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Yang C, A X, Tang C, Dong C, Zhang F, He C, Sun Y, Yang Y, Yan S, Liu Y, Yang Y, Dai L. A TFAIII-Type Transcription Factor OsZFPH Regulating a Signaling Pathway Confers Resistance to Xanthomonas oryzae pv. Oryzae in Rice. Genes (Basel) 2025; 16:240. [PMID: 40149393 PMCID: PMC11942392 DOI: 10.3390/genes16030240] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/09/2025] [Revised: 02/03/2025] [Accepted: 02/05/2025] [Indexed: 03/29/2025] Open
Abstract
BACKGROUND Rice bacterial leaf blight, caused by the Gram-negative bacterium Xanthomonas oryzae pv. Oryzae (Xoo), significantly impacts rice production. To address this disease, research efforts have focused on discovering and utilizing novel disease-resistant genes and examining their functional mechanisms. METHODS AND RESULTS In this study, a variety of bacterial strains were utilized. CX28-3, AX-11, JC12-2, and X10 were isolated from the high-altitude japonica rice-growing region on the Yunnan Plateau. Additionally, PXO61, PXO86, PXO99, and PXO339, sourced from the International Rice Research Institute (IRRI), were included in the analysis. To evaluate the resistance characteristics of Haonuoyang, artificial leaf cutting and inoculation methods were applied. Results indicated that Haonuoyang exhibited broad-spectrum resistance. Additionally, to explore the genetic mechanisms of resistance, the TFAIII-type transcription factor OsZFPH was cloned from Haonuoyang using PCR amplification. The subcellular localization method identified the precise location of the OsZFPH gene within the cell. The expression of OsZFPH was induced by Xoo stress. The overexpression of OsZFPH resulted in increased activities of enzymes, including SOD, CAT, and POD, while silencing the gene led to reduced enzyme activities. Furthermore, the hormones SA (salicylic acid), JA (jasmonic acid), and GA (gibberellin) were shown to positively regulate the gene expression. Protein interactions with OsZFPH were verified through a yeast two-hybrid system and BiFC technology. Hap5, which aligned with the sequence of Haonuoyang, was found to belong to a haplotype consisting of Jingang 30, 40 resequenced rice varieties, 18 Oryza rufipogon, and 29 Oryza granulata. CONCLUSIONS The findings of this study emphasize the vital role of OsZFPH in rice resistance to bacterial leaf blight. The identification of broad-spectrum resistance in Haonuoyang and the understanding of OsZFPH gene functions provide valuable insights for the future development of rice varieties with improved resistance to this destructive disease.
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Affiliation(s)
- Chunyun Yang
- Institute of Biotechnology and Germplasm Resources, Yunnan Academy of Agricultural Sciences, Yunnan Provincial Key Laboratory of Agricultural Biotechnology, Key Laboratory of Southwestern Crop Gene Resources and Germplasm Innovation, Scientific Observation Station for Rice Germplasm Resources of Yunnan, Ministry of Agriculture and Rural Affairs, Kunming 650205, China; (C.Y.); (X.A.); (C.T.); (C.D.); (F.Z.); (C.H.); (Y.S.); (Y.Y.)
| | - Xinxiang A
- Institute of Biotechnology and Germplasm Resources, Yunnan Academy of Agricultural Sciences, Yunnan Provincial Key Laboratory of Agricultural Biotechnology, Key Laboratory of Southwestern Crop Gene Resources and Germplasm Innovation, Scientific Observation Station for Rice Germplasm Resources of Yunnan, Ministry of Agriculture and Rural Affairs, Kunming 650205, China; (C.Y.); (X.A.); (C.T.); (C.D.); (F.Z.); (C.H.); (Y.S.); (Y.Y.)
| | - Cuifeng Tang
- Institute of Biotechnology and Germplasm Resources, Yunnan Academy of Agricultural Sciences, Yunnan Provincial Key Laboratory of Agricultural Biotechnology, Key Laboratory of Southwestern Crop Gene Resources and Germplasm Innovation, Scientific Observation Station for Rice Germplasm Resources of Yunnan, Ministry of Agriculture and Rural Affairs, Kunming 650205, China; (C.Y.); (X.A.); (C.T.); (C.D.); (F.Z.); (C.H.); (Y.S.); (Y.Y.)
| | - Chao Dong
- Institute of Biotechnology and Germplasm Resources, Yunnan Academy of Agricultural Sciences, Yunnan Provincial Key Laboratory of Agricultural Biotechnology, Key Laboratory of Southwestern Crop Gene Resources and Germplasm Innovation, Scientific Observation Station for Rice Germplasm Resources of Yunnan, Ministry of Agriculture and Rural Affairs, Kunming 650205, China; (C.Y.); (X.A.); (C.T.); (C.D.); (F.Z.); (C.H.); (Y.S.); (Y.Y.)
| | - Feifei Zhang
- Institute of Biotechnology and Germplasm Resources, Yunnan Academy of Agricultural Sciences, Yunnan Provincial Key Laboratory of Agricultural Biotechnology, Key Laboratory of Southwestern Crop Gene Resources and Germplasm Innovation, Scientific Observation Station for Rice Germplasm Resources of Yunnan, Ministry of Agriculture and Rural Affairs, Kunming 650205, China; (C.Y.); (X.A.); (C.T.); (C.D.); (F.Z.); (C.H.); (Y.S.); (Y.Y.)
| | - Chunmei He
- Institute of Biotechnology and Germplasm Resources, Yunnan Academy of Agricultural Sciences, Yunnan Provincial Key Laboratory of Agricultural Biotechnology, Key Laboratory of Southwestern Crop Gene Resources and Germplasm Innovation, Scientific Observation Station for Rice Germplasm Resources of Yunnan, Ministry of Agriculture and Rural Affairs, Kunming 650205, China; (C.Y.); (X.A.); (C.T.); (C.D.); (F.Z.); (C.H.); (Y.S.); (Y.Y.)
| | - Yiding Sun
- Institute of Biotechnology and Germplasm Resources, Yunnan Academy of Agricultural Sciences, Yunnan Provincial Key Laboratory of Agricultural Biotechnology, Key Laboratory of Southwestern Crop Gene Resources and Germplasm Innovation, Scientific Observation Station for Rice Germplasm Resources of Yunnan, Ministry of Agriculture and Rural Affairs, Kunming 650205, China; (C.Y.); (X.A.); (C.T.); (C.D.); (F.Z.); (C.H.); (Y.S.); (Y.Y.)
| | - Yi Yang
- Institute of Biotechnology and Germplasm Resources, Yunnan Academy of Agricultural Sciences, Yunnan Provincial Key Laboratory of Agricultural Biotechnology, Key Laboratory of Southwestern Crop Gene Resources and Germplasm Innovation, Scientific Observation Station for Rice Germplasm Resources of Yunnan, Ministry of Agriculture and Rural Affairs, Kunming 650205, China; (C.Y.); (X.A.); (C.T.); (C.D.); (F.Z.); (C.H.); (Y.S.); (Y.Y.)
| | - Sandan Yan
- Xishuangbanna Agricultural Science Research Institute, Jinghong 666100, China;
| | - Yanhong Liu
- Agricultural Environmental Protection and Rural Energy Workstation, Yuanjiang 653300, China;
| | - Yayun Yang
- Institute of Biotechnology and Germplasm Resources, Yunnan Academy of Agricultural Sciences, Yunnan Provincial Key Laboratory of Agricultural Biotechnology, Key Laboratory of Southwestern Crop Gene Resources and Germplasm Innovation, Scientific Observation Station for Rice Germplasm Resources of Yunnan, Ministry of Agriculture and Rural Affairs, Kunming 650205, China; (C.Y.); (X.A.); (C.T.); (C.D.); (F.Z.); (C.H.); (Y.S.); (Y.Y.)
| | - Luyuan Dai
- Yunnan Academy of Agricultural Sciences, Kunming 650205, China;
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Liang W, Zhou Y, Xu Z, Li Y, Chen X, Yu C, Hou F, Dai B, Zhong L, Bi JA, Xie L, Yan C, Chen J, Yang Y. Identification and Genome Sequencing of Novel Virulent Strains of Xanthomonas oryzae pv. oryzae Causing Rice Bacterial Blight in Zhejiang, China. Pathogens 2024; 13:1083. [PMID: 39770343 PMCID: PMC11728688 DOI: 10.3390/pathogens13121083] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/10/2024] [Revised: 11/14/2024] [Accepted: 11/26/2024] [Indexed: 01/16/2025] Open
Abstract
Xanthomonas oryzae pv. oryzae (Xoo) is the causative agent of rice bacterial blight (RBB), resulting in substantial harvest losses and posing a challenge to maintaining a stable global supply. In this study, Xoo strains isolated from Shaoxing, Quzhou, and Taizhou, where RBB occurred most frequently in Zhejiang Province in 2019, were selected as the subjects of research. Three isolated pathogenic bacteria of ZXooS (from Shaoxing), ZXooQ (from Quzhou), and ZXooT (from Taizhou) were all identified as novel Xoo strains. These novel strains demonstrate greater virulence compared to Zhe173, the previous epidemic Xoo strain from Zhejiang Province. Subsequent genomic sequencing and analysis revealed that there existed significant differences in the genome sequence, especially in effector genes corresponding to some known rice resistance (R) genes between the novel strains and Zhe173. The sequence alignment of avirulent genes (effector genes) indicated that nucleic and amino acid sequences of AvrXa5, AvrXa7, AvrXa10, and AvrXa23 in the novel strains varied prominently from those in Zhe173. Interestingly, it seemed that only the genome of ZXooQ might contain the AvrXa3 gene. In addition, the phylogenetic analysis of 61 Xoo strains revealed that the novel strains were situated in a distinct evolutionary clade separate from Zhe173. These results here suggest that the emergence of novel Xoo strains may lead to resistance loss of some R genes used in commercial rice varieties, potentially serving as one of the factors leading to RBB resurgence in Zhejiang Province, China.
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Affiliation(s)
- Weifang Liang
- College of Plant Protection, Yunnan Agricultural University, Kunming 650000, China;
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-Products, Key Laboratory of Biotechnology in Plant Protection of MOA of China and Zhejiang Province, Institute of Virology and Biotechnology, Zhejiang Academy of Agricultural Science, Hangzhou 310000, China; (Y.Z.); (X.C.)
| | - Yuhang Zhou
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-Products, Key Laboratory of Biotechnology in Plant Protection of MOA of China and Zhejiang Province, Institute of Virology and Biotechnology, Zhejiang Academy of Agricultural Science, Hangzhou 310000, China; (Y.Z.); (X.C.)
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-Products, Key Laboratory of Biotechnology in Plant Protection of MOA of China and Zhejiang Province, Institute of Plant Virology, Ningbo University, Ningbo 315000, China; (Z.X.); (Y.L.); (C.Y.)
| | - Zhongtian Xu
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-Products, Key Laboratory of Biotechnology in Plant Protection of MOA of China and Zhejiang Province, Institute of Plant Virology, Ningbo University, Ningbo 315000, China; (Z.X.); (Y.L.); (C.Y.)
| | - Yiyuan Li
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-Products, Key Laboratory of Biotechnology in Plant Protection of MOA of China and Zhejiang Province, Institute of Plant Virology, Ningbo University, Ningbo 315000, China; (Z.X.); (Y.L.); (C.Y.)
| | - Xinyu Chen
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-Products, Key Laboratory of Biotechnology in Plant Protection of MOA of China and Zhejiang Province, Institute of Virology and Biotechnology, Zhejiang Academy of Agricultural Science, Hangzhou 310000, China; (Y.Z.); (X.C.)
- College of Plant Protection, Shenyang Agricultural University, Shenyang 110000, China
| | - Chulang Yu
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-Products, Key Laboratory of Biotechnology in Plant Protection of MOA of China and Zhejiang Province, Institute of Plant Virology, Ningbo University, Ningbo 315000, China; (Z.X.); (Y.L.); (C.Y.)
| | - Fan Hou
- Wuwangnong Seed Shareholding Co., Ltd., Hangzhou 310000, China;
| | - Binfeng Dai
- Taizhou Agroecological Protection and Quality Safety Center, Taizhou 318000, China; (B.D.); (L.Z.)
| | - Liequan Zhong
- Taizhou Agroecological Protection and Quality Safety Center, Taizhou 318000, China; (B.D.); (L.Z.)
| | - Ji-An Bi
- Institute of Biotechnology, Ningbo Academy of Agricultural Sciences, Ningbo 315000, China; (J.-A.B.); (C.Y.)
| | - Liujie Xie
- Taizhou Academy of Agricultural Sciences, Taizhou 318000, China;
| | - Chengqi Yan
- Institute of Biotechnology, Ningbo Academy of Agricultural Sciences, Ningbo 315000, China; (J.-A.B.); (C.Y.)
| | - Jianping Chen
- College of Plant Protection, Yunnan Agricultural University, Kunming 650000, China;
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-Products, Key Laboratory of Biotechnology in Plant Protection of MOA of China and Zhejiang Province, Institute of Virology and Biotechnology, Zhejiang Academy of Agricultural Science, Hangzhou 310000, China; (Y.Z.); (X.C.)
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-Products, Key Laboratory of Biotechnology in Plant Protection of MOA of China and Zhejiang Province, Institute of Plant Virology, Ningbo University, Ningbo 315000, China; (Z.X.); (Y.L.); (C.Y.)
| | - Yong Yang
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-Products, Key Laboratory of Biotechnology in Plant Protection of MOA of China and Zhejiang Province, Institute of Virology and Biotechnology, Zhejiang Academy of Agricultural Science, Hangzhou 310000, China; (Y.Z.); (X.C.)
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Chen P, Zhang X, Li X, Sun B, Yu H, Liu Q, Jiang L, Mao X, Zhang J, Lv S, Fan Z, Liu W, Chen W, Li C. Transcriptome Analysis of Rice Near-Isogenic Lines Inoculated with Two Strains of Xanthomonas oryzae pv. oryzae, AH28 and PXO99 A. PLANTS (BASEL, SWITZERLAND) 2024; 13:3129. [PMID: 39599338 PMCID: PMC11597379 DOI: 10.3390/plants13223129] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/16/2024] [Revised: 10/29/2024] [Accepted: 11/04/2024] [Indexed: 11/29/2024]
Abstract
Rice bacterial blight (BB), caused by Xanthomonas oryzae pv. oryzae (Xoo), is a major threat to rice production and food security. Exploring new resistance genes and developing varieties with broad-spectrum and high resistance has been a key focus in rice disease resistance research. In a preliminary study, rice cultivar Fan3, exhibiting high resistance to PXO99A and susceptibility to AH28, was developed by enhancing the resistance of Yuehesimiao (YHSM) to BB. This study performed a transcriptome analysis on the leaves of Fan3 and YHSM following inoculation with Xoo strains AH28 and PXO99A. The analysis revealed significant differential expression of 14,084 genes. Among the transcription factor (TF) families identified, bHLH, WRKY, and ERF were prominent, with notable differences in the expression of OsWRKY62, OsWRKY76, and OsbHLH6 across samples. Over 100 genes were directly linked to disease resistance, including nearly 30 NBS-LRR family genes. Additionally, 11 SWEET family protein genes, over 750 protein kinase genes, 63 peroxidase genes, and eight phenylalanine aminolysase genes were detected. Gene ontology (GO) analysis showed significant enrichment in pathways related to defense response to bacteria and oxidative stress response. Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analysis indicated that differentially expressed genes (DEGs) were enriched in phenylpropanoid biosynthesis and diterpenoid biosynthesis pathways. Gene expression results from qRT-PCR were consistent with those from RNA-Seq, underscoring the reliability of the findings. Candidate genes identified in this study that may be resistant to BB, such as NBS-LRR family genes LOC_Os11g11960 and LOC_Os11g12350, SWEET family genes LOC_Os01g50460 and LOC_Os01g12130, and protein kinase-expressing genes LOC_Os01g66860 and LOC_Os02g57700, will provide a theoretical basis for further experiments. These results suggest that the immune response of rice to the two strains may be more concentrated in the early stage, and there are more up-regulated genes in the immune response of the high-resistant to PXO99A and medium-resistant to AH28, respectively, compared with the highly susceptible rice. This study offers a foundation for further research on resistance genes and the molecular mechanisms in Fan3 and YHSM.
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Affiliation(s)
- Pingli Chen
- Rice Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China
- Key Laboratory of Genetics and Breeding of High Quality Rice in Southern China (Co-Construction by Ministry and Province), Ministry of Agriculture and Rural Affairs, Guangzhou 510640, China
- Guangdong Key Laboratory of New Technology in Rice Breeding, Guangzhou 510640, China
- Guangdong Rice Engineering Laboratory, Guangzhou 510640, China
| | - Xing Zhang
- Hanzhong Agricultural Technology Promotion and Training Center, Hanzhong 723000, China
| | - Xiaogang Li
- Hanzhong Agricultural Technology Promotion and Training Center, Hanzhong 723000, China
| | - Bingrui Sun
- Rice Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China
- Key Laboratory of Genetics and Breeding of High Quality Rice in Southern China (Co-Construction by Ministry and Province), Ministry of Agriculture and Rural Affairs, Guangzhou 510640, China
- Guangdong Key Laboratory of New Technology in Rice Breeding, Guangzhou 510640, China
- Guangdong Rice Engineering Laboratory, Guangzhou 510640, China
| | - Hang Yu
- Rice Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China
- Key Laboratory of Genetics and Breeding of High Quality Rice in Southern China (Co-Construction by Ministry and Province), Ministry of Agriculture and Rural Affairs, Guangzhou 510640, China
- Guangdong Key Laboratory of New Technology in Rice Breeding, Guangzhou 510640, China
- Guangdong Rice Engineering Laboratory, Guangzhou 510640, China
| | - Qing Liu
- Rice Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China
- Key Laboratory of Genetics and Breeding of High Quality Rice in Southern China (Co-Construction by Ministry and Province), Ministry of Agriculture and Rural Affairs, Guangzhou 510640, China
- Guangdong Key Laboratory of New Technology in Rice Breeding, Guangzhou 510640, China
- Guangdong Rice Engineering Laboratory, Guangzhou 510640, China
| | - Liqun Jiang
- Rice Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China
- Key Laboratory of Genetics and Breeding of High Quality Rice in Southern China (Co-Construction by Ministry and Province), Ministry of Agriculture and Rural Affairs, Guangzhou 510640, China
- Guangdong Key Laboratory of New Technology in Rice Breeding, Guangzhou 510640, China
- Guangdong Rice Engineering Laboratory, Guangzhou 510640, China
| | - Xingxue Mao
- Rice Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China
- Key Laboratory of Genetics and Breeding of High Quality Rice in Southern China (Co-Construction by Ministry and Province), Ministry of Agriculture and Rural Affairs, Guangzhou 510640, China
- Guangdong Key Laboratory of New Technology in Rice Breeding, Guangzhou 510640, China
- Guangdong Rice Engineering Laboratory, Guangzhou 510640, China
| | - Jing Zhang
- Rice Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China
- Key Laboratory of Genetics and Breeding of High Quality Rice in Southern China (Co-Construction by Ministry and Province), Ministry of Agriculture and Rural Affairs, Guangzhou 510640, China
- Guangdong Key Laboratory of New Technology in Rice Breeding, Guangzhou 510640, China
- Guangdong Rice Engineering Laboratory, Guangzhou 510640, China
| | - Shuwei Lv
- Rice Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China
- Key Laboratory of Genetics and Breeding of High Quality Rice in Southern China (Co-Construction by Ministry and Province), Ministry of Agriculture and Rural Affairs, Guangzhou 510640, China
- Guangdong Key Laboratory of New Technology in Rice Breeding, Guangzhou 510640, China
- Guangdong Rice Engineering Laboratory, Guangzhou 510640, China
| | - Zhilan Fan
- Rice Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China
- Key Laboratory of Genetics and Breeding of High Quality Rice in Southern China (Co-Construction by Ministry and Province), Ministry of Agriculture and Rural Affairs, Guangzhou 510640, China
- Guangdong Key Laboratory of New Technology in Rice Breeding, Guangzhou 510640, China
- Guangdong Rice Engineering Laboratory, Guangzhou 510640, China
| | - Wei Liu
- Rice Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China
- Key Laboratory of Genetics and Breeding of High Quality Rice in Southern China (Co-Construction by Ministry and Province), Ministry of Agriculture and Rural Affairs, Guangzhou 510640, China
- Guangdong Key Laboratory of New Technology in Rice Breeding, Guangzhou 510640, China
- Guangdong Rice Engineering Laboratory, Guangzhou 510640, China
| | - Wenfeng Chen
- Rice Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China
- Key Laboratory of Genetics and Breeding of High Quality Rice in Southern China (Co-Construction by Ministry and Province), Ministry of Agriculture and Rural Affairs, Guangzhou 510640, China
- Guangdong Key Laboratory of New Technology in Rice Breeding, Guangzhou 510640, China
- Guangdong Rice Engineering Laboratory, Guangzhou 510640, China
| | - Chen Li
- Rice Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China
- Key Laboratory of Genetics and Breeding of High Quality Rice in Southern China (Co-Construction by Ministry and Province), Ministry of Agriculture and Rural Affairs, Guangzhou 510640, China
- Guangdong Key Laboratory of New Technology in Rice Breeding, Guangzhou 510640, China
- Guangdong Rice Engineering Laboratory, Guangzhou 510640, China
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Fatemifard SZ, Masoumiasl A, Rezaei R, Fazeli-Nasab B, Salehi-Sardoei A, Ghorbanpour M. Association between molecular markers and resistance to bacterial blight using binary logistic analysis. BMC PLANT BIOLOGY 2024; 24:670. [PMID: 39004723 PMCID: PMC11247743 DOI: 10.1186/s12870-024-05381-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/29/2024] [Accepted: 07/05/2024] [Indexed: 07/16/2024]
Abstract
The most effective strategy for managing wheat bacterial blight caused by Pseudomonas syringae pv. syringae is believed to be the use of resistant cultivars. Researching the correlation between molecular markers and stress resistance can expedite the plant breeding process. The current study aims to evaluate the response of 27 bread wheat cultivars to bacterial blight disease in order to identify resistant and susceptible cultivars and to pinpoint ISSR molecular markers associated with bacterial blight resistance genes. ISSR markers are recommended for assessing a plant's disease resistance. This experiment is focused on identifying ISSR molecular markers linked to bacterial blight resistance. After applying the bacterial solution to the leaves, we performed sampling to determine the infection percentage in the leaves at different intervals (7, 14, and 18 days after spraying). In most cultivars, the average leaf infection percentage decreased 18 days after spraying on young leaves. However, in some cultivars such as Niknegad, Darab2, and Zarin, leaf infection increased in older leaves and reached up to 100% necrosis. In our study, 12 ISSR primers generated a total of 170 bands, with 156 being polymorphic. The primers F10 and F5 showed the highest polymorphism, while the F7 primer exhibited the lowest polymorphism. Cluster analysis grouped these cultivars into four categories. The resistant group included Qods, Omid, and Atrak cultivars, while the semi-resistant and susceptible groups comprised the rest of the cultivars. Through binary logistic analysis, we identified three Super oxide dismutase-related genes that contribute to plant resistance to bacterial blight. These genes were linked to the F3, F5, and F12 primers in regions I (1500 bp), T (1000 bp), and G (850 bp), respectively. We also identified seven susceptibility-associated genes. Atrak, Omid, and Qods cultivars exhibited resistance against bacterial blight, and three genes associated with this resistance were linked to the F3, F5, and F12 primers. These markers can be used for screening or transferring tolerance to other wheat cultivars in breeding programs.
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Affiliation(s)
| | - Asad Masoumiasl
- Plant Breeding Department, Agriculture Faculty, Yasouj University, Yasouj, Iran.
| | - Rasool Rezaei
- Plant Protection Department, Agriculture Faculty, Yasouj University, Yasouj, Iran
| | - Bahman Fazeli-Nasab
- Department of Agronomy and Plant Breeding, Agriculture Institute, Research Institute of Zabol, Zabol, Iran
| | - Ali Salehi-Sardoei
- Crop and Horticultural Science Research Department, South Kerman Agricultural and Natural Resources Research and Education Center, AREEO, Jiroft, Iran
| | - Mansour Ghorbanpour
- Department of Medicinal Plants, Faculty of Agriculture and Natural Resources, Arak University, Arak, 38156-8-8349, Iran.
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Chen P, Wang J, Liu Q, Liu J, Mo Q, Sun B, Mao X, Jiang L, Zhang J, Lv S, Yu H, Chen W, Liu W, Li C. Transcriptome and Metabolome Analysis of Rice Cultivar CBB23 after Inoculation by Xanthomonas oryzae pv. oryzae Strains AH28 and PXO99 A. PLANTS (BASEL, SWITZERLAND) 2024; 13:1411. [PMID: 38794481 PMCID: PMC11124827 DOI: 10.3390/plants13101411] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/31/2024] [Revised: 04/28/2024] [Accepted: 05/03/2024] [Indexed: 05/26/2024]
Abstract
Bacterial leaf blight (BLB), among the most serious diseases in rice production, is caused by Xanthomonas oryzae pv. oryzae (Xoo). Xa23, the broadest resistance gene against BLB in rice, is widely used in rice breeding. In this study, the rice variety CBB23 carrying the Xa23 resistance gene was inoculated with AH28 and PXO99A to identify differentially expressed genes (DEGs) associated with the resistance. Transcriptome sequencing of the infected leaves showed 7997 DEGs between the two strains at different time points, most of which were up-regulated, including cloned rice anti-blight, peroxidase, pathology-related, protein kinase, glucosidase, and other coding genes, as well as genes related to lignin synthesis, salicylic acid, jasmonic acid, and secondary metabolites. Additionally, the DEGs included 40 cloned, five NBS-LRR, nine SWEET family, and seven phenylalanine aminolyase genes, and 431 transcription factors were differentially expressed, the majority of which belonged to the WRKY, NAC, AP2/ERF, bHLH, and MYB families. Metabolomics analysis showed that a large amount of alkaloid and terpenoid metabolite content decreased significantly after inoculation with AH28 compared with inoculation with PXO99A, while the content of amino acids and their derivatives significantly increased. This study is helpful in further discovering the pathogenic mechanism of AH28 and PXO99A in CBB23 rice and provides a theoretical basis for cloning and molecular mechanism research related to BLB resistance in rice.
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Affiliation(s)
- Pingli Chen
- Guangdong Key Laboratory of New Technology in Rice Breeding, Guangdong Rice Engineering Laboratory, Key Laboratory of Genetics and Breeding of High Quality Rice in Southern China (Co-Construction by Ministry and Province), Ministry of Agriculture and Rural Affairs, Rice Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China
| | - Junjie Wang
- Guangzhou Academy of Agricultural Sciences, Guangzhou 510335, China
| | - Qing Liu
- Guangdong Key Laboratory of New Technology in Rice Breeding, Guangdong Rice Engineering Laboratory, Key Laboratory of Genetics and Breeding of High Quality Rice in Southern China (Co-Construction by Ministry and Province), Ministry of Agriculture and Rural Affairs, Rice Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China
| | - Junjie Liu
- Guangdong Key Laboratory of New Technology in Rice Breeding, Guangdong Rice Engineering Laboratory, Key Laboratory of Genetics and Breeding of High Quality Rice in Southern China (Co-Construction by Ministry and Province), Ministry of Agriculture and Rural Affairs, Rice Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China
| | - Qiaoping Mo
- Guangzhou Academy of Agricultural Sciences, Guangzhou 510335, China
| | - Bingrui Sun
- Guangdong Key Laboratory of New Technology in Rice Breeding, Guangdong Rice Engineering Laboratory, Key Laboratory of Genetics and Breeding of High Quality Rice in Southern China (Co-Construction by Ministry and Province), Ministry of Agriculture and Rural Affairs, Rice Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China
| | - Xingxue Mao
- Guangdong Key Laboratory of New Technology in Rice Breeding, Guangdong Rice Engineering Laboratory, Key Laboratory of Genetics and Breeding of High Quality Rice in Southern China (Co-Construction by Ministry and Province), Ministry of Agriculture and Rural Affairs, Rice Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China
| | - Liqun Jiang
- Guangdong Key Laboratory of New Technology in Rice Breeding, Guangdong Rice Engineering Laboratory, Key Laboratory of Genetics and Breeding of High Quality Rice in Southern China (Co-Construction by Ministry and Province), Ministry of Agriculture and Rural Affairs, Rice Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China
| | - Jing Zhang
- Guangdong Key Laboratory of New Technology in Rice Breeding, Guangdong Rice Engineering Laboratory, Key Laboratory of Genetics and Breeding of High Quality Rice in Southern China (Co-Construction by Ministry and Province), Ministry of Agriculture and Rural Affairs, Rice Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China
| | - Shuwei Lv
- Guangdong Key Laboratory of New Technology in Rice Breeding, Guangdong Rice Engineering Laboratory, Key Laboratory of Genetics and Breeding of High Quality Rice in Southern China (Co-Construction by Ministry and Province), Ministry of Agriculture and Rural Affairs, Rice Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China
| | - Hang Yu
- Guangdong Key Laboratory of New Technology in Rice Breeding, Guangdong Rice Engineering Laboratory, Key Laboratory of Genetics and Breeding of High Quality Rice in Southern China (Co-Construction by Ministry and Province), Ministry of Agriculture and Rural Affairs, Rice Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China
| | - Weixiong Chen
- Guangzhou Academy of Agricultural Sciences, Guangzhou 510335, China
| | - Wei Liu
- Guangdong Key Laboratory of New Technology in Rice Breeding, Guangdong Rice Engineering Laboratory, Key Laboratory of Genetics and Breeding of High Quality Rice in Southern China (Co-Construction by Ministry and Province), Ministry of Agriculture and Rural Affairs, Rice Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China
| | - Chen Li
- Guangdong Key Laboratory of New Technology in Rice Breeding, Guangdong Rice Engineering Laboratory, Key Laboratory of Genetics and Breeding of High Quality Rice in Southern China (Co-Construction by Ministry and Province), Ministry of Agriculture and Rural Affairs, Rice Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China
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6
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Zhang H, Liang M, Chen J, Wang H, Ma L. Rapid generation of fragrant thermo-sensitive genic male sterile rice with enhanced disease resistance via CRISPR/Cas9. PLANTA 2024; 259:112. [PMID: 38581602 DOI: 10.1007/s00425-024-04392-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/15/2023] [Accepted: 03/17/2024] [Indexed: 04/08/2024]
Abstract
MAIN CONCLUSION The three, by mutagenesis produced genes OsPi21, OsXa5, and OsBADH2, generated novel lines exhibiting desired fragrance and improved resistance. Elite sterile lines are the basis for hybrid rice breeding, and rice quality and disease resistance become the focus of new sterile lines breeding. Since there are few sterile lines with fragrance and high resistance to blast and bacterial blight at the same time in hybrid rice production, we here integrated the simultaneous mutagenesis of three genes, OsPi21, OsXa5, and OsBADH2, into Zhi 5012S, an elite thermo-sensitive genic male sterile (TGMS) variety, using the CRISPR/Cas9 system, thus eventually generated novel sterile lines would exhibit desired popcorn-like fragrance and improved resistance to blast and bacterial blight but without a loss in major agricultural traits such as yield. Collectively, this study develops valuable germplasm resources for the development of two-line hybrid rice with disease resistance, which provides a way to rapid generation of novel TGMS lines with elite traits.
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Affiliation(s)
- Huali Zhang
- State Key Laboratory of Rice Biology and Breeding and Chinese National Center for Rice Improvement, China National Rice Research Institute, Hangzhou, 311400, People's Republic of China
| | - Minmin Liang
- State Key Laboratory of Rice Biology and Breeding and Chinese National Center for Rice Improvement, China National Rice Research Institute, Hangzhou, 311400, People's Republic of China
| | - Junyu Chen
- State Key Laboratory of Rice Biology and Breeding and Chinese National Center for Rice Improvement, China National Rice Research Institute, Hangzhou, 311400, People's Republic of China
| | - Huimei Wang
- State Key Laboratory of Rice Biology and Breeding and Chinese National Center for Rice Improvement, China National Rice Research Institute, Hangzhou, 311400, People's Republic of China
| | - Liangyong Ma
- State Key Laboratory of Rice Biology and Breeding and Chinese National Center for Rice Improvement, China National Rice Research Institute, Hangzhou, 311400, People's Republic of China.
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7
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Lu Z, Fang Z, Liu W, Lu D, Wang X, Wang S, Xue J, He X. Grain quality characteristics analysis and application on breeding of Yuenongsimiao, a high-yielding and disease-resistant rice variety. Sci Rep 2023; 13:6335. [PMID: 37072409 PMCID: PMC10113224 DOI: 10.1038/s41598-022-21030-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/08/2021] [Accepted: 09/21/2022] [Indexed: 05/03/2023] Open
Abstract
Rice quality is one of the main targets of rice breeding and is a complex trait that involves grain appearance, milling, cooking, eating and nutritional quality. For many years, rice breeding has contended with imbalances in rice yield, quality, and disease and lodging resistance. Here, the milling and appearance quality, cooking quality, starch rapid viscosity analyzer (RVA) profile, and nutritional quality of grains of Yuenongsimiao (YNSM), an indica rice variety with high yield, high quality and disease resistance, were determined. YNSM had excellent appearance and quality, with low amylose contents and high gel consistency, and these characteristics exhibited significant correlations with the RVA profile such as hot paste viscosity, cool paste viscosity, setback viscosity, and consistency. Moreover, 5 genes related to length-to-width ratio (LWR) as well as the Wx gene were used to detect the main quality genotype of YNSM. The results showed that YNSM is a semilong-grain rice with a relatively high brown rice rate, milled rice rate and head rice yield and low chalkiness. The results indicated that the LWR and food quality of YNSM might be related to gs3, gw7 and Wxb. This study also reports the quality characteristics of hybrid rice developed using YNSM as a restorer line. The quality characteristics and the genotype for grain quality determined through gene analysis in YNSM may facilitate the breeding of new rice varieties that achieve a balance of grain yield, resistance and quality.
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Affiliation(s)
- Zhanhua Lu
- Rice Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou, 510640, China
- Guangdong Key Laboratory of New Technology in Rice Breeding, Guangzhou, 510640, China
- Guangdong Rice Engineering Laboratory, Guangzhou, 510640, China
| | - Zhiqiang Fang
- Rice Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou, 510640, China
- Guangdong Key Laboratory of New Technology in Rice Breeding, Guangzhou, 510640, China
- Guangdong Rice Engineering Laboratory, Guangzhou, 510640, China
| | - Wei Liu
- Rice Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou, 510640, China
- Guangdong Key Laboratory of New Technology in Rice Breeding, Guangzhou, 510640, China
- Guangdong Rice Engineering Laboratory, Guangzhou, 510640, China
| | - Dongbai Lu
- Rice Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou, 510640, China
- Guangdong Key Laboratory of New Technology in Rice Breeding, Guangzhou, 510640, China
- Guangdong Rice Engineering Laboratory, Guangzhou, 510640, China
| | - Xiaofei Wang
- Rice Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou, 510640, China
- Guangdong Key Laboratory of New Technology in Rice Breeding, Guangzhou, 510640, China
- Guangdong Rice Engineering Laboratory, Guangzhou, 510640, China
| | - Shiguang Wang
- Rice Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou, 510640, China
- Guangdong Key Laboratory of New Technology in Rice Breeding, Guangzhou, 510640, China
- Guangdong Rice Engineering Laboratory, Guangzhou, 510640, China
| | - Jiao Xue
- Rice Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou, 510640, China
- Guangdong Key Laboratory of New Technology in Rice Breeding, Guangzhou, 510640, China
- Guangdong Rice Engineering Laboratory, Guangzhou, 510640, China
| | - Xiuying He
- Rice Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou, 510640, China.
- Guangdong Key Laboratory of New Technology in Rice Breeding, Guangzhou, 510640, China.
- Guangdong Rice Engineering Laboratory, Guangzhou, 510640, China.
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8
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Peng P, Jiang H, Luo L, Ye C, Xiao Y. Pyramiding of Multiple Genes to Improve Rice Blast Resistance of Photo-Thermo Sensitive Male Sterile Line, without Yield Penalty in Hybrid Rice Production. PLANTS (BASEL, SWITZERLAND) 2023; 12:1389. [PMID: 36987076 PMCID: PMC10058063 DOI: 10.3390/plants12061389] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/23/2023] [Revised: 03/17/2023] [Accepted: 03/20/2023] [Indexed: 06/19/2023]
Abstract
Rice blast caused by pathogenic fungus Magnaporthe oryzae is one of the most serious diseases in rice. The pyramiding of effective resistance genes into rice varieties is a potential approach to reduce the damage of blast disease. In this study, combinations of three resistance genes, Pigm, Pi48 and Pi49, were introduced into a thermo-sensitive genic male sterile (PTGMS) line Chuang5S through marker-assisted selection. The results showed that the blast resistance of improved lines increased significantly compared with Chuang5S, and the three gene pyramiding lines (Pigm + Pi48 + Pi49) had higher rice blast resistance level than monogenic line and digenic lines (Pigm +Pi48, Pigm + Pi49). The genetic backgrounds of the improved lines were highly similar (>90%) to the recurrent parent Chuang5S by using the RICE10K SNP chip. In addition, agronomic traits evaluation also showed pyramiding lines with two or three genes similar to Chuang5S. The yields of the hybrids developed from improved PTGMS lines and Chuang5S are not significantly different. The newly developed PTGMS lines can be practically used for the breeding of parental lines and hybrid varieties with broad spectrum blast resistance.
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Affiliation(s)
- Pei Peng
- College of Agronomy, Hunan Agricultural University, Changsha 410128, China
| | - Haoyu Jiang
- College of Agronomy, Hunan Agricultural University, Changsha 410128, China
| | - Lihua Luo
- College of Agronomy, Hunan Agricultural University, Changsha 410128, China
| | - Changrong Ye
- Huazhi Biotech Co., Ltd., Changsha 410125, China
| | - Yinghui Xiao
- College of Agronomy, Hunan Agricultural University, Changsha 410128, China
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9
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Shah S, Tsuneyoshi H, Ichitani K, Taura S. QTL Analysis Revealed One Major Genetic Factor Inhibiting Lesion Elongation by Bacterial Blight (Xanthomonas oryzae pv. oryzae) from a japonica Cultivar Koshihikari in Rice. PLANTS 2022; 11:plants11070867. [PMID: 35406847 PMCID: PMC9003242 DOI: 10.3390/plants11070867] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 02/10/2022] [Revised: 03/15/2022] [Accepted: 03/22/2022] [Indexed: 11/19/2022]
Abstract
Xanthomonas oryzae pv. oryzae (Xoo) is a pathogen that has ravaged the rice industry as the causal agent of bacterial blight (BB) diseases in rice. Koshihikari (KO), an elite japonica cultivar, and ARC7013 (AR), an indica cultivar, are both susceptible to Xoo. Their phenotypic characteristics reveal that KO has shorter lesion length than that of AR. The F2 population from KO × AR results in continuous distribution of lesion length by inoculation of an Xoo race (T7147). Consequently, quantitative trait loci (QTL) mapping of the F2 population is conducted, covering 12 chromosomes with 107 simple sequence repeat (SSR) and insertion/deletion (InDel) genetic markers. Three QTLs are identified on chromosomes 2, 5, and 10. Of them, qXAR5 has the strongest resistance variance effect of 20.5%, whereas qXAR2 and qXAR10 have minor QTL effects on resistance variance, with 3.9% and 2.3%, respectively, for a total resistance variance of 26.7%. The QTLs we examine for this study differ from the loci of BB resistance genes from earlier studies. Our results can help to facilitate understanding of genetic and morphological fundamentals for use in rice breeding programs that are more durable against evolving Xoo pathogens and uncertain climatic temperature.
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Affiliation(s)
- Shameel Shah
- Graduate School of Agriculture Science Forestry and Fisheries, Kagoshima University, Kagoshima 890-0065, Japan; (S.S.); (K.I.)
| | - Hiroaki Tsuneyoshi
- Faculty of Agriculture, Kagoshima University, Kagoshima 890-0065, Japan;
| | - Katsuyuki Ichitani
- Graduate School of Agriculture Science Forestry and Fisheries, Kagoshima University, Kagoshima 890-0065, Japan; (S.S.); (K.I.)
- Faculty of Agriculture, Kagoshima University, Kagoshima 890-0065, Japan;
- The United Graduate School of Agriculture Sciences, Kagoshima University, Kagoshima 890-0065, Japan
| | - Satoru Taura
- Graduate School of Agriculture Science Forestry and Fisheries, Kagoshima University, Kagoshima 890-0065, Japan; (S.S.); (K.I.)
- Division of Gene Research, Kagoshima University, Kagoshima 890-0065, Japan
- Correspondence: ; Tel.: +81-0992853590
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10
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Singh UM, Dixit S, Alam S, Yadav S, Prasanth VV, Singh AK, Venkateshwarlu C, Abbai R, Vipparla AK, Badri J, Ram T, Prasad MS, Laha GS, Singh VK, Kumar A. Marker-assisted forward breeding to develop a drought-, bacterial-leaf-blight-, and blast-resistant rice cultivar. THE PLANT GENOME 2022; 15:e20170. [PMID: 34845865 DOI: 10.1002/tpg2.20170] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/23/2021] [Accepted: 09/19/2021] [Indexed: 06/13/2023]
Abstract
Among the different challenges related to rice (Oryza sativa L.) cultivation, drought, bacterial leaf blight (BLB), and blast are the key stresses that significantly affect grain yield (GY) in rice. To ameliorate this issue, marker-assisted forward breeding (MAFB) coupled with a simultaneous crossing approach was used to combine three drought tolerant quantitative trait loci (QTL)-qDTY1.1 , qDTY3.1 , and qDTY12.1 -four BLB genes-Xa4, xa5, xa13, and Xa21-and one blast-resistance gene, Pi9, in the elite rice cultivar Lalat. The introgression lines (ILs) developed in the current study were phenotypically screened for drought, BLB, and blast resistance at the F7 -F8 generation. Under the reproductive stage (RS) drought stress, the yield advantage of ILs, with major-effect QTL (qDTY) over elite parent Lalat, ranges from 9 to 124% in DS2019 and from 7 to 175% in WS2019. The selected ILs were highly resistant to BLB, with lesion lengths ranging from 1.3 to 3.0 cm and blast scores ranging from 1 to 3. ILs that were tolerant to RS drought, resistant to BLB, and blast disease and had similar or higher yields than Lalat were analyzed for grain quality. Six ILs were found to have similar grain quality characteristics to Lalat including hulling, milling, head rice recovery (HRR), chalkiness, alkali spreading value (ASV), and amylose content (AC). This study showed that MAFB, together with simultaneous crossing, would be an effective strategy to rapidly combine multiple stresses in rice. The ILs developed in this study could help to ensure yield sustainability in rainfed environments or be used as genetic material in future breeding programs.
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Affiliation(s)
- Uma Maheshwar Singh
- International Rice Research Institute, South Asia Hub, ICRISAT, Patancheru, Hyderabad, India
- International Rice Research Institute, South Asia Regional Centre, Varanasi, India
| | - Shilpi Dixit
- International Rice Research Institute, South Asia Hub, ICRISAT, Patancheru, Hyderabad, India
- International Rice Research Institute, South Asia Regional Centre, Varanasi, India
| | - Shamshad Alam
- International Rice Research Institute, South Asia Hub, ICRISAT, Patancheru, Hyderabad, India
| | - Shailesh Yadav
- International Rice Research Institute, South Asia Hub, ICRISAT, Patancheru, Hyderabad, India
| | | | - Arun Kumar Singh
- International Rice Research Institute, South Asia Hub, ICRISAT, Patancheru, Hyderabad, India
| | - Challa Venkateshwarlu
- International Rice Research Institute, South Asia Hub, ICRISAT, Patancheru, Hyderabad, India
| | - Ragavendran Abbai
- International Rice Research Institute, South Asia Hub, ICRISAT, Patancheru, Hyderabad, India
| | - Abhilash Kumar Vipparla
- International Rice Research Institute, South Asia Hub, ICRISAT, Patancheru, Hyderabad, India
| | - Jyothi Badri
- ICAR-Indian Institute of Rice Research, Rajendra Nagar, Hyderabad, India
| | - Tilatoo Ram
- ICAR-Indian Institute of Rice Research, Rajendra Nagar, Hyderabad, India
| | | | - Gouri Sankar Laha
- ICAR-Indian Institute of Rice Research, Rajendra Nagar, Hyderabad, India
| | - Vikas Kumar Singh
- International Rice Research Institute, South Asia Hub, ICRISAT, Patancheru, Hyderabad, India
| | - Arvind Kumar
- International Rice Research Institute, South Asia Regional Centre, Varanasi, India
- International Crops Research Institute for the Semi-Arid Tropics, Patancheru, Hyderabad, India
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11
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Multiparent-Derived, Marker-Assisted Introgression Lines of the Elite Indian Rice Cultivar, ‘Krishna Hamsa’ Show Resistance against Bacterial Blight and Blast and Tolerance to Drought. PLANTS 2022; 11:plants11050622. [PMID: 35270092 PMCID: PMC8912774 DOI: 10.3390/plants11050622] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 01/15/2022] [Revised: 02/15/2022] [Accepted: 02/21/2022] [Indexed: 11/17/2022]
Abstract
Major biotic stresses viz., bacterial blight (BB) and blast and brown plant hopper (BPH) coupled with abiotic stresses like drought stress, significantly affect rice yields. To address this, marker-assisted intercross (IC) breeding involving multiple donors was used to combine three BB resistance genes—xa5, xa13 and Xa21, two blast resistance genes—Pi9 and Pi54, two BPH resistance genes—Bph20 and Bph21, and four drought tolerant quantitative trait loci (QTL)—qDTY1.1, qDTY2.1, qDTY3.1 and qDTY12.1—in the genetic background of the elite Indian rice cultivar ‘Krishna Hamsa’. Three cycles of selective intercrossing followed by selfing coupled with foreground selection and phenotyping for the target traits resulted in the development of 196 introgression lines (ILs) with a myriad of gene/QTL combinations. Based on the phenotypic reaction, the ILs were classified into seven phenotypic classes of resistance/tolerance to the following: (1) BB, blast and drought—5 ILs; (2) BB and blast—10 ILs; (3) BB and drought—9 ILs; (4) blast and drought—42 ILs; (5) BB—3 ILs; (6) blast—84 ILs; and (7) drought—43 ILs; none of the ILs were resistant to BPH. Positive phenotypic response (resistance) was observed to both BB and blast in 2 ILs, BB in 9 ILs and blast in 64 ILs despite the absence of corresponding R genes. Inheritance of resistance to BB and/or blast in such ILs could be due to the unknown genes from other parents used in the breeding scheme. Negative phenotypic response (susceptibility) was observed in 67 ILs possessing BB-R genes, 9 ILs with blast-R genes and 9 ILs harboring QTLs for drought tolerance. Complex genic interactions and recombination events due to the involvement of multiple donors explain susceptibility in some of the marker positive ILs. The present investigation successfully demonstrates the possibility of rapid development of multiple stress-tolerant/resistant ILs in the elite cultivar background involving multiple donors through selective intercrossing and stringent phenotyping. The 196 ILs in seven phenotypic classes with myriad of gene/QTL combinations will serve as a useful genetic resource in combining multiple biotic and abiotic stress resistance in future breeding programs.
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12
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Anik TR, Nihad SAI, Hasan MAI, Hossain MA, Rashid MM, Khan MAI, Halder KP, Latif MA. Exploring of bacterial blight resistance in landraces and mining of resistant gene(s) using molecular markers and pathogenicity approach. PHYSIOLOGY AND MOLECULAR BIOLOGY OF PLANTS : AN INTERNATIONAL JOURNAL OF FUNCTIONAL PLANT BIOLOGY 2022; 28:455-469. [PMID: 35400880 PMCID: PMC8943093 DOI: 10.1007/s12298-022-01139-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/30/2021] [Revised: 11/10/2021] [Accepted: 01/14/2022] [Indexed: 06/14/2023]
Abstract
UNLABELLED Bacterial blight, one of the oldest and most severe diseases of rice poses a major threat to global rice production and food security. Thereafter, sustainable management of this disease has given paramount importance globally. In the current study, we explored 792 landraces to evaluate their disease reaction status against three highly virulent strains (BXo69, BXo87 and BXo93) of Xanthomonas oryzae pv. oryzae (Xoo). Subsequently, we intended to identify the possible candidate resistant (R) genes responsible for the resistant reaction using six STS (Sequence Tagged Site) markers correspond to Xa4, xa5, Xa7, xa13, Xa21 and Xa23 genes and finally, we evaluated morphological variability of the potential bacterial blight resistant germplasm using quantitative traits. Based on pathogenicity test, a single germplasm was found as highly resistant while, 33 germplasm were resistant and 40 were moderately resistant. Further molecular study on these 74 germplasm divulged that 41 germplasm carried Xa4 gene, 15 carried xa5 gene, 62 carried Xa7 gene, 33 carried xa13 gene, and 19 carried Xa23 gene. Only a single germplasm found to carry Xa21 gene. Interestingly, we found a wide range of gene combinations ranged from 2 to 4 genes among the germplasm, where 10 germplasm carried 4 genes, 15 germplasm carried 3 genes and 38 germplasm carried 2 genes of various combinations. Notably, G3 genotype (Acc. No. 4216; highly resistant) having Xa4, Xa7, xa13, Xa21 and G43 genotype (Acc.No. 1523; resistant) having Xa4, xa5, xa13 and Xa23 gene combination being the most effective against all the Xoo strains. Nonetheless, UPGMA dendrogram and heatmap analysis based on quantitative traits identified two clusters viz. cluster-III and cluster-VIII with multiple desired traits. The outcome of this study would enrich and diversify the rice gene pool and would be useful for the development of durable bacterial blight resistant varieties. SUPPLEMENTARY INFORMATION The online version contains supplementary material available at 10.1007/s12298-022-01139-x.
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Affiliation(s)
- Touhidur Rahman Anik
- Plant Pathology Division, Bangladesh Rice Research Institute, Gazipur, 1701 Bangladesh
| | | | - Md. Al-Imran Hasan
- Plant Pathology Division, Bangladesh Rice Research Institute, Gazipur, 1701 Bangladesh
| | | | - Md. Mamunur Rashid
- Plant Pathology Division, Bangladesh Rice Research Institute, Regional Station, Cumilla, Bangladesh
| | | | - Krishna Pada Halder
- Office of Director Research, Bangladesh Rice Research Institute, Gazipur, 1701 Bangladesh
| | - Mohammad Abdul Latif
- Plant Pathology Division, Bangladesh Rice Research Institute, Gazipur, 1701 Bangladesh
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13
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Liu Z, Zhu Y, Shi H, Qiu J, Ding X, Kou Y. Recent Progress in Rice Broad-Spectrum Disease Resistance. Int J Mol Sci 2021; 22:11658. [PMID: 34769087 PMCID: PMC8584176 DOI: 10.3390/ijms222111658] [Citation(s) in RCA: 34] [Impact Index Per Article: 8.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/04/2021] [Revised: 10/25/2021] [Accepted: 10/25/2021] [Indexed: 11/25/2022] Open
Abstract
Rice is one of the most important food crops in the world. However, stable rice production is constrained by various diseases, in particular rice blast, sheath blight, bacterial blight, and virus diseases. Breeding and cultivation of resistant rice varieties is the most effective method to control the infection of pathogens. Exploitation and utilization of the genetic determinants of broad-spectrum resistance represent a desired way to improve the resistance of susceptible rice varieties. Recently, researchers have focused on the identification of rice broad-spectrum disease resistance genes, which include R genes, defense-regulator genes, and quantitative trait loci (QTL) against two or more pathogen species or many isolates of the same pathogen species. The cloning of broad-spectrum disease resistance genes and understanding their underlying mechanisms not only provide new genetic resources for breeding broad-spectrum rice varieties, but also promote the development of new disease resistance breeding strategies, such as editing susceptibility and executor R genes. In this review, the most recent advances in the identification of broad-spectrum disease resistance genes in rice and their application in crop improvement through biotechnology approaches during the past 10 years are summarized.
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Affiliation(s)
- Zhiquan Liu
- State Key Lab of Rice Biology, China National Rice Research Institute, Hangzhou 311400, China; (Z.L.); (Y.Z.); (H.S.); (J.Q.)
| | - Yujun Zhu
- State Key Lab of Rice Biology, China National Rice Research Institute, Hangzhou 311400, China; (Z.L.); (Y.Z.); (H.S.); (J.Q.)
| | - Huanbin Shi
- State Key Lab of Rice Biology, China National Rice Research Institute, Hangzhou 311400, China; (Z.L.); (Y.Z.); (H.S.); (J.Q.)
| | - Jiehua Qiu
- State Key Lab of Rice Biology, China National Rice Research Institute, Hangzhou 311400, China; (Z.L.); (Y.Z.); (H.S.); (J.Q.)
| | - Xinhua Ding
- State Key Laboratory of Crop Biology, Shandong Provincial Key Laboratory for Biology of Vegetable Diseases and Insect Pests, College of Plant Protection, Shandong Agricultural University, Taian 271018, China;
| | - Yanjun Kou
- State Key Lab of Rice Biology, China National Rice Research Institute, Hangzhou 311400, China; (Z.L.); (Y.Z.); (H.S.); (J.Q.)
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