33367942 PMCID: PMC7925461 DOI: 10.1007/s00122-020-03740-8] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/02/2020] [Accepted: 11/24/2020] [Indexed: 05/18/2023]
Abstract
Much has been published on QTL detection for complex traits using bi-parental and multi-parental crosses (linkage analysis) or diversity panels (GWAS studies). While successful for detection, transferability of results to real applications has proven more difficult. Here, we combined a QTL detection approach using a pre-breeding populations which utilized intensive phenotypic selection for the target trait across multiple plant generations, combined with rapid generation turnover (i.e. "speed breeding") to allow cycling of multiple plant generations each year. The reasoning is that QTL mapping information would complement the selection process by identifying the genome regions under selection within the relevant germplasm. Questions to answer were the location of the genomic regions determining response to selection and the origin of the favourable alleles within the pedigree. We used data from a pre-breeding program that aimed at pyramiding different resistance sources to Fusarium crown rot into elite (but susceptible) wheat backgrounds. The population resulted from a complex backcrossing scheme involving multiple resistance donors and multiple elite backgrounds, akin to a MAGIC population (985 genotypes in total, with founders, and two major offspring layers within the pedigree). A significant increase in the resistance level was observed (i.e. a positive response to selection) after the selection process, and 17 regions significantly associated with that response were identified using a GWAS approach. Those regions included known QTL as well as potentially novel regions contributing resistance to Fusarium crown rot. In addition, we were able to trace back the sources of the favourable alleles for each QTL. We demonstrate that QTL detection using breeding populations under selection for the target trait can identify QTL controlling the target trait and that the frequency of the favourable alleles was increased as a response to selection, thereby validating the QTL detected. This is a valuable opportunistic approach that can provide QTL information that is more easily transferred to breeding applications.
Collapse
Affiliation(s)
- Marcos Malosetti
- Mathematical and Statistical Methods (Biometris), Wageningen University and Research, Wageningen, The Netherlands
| | - Laura B Zwep
- Mathematical and Statistical Methods (Biometris), Wageningen University and Research, Wageningen, The Netherlands
- Mathematical Institute, Leiden University, Leiden, The Netherlands
| | - Kerrie Forrest
- Agriculture Victoria Research, Agribio, Bundoora, Melbourne, VIC, 3083, Australia
| | - Fred A van Eeuwijk
- Mathematical and Statistical Methods (Biometris), Wageningen University and Research, Wageningen, The Netherlands
| | - Mark Dieters
- School of Agriculture and Food Sciences, Faculty of Science, The University of Queensland, Brisbane, Australia.
| |
Collapse
|
13
|
Qi H, Guo F, Lv L, Zhu X, Zhang L, Yu J, Wei X, Zhang Z. The Wheat Wall-Associated Receptor-Like Kinase TaWAK-6D Mediates Broad Resistance to Two Fungal Pathogens Fusarium pseudograminearum and Rhizoctonia cerealis. FRONTIERS IN PLANT SCIENCE 2021; 12:758196. [PMID: 34777437 PMCID: PMC8579037 DOI: 10.3389/fpls.2021.758196] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/13/2021] [Accepted: 09/23/2021] [Indexed: 05/19/2023]
Abstract
The soil-borne fungi Fusarium pseudograminearum and Rhizoctonia cerealis are the major pathogens for the economically important diseases Fusarium crown rot (FCR) and sharp eyespot of common wheat (Triticum aestivum), respectively. However, there has been no report on the broad resistance of wheat genes against both F. pseudograminearum and R. cerealis. In the current study, we identified TaWAK-6D, a wall-associated kinase (WAK) which is an encoding gene located on chromosome 6D, and demonstrated its broad resistance role in the wheat responses to both F. pseudograminearum and R. cerealis infection. TaWAK-6D transcript induction by F. pseudograminearum and R. cerealis was related to the resistance degree of wheat and the gene expression was significantly induced by exogenous pectin treatment. Silencing of TaWAK-6D compromised wheat resistance to F. pseudograminearum and R. cerealis, and repressed the expression of a serial of wheat defense-related genes. Ectopic expression of TaWAK-6D in Nicotiana benthamiana positively modulated the expression of several defense-related genes. TaWAK-6D protein was determined to localize to the plasma membrane in wheat and N. benthamiana. Collectively, the TaWAK-6D at the plasma membrane mediated the broad resistance responses to both F. pseudograminearum and R. cerealis in wheat at the seedling stage. This study, therefore, concludes that TaWAK-6D is a promising gene for improving wheat broad resistance to FCR and sharp eyespot.
Collapse
Affiliation(s)
- Haijun Qi
- The National Key Facility for Crop Gene Resources and Genetic Improvement, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Feilong Guo
- The National Key Facility for Crop Gene Resources and Genetic Improvement, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Liangjie Lv
- Institute of Cereal and Oil Crops, Hebei Academy of Agriculture and Forestry Sciences, Shijiazhuang, China
| | - Xiuliang Zhu
- The National Key Facility for Crop Gene Resources and Genetic Improvement, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Li Zhang
- College of Plant Protection, Shandong Agricultural University, Taian, China
| | - Jinfeng Yu
- College of Plant Protection, Shandong Agricultural University, Taian, China
| | - Xuening Wei
- The National Key Facility for Crop Gene Resources and Genetic Improvement, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Zengyan Zhang
- The National Key Facility for Crop Gene Resources and Genetic Improvement, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China
- *Correspondence: Zengyan Zhang
| |
Collapse
|
14
|
Jin J, Duan S, Qi Y, Yan S, Li W, Li B, Xie C, Zhen W, Ma J. Identification of a novel genomic region associated with resistance to Fusarium crown rot in wheat. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2020; 133:2063-2073. [PMID: 32172298 DOI: 10.1007/s00122-020-03577-1] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/30/2019] [Accepted: 03/04/2020] [Indexed: 05/25/2023]
Abstract
Genome-wide association study (GWAS) on 358 Chinese wheat germplasms and validation in a biparental population identified a novel significant genomic region on 5DL for FCR resistance. Fusarium crown rot (FCR) is a chronic and severe disease in many dryland wheat-producing areas worldwide. In the last few years, the incidence and severity of FCR progressively increased in China, and the disease has currently become a new threat to local wheat crops. Here, we report a genome-wide association study (GWAS) on a set of 358 Chinese germplasms with the wheat 55 K SNP array. A total of 104 SNPs on chromosomes 1BS, 1DS, 2AL, 5AL, 5DS, 5DL, 6BS and 7BL were significantly associated with seedling resistance to FCR in the association panel. Of these SNPs, a novel 13.78 Mb region targeted by five SNPs on chromosome arm 5DL was continually detected in all three trials. The effects of this region on FCR resistance was confirmed in biparental population. qRT-PCR showed that within this 5DL region, several genes encoding TIR-NBS-LRR proteins and proteins related to mycotoxins deoxynivalenol (DON) detoxification increased rapidly in the disease-resistant variety 04 Zhong 36 than the susceptible variety Xinmai 26 after inoculation. Our study provides new insights into gene discovery and creation of new cultivars with desirable alleles for improving FCR resistance in wheat.
Collapse
Affiliation(s)
- Jingjing Jin
- College of Agronomy and Biotechnology, China Agricultural University, Beijing, 100193, China
- College of Plant Protection, Hebei Agricultural University, Baoding, 071001, China
| | - Shuonan Duan
- College of Agronomy and Biotechnology, China Agricultural University, Beijing, 100193, China
- Institute of Genetics and Physiology, Hebei Academy of Agriculture and Forestry Sciences, Shijiazhuang, 050051, China
| | - Yongzhi Qi
- College of Plant Protection, Hebei Agricultural University, Baoding, 071001, China
| | - Suhong Yan
- Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang, 455000, China
| | - Wei Li
- Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang, 455000, China
| | - Baoyun Li
- College of Agronomy and Biotechnology, China Agricultural University, Beijing, 100193, China
| | - Chaojie Xie
- College of Agronomy and Biotechnology, China Agricultural University, Beijing, 100193, China
| | - Wenchao Zhen
- College of Agronomy, Hebei Agricultural University, Baoding, 071001, China.
| | - Jun Ma
- College of Agronomy and Biotechnology, China Agricultural University, Beijing, 100193, China.
| |
Collapse
|
15
|
Shi S, Zhao J, Pu L, Sun D, Han D, Li C, Feng X, Fan D, Hu X. Identification of New Sources of Resistance to Crown Rot and Fusarium Head Blight in Wheat. PLANT DISEASE 2020; 104:1979-1985. [PMID: 32384253 DOI: 10.1094/pdis-10-19-2254-re] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
Crown rot (CR) and Fusarium head blight (FHB) are two serious wheat diseases caused by Fusarium pathogens in China. To identify new resistant sources for CR and FHB, 205 Chinese wheat cultivars collected from Huang-Huai wheat-growing region in China were screened for resistance. Cunmai633, LS4607, Pubing01, and Hongyun2 showed seedling resistance to CR with disease index (DI) less than 0.25. Sixteen cultivars showed adult-plant resistance to CR with DI lower than 0.10. Twenty-six cultivars showed moderate resistance to CR at seedling stage with DI from 0.26 to 0.35, and 63 cultivars showed moderate adult-plant resistance with DI from 0.11 to 0.20. Among them, Cunmai633, LS4607, Pubing01, Xinong916, Zhengda161, Xumai14017, Zhengpinmai30, Bainong8822, Jimai216, Huacheng865, Fengyumai5, and Tianmin319 showed resistance or moderate resistance to CR at both seedling and adult plant stages, with Cunmai633 showing the best resistance. Most of the cultivars (>76%) were susceptible to FHB in both the 2017 and 2018 experiments with DI > 0.40. However, some cultivars demonstrated excellent FHB resistance. For example, Zhongyu1526, Tianminxiaoyan369, and Yangao168 were resistant (DI ≤ 0.25) in 2017 and moderately resistant (0.26 ≤ DI ≤ 0.40) in 2018; Zhongwo9 was moderately resistant in 2017 (DI = 0.38) and resistant in 2018 (DI = 0.25). Eight cultivars (Cunmai608, Zhengmai162, Minfeng266, Junda159, LS4607, Deyan1603, Pumai1165, and Fengmai12) showed moderate FHB resistance with DI lower than 0.40 in both experiments. LS4607 showed moderate resistance to both diseases. The resistant cultivars identified in this study can be used for mapping the resistance genes and improving resistance to CR and/or FHB.
Collapse
Affiliation(s)
- Shandang Shi
- State Key Laboratory of Crop Stress Biology for Arid Areas, Northwest A&F University, Yangling, Shaanxi 712100, China
- College of Agronomy, Northwest A&F University, Yangling, Shaanxi 712100, China
| | - Jingchen Zhao
- College of Plant Protection, Northwest A&F University, Yangling, Shaanxi 712100, China
| | - Lefan Pu
- College of Agronomy, Northwest A&F University, Yangling, Shaanxi 712100, China
| | - Daojie Sun
- College of Agronomy, Northwest A&F University, Yangling, Shaanxi 712100, China
| | - Dejun Han
- State Key Laboratory of Crop Stress Biology for Arid Areas, Northwest A&F University, Yangling, Shaanxi 712100, China
- College of Agronomy, Northwest A&F University, Yangling, Shaanxi 712100, China
| | - Chunlian Li
- College of Agronomy, Northwest A&F University, Yangling, Shaanxi 712100, China
| | - Xiaojun Feng
- Shaanxi Plant Protection Extension Station, Xi'an, Shaanxi 710003, China
| | - Dongsheng Fan
- Shaanxi Plant Protection Extension Station, Xi'an, Shaanxi 710003, China
| | - Xiaoping Hu
- State Key Laboratory of Crop Stress Biology for Arid Areas, Northwest A&F University, Yangling, Shaanxi 712100, China
- College of Plant Protection, Northwest A&F University, Yangling, Shaanxi 712100, China
| |
Collapse
|
16
|
Perincherry L, Lalak-Kańczugowska J, Stępień Ł. Fusarium-Produced Mycotoxins in Plant-Pathogen Interactions. Toxins (Basel) 2019; 11:toxins11110664. [PMID: 31739566 PMCID: PMC6891594 DOI: 10.3390/toxins11110664] [Citation(s) in RCA: 89] [Impact Index Per Article: 17.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/29/2019] [Revised: 11/08/2019] [Accepted: 11/12/2019] [Indexed: 12/19/2022] Open
Abstract
Pathogens belonging to the Fusarium genus are causal agents of the most significant crop diseases worldwide. Virtually all Fusarium species synthesize toxic secondary metabolites, known as mycotoxins; however, the roles of mycotoxins are not yet fully understood. To understand how a fungal partner alters its lifestyle to assimilate with the plant host remains a challenge. The review presented the mechanisms of mycotoxin biosynthesis in the Fusarium genus under various environmental conditions, such as pH, temperature, moisture content, and nitrogen source. It also concentrated on plant metabolic pathways and cytogenetic changes that are influenced as a consequence of mycotoxin confrontations. Moreover, we looked through special secondary metabolite production and mycotoxins specific for some significant fungal pathogens-plant host models. Plant strategies of avoiding the Fusarium mycotoxins were also discussed. Finally, we outlined the studies on the potential of plant secondary metabolites in defense reaction to Fusarium infection.
Collapse
|
17
|
Gao S, Zheng Z, Hu H, Shi H, Ma J, Liu Y, Wei Y, Zheng YL, Zhou M, Liu C. A Novel QTL Conferring Fusarium Crown Rot Resistance Located on Chromosome Arm 6HL in Barley. FRONTIERS IN PLANT SCIENCE 2019; 10:1206. [PMID: 31681353 PMCID: PMC6803518 DOI: 10.3389/fpls.2019.01206] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/12/2019] [Accepted: 09/02/2019] [Indexed: 05/26/2023]
Abstract
Fusarium crown rot (FCR), caused primarily by Fusarium pseudograminearum, is a devastating disease for cereal production in semi-arid regions worldwide. To identify and characterize loci conferring FCR resistance, we assessed a landrace AWCS799 which is among the best lines identified from a systematic screening of more than 1,000 genotypes. Genetic control of its resistance was investigated by generating and analyzing two populations of recombinant inbred lines with AWCS799 as the common parent. One of the populations was used for QTL detection and the other for validation. A novel QTL, located on the long arm of chromosome 6H (designated as Qcrs.caf-6H), was consistently detected in each of the four FCR severity tests conducted against the mapping population. The QTL explained up to 28.3% of the phenotypic variance, and its effect was confirmed in the validation population. Significant interaction between this resistance locus and either plant height or heading date was not detected, further facilitating its manipulation in breeding programs.
Collapse
Affiliation(s)
- Shang Gao
- Agriculture and Food, CSIRO, St Lucia, QLD, Australia
- TIA, University of Tasmania, Prospect, TAS, Australia
- Triticeae Research Institute, Sichuan Agricultural University, Wenjiang, Chengdu, China
| | - Zhi Zheng
- Agriculture and Food, CSIRO, St Lucia, QLD, Australia
| | - Haiyan Hu
- Agriculture and Food, CSIRO, St Lucia, QLD, Australia
- School of Life Science and Technology, Henan Institute of Science and Technology, Xinxiang, China
| | - Haoran Shi
- Triticeae Research Institute, Sichuan Agricultural University, Wenjiang, Chengdu, China
| | - Jian Ma
- Triticeae Research Institute, Sichuan Agricultural University, Wenjiang, Chengdu, China
| | - Yaxi Liu
- Triticeae Research Institute, Sichuan Agricultural University, Wenjiang, Chengdu, China
| | - Yuming Wei
- Triticeae Research Institute, Sichuan Agricultural University, Wenjiang, Chengdu, China
| | - You-Liang Zheng
- Triticeae Research Institute, Sichuan Agricultural University, Wenjiang, Chengdu, China
| | - Meixue Zhou
- TIA, University of Tasmania, Prospect, TAS, Australia
| | - Chunji Liu
- Agriculture and Food, CSIRO, St Lucia, QLD, Australia
| |
Collapse
|
18
|
Gao S, Zheng Z, Powell J, Habib A, Stiller J, Zhou M, Liu C. Validation and delineation of a locus conferring Fusarium crown rot resistance on 1HL in barley by analysing transcriptomes from multiple pairs of near isogenic lines. BMC Genomics 2019; 20:650. [PMID: 31412765 PMCID: PMC6694680 DOI: 10.1186/s12864-019-6011-8] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/05/2019] [Accepted: 07/31/2019] [Indexed: 01/17/2023] Open
Abstract
BACKGROUND Fusarium crown rot (FCR) is a chronic and severe disease in cereal production in semi-arid regions worldwide. A putative quantitative trait locus conferring FCR resistance, Qcrs.cpi-1H, had previously been mapped on the long arm of chromosome 1H in barley. RESULTS In this study, five pairs of near-isogenic lines (NILs) targeting the 1HL locus were developed. Analysing the NILs found that the resistant allele at Qcrs.cpi-1H significantly reduced FCR severity. Transcriptomic analysis was then conducted against three of the NIL pairs, which placed the Qcrs.cpi-1H locus in an interval spanning about 11 Mbp. A total of 56 expressed genes bearing single nucleotide polymorphisms (SNPs) were detected in this interval. Five of them contain non-synonymous SNPs. These results would facilitate detailed mapping as well as cloning gene(s) underlying the resistance locus. CONCLUSION NILs developed in this study and the transcriptomic sequences obtained from them did not only allow the validation of the resistance locus Qcrs.cpi-1H and the identification of candidate genes underlying its resistance, they also allowed the delineation of the resistance locus and the development of SNPs markers which formed a solid base for detailed mapping as well as cloning gene(s) underlying the locus.
Collapse
Affiliation(s)
- Shang Gao
- CSIRO Agriculture and Food, St Lucia, Queensland 4067 Australia
- School of Land and Food and Tasmanian Institute of Agriculture, University of Tasmania, Hobart, Australia
| | - Zhi Zheng
- CSIRO Agriculture and Food, St Lucia, Queensland 4067 Australia
| | - Jonathan Powell
- CSIRO Agriculture and Food, St Lucia, Queensland 4067 Australia
| | - Ahsan Habib
- CSIRO Agriculture and Food, St Lucia, Queensland 4067 Australia
- School of Land and Food and Tasmanian Institute of Agriculture, University of Tasmania, Hobart, Australia
- Biotechnology and Genetic Engineering Discipline, Khulna University, Khulna, 9208 Bangladesh
| | - Jiri Stiller
- CSIRO Agriculture and Food, St Lucia, Queensland 4067 Australia
| | - Meixue Zhou
- School of Land and Food and Tasmanian Institute of Agriculture, University of Tasmania, Hobart, Australia
| | - Chunji Liu
- CSIRO Agriculture and Food, St Lucia, Queensland 4067 Australia
| |
Collapse
|
19
|
Ma J, Qin N, Cai B, Chen G, Ding P, Zhang H, Yang C, Huang L, Mu Y, Tang H, Liu Y, Wang J, Qi P, Jiang Q, Zheng Y, Liu C, Lan X, Wei Y. Identification and validation of a novel major QTL for all-stage stripe rust resistance on 1BL in the winter wheat line 20828. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2019; 132:1363-1373. [PMID: 30680420 DOI: 10.1007/s00122-019-03283-7] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/20/2018] [Accepted: 01/10/2019] [Indexed: 05/24/2023]
Abstract
A major, likely novel stripe rust resistance QTL for all-stage resistance on chromosome arm 1BL identified in a 1.76-cM interval using a saturated linkage map was validated in four populations with different genetic backgrounds. Stripe rust is a globally important disease of wheat. Identification and utilization of new resistance genes are essential for breeding resistant cultivars. Wheat line 20828 has exhibited high levels of stripe rust resistance for over a decade. However, the genetics of stripe rust resistance in this line has not been studied. A set of 199 recombinant inbred lines (RILs) were developed from a cross between 20828 and a susceptible cultivar Chuannong 16. The RIL population was genotyped with the Wheat55K SNP (single nucleotide polymorphism) array and SSR (simple sequence repeat) markers and evaluated in four environments with current predominant Puccinia striiformis f. sp. tritici t races including CYR32, CYR33 and CYR34. Four stable QTL were located on chromosomes 1B (2 QTL), 4A and 6A. Among them, the major QTL, QYr.sicau-1B.1 (LOD = 23-28, PVE = 16-39%), was localized to a 1.76-cM interval flanked by SSR markers Xwmc216 and Xwmc156 on chromosome 1BL. Eight resistance genes were previously identified in the physical interval of QYr.sicau-1B.1. Compared with previous studies, QYr.sicau-1B.1 is a new gene for resistant to stripe rust. It was further verified by analysis of the closely linked SSR markers Xwmc216 and Xwmc156 in four other populations with different genetic backgrounds. QYr.sicau-1B.1 reduced the stripe rust disease index by up to 82.8%. Three minor stable QTL (located on chromosomes 1B, 4A and 6A, respectively) also added to the resistance level of QYr.sicau-1B.1. Our results provide valuable information for further fine mapping and cloning as well as molecular-assisted breeding with QYr.sicau-1B.1.
Collapse
Affiliation(s)
- Jian Ma
- Triticeae Research Institute, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China.
- State Key Laboratory of Crop Genetics of Disease Resistance and Disease Control, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China.
| | - Nana Qin
- Triticeae Research Institute, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China
- State Key Laboratory of Crop Genetics of Disease Resistance and Disease Control, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China
| | - Ben Cai
- College of Agronomy, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China
| | - Guoyue Chen
- Triticeae Research Institute, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China
- State Key Laboratory of Crop Genetics of Disease Resistance and Disease Control, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China
| | - Puyang Ding
- Triticeae Research Institute, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China
- State Key Laboratory of Crop Genetics of Disease Resistance and Disease Control, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China
| | - Han Zhang
- Triticeae Research Institute, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China
- State Key Laboratory of Crop Genetics of Disease Resistance and Disease Control, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China
| | - Congcong Yang
- Triticeae Research Institute, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China
- State Key Laboratory of Crop Genetics of Disease Resistance and Disease Control, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China
| | - Lin Huang
- Triticeae Research Institute, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China
- State Key Laboratory of Crop Genetics of Disease Resistance and Disease Control, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China
| | - Yang Mu
- Triticeae Research Institute, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China
- State Key Laboratory of Crop Genetics of Disease Resistance and Disease Control, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China
| | - Huaping Tang
- Triticeae Research Institute, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China
- State Key Laboratory of Crop Genetics of Disease Resistance and Disease Control, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China
| | - Yaxi Liu
- Triticeae Research Institute, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China
- State Key Laboratory of Crop Genetics of Disease Resistance and Disease Control, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China
| | - Jirui Wang
- Triticeae Research Institute, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China
- State Key Laboratory of Crop Genetics of Disease Resistance and Disease Control, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China
| | - Pengfei Qi
- Triticeae Research Institute, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China
- State Key Laboratory of Crop Genetics of Disease Resistance and Disease Control, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China
| | - Qiantao Jiang
- Triticeae Research Institute, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China
- State Key Laboratory of Crop Genetics of Disease Resistance and Disease Control, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China
| | - Youliang Zheng
- Triticeae Research Institute, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China
- State Key Laboratory of Crop Genetics of Disease Resistance and Disease Control, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China
| | - Chunji Liu
- Commonwealth Scientific and Industrial Research Organization Agriculture and Food, St Lucia, QLD, 4067, Australia
| | - Xiujin Lan
- Triticeae Research Institute, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China.
- State Key Laboratory of Crop Genetics of Disease Resistance and Disease Control, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China.
| | - Yuming Wei
- Triticeae Research Institute, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China.
- State Key Laboratory of Crop Genetics of Disease Resistance and Disease Control, Sichuan Agricultural University, Chengdu, 611130, Sichuan, China.
| |
Collapse
|
20
|
Yang X, Pan Y, Singh PK, He X, Ren Y, Zhao L, Zhang N, Cheng S, Chen F. Investigation and genome-wide association study for Fusarium crown rot resistance in Chinese common wheat. BMC PLANT BIOLOGY 2019; 19:153. [PMID: 31014249 PMCID: PMC6480828 DOI: 10.1186/s12870-019-1758-2] [Citation(s) in RCA: 42] [Impact Index Per Article: 8.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/10/2018] [Accepted: 04/04/2019] [Indexed: 05/20/2023]
Abstract
BACKGROUND Fusarium crown rot (FCR) is a severe and chronic disease in common wheat and is able to cause serious yield loss and health problems to human and livestock. RESULTS Here, 234 Chinese wheat cultivars were evaluated in four greenhouse experiments for FCR resistance and genome-wide association studies (GWAS) were performed using the wheat 660 K genotyping assay. The results indicated that most cultivars evaluated showed FCR disease index (DI) of 40-60, while some cultivars showed stably good FCR resistance (DI < 30). GWAS identified 286 SNPs to be significantly associated with FCR resistance, of which 266, 6 and 8 were distributed on chromosomes 6A, 6B and 6D, respectively. The significant SNPs on 6A were located in a 7.0-Mb region containing 51 annotated genes. On the other hand, QTL mapping using a bi-parental population derived from UC1110 and PI610750 detected three QTLs on chromosomes 6A (explaining 7.77-10.17% of phenotypic variation), 2D (7.15-9.29%) and 2A (5.24-6.92%). The 6A QTL in the UC1110/PI610750 population falls into the same chromosomal region as those detected from GWAS, demonstrating its importance in Chinese materials for FCR resistance. CONCLUSION This study could provide useful information for utilization of FCR-resistant wheat germplasm and further understanding of molecular and genetics basis of FCR resistance in common wheat.
Collapse
Affiliation(s)
- Xia Yang
- Agronomy College/National Key Laboratory of Wheat and Maize Crop Science/Collaborative Innovation Center of Henan Grain Crops, Henan Agricultural University, 15 Longzihu College District, Zhengzhou, 450046 China
| | - Yubo Pan
- Agronomy College/National Key Laboratory of Wheat and Maize Crop Science/Collaborative Innovation Center of Henan Grain Crops, Henan Agricultural University, 15 Longzihu College District, Zhengzhou, 450046 China
| | - Pawan K. Singh
- International Maize and Wheat Improvement Center (CIMMYT), Apdo. Postal 6-641, 06600 Mexico DF, Mexico
| | - Xinyao He
- International Maize and Wheat Improvement Center (CIMMYT), Apdo. Postal 6-641, 06600 Mexico DF, Mexico
| | - Yan Ren
- Agronomy College/National Key Laboratory of Wheat and Maize Crop Science/Collaborative Innovation Center of Henan Grain Crops, Henan Agricultural University, 15 Longzihu College District, Zhengzhou, 450046 China
| | - Lei Zhao
- Agronomy College/National Key Laboratory of Wheat and Maize Crop Science/Collaborative Innovation Center of Henan Grain Crops, Henan Agricultural University, 15 Longzihu College District, Zhengzhou, 450046 China
| | - Ning Zhang
- Agronomy College/National Key Laboratory of Wheat and Maize Crop Science/Collaborative Innovation Center of Henan Grain Crops, Henan Agricultural University, 15 Longzihu College District, Zhengzhou, 450046 China
| | - Shunhe Cheng
- Lixiahe Institute of Agricultural and Sciences, Yangzhou, 225007 Jiangsu China
| | - Feng Chen
- Agronomy College/National Key Laboratory of Wheat and Maize Crop Science/Collaborative Innovation Center of Henan Grain Crops, Henan Agricultural University, 15 Longzihu College District, Zhengzhou, 450046 China
| |
Collapse
|
21
|
Jiang Y, Habib A, Zheng Z, Zhou M, Wei Y, Zheng YL, Liu C. Development of tightly linked markers and identification of candidate genes for Fusarium crown rot resistance in barley by exploiting a near-isogenic line-derived population. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2019; 132:217-225. [PMID: 30327844 DOI: 10.1007/s00122-018-3209-0] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/19/2017] [Accepted: 10/11/2018] [Indexed: 06/08/2023]
Abstract
This study demonstrates the feasibility of developing co-segregating markers and identifying candidate genes for Fusarium crown rot resistance in barley based on the generation and exploitation of a near-isogenic line-derived large population. Fusarium crown rot (FCR) is a chronic and severe disease in cereals in semi-arid regions worldwide. Previous studies showed that FCR assessment could be affected by many factors including plant height, growth rate as well as drought stress. Thus, accurate assessment, which is essential for detailed mapping of any locus conferring FCR resistance, is difficult. Targeting one of the resistance loci reported earlier, we developed a near-isogenic line-derived population consisting of 1820 F9 lines. By analysing this population, the Qcrs.cpi-4H locus was mapped to an interval of 0.09 cM covering a physical distance of about 637 kb and 13 markers co-segregating with the targeted locus were developed. Candidate genes underlying the resistance locus were identified by analysing the expression and sequence variation of genes in the targeted interval. The accurate localization and the development of co-segregating markers should facilitate the incorporation of this large-effect QTL into breeding programmes as well as the cloning of gene(s) underlying the locus.
Collapse
Affiliation(s)
- Yunfeng Jiang
- Commonwealth Scientific and Industrial Research Organisation, Agriculture and Food, St. Lucia, QLD, 4067, Australia
- Triticeae Research Institute, Sichuan Agricultural University, Wenjiang, Chengdu, 611130, China
| | - Ahsan Habib
- Commonwealth Scientific and Industrial Research Organisation, Agriculture and Food, St. Lucia, QLD, 4067, Australia
- School of Land and Food and Tasmanian Institute of Agriculture, University of Tasmania, Private Bag 54, Hobart, TAS, 7001, Australia
- Biotechnology and Genetic Engineering Discipline, Khulna University, Khulna, 9208, Bangladesh
| | - Zhi Zheng
- Commonwealth Scientific and Industrial Research Organisation, Agriculture and Food, St. Lucia, QLD, 4067, Australia
- National Foxtail Millet Improvement Centre, Institute of Millet Crops, Hebei Academy of Agricultural and Forestry Sciences, Shijiazhuang, China
| | - Meixue Zhou
- School of Land and Food and Tasmanian Institute of Agriculture, University of Tasmania, Private Bag 54, Hobart, TAS, 7001, Australia
| | - Yuming Wei
- Triticeae Research Institute, Sichuan Agricultural University, Wenjiang, Chengdu, 611130, China
| | - You-Liang Zheng
- Triticeae Research Institute, Sichuan Agricultural University, Wenjiang, Chengdu, 611130, China
| | - Chunji Liu
- Commonwealth Scientific and Industrial Research Organisation, Agriculture and Food, St. Lucia, QLD, 4067, Australia.
| |
Collapse
|
22
|
Erginbaş Orakcı G, Morgounov A, Dababat AA. Determination of Resistance in Winter Wheat Genotypes to the Dryland Root Rots caused by Fusarium culmorum in Turkey. ULUSLARARASI TARIM VE YABAN HAYATI BILIMLERI DERGISI 2018. [DOI: 10.24180/ijaws.414501] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022] Open
|
23
|
Erginbas-Orakci G, Sehgal D, Sohail Q, Ogbonnaya F, Dreisigacker S, Pariyar SR, Dababat AA. Identification of Novel Quantitative Trait Loci Linked to Crown Rot Resistance in Spring Wheat. Int J Mol Sci 2018; 19:E2666. [PMID: 30205560 PMCID: PMC6165080 DOI: 10.3390/ijms19092666] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/25/2018] [Revised: 08/17/2018] [Accepted: 08/25/2018] [Indexed: 01/04/2023] Open
Abstract
Crown rot (CR), caused by various Fusarium species, is a major disease in many cereal-growing regions worldwide. Fusarium culmorum is one of the most important species, which can cause significant yield losses in wheat. A set of 126 advanced International Maize and Wheat Improvement Center (CIMMYT) spring bread wheat lines were phenotyped against CR for field crown, greenhouse crown and stem, and growth room crown resistance scores. Of these, 107 lines were genotyped using Diversity Array Technology (DArT) markers to identify quantitative trait loci linked to CR resistance by genome-wide association study. Results of the population structure analysis grouped the accessions into three sub-groups. Genome wide linkage disequilibrium was large and declined on average within 20 cM (centi-Morgan) in the panel. General linear model (GLM), mixed linear model (MLM), and naïve models were tested for each CR score and the best model was selected based on quarantine-quarantine plots. Three marker-trait associations (MTAs) were identified linked to CR resistance; two of these on chromosome 3B were associated with field crown scores, each explaining 11.4% of the phenotypic variation and the third MTA on chromosome 2D was associated with greenhouse stem score and explained 11.6% of the phenotypic variation. Together, these newly identified loci provide opportunity for wheat breeders to exploit in enhancing CR resistance via marker-assisted selection or deployment in genomic selection in wheat breeding programs.
Collapse
Affiliation(s)
- Gul Erginbas-Orakci
- Global Wheat Program, International Maize and Wheat Improvement Center (CIMMYT), Ankara 06511, Turkey.
| | - Deepmala Sehgal
- International Maize and Wheat Improvement Center (CIMMYT), Apdo. Postal 6-641, Mexico DF06600, Mexico.
| | - Quahir Sohail
- International Winter Wheat Improvement Program (IWWIP), International Maize and Wheat Improvement Center (CIMMYT), Ankara 06511, Turkey.
- Institute of Biotechnology and Genetic Engineering, The University of Agriculture Peshawar, Peshawar 25000, Pakistan.
| | - Francis Ogbonnaya
- Grains Research and Development Corporation (GRDC), P.O. Box 5367, Kingston, ACT 2604, Australia.
| | - Susanne Dreisigacker
- International Maize and Wheat Improvement Center (CIMMYT), Apdo. Postal 6-641, Mexico DF06600, Mexico.
| | - Shree R Pariyar
- Institute of Bio- and Geosciences, Plant Sciences (IBG-2), Forschungszentrum Jülich GmbH, 52425 Jülich, Germany.
| | - Abdelfattah A Dababat
- Global Wheat Program, International Maize and Wheat Improvement Center (CIMMYT), Ankara 06511, Turkey.
| |
Collapse
|
24
|
Voss-Fels KP, Qian L, Gabur I, Obermeier C, Hickey LT, Werner CR, Kontowski S, Frisch M, Friedt W, Snowdon RJ, Gottwald S. Genetic insights into underground responses to Fusarium graminearum infection in wheat. Sci Rep 2018; 8:13153. [PMID: 30177750 PMCID: PMC6120866 DOI: 10.1038/s41598-018-31544-w] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/27/2018] [Accepted: 08/19/2018] [Indexed: 11/16/2022] Open
Abstract
The ongoing global intensification of wheat production will likely be accompanied by a rising pressure of Fusarium diseases. While utmost attention was given to Fusarium head blight (FHB) belowground plant infections of the pathogen have largely been ignored. The current knowledge about the impact of soil borne Fusarium infection on plant performance and the underlying genetic mechanisms for resistance remain very limited. Here, we present the first large-scale investigation of Fusarium root rot (FRR) resistance using a diverse panel of 215 international wheat lines. We obtained data for a total of 21 resistance-related traits, including large-scale Real-time PCR experiments to quantify fungal spread. Association mapping and subsequent haplotype analyses discovered a number of highly conserved genomic regions associated with resistance, and revealed a significant effect of allele stacking on the stembase discoloration. Resistance alleles were accumulated in European winter wheat germplasm, implying indirect prior selection for improved FRR resistance in elite breeding programs. Our results give first insights into the genetic basis of FRR resistance in wheat and demonstrate how molecular parameters can successfully be explored in genomic prediction. Ongoing work will help to further improve our understanding of the complex interactions of genetic factors influencing FRR resistance.
Collapse
Affiliation(s)
- Kai P Voss-Fels
- Department of Plant Breeding, IFZ Research Centre for Biosystems, Land Use and Nutrition, Justus Liebig University, Heinrich-Buff-Ring 26-32, 35392, Giessen, Germany.
- Queensland Alliance for Agriculture and Food Innovation, The University of Queensland, St Lucia, QLD, 4072, Australia.
| | - Lunwen Qian
- Department of Plant Breeding, IFZ Research Centre for Biosystems, Land Use and Nutrition, Justus Liebig University, Heinrich-Buff-Ring 26-32, 35392, Giessen, Germany
- Collaborative Innovation Center of Grain and Oil Crops in South China, Hunan Agricultural University, Changsha, 410128, P.R. China
| | - Iulian Gabur
- Department of Plant Breeding, IFZ Research Centre for Biosystems, Land Use and Nutrition, Justus Liebig University, Heinrich-Buff-Ring 26-32, 35392, Giessen, Germany
| | - Christian Obermeier
- Department of Plant Breeding, IFZ Research Centre for Biosystems, Land Use and Nutrition, Justus Liebig University, Heinrich-Buff-Ring 26-32, 35392, Giessen, Germany
| | - Lee T Hickey
- Queensland Alliance for Agriculture and Food Innovation, The University of Queensland, St Lucia, QLD, 4072, Australia
| | - Christian R Werner
- Department of Plant Breeding, IFZ Research Centre for Biosystems, Land Use and Nutrition, Justus Liebig University, Heinrich-Buff-Ring 26-32, 35392, Giessen, Germany
| | - Stefan Kontowski
- W. von Borries-Eckendorf GmbH & Co. KG, Hovedisser Str. 92, 33818, Leopoldshöhe, Germany
| | - Matthias Frisch
- Institute for Agronomy and Plant Breeding II, IFZ Research Centre for Biosystems, Land Use and Nutrition, Justus Liebig University, Heinrich-Buff-Ring 26-32, 35392, Giessen, Germany
| | - Wolfgang Friedt
- Department of Plant Breeding, IFZ Research Centre for Biosystems, Land Use and Nutrition, Justus Liebig University, Heinrich-Buff-Ring 26-32, 35392, Giessen, Germany
| | - Rod J Snowdon
- Department of Plant Breeding, IFZ Research Centre for Biosystems, Land Use and Nutrition, Justus Liebig University, Heinrich-Buff-Ring 26-32, 35392, Giessen, Germany
| | - Sven Gottwald
- Department of Plant Breeding, IFZ Research Centre for Biosystems, Land Use and Nutrition, Justus Liebig University, Heinrich-Buff-Ring 26-32, 35392, Giessen, Germany
| |
Collapse
|
25
|
Kazan K, Gardiner DM. Fusarium crown rot caused by Fusarium pseudograminearum in cereal crops: recent progress and future prospects. MOLECULAR PLANT PATHOLOGY 2018; 19:1547-1562. [PMID: 29105256 PMCID: PMC6638152 DOI: 10.1111/mpp.12639] [Citation(s) in RCA: 118] [Impact Index Per Article: 19.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/04/2017] [Revised: 10/30/2017] [Accepted: 11/01/2017] [Indexed: 05/22/2023]
Abstract
Diseases caused by Fusarium pathogens inflict major yield and quality losses on many economically important plant species worldwide, including cereals. Fusarium crown rot (FCR), caused by Fusarium pseudograminearum, is a cereal disease that occurs in many arid and semi-arid cropping regions of the world. In recent years, this disease has become more prevalent, in part as a result of the adoption of moisture-preserving cultural practices, such as minimum tillage and stubble retention. In this pathogen profile, we present a brief overview of recent research efforts that have not only advanced our understanding of the interactions between F. pseudograminearum and cereal hosts, but have also provided new disease management options. For instance, significant progress has been made in the genetic characterization of pathogen populations, the development of new tools for disease prediction, and the identification and pyramiding of loci that confer quantitative resistance to FCR in wheat and barley. In addition, transcriptome analyses have revealed new insights into the processes involved in host defence. Significant progress has also been made in understanding the mechanistic details of the F. pseudograminearum infection process. The sequencing and comparative analyses of the F. pseudograminearum genome have revealed novel virulence factors, possibly acquired through horizontal gene transfer. In addition, a conserved pathogen gene cluster involved in the degradation of wheat defence compounds has been identified, and a role for the trichothecene toxin deoxynivalenol (DON) in pathogen virulence has been reported. Overall, a better understanding of cereal host-F. pseudograminearum interactions will lead to the development of new control options for this increasingly important disease problem. Taxonomy: Fusarium pseudograminearum O'Donnell & Aoki; Kingdom Fungi; Phylum Ascomycota; Subphylum Pezizomycotina; Class Sordariomycetes; Subclass Hypocreomycetidae; Order Hypocreales; Family Nectriaceae; Genus Fusarium. Disease symptoms: Fusarium crown rot caused by F. pseudograminearum is also known as crown rot, foot rot and root rot. Infected seedlings can die before or after emergence. If infected seedlings survive, typical disease symptoms are browning of the coleoptile, subcrown internode, lower leaf sheaths and adjacent stems and nodal tissues; this browning can become evident within a few weeks after planting or throughout plant development. Infected plants may develop white heads with no or shrivelled grains. Disease symptoms are exacerbated under water limitation. Identification and detection: Fusarium pseudograminearum macroconidia usually contain three to five septa (22-60.5 × 2.5-5.5 μm). On potato dextrose agar (PDA), aerial mycelia appear floccose and reddish white, with red or reddish-brown reverse pigmentation. Diagnostic polymerase chain reaction (PCR) tests based on the amplification of the gene encoding translation elongation factor-1a (TEF-1a) have been developed for molecular identification. Host range: All major winter cereals can be colonized by F. pseudograminearum. However, the main impact of this pathogen is on bread (Triticum aestivum L.) and durum (Triticum turgidum L. spp. durum (Dest.)) wheat and barley (Hordeum vulgare L.). Oats (Avena sativa L.) can be infected, but show little or no disease symptoms. In addition, the pathogen has been isolated from various other grass genera, such as Phalaris, Agropyron and Bromus, which may occur as common weeds. Useful websites: https://nt.ars-grin.gov/fungaldatabases/; http://plantpath.psu.edu/facilities/fusarium-research-center; https://nt.ars-grin.gov/fungaldatabases/; http://www.speciesfungorum.org/Names/Names.asp.
Collapse
Affiliation(s)
- Kemal Kazan
- CSIRO Agriculture and Food Queensland Bioscience PrecinctSt. LuciaQld 4067Australia
- Queensland Alliance for Agriculture & Food Innovation (QAAFI)University of Queensland, Queensland Bioscience PrecinctSt. LuciaQld 4067Australia
| | - Donald M. Gardiner
- CSIRO Agriculture and Food Queensland Bioscience PrecinctSt. LuciaQld 4067Australia
| |
Collapse
|
26
|
Liu M, Zhao Q, Qi F, Stiller J, Tang S, Miao J, Vrána J, Holušová K, Liu D, Doležel J, Manners JM, Han B, Liu C. Sequence divergence between spelt and common wheat. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2018; 131:1125-1132. [PMID: 29427242 DOI: 10.1007/s00122-018-3064-z] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/21/2017] [Accepted: 01/23/2018] [Indexed: 06/08/2023]
Abstract
Sequence comparison between spelt and common wheat reveals that the former has huge potential in enriching the genetic variation of the latter. Genetic variation is the foundation of crop improvement. By comparing genome sequences of a Triticum spelta accession and one of its derived hexaploid lines with the sequences of the international reference genotype Chinese Spring, we detected variants more than tenfold higher than those present among common wheat (T. aestivum L) genotypes. Furthermore, different from the typical 'V-shaped' pattern of variant distribution often observed along wheat chromosomes, the sequence variation detected in this study was more evenly distributed along the 3B chromosome. This was also the case between T. spelta and the wild emmer genome. Genetic analysis showed that T. spelta and common wheat formed discrete groups. These results showed that, although it is believed that the spelt and common wheat are evolutionarily closely related and belong to the same species, a significant sequence divergence exists between them. Thus, the values of T. spelta in enriching the genetic variation of common wheat can be huge.
Collapse
Affiliation(s)
- Miao Liu
- CSIRO Agriculture and Food, 306 Carmody Road, St Lucia, QLD, 4067, Australia
- Crop Research Institute, Sichuan Academy of Agricultural Sciences, 4 Shizishan Road, Jinjiang District, Chengdu, 610066, China
- Triticeae Research Institute, Sichuan Agricultural University, Wenjiang, Chengdu, 611130, China
| | - Qiang Zhao
- National Center for Gene Research, Chinese Academy of Sciences, 500 Caobao Road, Shanghai, 200233, China
| | - Feng Qi
- National Center for Gene Research, Chinese Academy of Sciences, 500 Caobao Road, Shanghai, 200233, China
| | - Jiri Stiller
- CSIRO Agriculture and Food, 306 Carmody Road, St Lucia, QLD, 4067, Australia
| | - Shican Tang
- National Center for Gene Research, Chinese Academy of Sciences, 500 Caobao Road, Shanghai, 200233, China
| | - Jiashun Miao
- National Center for Gene Research, Chinese Academy of Sciences, 500 Caobao Road, Shanghai, 200233, China
| | - Jan Vrána
- Institute of Experimental Botany, Centre of the Region Haná for Biotechnological and Agricultural Research, Šlechtitelů 31, 78371, Olomouc, Czech Republic
| | - Kateřina Holušová
- Institute of Experimental Botany, Centre of the Region Haná for Biotechnological and Agricultural Research, Šlechtitelů 31, 78371, Olomouc, Czech Republic
| | - Dengcai Liu
- Triticeae Research Institute, Sichuan Agricultural University, Wenjiang, Chengdu, 611130, China
| | - Jaroslav Doležel
- Institute of Experimental Botany, Centre of the Region Haná for Biotechnological and Agricultural Research, Šlechtitelů 31, 78371, Olomouc, Czech Republic
| | - John M Manners
- CSIRO Agriculture and Food, 306 Carmody Road, St Lucia, QLD, 4067, Australia
| | - Bin Han
- National Center for Gene Research, Chinese Academy of Sciences, 500 Caobao Road, Shanghai, 200233, China.
| | - Chunji Liu
- CSIRO Agriculture and Food, 306 Carmody Road, St Lucia, QLD, 4067, Australia.
| |
Collapse
|
27
|
Alahmad S, Dinglasan E, Leung KM, Riaz A, Derbal N, Voss-Fels KP, Able JA, Bassi FM, Christopher J, Hickey LT. Speed breeding for multiple quantitative traits in durum wheat. PLANT METHODS 2018; 14:36. [PMID: 29785201 PMCID: PMC5950182 DOI: 10.1186/s13007-018-0302-y] [Citation(s) in RCA: 36] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/29/2017] [Accepted: 04/26/2018] [Indexed: 05/06/2023]
Abstract
BACKGROUND Plant breeding requires numerous generations to be cycled and evaluated before an improved cultivar is released. This lengthy process is required to introduce and test multiple traits of interest. However, a technology for rapid generation advance named 'speed breeding' was successfully deployed in bread wheat (Triticum aestivum L.) to achieve six generations per year while imposing phenotypic selection for foliar disease resistance and grain dormancy. Here, for the first time the deployment of this methodology is presented in durum wheat (Triticum durum Desf.) by integrating selection for key traits, including above and below ground traits on the same set of plants. This involved phenotyping for seminal root angle (RA), seminal root number (RN), tolerance to crown rot (CR), resistance to leaf rust (LR) and plant height (PH). In durum wheat, these traits are desirable in environments where yield is limited by in-season rainfall with the occurrence of CR and epidemics of LR. To evaluate this multi-trait screening approach, we applied selection to a large segregating F2 population (n = 1000) derived from a bi-parental cross (Outrob4/Caparoi). A weighted selection index (SI) was developed and applied. The gain for each trait was determined by evaluating F3 progeny derived from 100 'selected' and 100 'unselected' F2 individuals. RESULTS Transgressive segregation was observed for all assayed traits in the Outrob4/Caparoi F2 population. Application of the SI successfully shifted the population mean for four traits, as determined by a significant mean difference between 'selected' and 'unselected' F3 families for CR tolerance, LR resistance, RA and RN. No significant shift for PH was observed. CONCLUSIONS The novel multi-trait phenotyping method presents a useful tool for rapid selection of early filial generations or for the characterization of fixed lines out-of-season. Further, it offers efficient use of resources by assaying multiple traits on the same set of plants. Results suggest that when performed in parallel with speed breeding in early generations, selection will enrich recombinant inbred lines with desirable alleles and will reduce the length and number of years required to combine these traits in elite breeding populations and therefore cultivars.
Collapse
Affiliation(s)
- Samir Alahmad
- Queensland Alliance for Agriculture and Food Innovation, The University of Queensland, St Lucia, Brisbane, QLD 4072 Australia
| | - Eric Dinglasan
- Queensland Alliance for Agriculture and Food Innovation, The University of Queensland, St Lucia, Brisbane, QLD 4072 Australia
| | - Kung Ming Leung
- Queensland Alliance for Agriculture and Food Innovation, The University of Queensland, St Lucia, Brisbane, QLD 4072 Australia
| | - Adnan Riaz
- Queensland Alliance for Agriculture and Food Innovation, The University of Queensland, St Lucia, Brisbane, QLD 4072 Australia
| | - Nora Derbal
- Department of Ecology and Environmental Engineering, The University of 8 Mai 1945, 24000 Guelma, Algeria
| | - Kai P. Voss-Fels
- Queensland Alliance for Agriculture and Food Innovation, The University of Queensland, St Lucia, Brisbane, QLD 4072 Australia
| | - Jason A. Able
- School of Agriculture, Food and Wine, Waite Research Institute, The University of Adelaide, Urrbrae, Adelaide, SA 5064 Australia
| | - Filippo M. Bassi
- International Center for the Agricultural Research in the Dry Areas, 10000 Rabat, Morocco
| | - Jack Christopher
- Queensland Alliance for Agriculture and Food Innovation, The University of Queensland, Leslie Research Facility, Toowoomba, 4350 QLD Australia
| | - Lee T. Hickey
- Queensland Alliance for Agriculture and Food Innovation, The University of Queensland, St Lucia, Brisbane, QLD 4072 Australia
| |
Collapse
|
28
|
Ceoloni C, Forte P, Kuzmanović L, Tundo S, Moscetti I, De Vita P, Virili ME, D'Ovidio R. Cytogenetic mapping of a major locus for resistance to Fusarium head blight and crown rot of wheat on Thinopyrum elongatum 7EL and its pyramiding with valuable genes from a Th. ponticum homoeologous arm onto bread wheat 7DL. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2017; 130:2005-2024. [PMID: 28656363 DOI: 10.1007/s00122-017-2939-8] [Citation(s) in RCA: 30] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/05/2017] [Accepted: 06/15/2017] [Indexed: 05/19/2023]
Abstract
A major locus for resistance to different Fusarium diseases was mapped to the most distal end of Th. elongatum 7EL and pyramided with Th. ponticum beneficial genes onto wheat 7DL. Perennial Triticeae species of the Thinopyrum genus are among the richest sources of valuable genes/QTL for wheat improvement. One notable and yet unexploited attribute is the exceptionally effective resistance to a major wheat disease worldwide, Fusarium head blight, associated with the long arm of Thinopyrum elongatum chromosome 7E (7EL). We targeted the transfer of the temporarily designated Fhb-7EL locus into bread wheat, pyramiding it with a Th. ponticum 7el1L segment stably inserted into the 7DL arm of wheat line T4. Desirable genes/QTL mapped along the T4 7el1L segment determine resistance to wheat rusts (Lr19, Sr25) and enhancement of yield-related traits. Mapping of the Fhb-7EL QTL, prerequisite for successful pyramiding, was established here on the basis of a bioassay with Fusarium graminearum of different 7EL-7el1L bread wheat recombinant lines. These were obtained without resorting to any genetic pairing promotion, but relying on the close 7EL-7el1L homoeology, resulting in 20% pairing frequency between the two arms. Fhb-7EL resided in the telomeric portion and resistant recombinants could be isolated with useful combinations of more proximally located 7el1L genes/QTL. The transferred Fhb-7EL locus was shown to reduce disease severity and fungal biomass in grains of infected recombinants by over 95%. The same Fhb-7EL was, for the first time, proved to be effective also against F. culmorum and F. pseudograminearum, predominant agents of crown rot. Prebreeding lines possessing a suitable 7EL-7el1L gene/QTL assembly showed very promising yield performance in preliminary field tests.
Collapse
Affiliation(s)
- Carla Ceoloni
- Department of Agricultural and Forest Sciences (DAFNE), University of Tuscia, 01100, Viterbo, Italy.
| | - Paola Forte
- Department of Agricultural and Forest Sciences (DAFNE), University of Tuscia, 01100, Viterbo, Italy
| | - Ljiljana Kuzmanović
- Department of Agricultural and Forest Sciences (DAFNE), University of Tuscia, 01100, Viterbo, Italy
| | - Silvio Tundo
- Department of Agricultural and Forest Sciences (DAFNE), University of Tuscia, 01100, Viterbo, Italy
| | - Ilaria Moscetti
- Department of Agricultural and Forest Sciences (DAFNE), University of Tuscia, 01100, Viterbo, Italy
| | | | - Maria Elena Virili
- Department of Agricultural and Forest Sciences (DAFNE), University of Tuscia, 01100, Viterbo, Italy
| | - Renato D'Ovidio
- Department of Agricultural and Forest Sciences (DAFNE), University of Tuscia, 01100, Viterbo, Italy
| |
Collapse
|
29
|
Powell JJ, Carere J, Fitzgerald TL, Stiller J, Covarelli L, Xu Q, Gubler F, Colgrave ML, Gardiner DM, Manners JM, Henry RJ, Kazan K. The Fusarium crown rot pathogen Fusarium pseudograminearum triggers a suite of transcriptional and metabolic changes in bread wheat (Triticum aestivum L.). ANNALS OF BOTANY 2017; 119:853-867. [PMID: 27941094 PMCID: PMC5604588 DOI: 10.1093/aob/mcw207] [Citation(s) in RCA: 35] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/08/2016] [Accepted: 08/11/2016] [Indexed: 05/18/2023]
Abstract
Background and Aims Fusarium crown rot caused by the fungal pathogen Fusarium pseudograminearum is a disease of wheat and barley, bearing significant economic cost. Efforts to develop effective resistance to this disease have been hampered by the quantitative nature of resistance and a lack of understanding of the factors associated with resistance and susceptibility. Here, we aimed to dissect transcriptional responses triggered in wheat by F. pseudograminearum infection. Methods We used an RNA-seq approach to analyse host responses during a compatible interaction and identified >2700 wheat genes differentially regulated after inoculation with F. pseudograminearum . The production of a few key metabolites and plant hormones in the host during the interaction was also analysed. Key Results Analysis of gene ontology enrichment showed that a disproportionate number of genes involved in primary and secondary metabolism, signalling and transport were differentially expressed in infected seedlings. A number of genes encoding pathogen-responsive uridine-diphosphate glycosyltransferases (UGTs) potentially involved in detoxification of the Fusarium mycotoxin deoxynivalenol (DON) were differentially expressed. Using a F. pseudograminearum DON-non-producing mutant, DON was shown to play an important role in virulence during Fusarium crown rot. An over-representation of genes involved in the phenylalanine, tryptophan and tyrosine biosynthesis pathways was observed. This was confirmed through metabolite analyses that demonstrated tryptamine and serotonin levels are induced after F. pseudograminearum inoculation. Conclusions Overall, the observed host response in bread wheat to F. pseudograminearum during early infection exhibited enrichment of processes related to pathogen perception, defence signalling, transport and metabolism and deployment of chemical and enzymatic defences. Additional functional analyses of candidate genes should reveal their roles in disease resistance or susceptibility. Better understanding of host responses contributing to resistance and/or susceptibility will aid the development of future disease improvement strategies against this important plant pathogen.
Collapse
Affiliation(s)
- Jonathan J. Powell
- Commonwealth Scientific and Industrial Research Organisation (CSIRO) Agriculture, Queensland Bioscience Precinct, St Lucia, 4067 Queensland, Australia
- Queensland Alliance for Agriculture and Food Innovation, University of Queensland, 4072, St Lucia, Queensland, Australia
| | - Jason Carere
- Commonwealth Scientific and Industrial Research Organisation (CSIRO) Agriculture, Queensland Bioscience Precinct, St Lucia, 4067 Queensland, Australia
| | - Timothy L. Fitzgerald
- Commonwealth Scientific and Industrial Research Organisation (CSIRO) Agriculture, Queensland Bioscience Precinct, St Lucia, 4067 Queensland, Australia
| | - Jiri Stiller
- Commonwealth Scientific and Industrial Research Organisation (CSIRO) Agriculture, Queensland Bioscience Precinct, St Lucia, 4067 Queensland, Australia
| | - Lorenzo Covarelli
- Department of Agricultural, Food and Environmental Sciences, University of Perugia, Borgo XX Giugno 74, 06121 Perugia, Italy
| | - Qian Xu
- Commonwealth Scientific and Industrial Research Organisation Agriculture, Black Mountain, Australian Capital Territory, 2610, Australia
| | - Frank Gubler
- Commonwealth Scientific and Industrial Research Organisation Agriculture, Black Mountain, Australian Capital Territory, 2610, Australia
| | - Michelle L. Colgrave
- Commonwealth Scientific and Industrial Research Organisation (CSIRO) Agriculture, Queensland Bioscience Precinct, St Lucia, 4067 Queensland, Australia
| | - Donald M. Gardiner
- Queensland Alliance for Agriculture and Food Innovation, University of Queensland, 4072, St Lucia, Queensland, Australia
| | - John M. Manners
- Commonwealth Scientific and Industrial Research Organisation Agriculture, Black Mountain, Australian Capital Territory, 2610, Australia
| | - Robert J. Henry
- Queensland Alliance for Agriculture and Food Innovation, University of Queensland, 4072, St Lucia, Queensland, Australia
| | - Kemal Kazan
- Commonwealth Scientific and Industrial Research Organisation (CSIRO) Agriculture, Queensland Bioscience Precinct, St Lucia, 4067 Queensland, Australia
- Queensland Alliance for Agriculture and Food Innovation, University of Queensland, 4072, St Lucia, Queensland, Australia
| |
Collapse
|
30
|
Liu X, Liu C. Effects of Drought-Stress on Fusarium Crown Rot Development in Barley. PLoS One 2016; 11:e0167304. [PMID: 27936004 PMCID: PMC5147875 DOI: 10.1371/journal.pone.0167304] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/03/2016] [Accepted: 11/12/2016] [Indexed: 11/19/2022] Open
Abstract
Fusarium crown rot (FCR), caused by various Fusarium species, is a chronic disease of cereals in many semi-arid regions worldwide. To clarify what effects drought-stress may have on FCR development, visual assessment, histological analysis and quantitative PCR were used to analyse the infection process of F. pseudograminearum in barley. This study observed for the first time that the severity of FCR symptom reflects the quantity of pathogens in infected tissues of barley under both drought-stressed and well-watered conditions. Drought-stress prolongs the initial infection phase but enhances the proliferation and spread of Fusarium pathogens after the initial infection phase. Under drought-stressed conditions, the invading hyphae were frequently observed to re-emerge from stomata and invade again the surrounding epidermis cells. Under the well-watered conditions, however, very few hyphae re-emerged from stomata and most infection was caused by hyphae intracellularly grown. It was also observed that drought-stress increased the length and density of trichomes dramatically especially in the susceptible genotypes, and that the length and density of trichomes were positively related to fungal biomass of F. pseudograminearum in plants.
Collapse
Affiliation(s)
- Xinlun Liu
- College of Agronomy, State Key Laboratory of Crop Stress Biology for Arid Areas, Northwest A&F University, Yangling, Shaanxi, China
- CSIRO Agriculture & Food, St Lucia, Qld, Australia
| | - Chunji Liu
- CSIRO Agriculture & Food, St Lucia, Qld, Australia
- School of Plant Biology, The University of Western Australia, Perth, WA, Australia
| |
Collapse
|
31
|
Liu M, Stiller J, Holušová K, Vrána J, Liu D, Doležel J, Liu C. Chromosome-specific sequencing reveals an extensive dispensable genome component in wheat. Sci Rep 2016; 6:36398. [PMID: 27821854 PMCID: PMC5099574 DOI: 10.1038/srep36398] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/07/2016] [Accepted: 10/14/2016] [Indexed: 12/22/2022] Open
Abstract
The hexaploid wheat genotype Chinese Spring (CS) has been used worldwide as the reference base for wheat genetics and genomics, and significant resources have been used by the international community to generate a reference wheat genome based on this genotype. By sequencing flow-sorted 3B chromosome from a hexaploid wheat genotype CRNIL1A and comparing the obtained sequences with those available for CS, we detected that a large number of sequences in the former were missing in the latter. If the distribution of such sequences in the hexaploid wheat genome is random, CRNILA sequences missing in CS could be as much as 159.3 Mb even if only fragments of 50 bp or longer were considered. Analysing RNA sequences available in the public domains also revealed that dispensable genes are common in hexaploid wheat. Together with those extensive intra- and interchromosomal rearrangements in CS, the existence of such dispensable genes is another factor highlighting potential issues with the use of reference genomes in various studies. Strong deviation in distributions of these dispensable sequences among genotypes with different geographical origins provided the first evidence indicating that they could be associated with adaptation in wheat.
Collapse
Affiliation(s)
- Miao Liu
- CSIRO Agriculture and Food, 306 Carmody Road, St Lucia, QLD 4067, Australia
- Triticeae Research Institute, Sichuan Agricultural University, Wenjiang, Chengdu 611130, China
| | - Jiri Stiller
- CSIRO Agriculture and Food, 306 Carmody Road, St Lucia, QLD 4067, Australia
| | - Kateřina Holušová
- Institute of Experimental Botany, Centre of the Region Haná for Biotechnological and Agricultural Research, Šlechtitelů 31, CZ-78371 Olomouc, Czech Republic
| | - Jan Vrána
- Institute of Experimental Botany, Centre of the Region Haná for Biotechnological and Agricultural Research, Šlechtitelů 31, CZ-78371 Olomouc, Czech Republic
| | - Dengcai Liu
- Triticeae Research Institute, Sichuan Agricultural University, Wenjiang, Chengdu 611130, China
| | - Jaroslav Doležel
- Institute of Experimental Botany, Centre of the Region Haná for Biotechnological and Agricultural Research, Šlechtitelů 31, CZ-78371 Olomouc, Czech Republic
| | - Chunji Liu
- CSIRO Agriculture and Food, 306 Carmody Road, St Lucia, QLD 4067, Australia
- School of Plant Biology, The University of Western Australia, Perth, WA 6009, Australia
| |
Collapse
|
32
|
Zheng Z, Ma J, Stiller J, Zhao Q, Feng Q, Choulet F, Feuillet C, Zheng YL, Wei Y, Han B, Yan G, Manners JM, Liu C. Fine mapping of a large-effect QTL conferring Fusarium crown rot resistance on the long arm of chromosome 3B in hexaploid wheat. BMC Genomics 2015; 16:850. [PMID: 26493707 PMCID: PMC4618961 DOI: 10.1186/s12864-015-2105-0] [Citation(s) in RCA: 29] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/16/2015] [Accepted: 10/16/2015] [Indexed: 12/02/2022] Open
Abstract
BACKGROUND Fusarium crown rot (FCR) is a major cereal disease in semi-arid areas worldwide. Of the various QTL reported, the one on chromosome arm 3BL (Qcrs.cpi-3B) has the largest effect that can be consistently detected in different genetic backgrounds. Nine sets of near isogenic lines (NILs) for this locus were made available in a previous study. To identify markers that could be reliably used in tagging the Qcrs.cpi-3B locus, a NIL-derived population consisting of 774 F10 lines were generated and exploited to assess markers selected from the existing linkage map and generated from sequences of the 3B pseudomolecule. RESULTS This is the first report on fine mapping a QTL conferring FCR resistance in wheat. By three rounds of linkage mapping using the NILs and the NIL-derived population, the Qcrs.cpi-3B locus was mapped to an interval of 0.7 cM covering a physical distance of about 1.5 Mb. Seven markers co-segregating with the locus were developed. This interval contains a total of 63 gene-coding sequences based on the 3B pseudomolecule, and six of them were known to encode disease resistance proteins. Several of the genes in this interval were among those responsive to FCR infection detected in an earlier study. CONCLUSIONS The accurate localization of the Qcrs.cpi-3B locus and the development of the markers co-segregating with it should facilitate the incorporation of this large-effect QTL conferring FCR resistance into breeding programs as well as the cloning of the gene(s) underlying the QTL.
Collapse
Affiliation(s)
- Zhi Zheng
- CSIRO Agriculture, 306 Carmody Road, St Lucia, QLD, 4067, Australia.
- School of Plant Biology, Faculty of Science and The UWA Institute of Agriculture, The University of Western Australia, Perth, WA, 6009, Australia.
- National Foxtail Millet Improvement Centre, Institute of Millet Crops, Hebei Academy of Agricultural and Forestry Sciences, Shijiazhuang, China.
| | - Jian Ma
- CSIRO Agriculture, 306 Carmody Road, St Lucia, QLD, 4067, Australia.
- Triticeae Research Institute, Sichuan Agricultural University, Wenjiang, Chengdu, 611130, China.
| | - Jiri Stiller
- CSIRO Agriculture, 306 Carmody Road, St Lucia, QLD, 4067, Australia.
| | - Qiang Zhao
- National Center for Gene Research, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, 500 Caobao Road, Shanghai, 200233, China.
| | - Qi Feng
- National Center for Gene Research, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, 500 Caobao Road, Shanghai, 200233, China.
| | - Frédéric Choulet
- INRA-UBP Joint Research Unit 1095, Genetics, Diversity and Ecophysiology of Cereals Clermont-Ferrand, Clermont-Ferrand, F-63100, France.
| | - Catherine Feuillet
- INRA-UBP Joint Research Unit 1095, Genetics, Diversity and Ecophysiology of Cereals Clermont-Ferrand, Clermont-Ferrand, F-63100, France.
| | - You-Liang Zheng
- Triticeae Research Institute, Sichuan Agricultural University, Wenjiang, Chengdu, 611130, China.
| | - Yuming Wei
- Triticeae Research Institute, Sichuan Agricultural University, Wenjiang, Chengdu, 611130, China.
| | - Bin Han
- National Center for Gene Research, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, 500 Caobao Road, Shanghai, 200233, China.
| | - Guijun Yan
- National Foxtail Millet Improvement Centre, Institute of Millet Crops, Hebei Academy of Agricultural and Forestry Sciences, Shijiazhuang, China.
| | - John M Manners
- CSIRO Agriculture, 306 Carmody Road, St Lucia, QLD, 4067, Australia.
| | - Chunji Liu
- CSIRO Agriculture, 306 Carmody Road, St Lucia, QLD, 4067, Australia.
- School of Plant Biology, Faculty of Science and The UWA Institute of Agriculture, The University of Western Australia, Perth, WA, 6009, Australia.
| |
Collapse
|
33
|
Ma J, Stiller J, Zheng Z, Liu YX, Wei Y, Zheng YL, Liu C. A high-throughput pipeline for detecting locus-specific polymorphism in hexaploid wheat (Triticum aestivum L.). PLANT METHODS 2015; 11:39. [PMID: 26244051 PMCID: PMC4524443 DOI: 10.1186/s13007-015-0082-6] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 05/15/2015] [Accepted: 07/22/2015] [Indexed: 06/04/2023]
Abstract
BACKGROUND Bread wheat (Triticum aestivum L., 2n = 6x = 42) is an allohexaploid with a huge genome. Due to the presence of extensive homoeologs and paralogs, generating locus-specific sequences can be challenging, especially when a large number of sequences are required. Traditional methods of generating locus-specific sequences are rather strenuous and time-consuming if large numbers of sequences are to be handled. RESULTS To improve the efficiency of isolating sequences for targeted loci, a time-saving and high-throughput pipeline integrating orthologous sequence alignment, genomic sequence retrieving, and multiple sequence alignment was developed. This pipeline was successfully employed in retrieving and aligning homoeologous sequences and 83% of the primers designed based on the pipeline successfully amplified fragments from the targeted subgenomes. CONCLUSIONS The high-throughput pipeline developed in this study makes it feasible to efficiently identify locus-specific sequences for large numbers of sequences. It could find applications in all research projects where locus-specific sequences are required. In addition to generating locus-specific markers, the pipeline was also used in our laboratory to identify differentially expressed genes among the three subgenomes of bread wheat. Importantly, the pipeline is not only valuable for research in wheat but should also be applicable to other allopolyploid species.
Collapse
Affiliation(s)
- Jian Ma
- />Triticeae Research Institute, Sichuan Agricultural University, Wenjiang, Chengdu, 611130 China
- />CSIRO Agriculture Flagship, 306 Carmody Road, St Lucia, QLD 4067 Australia
| | - Jiri Stiller
- />CSIRO Agriculture Flagship, 306 Carmody Road, St Lucia, QLD 4067 Australia
| | - Zhi Zheng
- />CSIRO Agriculture Flagship, 306 Carmody Road, St Lucia, QLD 4067 Australia
- />School of Plant Biology, The University of Western Australia, Perth, WA 6009 Australia
- />National Foxtail Millet Improvement Centre, Institute of Millet Crops, Hebei Academy of Agricultural and Forestry Sciences, Shijiazhuang, China
| | - Ya-Xi Liu
- />Triticeae Research Institute, Sichuan Agricultural University, Wenjiang, Chengdu, 611130 China
| | - Yuming Wei
- />Triticeae Research Institute, Sichuan Agricultural University, Wenjiang, Chengdu, 611130 China
| | - You-Liang Zheng
- />Triticeae Research Institute, Sichuan Agricultural University, Wenjiang, Chengdu, 611130 China
| | - Chunji Liu
- />CSIRO Agriculture Flagship, 306 Carmody Road, St Lucia, QLD 4067 Australia
- />School of Plant Biology, The University of Western Australia, Perth, WA 6009 Australia
| |
Collapse
|
34
|
Ma J, Du G, Li X, Zhang C, Guo J. A major locus controlling malondialdehyde content under water stress is associated with Fusarium crown rot resistance in wheat. Mol Genet Genomics 2015; 290:1955-62. [PMID: 25939503 DOI: 10.1007/s00438-015-1053-3] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/09/2015] [Accepted: 04/21/2015] [Indexed: 10/23/2022]
Abstract
Malondialdehyde (MDA) is a naturally occurring product of lipid peroxidation and the level of MDA in plant is often used as a parameter to evaluate the damage to plants' cells due to stress. Plant with lower amounts of MDA under drought conditions is generally considered as more tolerant to drought. In this study, a population of recombinant inbred lines was used to map the quantitative trait locus (QTLs) that controlled MDA content under well-watered condition (WW) and water deficit (WD) condition. A major QTL, designated as Qheb.mda-3B, was detected on the long arm of chromosome 3B. Based on interval mapping analysis, Qheb.mda-3B explained 31.5 and 39.0 % of the phenotypic variance under WW and WD conditions, respectively. Qheb.mda-3B was located in the same interval as a previously identified QTL (Qcrs.cpi-3B) that controlled resistance to Fusarium crown rot (FCR), a fungal disease caused by Fusarium species. Three pairs of near-isogenic lines (NILs) previously developed for Qcrs.cpi-3B were found to show significant differences in MDA content under WD condition. These results suggested that same set of genes is likely to be involved in drought tolerance and FCR resistance in wheat.
Collapse
Affiliation(s)
- Jun Ma
- School of Plant Biology, The University of Western Australia, Perth, WA, 6009, Australia.,CSIRO Agriculture Flagship, 306 Carmody Road, Brisbane, QLD, 4067, Australia
| | - Guangyue Du
- North China Key Laboratory for Crop Germplasm Resources of Education Ministry, Department of Plant Genetics and Breeding, Agricultural University of Hebei, 071001, Baoding, Hebei, China
| | - Xihuan Li
- North China Key Laboratory for Crop Germplasm Resources of Education Ministry, Department of Plant Genetics and Breeding, Agricultural University of Hebei, 071001, Baoding, Hebei, China
| | - Caiying Zhang
- North China Key Laboratory for Crop Germplasm Resources of Education Ministry, Department of Plant Genetics and Breeding, Agricultural University of Hebei, 071001, Baoding, Hebei, China.
| | - Jinkao Guo
- Shijiazhuang Academy of Agriculture and Forestry Sciences, 479 Shengli North Avenue, 050021, Shijiazhuang, China.
| |
Collapse
|
35
|
Martin A, Bovill WD, Percy CD, Herde D, Fletcher S, Kelly A, Neate SM, Sutherland MW. Markers for seedling and adult plant crown rot resistance in four partially resistant bread wheat sources. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2015; 128:377-85. [PMID: 25471673 DOI: 10.1007/s00122-014-2437-1] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/31/2014] [Accepted: 11/21/2014] [Indexed: 05/24/2023]
Abstract
QTL identified for seedling and adult plant crown rot resistance in four partially resistant hexaploid wheat sources. PCR-based markers identified for use in marker-assisted selection. Crown rot, caused by Fusarium pseudograminearum, is an important disease of wheat in many wheat-growing regions globally. Complete resistance to infection by F. pseudograminearum has not been observed in a wheat host, but germplasm with partial resistance to this pathogen has been identified. The partially resistant wheat hexaploid germplasm sources 2-49, Sunco, IRN497 and CPI133817 were investigated in both seedling and adult plant field trials to identify markers associated with the resistance which could be used in marker-assisted selection programs. Thirteen different quantitative trait loci (QTL) conditioning crown rot resistance were identified in the four different sources. Some QTL were only observed in seedling trials whereas others appeared to be adult plant specific. For example while the QTL on chromosomes 1AS, 1BS, and 4BS contributed by 2-49 and on 2BS contributed by Sunco were detected in both seedling and field trials, the QTL on 1DL present in 2-49 and the QTL on 3BL in IRN497 were only detected in seedling trials. Genetic correlations between field trials of the same population were strong, as were correlations between seedling trials of the same population. Low to moderate correlations were observed between seedling and field trials. Flanking markers, most of which are less than 10 cM apart, have now been identified for each of the regions associated with crown rot resistance.
Collapse
Affiliation(s)
- A Martin
- Centre for Crop Health, University of Southern Queensland, Toowoomba, QLD, 4350, Australia,
| | | | | | | | | | | | | | | |
Collapse
|
36
|
Transcriptome and allele specificity associated with a 3BL locus for Fusarium crown rot resistance in bread wheat. PLoS One 2014; 9:e113309. [PMID: 25405461 PMCID: PMC4236173 DOI: 10.1371/journal.pone.0113309] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/08/2014] [Accepted: 10/22/2014] [Indexed: 02/04/2023] Open
Abstract
Fusarium pathogens cause two major diseases in cereals, Fusarium crown rot (FCR) and head blight (FHB). A large-effect locus conferring resistance to FCR disease was previously located to chromosome arm 3BL (designated as Qcrs-3B) and several independent sets of near isogenic lines (NILs) have been developed for this locus. In this study, five sets of the NILs were used to examine transcriptional changes associated with the Qcrs-3B locus and to identify genes linked to the resistance locus as a step towards the isolation of the causative gene(s). Of the differentially expressed genes (DEGs) detected between the NILs, 12.7% was located on the single chromosome 3B. Of the expressed genes containing SNP (SNP-EGs) detected, 23.5% was mapped to this chromosome. Several of the DEGs and SNP-EGs are known to be involved in host-pathogen interactions, and a large number of the DEGs were among those detected for FHB in previous studies. Of the DEGs detected, 22 were mapped in the Qcrs-3B interval and they included eight which were detected in the resistant isolines only. The enrichment of DEG, and not necessarily those containing SNPs between the resistant and susceptible isolines, around the Qcrs-3B locus is suggestive of local regulation of this region by the resistance allele. Functions for 13 of these DEGs are known. Of the SNP-EGs, 28 were mapped in the Qcrs-3B interval and biological functions for 16 of them are known. These results provide insights into responses regulated by the 3BL locus and identify a tractable number of target genes for fine mapping and functional testing to identify the causative gene(s) at this QTL.
Collapse
|
37
|
Zheng Z, Kilian A, Yan G, Liu C. QTL conferring fusarium crown rot resistance in the elite bread wheat variety EGA Wylie. PLoS One 2014; 9:e96011. [PMID: 24776887 PMCID: PMC4002477 DOI: 10.1371/journal.pone.0096011] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/14/2014] [Accepted: 04/01/2014] [Indexed: 11/19/2022] Open
Abstract
Fusarium crown rot (FCR) is one of the most damaging cereal diseases in semi-arid regions worldwide. The genetics of FCR resistance in the bread wheat (Triticum eastivum L.) variety EGA Wylie, the most resistant commercial variety available, was studied by QTL mapping. Three populations of recombinant inbred lines were developed with this elite variety as the resistant parent. Four QTL conferring FCR resistance were detected and resistance alleles of all of them were derived from the resistant parent EGA Wylie. One of these loci was located on the short arm of chromosome 5D (designated as Qcrs.cpi-5D). This QTL explains up to 31.1% of the phenotypic variance with an LOD value of 9.6. The second locus was located on the long arm of chromosome 2D (designated as Qcrs.cpi-2D) and explained up to 20.2% of the phenotypic variance with an LOD value of 4.5. Significant effects of both Qcrs.cpi-5D and Qcrs.cpi-2D were detected in each of the three populations assessed. Another two QTL (designated as Qcrs.cpi-4B.1 and Qcrs.cpi-4B.2, respectively) were located on the short arm of chromosome 4B. These two QTL explained up to 16.9% and 18.8% of phenotypic variance, respectively. However, significant effects of Qcrs.cpi-4B.1 and Qcrs.cpi-4B.2 were not detected when the effects of plant height was accounted for by covariance analysis. The elite characteristics of this commercial variety should facilitate the incorporation of the resistance loci it contains into breeding programs.
Collapse
Affiliation(s)
- Zhi Zheng
- Commenwealth Scientific and Industrial Research Organisation (CSIRO) Plant Industry, St. Lucia, Queensland, Australia
- School of Plant Biology, Faculty of Science and UWA Institute of Agriculture, The University of Western Australia, Perth, Australia
- National Foxtail Millet Improvement Centre, Institute of Millet Crops, Hebei Academy of Agricultural and Forestry Sciences, Shijiazhuang, China
| | - Andrzej Kilian
- Diversity Arrays Technology Pty Ltd, Yarralumla, Canberra, Australia
| | - Guijun Yan
- School of Plant Biology, Faculty of Science and UWA Institute of Agriculture, The University of Western Australia, Perth, Australia
| | - Chunji Liu
- Commenwealth Scientific and Industrial Research Organisation (CSIRO) Plant Industry, St. Lucia, Queensland, Australia
- School of Plant Biology, Faculty of Science and UWA Institute of Agriculture, The University of Western Australia, Perth, Australia
| |
Collapse
|
38
|
Chen GD, Liu YX, Wei YM, McIntyre CL, Zhou MX, Zheng YL, Liu CJ. Major QTL for Fusarium crown rot resistance in a barley landrace. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2013; 126:2511-20. [PMID: 23824201 DOI: 10.1007/s00122-013-2151-4] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/25/2013] [Accepted: 06/20/2013] [Indexed: 05/09/2023]
Abstract
Fusarium crown rot (FCR) is a serious cereal disease in semi-arid regions worldwide. In assisting the effort of breeding cultivars with enhanced resistance, we identified several barley genotypes with high levels of FCR resistance. One of these genotypes, AWCS079 which is a barley landrace originating from Japan, was investigated by developing and assessing three populations of recombinant inbred lines. Two QTL, one located on the long arm of chromosome 1H (designated as Qcrs.cpi-1H) and the other on 3HL (designated as Qcrs.cpi-3H), were found to be responsible for the FCR resistance of this genotype. Qcrs.cpi-1H is novel as no other FCR loci have been reported on this chromosome arm. Qcrs.cpi-3H co-located with a reduced height (Rht) locus and the effectiveness of the former was significantly affected by the latter. The total phenotypic variance explained by these two QTL was over 60 %. Significant effects were detected for each of the QTL in each of the three populations assessed. The existence of these loci with major effects should not only facilitate breeding and exploitation of FCR-resistant barley cultivars but also their further characterization based on fine mapping and map-based gene cloning.
Collapse
Affiliation(s)
- G D Chen
- CSIRO Plant Industry, 306 Carmody Road, St Lucia, QLD, 4067, Australia
| | | | | | | | | | | | | |
Collapse
|
39
|
Chen G, Liu Y, Ma J, Zheng Z, Wei Y, McIntyre CL, Zheng YL, Liu C. A novel and major quantitative trait locus for fusarium crown rot resistance in a genotype of Wild Barley (Hordeum spontaneum L.). PLoS One 2013; 8:e58040. [PMID: 23536780 PMCID: PMC3594225 DOI: 10.1371/journal.pone.0058040] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/05/2012] [Accepted: 01/29/2013] [Indexed: 11/24/2022] Open
Abstract
Fusarium crown rot (FCR), caused by various Fusarium species, is a destructive disease of cereal crops in semiarid regions worldwide. As part of our contribution to the development of Fusarium resistant cultivars, we identified several novel sources of resistance by systematically assessing barley genotypes representing different geographical origins and plant types. One of these sources of resistance was investigated in this study by generating and analysing two populations of recombinant inbred lines. A major locus conferring FCR resistance, designated as Qcrs.cpi-4H, was detected in one of the populations (mapping population) and the effects of the QTL was confirmed in the other population. The QTL was mapped to the distal end of chromosome arm 4HL and it is effective against both of the Fusarium isolates tested, one F. pseudograminearum and the other F. graminearum. The QTL explains up to 45.3% of the phenotypic variance. As distinct from an earlier report which demonstrated co-locations of loci conferring FCR resistance and plant height in barley, a correlation between these two traits was not detected in the mapping population. However, as observed in a screen of random genotypes, an association between FCR resistance and plant growth rate was detected and a QTL controlling the latter was detected near the Qcrs.cpi-4H locus in the mapping population. Existing data indicate that, although growth rate may affect FCR resistance, different genes at this locus are likely involved in controlling these two traits.
Collapse
Affiliation(s)
- Guangdeng Chen
- Commonwealth Scientific and Industrial Research Organisation (CSIRO) Plant Industry, St Lucia, Queensland, Australia
- Triticeae Research Institute, Sichuan Agricultural University, Wenjiang, Chengdu, China
| | - Yaxi Liu
- Commonwealth Scientific and Industrial Research Organisation (CSIRO) Plant Industry, St Lucia, Queensland, Australia
- Triticeae Research Institute, Sichuan Agricultural University, Wenjiang, Chengdu, China
| | - Jun Ma
- Commonwealth Scientific and Industrial Research Organisation (CSIRO) Plant Industry, St Lucia, Queensland, Australia
- School of Plant Biology, The University of Western Australia, Perth, Western Australia, Australia
| | - Zhi Zheng
- Commonwealth Scientific and Industrial Research Organisation (CSIRO) Plant Industry, St Lucia, Queensland, Australia
- School of Plant Biology, The University of Western Australia, Perth, Western Australia, Australia
| | - Yuming Wei
- Triticeae Research Institute, Sichuan Agricultural University, Wenjiang, Chengdu, China
| | - C. Lynne McIntyre
- Commonwealth Scientific and Industrial Research Organisation (CSIRO) Plant Industry, St Lucia, Queensland, Australia
| | - You-Liang Zheng
- Triticeae Research Institute, Sichuan Agricultural University, Wenjiang, Chengdu, China
| | - Chunji Liu
- Commonwealth Scientific and Industrial Research Organisation (CSIRO) Plant Industry, St Lucia, Queensland, Australia
| |
Collapse
|
40
|
Fu LY, Wang YG, Liu CJ. Rank regression for analyzing ordinal qualitative data for treatment comparison. PHYTOPATHOLOGY 2012; 102:1064-70. [PMID: 22835014 DOI: 10.1094/phyto-05-11-0128] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/09/2023]
Abstract
ABSTRACT Ordinal qualitative data are often collected for phenotypical measurements in plant pathology and other biological sciences. Statistical methods, such as t tests or analysis of variance, are usually used to analyze ordinal data when comparing two groups or multiple groups. However, the underlying assumptions such as normality and homogeneous variances are often violated for qualitative data. To this end, we investigated an alternative methodology, rank regression, for analyzing the ordinal data. The rank-based methods are essentially based on pairwise comparisons and, therefore, can deal with qualitative data naturally. They require neither normality assumption nor data transformation. Apart from robustness against outliers and high efficiency, the rank regression can also incorporate covariate effects in the same way as the ordinary regression. By reanalyzing a data set from a wheat Fusarium crown rot study, we illustrated the use of the rank regression methodology and demonstrated that the rank regression models appear to be more appropriate and sensible for analyzing nonnormal data and data with outliers.
Collapse
Affiliation(s)
- L Y Fu
- School of Mathematics and Statistics, Xi'an Jiaotong University, Shanxi Province, China
| | | | | |
Collapse
|
41
|
Zhang L, Luo JT, Hao M, Zhang LQ, Yuan ZW, Yan ZH, Liu YX, Zhang B, Liu BL, Liu CJ, Zhang HG, Zheng YL, Liu DC. Genetic map of Triticum turgidum based on a hexaploid wheat population without genetic recombination for D genome. BMC Genet 2012; 13:69. [PMID: 22888829 PMCID: PMC3470960 DOI: 10.1186/1471-2156-13-69] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/20/2012] [Accepted: 08/08/2012] [Indexed: 12/13/2022] Open
Abstract
Background A synthetic doubled-haploid hexaploid wheat population, SynDH1, derived from the spontaneous chromosome doubling of triploid F1 hybrid plants obtained from the cross of hybrids Triticum turgidum ssp. durum line Langdon (LDN) and ssp. turgidum line AS313, with Aegilops tauschii ssp. tauschii accession AS60, was previously constructed. SynDH1 is a tetraploidization-hexaploid doubled haploid (DH) population because it contains recombinant A and B chromosomes from two different T. turgidum genotypes, while all the D chromosomes from Ae. tauschii are homogenous across the whole population. This paper reports the construction of a genetic map using this population. Results Of the 606 markers used to assemble the genetic map, 588 (97%) were assigned to linkage groups. These included 513 Diversity Arrays Technology (DArT) markers, 72 simple sequence repeat (SSR), one insertion site-based polymorphism (ISBP), and two high-molecular-weight glutenin subunit (HMW-GS) markers. These markers were assigned to the 14 chromosomes, covering 2048.79 cM, with a mean distance of 3.48 cM between adjacent markers. This map showed good coverage of the A and B genome chromosomes, apart from 3A, 5A, 6A, and 4B. Compared with previously reported maps, most shared markers showed highly consistent orders. This map was successfully used to identify five quantitative trait loci (QTL), including two for spikelet number on chromosomes 7A and 5B, two for spike length on 7A and 3B, and one for 1000-grain weight on 4B. However, differences in crossability QTL between the two T. turgidum parents may explain the segregation distortion regions on chromosomes 1A, 3B, and 6B. Conclusions A genetic map of T. turgidum including 588 markers was constructed using a synthetic doubled haploid (SynDH) hexaploid wheat population. Five QTLs for three agronomic traits were identified from this population. However, more markers are needed to increase the density and resolution of this map in the future study.
Collapse
Affiliation(s)
- Li Zhang
- Triticeae Research Institute, Sichuan Agricultural University, Wenjiang, Chengdu, Sichuan, 611130, PR China
| | | | | | | | | | | | | | | | | | | | | | | | | |
Collapse
|
42
|
Lerceteau-Köhler E, Moing A, Guérin G, Renaud C, Petit A, Rothan C, Denoyes B. Genetic dissection of fruit quality traits in the octoploid cultivated strawberry highlights the role of homoeo-QTL in their control. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2012; 124:1059-77. [PMID: 22215248 PMCID: PMC3304055 DOI: 10.1007/s00122-011-1769-3] [Citation(s) in RCA: 60] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/29/2011] [Accepted: 12/08/2011] [Indexed: 05/18/2023]
Abstract
Fruit quality traits are major breeding targets in the Rosaceae. Several of the major Rosaceae species are current or ancient polyploids. To dissect the inheritance of fruit quality traits in polyploid fleshy fruit species, we used a cultivated strawberry segregating population comprising a 213 full-sibling F1 progeny from a cross between the variety 'Capitola' and the genotype 'CF1116'. We previously developed the most comprehensive strawberry linkage map, which displays seven homoeology groups (HG), including each four homoeology linkage groups (Genetics 179:2045-2060, 2008). The map was used to identify quantitative trait loci (QTL) for 19 fruit traits related to fruit development, texture, colour, anthocyanin, sugar and organic acid contents. Analyses were carried out over two or three successive years on field-grown plants. QTL were detected for all the analysed traits. Because strawberry is an octopolyploid species, QTL controlling a given trait and located at orthologous positions on different homoeologous linkage groups within one HG are considered as homoeo-QTL. We found that, for various traits, about one-fourth of QTL were putative homoeo-QTL and were localised on two linkage groups. Several homoeo-QTL could be detected the same year, suggesting that several copies of the gene underlying the QTL are functional. The detection of some other homoeo-QTL was year-dependent. Therefore, changes in allelic expression could take place in response to environmental changes. We believe that, in strawberry as in other polyploid fruit species, the mechanisms unravelled in the present study may play a crucial role in the variations of fruit quality.
Collapse
Affiliation(s)
- E. Lerceteau-Köhler
- Ciref, Maison Jeannette, 24140 Douville, France
- Present Address: Department of Plant Biology and Forest Genetics, Uppsala BioCenter, Swedish University of Agricultural Sciences, Box 7080, 750 07 Uppsala, Sweden
| | - A. Moing
- UMR 1332 Biologie du Fruit et Pathologie, INRA, 33140 Villenave d’Ornon, France
| | - G. Guérin
- UMR 1332 Biologie du Fruit et Pathologie, INRA, 33140 Villenave d’Ornon, France
| | - C. Renaud
- UMR 1332 Biologie du Fruit et Pathologie, INRA, 33140 Villenave d’Ornon, France
| | - A. Petit
- Ciref, Maison Jeannette, 24140 Douville, France
| | - C. Rothan
- UMR 1332 Biologie du Fruit et Pathologie, INRA, 33140 Villenave d’Ornon, France
| | - Béatrice Denoyes
- UMR 1332 Biologie du Fruit et Pathologie, INRA, 33140 Villenave d’Ornon, France
| |
Collapse
|
43
|
Liu YX, Yang XM, Ma J, Wei YM, Zheng YL, Ma HX, Yao JB, Yan GJ, Wang YG, Manners JM, Liu CJ. Plant height affects Fusarium crown rot severity in wheat. PHYTOPATHOLOGY 2010; 100:1276-81. [PMID: 20698755 DOI: 10.1094/phyto-05-10-0142] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/09/2023]
Abstract
Effects of plant height on Fusarium crown rot (FCR) disease severity were investigated using 12 pairs of near-isogenic lines (NILs) for six different reduced height (Rht) genes in wheat. The dwarf isolines all gave better FCR resistance when compared with their respective tall counterparts, although the Rht genes involved in these NILs are located on several different chromosomes. Treating plants with exogenous gibberellin increased FCR severity as well as seedling lengths in all of the isolines tested. Analysis of the expression of several defense genes with known correlation with resistance to FCR pathogens between the Rht isolines following FCR inoculation indicated that the better resistance of the dwarf isolines was not due to enhanced defense gene induction. These results suggested that the difference in FCR severity between the tall and dwarf isolines is likely due to their height difference per se or to some physiological and structural consequences of reduced height. Thus, caution should be taken when considering to exploit any FCR locus located near a height gene.
Collapse
Affiliation(s)
- Y X Liu
- CSIRO Plant Industry, 306 Carmody Road, St. Lucia, QLD 4067, Australia
| | | | | | | | | | | | | | | | | | | | | |
Collapse
|