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Siddique MI, Silverman E, Louws F, Panthee DR. Quantitative Trait Loci Mapping for Bacterial Wilt Resistance and Plant Height in Tomatoes. PLANTS (BASEL, SWITZERLAND) 2024; 13:876. [PMID: 38592886 PMCID: PMC10976105 DOI: 10.3390/plants13060876] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/26/2024] [Revised: 03/13/2024] [Accepted: 03/14/2024] [Indexed: 04/11/2024]
Abstract
Bacterial wilt (BW) of tomatoes, caused by Ralstonia solanacearum, is a devastating disease that results in large annual yield losses worldwide. Management of BW of tomatoes is difficult due to the soil-borne nature of the pathogen. One of the best ways to mitigate the losses is through breeding for disease resistance. Moreover, plant height (PH) is a crucial element related to plant architecture, which determines nutrient management and mechanical harvesting in tomatoes. An intraspecific F2 segregating population (NC 11212) of tomatoes was developed by crossing NC 84173 (tall, BW susceptible) × CLN1466EA (short, BW resistant). We performed quantitative trait loci (QTL) mapping using single nucleotide polymorphic (SNP) markers and the NC 11212 F2 segregating population. The QTL analysis for BW resistance revealed a total of three QTLs on chromosomes 1, 2, and 3, explaining phenotypic variation (R2) ranging from 3.6% to 14.9%, whereas the QTL analysis for PH also detected three QTLs on chromosomes 1, 8, and 11, explaining R2 ranging from 7.1% to 11%. This work thus provides information to improve BW resistance and plant architecture-related traits in tomatoes.
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Affiliation(s)
- Muhammad Irfan Siddique
- Mountain Horticultural Crops Research and Extension Center, Department of Horticultural Science, North Carolina State University, 455 Research Dr., Mills River, NC 28759, USA
| | - Emily Silverman
- Department of Plant Pathology, North Carolina State University, Raleigh, NC 27695, USA
| | - Frank Louws
- Mountain Horticultural Crops Research and Extension Center, Department of Horticultural Science, North Carolina State University, 455 Research Dr., Mills River, NC 28759, USA
- Department of Plant Pathology, North Carolina State University, Raleigh, NC 27695, USA
| | - Dilip R. Panthee
- Mountain Horticultural Crops Research and Extension Center, Department of Horticultural Science, North Carolina State University, 455 Research Dr., Mills River, NC 28759, USA
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2
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Gramazio P, Alonso D, Arrones A, Villanueva G, Plazas M, Toppino L, Barchi L, Portis E, Ferrante P, Lanteri S, Rotino GL, Giuliano G, Vilanova S, Prohens J. Conventional and new genetic resources for an eggplant breeding revolution. JOURNAL OF EXPERIMENTAL BOTANY 2023; 74:6285-6305. [PMID: 37419672 DOI: 10.1093/jxb/erad260] [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: 03/16/2023] [Accepted: 07/05/2023] [Indexed: 07/09/2023]
Abstract
Eggplant (Solanum melongena) is a major vegetable crop with great potential for genetic improvement owing to its large and mostly untapped genetic diversity. It is closely related to over 500 species of Solanum subgenus Leptostemonum that belong to its primary, secondary, and tertiary genepools and exhibit a wide range of characteristics useful for eggplant breeding, including traits adaptive to climate change. Germplasm banks worldwide hold more than 19 000 accessions of eggplant and related species, most of which have yet to be evaluated. Nonetheless, eggplant breeding using the cultivated S. melongena genepool has yielded significantly improved varieties. To overcome current breeding challenges and for adaptation to climate change, a qualitative leap forward in eggplant breeding is necessary. The initial findings from introgression breeding in eggplant indicate that unleashing the diversity present in its relatives can greatly contribute to eggplant breeding. The recent creation of new genetic resources such as mutant libraries, core collections, recombinant inbred lines, and sets of introgression lines will be another crucial element and will require the support of new genomics tools and biotechnological developments. The systematic utilization of eggplant genetic resources supported by international initiatives will be critical for a much-needed eggplant breeding revolution to address the challenges posed by climate change.
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Affiliation(s)
- Pietro Gramazio
- Instituto de Conservación y Mejora de la Agrodiversidad Valenciana, Universitat Politècnica de València, Camino de Vera 14, 46022 Valencia, Spain
| | - David Alonso
- Instituto de Conservación y Mejora de la Agrodiversidad Valenciana, Universitat Politècnica de València, Camino de Vera 14, 46022 Valencia, Spain
| | - Andrea Arrones
- Instituto de Conservación y Mejora de la Agrodiversidad Valenciana, Universitat Politècnica de València, Camino de Vera 14, 46022 Valencia, Spain
| | - Gloria Villanueva
- Instituto de Conservación y Mejora de la Agrodiversidad Valenciana, Universitat Politècnica de València, Camino de Vera 14, 46022 Valencia, Spain
| | - Mariola Plazas
- Instituto de Conservación y Mejora de la Agrodiversidad Valenciana, Universitat Politècnica de València, Camino de Vera 14, 46022 Valencia, Spain
| | - Laura Toppino
- CREA Research Centre for Genomics and Bioinformatics, Via Paullese 28, 26836 Montanaso Lombardo, LO, Italy
| | - Lorenzo Barchi
- Dipartimento di Scienze Agrarie, Forestali e Alimentari (DISAFA), Plant Genetics, University of Turin, Largo P. Braccini 2, 10095 Grugliasco, TO, Italy
| | - Ezio Portis
- Dipartimento di Scienze Agrarie, Forestali e Alimentari (DISAFA), Plant Genetics, University of Turin, Largo P. Braccini 2, 10095 Grugliasco, TO, Italy
| | - Paola Ferrante
- Agenzia Nazionale Per Le Nuove Tecnologie, L'energia e Lo Sviluppo Economico Sostenibile (ENEA), Casaccia Research Centre, Rome, Italy
| | - Sergio Lanteri
- Dipartimento di Scienze Agrarie, Forestali e Alimentari (DISAFA), Plant Genetics, University of Turin, Largo P. Braccini 2, 10095 Grugliasco, TO, Italy
| | - Giuseppe Leonardo Rotino
- CREA Research Centre for Genomics and Bioinformatics, Via Paullese 28, 26836 Montanaso Lombardo, LO, Italy
| | - Giovanni Giuliano
- Agenzia Nazionale Per Le Nuove Tecnologie, L'energia e Lo Sviluppo Economico Sostenibile (ENEA), Casaccia Research Centre, Rome, Italy
| | - Santiago Vilanova
- Instituto de Conservación y Mejora de la Agrodiversidad Valenciana, Universitat Politècnica de València, Camino de Vera 14, 46022 Valencia, Spain
| | - Jaime Prohens
- Instituto de Conservación y Mejora de la Agrodiversidad Valenciana, Universitat Politècnica de València, Camino de Vera 14, 46022 Valencia, Spain
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3
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Gaccione L, Martina M, Barchi L, Portis E. A Compendium for Novel Marker-Based Breeding Strategies in Eggplant. PLANTS (BASEL, SWITZERLAND) 2023; 12:1016. [PMID: 36903876 PMCID: PMC10005326 DOI: 10.3390/plants12051016] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/17/2023] [Revised: 02/06/2023] [Accepted: 02/21/2023] [Indexed: 06/18/2023]
Abstract
The worldwide production of eggplant is estimated at about 58 Mt, with China, India and Egypt being the major producing countries. Breeding efforts in the species have mainly focused on increasing productivity, abiotic and biotic tolerance/resistance, shelf-life, the content of health-promoting metabolites in the fruit rather than decreasing the content of anti-nutritional compounds in the fruit. From the literature, we collected information on mapping quantitative trait loci (QTLs) affecting eggplant's traits following a biparental or multi-parent approach as well as genome-wide association (GWA) studies. The positions of QTLs were lifted according to the eggplant reference line (v4.1) and more than 700 QTLs were identified, here organized into 180 quantitative genomic regions (QGRs). Our findings thus provide a tool to: (i) determine the best donor genotypes for specific traits; (ii) narrow down QTL regions affecting a trait by combining information from different populations; (iii) pinpoint potential candidate genes.
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Zhang C, Xie W, Fu H, Chen Y, Chen H, Cai T, Yang Q, Zhuang Y, Zhong X, Chen K, Gao M, Liu F, Wan Y, Pandey MK, Varshney RK, Zhuang W. Whole genome resequencing identifies candidate genes and allelic diagnostic markers for resistance to Ralstonia solanacearum infection in cultivated peanut ( Arachis hypogaea L.). FRONTIERS IN PLANT SCIENCE 2023; 13:1048168. [PMID: 36684803 PMCID: PMC9845939 DOI: 10.3389/fpls.2022.1048168] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/19/2022] [Accepted: 11/22/2022] [Indexed: 06/17/2023]
Abstract
Bacterial wilt disease (BWD), caused by Ralstonia solanacearum is a major challenge for peanut production in China and significantly affects global peanut field productivity. It is imperative to identify genetic loci and putative genes controlling resistance to R. solanacearum (RRS). Therefore, a sequencing-based trait mapping approach termed "QTL-seq" was applied to a recombination inbred line population of 581 individuals from the cross of Yueyou 92 (resistant) and Xinhuixiaoli (susceptible). A total of 381,642 homozygous single nucleotide polymorphisms (SNPs) and 98,918 InDels were identified through whole genome resequencing of resistant and susceptible parents for RRS. Using QTL-seq analysis, a candidate genomic region comprising of 7.2 Mb (1.8-9.0 Mb) was identified on chromosome 12 which was found to be significantly associated with RRS based on combined Euclidean Distance (ED) and SNP-index methods. This candidate genomic region had 180 nonsynonymous SNPs and 14 InDels that affected 75 and 11 putative candidate genes, respectively. Finally, eight nucleotide binding site leucine rich repeat (NBS-LRR) putative resistant genes were identified as the important candidate genes with high confidence. Two diagnostic SNP markers were validated and revealed high phenotypic variation in the different resistant and susceptible RIL lines. These findings advocate the expediency of the QTL-seq approach for precise and rapid identification of candidate genomic regions, and the development of diagnostic markers that are applicable in breeding disease-resistant peanut varieties.
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Affiliation(s)
- Chong Zhang
- Key Laboratory of Ministry of Education for Genetics, Breeding and Multiple Utilization of Crops, College of Agriculture, Institute of Oil Crops Research, Research Center for Genetics and Systems Biology of Leguminous Oil Plants, Fujian Agriculture and Forestry University, Fuzhou, China
- State Key Laboratory of Ecological Pest Control for Fujian and Taiwan Crops, Fujian Agriculture and Forestry University, Fuzhou, China
- State Key Laboratory of Crop Biology, Shandong Key Laboratory of Crop Biology, College of Agronomy, Shandong Agricultural University, Tai’an, China
| | - Wenping Xie
- Key Laboratory of Ministry of Education for Genetics, Breeding and Multiple Utilization of Crops, College of Agriculture, Institute of Oil Crops Research, Research Center for Genetics and Systems Biology of Leguminous Oil Plants, Fujian Agriculture and Forestry University, Fuzhou, China
- State Key Laboratory of Ecological Pest Control for Fujian and Taiwan Crops, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Huiwen Fu
- Key Laboratory of Ministry of Education for Genetics, Breeding and Multiple Utilization of Crops, College of Agriculture, Institute of Oil Crops Research, Research Center for Genetics and Systems Biology of Leguminous Oil Plants, Fujian Agriculture and Forestry University, Fuzhou, China
- State Key Laboratory of Ecological Pest Control for Fujian and Taiwan Crops, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Yuting Chen
- Key Laboratory of Ministry of Education for Genetics, Breeding and Multiple Utilization of Crops, College of Agriculture, Institute of Oil Crops Research, Research Center for Genetics and Systems Biology of Leguminous Oil Plants, Fujian Agriculture and Forestry University, Fuzhou, China
- State Key Laboratory of Ecological Pest Control for Fujian and Taiwan Crops, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Hua Chen
- Key Laboratory of Ministry of Education for Genetics, Breeding and Multiple Utilization of Crops, College of Agriculture, Institute of Oil Crops Research, Research Center for Genetics and Systems Biology of Leguminous Oil Plants, Fujian Agriculture and Forestry University, Fuzhou, China
- State Key Laboratory of Ecological Pest Control for Fujian and Taiwan Crops, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Tiecheng Cai
- Key Laboratory of Ministry of Education for Genetics, Breeding and Multiple Utilization of Crops, College of Agriculture, Institute of Oil Crops Research, Research Center for Genetics and Systems Biology of Leguminous Oil Plants, Fujian Agriculture and Forestry University, Fuzhou, China
- State Key Laboratory of Ecological Pest Control for Fujian and Taiwan Crops, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Qiang Yang
- Key Laboratory of Ministry of Education for Genetics, Breeding and Multiple Utilization of Crops, College of Agriculture, Institute of Oil Crops Research, Research Center for Genetics and Systems Biology of Leguminous Oil Plants, Fujian Agriculture and Forestry University, Fuzhou, China
- State Key Laboratory of Ecological Pest Control for Fujian and Taiwan Crops, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Yuhui Zhuang
- Key Laboratory of Ministry of Education for Genetics, Breeding and Multiple Utilization of Crops, College of Agriculture, Institute of Oil Crops Research, Research Center for Genetics and Systems Biology of Leguminous Oil Plants, Fujian Agriculture and Forestry University, Fuzhou, China
- State Key Laboratory of Ecological Pest Control for Fujian and Taiwan Crops, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Xin Zhong
- Key Laboratory of Ministry of Education for Genetics, Breeding and Multiple Utilization of Crops, College of Agriculture, Institute of Oil Crops Research, Research Center for Genetics and Systems Biology of Leguminous Oil Plants, Fujian Agriculture and Forestry University, Fuzhou, China
- State Key Laboratory of Ecological Pest Control for Fujian and Taiwan Crops, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Kun Chen
- Key Laboratory of Ministry of Education for Genetics, Breeding and Multiple Utilization of Crops, College of Agriculture, Institute of Oil Crops Research, Research Center for Genetics and Systems Biology of Leguminous Oil Plants, Fujian Agriculture and Forestry University, Fuzhou, China
- State Key Laboratory of Ecological Pest Control for Fujian and Taiwan Crops, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Meijia Gao
- Key Laboratory of Ministry of Education for Genetics, Breeding and Multiple Utilization of Crops, College of Agriculture, Institute of Oil Crops Research, Research Center for Genetics and Systems Biology of Leguminous Oil Plants, Fujian Agriculture and Forestry University, Fuzhou, China
- State Key Laboratory of Ecological Pest Control for Fujian and Taiwan Crops, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Fengzhen Liu
- State Key Laboratory of Crop Biology, Shandong Key Laboratory of Crop Biology, College of Agronomy, Shandong Agricultural University, Tai’an, China
| | - Yongshan Wan
- State Key Laboratory of Crop Biology, Shandong Key Laboratory of Crop Biology, College of Agronomy, Shandong Agricultural University, Tai’an, China
| | - Manish K. Pandey
- Center of Excellence in Genomics and Systems Biology (CEGSB), International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Hyderabad, India
| | - Rajeev K. Varshney
- Key Laboratory of Ministry of Education for Genetics, Breeding and Multiple Utilization of Crops, College of Agriculture, Institute of Oil Crops Research, Research Center for Genetics and Systems Biology of Leguminous Oil Plants, Fujian Agriculture and Forestry University, Fuzhou, China
- Murdoch’s Centre for Crop and Food Innovation, State Agricultural Biotechnology Centre, Food Futures Institute, Murdoch University, Murdoch, WA, Australia
| | - Weijian Zhuang
- Key Laboratory of Ministry of Education for Genetics, Breeding and Multiple Utilization of Crops, College of Agriculture, Institute of Oil Crops Research, Research Center for Genetics and Systems Biology of Leguminous Oil Plants, Fujian Agriculture and Forestry University, Fuzhou, China
- State Key Laboratory of Ecological Pest Control for Fujian and Taiwan Crops, Fujian Agriculture and Forestry University, Fuzhou, China
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5
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Arrones A, Mangino G, Alonso D, Plazas M, Prohens J, Portis E, Barchi L, Giuliano G, Vilanova S, Gramazio P. Mutations in the SmAPRR2 transcription factor suppressing chlorophyll pigmentation in the eggplant fruit peel are key drivers of a diversified colour palette. FRONTIERS IN PLANT SCIENCE 2022; 13:1025951. [PMID: 36388476 PMCID: PMC9647125 DOI: 10.3389/fpls.2022.1025951] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/23/2022] [Accepted: 10/03/2022] [Indexed: 06/01/2023]
Abstract
Understanding the mechanisms by which chlorophylls are synthesized in the eggplant (Solanum melongena) fruit peel is of great relevance for eggplant breeding. A multi-parent advanced generation inter-cross (MAGIC) population and a germplasm collection have been screened for green pigmentation in the fruit peel and used to identify candidate genes for this trait. A genome-wide association study (GWAS) performed with 420 MAGIC individuals revealed a major association on chromosome 8 close to a gene similar to APRR2. Two variants in SmAPRR2, predicted as having a high impact effect, were associated with the absence of fruit chlorophyll pigmentation in the MAGIC population, and a large deletion of 5.27 kb was found in two reference genomes of accessions without chlorophyll in the fruit peel. The validation of the candidate gene SmAPRR2 was performed by its sequencing in a set of MAGIC individuals and through its de novo assembly in 277 accessions from the G2P-SOL eggplant core collection. Two additional mutations in SmAPRR2 associated with the lack of chlorophyll were identified in the core collection set. The phylogenetic analysis of APRR2 reveals orthology within Solanaceae and suggests that specialization of APRR2-like genes occurred independently in Cucurbitaceae and Solanaceae. A strong geographical differentiation was observed in the frequency of predominant mutations in SmAPRR2, resulting in a lack of fruit chlorophyll pigmentation and suggesting that this phenotype may have arisen and been selected independently several times. This study represents the first identification of a major gene for fruit chlorophyll pigmentation in the eggplant fruit.
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Affiliation(s)
- Andrea Arrones
- Instituto de Conservación y Mejora de la Agrodiversidad Valenciana, Universitat Politècnica de València, Valencia, Spain
| | - Giulio Mangino
- Instituto de Conservación y Mejora de la Agrodiversidad Valenciana, Universitat Politècnica de València, Valencia, Spain
| | - David Alonso
- Instituto de Conservación y Mejora de la Agrodiversidad Valenciana, Universitat Politècnica de València, Valencia, Spain
| | - Mariola Plazas
- Instituto de Conservación y Mejora de la Agrodiversidad Valenciana, Universitat Politècnica de València, Valencia, Spain
| | - Jaime Prohens
- Instituto de Conservación y Mejora de la Agrodiversidad Valenciana, Universitat Politècnica de València, Valencia, Spain
| | - Ezio Portis
- Dipartimento di Scienze Agrarie, Forestali e Alimentari (DISAFA), Plant Genetics and Breeding, University of Turin, Grugliasco, Italy
| | - Lorenzo Barchi
- Dipartimento di Scienze Agrarie, Forestali e Alimentari (DISAFA), Plant Genetics and Breeding, University of Turin, Grugliasco, Italy
| | - Giovanni Giuliano
- Agenzia Nazionale Per Le Nuove Tecnologie, L’energia e Lo Sviluppo Economico Sostenibile (ENEA), Casaccia Research Centre, Rome, Italy
| | - Santiago Vilanova
- Instituto de Conservación y Mejora de la Agrodiversidad Valenciana, Universitat Politècnica de València, Valencia, Spain
| | - Pietro Gramazio
- Instituto de Biología Molecular y Celular de Plantas, Consejo Superior de Investigaciones Científicas-Universitat Politècnica de València, Valencia, Spain
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6
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Habe I, Miyatake K. Identification and characterization of resistance quantitative trait loci against bacterial wilt caused by the Ralstonia solanacearum species complex in potato. MOLECULAR BREEDING : NEW STRATEGIES IN PLANT IMPROVEMENT 2022; 42:50. [PMID: 37313419 PMCID: PMC10248640 DOI: 10.1007/s11032-022-01321-9] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/27/2022] [Accepted: 08/11/2022] [Indexed: 06/15/2023]
Abstract
Bacterial wilt (BW) caused by the Ralstonia solanacearum species complex (RSSC) represents one of the most serious diseases affecting potato cultivation. The development of BW-resistant cultivars represents the most efficient strategy to control this disease. The resistance-related quantitative trait loci (QTLs) in plants against different RSSC strains have not been studied extensively. Therefore, we performed QTL analysis for evaluating BW resistance using a diploid population derived from Solanum phureja, S. chacoense, and S. tuberosum. Plants cultivated in vitro were inoculated with different strains (phylotype I/biovar 3, phylotype I/biovar 4, and phylotype IV/biovar 2A) and incubated at 24 °C or 28 °C under controlled conditions. Composite interval mapping was performed for the disease indexes using a resistant parent-derived map and a susceptible parent-derived map consisting of single-nucleotide polymorphism markers. We identified five major and five minor resistance QTLs on potato chromosomes 1, 3, 5, 6, 7, 10, and 11. The major QTLs PBWR-3 and PBWR-7 conferred stable resistance against Ralstonia pseudosolanacearum (phylotype I) and Ralstonia syzygii (phylotype IV), whereas PBWR-6b was a strain-specific major resistance QTL against phylotype I/biovar 3 and was more effective at a lower temperature. Therefore, we suggest that broad-spectrum QTLs and strain-specific QTLs can be combined to develop the most effective BW-resistant cultivars for specific areas. Supplementary Information The online version contains supplementary material available at 10.1007/s11032-022-01321-9.
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Affiliation(s)
- Ippei Habe
- Nagasaki Agriculture and Forestry Technical Development Center, 3118 Kaizu, Isahaya, Nagasaki, 854-0063 Japan
| | - Koji Miyatake
- Institute of Vegetable and Floriculture Science, NARO, Kusawa 360, Mie, Tsu, 514-2392 Japan
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7
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Qi F, Sun Z, Liu H, Zheng Z, Qin L, Shi L, Chen Q, Liu H, Lin X, Miao L, Tian M, Wang X, Huang B, Dong W, Zhang X. QTL identification, fine mapping, and marker development for breeding peanut (Arachis hypogaea L.) resistant to bacterial wilt. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2022; 135:1319-1330. [PMID: 35059781 PMCID: PMC9033696 DOI: 10.1007/s00122-022-04033-y] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/31/2021] [Accepted: 12/31/2021] [Indexed: 05/26/2023]
Abstract
A major QTL, qBWA12, was fine mapped to a 216.68 kb physical region, and A12.4097252 was identified as a useful KASP marker for breeding peanut varieties resistant to bacterial wilt. Bacterial wilt, caused by Ralstonia solanacearum, is a major disease detrimental to peanut production in China. Breeding disease-resistant peanut varieties is the most economical and effective way to prevent the disease and yield loss. Fine mapping the QTLs for bacterial wilt resistance is critical for the marker-assisted breeding of disease-resistant varieties. A recombinant inbred population comprising 521 lines was used to construct a high-density genetic linkage map and to identify QTLs for bacterial wilt resistance following restriction-site-associated DNA sequencing. The genetic map, which included 5120 SNP markers, covered a length of 3179 cM with an average marker distance of 0.6 cM. Four QTLs for bacterial wilt resistance were mapped on four chromosomes. One major QTL, qBWA12, with LOD score of 32.8-66.0 and PVE of 31.2-44.8%, was stably detected in all four development stages investigated over the 3 trial years. Additionally, qBWA12 spanned a 2.7 cM region, corresponding to approximately 0.4 Mb and was fine mapped to a 216.7 kb region by applying KASP markers that were polymorphic between the two parents based on whole-genome resequencing data. In a large collection of breeding and germplasm lines, it was proved that KASP marker A12.4097252 can be applied for the marker-assisted breeding to develop peanut varieties resistant to bacterial wilt. Of the 19 candidate genes in the region covered by qBWA12, nine NBS-LRR genes should be further investigated regarding their potential contribution to the resistance of peanut against bacterial wilt.
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Affiliation(s)
- Feiyan Qi
- Henan Academy of Crop Molecular Breeding, Henan Academy of Agricultural Science/Key Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crop Improvement, Zhengzhou, 450002, Henan, China
| | - Ziqi Sun
- Henan Academy of Crop Molecular Breeding, Henan Academy of Agricultural Science/Key Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crop Improvement, Zhengzhou, 450002, Henan, China
| | - Hua Liu
- Henan Academy of Crop Molecular Breeding, Henan Academy of Agricultural Science/Key Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crop Improvement, Zhengzhou, 450002, Henan, China
| | - Zheng Zheng
- Henan Academy of Crop Molecular Breeding, Henan Academy of Agricultural Science/Key Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crop Improvement, Zhengzhou, 450002, Henan, China
| | - Li Qin
- Henan Academy of Crop Molecular Breeding, Henan Academy of Agricultural Science/Key Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crop Improvement, Zhengzhou, 450002, Henan, China
| | - Lei Shi
- Henan Academy of Crop Molecular Breeding, Henan Academy of Agricultural Science/Key Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crop Improvement, Zhengzhou, 450002, Henan, China
| | - Qingzheng Chen
- Hezhou Academy of Agricultural Science, Hezhou, 542899, Guangxi, China
| | - Haidong Liu
- Hezhou Academy of Agricultural Science, Hezhou, 542899, Guangxi, China
| | - Xiufang Lin
- Hezhou Academy of Agricultural Science, Hezhou, 542899, Guangxi, China
| | - Lijuan Miao
- Henan Academy of Crop Molecular Breeding, Henan Academy of Agricultural Science/Key Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crop Improvement, Zhengzhou, 450002, Henan, China
| | - Mengdi Tian
- Henan Academy of Crop Molecular Breeding, Henan Academy of Agricultural Science/Key Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crop Improvement, Zhengzhou, 450002, Henan, China
| | - Xiao Wang
- Henan Academy of Crop Molecular Breeding, Henan Academy of Agricultural Science/Key Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crop Improvement, Zhengzhou, 450002, Henan, China
| | - Bingyan Huang
- Henan Academy of Crop Molecular Breeding, Henan Academy of Agricultural Science/Key Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crop Improvement, Zhengzhou, 450002, Henan, China
| | - Wenzhao Dong
- Henan Academy of Crop Molecular Breeding, Henan Academy of Agricultural Science/Key Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crop Improvement, Zhengzhou, 450002, Henan, China
| | - Xinyou Zhang
- Henan Academy of Crop Molecular Breeding, Henan Academy of Agricultural Science/Key Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crop Improvement, Zhengzhou, 450002, Henan, China.
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8
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Mangino G, Arrones A, Plazas M, Pook T, Prohens J, Gramazio P, Vilanova S. Newly Developed MAGIC Population Allows Identification of Strong Associations and Candidate Genes for Anthocyanin Pigmentation in Eggplant. FRONTIERS IN PLANT SCIENCE 2022; 13:847789. [PMID: 35330873 PMCID: PMC8940277 DOI: 10.3389/fpls.2022.847789] [Citation(s) in RCA: 14] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/03/2022] [Accepted: 01/20/2022] [Indexed: 05/17/2023]
Abstract
Multi-parent advanced generation inter-cross (MAGIC) populations facilitate the genetic dissection of complex quantitative traits in plants and are valuable breeding materials. We report the development of the first eggplant MAGIC population (S3 Magic EGGplant InCanum, S3MEGGIC; 8-way), constituted by the 420 S3 individuals developed from the intercrossing of seven cultivated eggplant (Solanum melongena) and one wild relative (S. incanum) parents. The S3MEGGIC recombinant population was genotyped with the eggplant 5k probes SPET platform and phenotyped for anthocyanin presence in vegetative plant tissues (PA) and fruit epidermis (FA), and for the light-insensitive anthocyanic pigmentation under the calyx (PUC). The 7,724 filtered high-confidence single-nucleotide polymorphisms (SNPs) confirmed a low residual heterozygosity (6.87%), a lack of genetic structure in the S3MEGGIC population, and no differentiation among subpopulations carrying a cultivated or wild cytoplasm. Inference of haplotype blocks of the nuclear genome revealed an unbalanced representation of the founder genomes, suggesting a cryptic selection in favour or against specific parental genomes. Genome-wide association study (GWAS) analysis for PA, FA, and PUC detected strong associations with two myeloblastosis (MYB) genes similar to MYB113 involved in the anthocyanin biosynthesis pathway, and with a COP1 gene which encodes for a photo-regulatory protein and may be responsible for the PUC trait. Evidence was found of a duplication of an ancestral MYB113 gene with a translocation from chromosome 10 to chromosome 1 compared with the tomato genome. Parental genotypes for the three genes were in agreement with the identification of the candidate genes performed in the S3MEGGIC population. Our new eggplant MAGIC population is the largest recombinant population in eggplant and is a powerful tool for eggplant genetics and breeding studies.
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Affiliation(s)
- Giulio Mangino
- Instituto de Conservación y Mejora de la Agrodiversidad Valenciana, Universitat Politècnica de València, Valencia, Spain
| | - Andrea Arrones
- Instituto de Conservación y Mejora de la Agrodiversidad Valenciana, Universitat Politècnica de València, Valencia, Spain
| | - Mariola Plazas
- Instituto de Biología Molecular y Celular de Plantas, Consejo Superior de Investigaciones Científicas-Universitat Politècnica de València, Valencia, Spain
| | - Torsten Pook
- Animal Breeding and Genetics Group, Department of Animal Sciences, Center for Integrated Breeding Research, University of Göttingen, Göttingin, Germany
| | - Jaime Prohens
- Instituto de Conservación y Mejora de la Agrodiversidad Valenciana, Universitat Politècnica de València, Valencia, Spain
| | - Pietro Gramazio
- Instituto de Biología Molecular y Celular de Plantas, Consejo Superior de Investigaciones Científicas-Universitat Politècnica de València, Valencia, Spain
| | - Santiago Vilanova
- Instituto de Conservación y Mejora de la Agrodiversidad Valenciana, Universitat Politècnica de València, Valencia, Spain
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9
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Salinier J, Lefebvre V, Besombes D, Burck H, Causse M, Daunay MC, Dogimont C, Goussopoulos J, Gros C, Maisonneuve B, McLeod L, Tobal F, Stevens R. The INRAE Centre for Vegetable Germplasm: Geographically and Phenotypically Diverse Collections and Their Use in Genetics and Plant Breeding. PLANTS (BASEL, SWITZERLAND) 2022; 11:plants11030347. [PMID: 35161327 PMCID: PMC8838894 DOI: 10.3390/plants11030347] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/06/2021] [Revised: 01/20/2022] [Accepted: 01/21/2022] [Indexed: 05/14/2023]
Abstract
The French National Research Institute for Agriculture, Food and the Environment (INRAE) conserves and distributes five vegetable collections as seeds: the aubergine* (in this article the word aubergine refers to eggplant), pepper, tomato, melon and lettuce collections, together with their wild or cultivated relatives, are conserved in Avignon, France. Accessions from the collections have geographically diverse origins, are generally well-described and fixed for traits of agronomic or scientific interest and have available passport data. In addition to currently conserving over 10,000 accessions (between 900 and 3000 accessions per crop), the centre maintains scientific collections such as core collections and bi- or multi-parental populations, which have also been genotyped with SNP markers. Each collection has its own merits and highlights, which are discussed in this review: the aubergine collection is a rich source of crop wild relatives of Solanum; the pepper, melon and lettuce collections have been screened for resistance to plant pathogens, including viruses, fungi, oomycetes and insects; and the tomato collection has been at the heart of genome-wide association studies for fruit quality traits and environmental stress tolerance.
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10
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Wei Y, Zhang Y, Meng J, Wang Y, Zhong C, Ma H. Transcriptome and metabolome profiling in naturally infested Casuarina equisetifolia clones by Ralstonia solanacearum. Genomics 2021; 113:1906-1918. [PMID: 33771635 DOI: 10.1016/j.ygeno.2021.03.022] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/20/2020] [Revised: 03/06/2021] [Accepted: 03/21/2021] [Indexed: 12/01/2022]
Abstract
Casuarina equisetifolia is an important pioneer tree and suffers from bacterial wilt caused by Ralstonia solanacearum. We collected resistant (R) and susceptible (S) C. equisetifolia clones naturally infected by R. solanacearum and compared their transcriptome and metabolome with a clone (CK) from a non-infested forest, in order to study their response and resistance to bacterial wilt. We identified 18 flavonoids differentially accumulated among the three clonal groups as potential selection biomarkers against R. solanacearum. Flavonoid synthesis-related genes were up-regulated in the resistant clones, probably enhancing accumulation of flavonoids and boosting resistance against bacterial wilt. The down-regulation of auxin/indoleacetic acid-related genes and up-regulation of brassinosteroid, salicylic acid and jasmonic acid-related differentially expressed genes in the R vs CK and R vs S clonal groups may have triggered defense signals and increased expression of defense-related genes against R. solanacearum. Overall, this study provides an important insight into pathogen-response and resistance to bacterial wilt in C. equisetifolia.
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Affiliation(s)
- Yongcheng Wei
- Research Institute of Tropical Forestry, Chinese Academy of Forestry, Longdong, Guangzhou 510520, China.
| | - Yong Zhang
- Research Institute of Tropical Forestry, Chinese Academy of Forestry, Longdong, Guangzhou 510520, China.
| | - Jingxiang Meng
- Research Institute of Tropical Forestry, Chinese Academy of Forestry, Longdong, Guangzhou 510520, China.
| | - Yujiao Wang
- Research Institute of Tropical Forestry, Chinese Academy of Forestry, Longdong, Guangzhou 510520, China.
| | - Chonglu Zhong
- Research Institute of Tropical Forestry, Chinese Academy of Forestry, Longdong, Guangzhou 510520, China.
| | - Haibin Ma
- Research Institute of Tropical Forestry, Chinese Academy of Forestry, Longdong, Guangzhou 510520, China.
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11
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Leaf-to-Whole Plant Spread Bioassay for Pepper and Ralstonia solanacearum Interaction Determines Inheritance of Resistance to Bacterial Wilt for Further Breeding. Int J Mol Sci 2021; 22:ijms22052279. [PMID: 33668965 PMCID: PMC7956186 DOI: 10.3390/ijms22052279] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/25/2021] [Revised: 02/18/2021] [Accepted: 02/23/2021] [Indexed: 01/27/2023] Open
Abstract
Bacterial wilt (BW) disease from Ralstonia solanacearum is a serious disease and causes severe yield losses in chili peppers worldwide. Resistant cultivar breeding is the most effective in controlling BW. Thus, a simple and reliable evaluation method is required to assess disease severity and to investigate the inheritance of resistance for further breeding programs. Here, we developed a reliable leaf-to-whole plant spread bioassay for evaluating BW disease and then, using this, determined the inheritance of resistance to R. solanacearum in peppers. Capsicum annuum ‘MC4′ displayed a completely resistant response with fewer disease symptoms, a low level of bacterial cell growth, and significant up-regulations of defense genes in infected leaves compared to those in susceptible ‘Subicho’. We also observed the spreading of wilt symptoms from the leaves to the whole susceptible plant, which denotes the normal BW wilt symptoms, similar to the drenching method. Through this, we optimized the evaluation method of the resistance to BW. Additionally, we performed genetic analysis for resistance inheritance. The parents, F1 and 90 F2 progenies, were evaluated, and the two major complementary genes involved in the BW resistance trait were confirmed. These could provide an accurate evaluation to improve resistant pepper breeding efficiency against BW.
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12
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Qian Z, Zhang B, Chen H, Lu L, Duan M, Zhou J, Cui Y, Li D. Identification of Quantitative Trait Loci Controlling the Development of Prickles in Eggplant by Genome Re-sequencing Analysis. FRONTIERS IN PLANT SCIENCE 2021; 12:731079. [PMID: 34567042 PMCID: PMC8457335 DOI: 10.3389/fpls.2021.731079] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/26/2021] [Accepted: 08/06/2021] [Indexed: 05/17/2023]
Abstract
Eggplant (Solanum melongena L.) is the third most important crop in the family of Solanaceae. Prickles are considered as the undesirable traits during the plantation of eggplant and the transportation of fruits. In this study, we constructed a high-quality genetic linkage Bin map derived from the re-sequencing analysis on a cross of a prickly wild landrace, 17C01, and a cultivated variety, 17C02. The major quantitative trait locus (QTL) controlling the development of prickles on the calyx (explained 30.42% of the phenotypic variation), named as qPC.12, was identified on a ~7 kb region on chromosome 12. A gene within qPC.12, which encodes a WUSCHEL-related homeobox-like protein, with higher expression levels in 17C01 calyx and 22-bp deletion in 17C02 was probably the functional gene for prickle formation. Results from this study would ultimately facilitate uncovering the molecular regulatory mechanisms underlying the development of a prickle in eggplant.
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Affiliation(s)
- Zongwei Qian
- National Engineering Research Center for Vegetables, Beijing Vegetable Research Center, Beijing Academy of Agriculture and Forestry Science, Beijing, China
- Beijing Key Laboratory of Vegetable Germplasm Improvement, Beijing, China
- Key Laboratory of Biology and Genetic Improvement of Horticultural Crops (North China), Ministry of Agriculture and Rural Affairs of the P. R. China, Beijing, China
| | - Bin Zhang
- National Engineering Research Center for Vegetables, Beijing Vegetable Research Center, Beijing Academy of Agriculture and Forestry Science, Beijing, China
- Beijing Key Laboratory of Vegetable Germplasm Improvement, Beijing, China
- Key Laboratory of Biology and Genetic Improvement of Horticultural Crops (North China), Ministry of Agriculture and Rural Affairs of the P. R. China, Beijing, China
| | - Haili Chen
- National Engineering Research Center for Vegetables, Beijing Vegetable Research Center, Beijing Academy of Agriculture and Forestry Science, Beijing, China
- Beijing Key Laboratory of Vegetable Germplasm Improvement, Beijing, China
- Key Laboratory of Biology and Genetic Improvement of Horticultural Crops (North China), Ministry of Agriculture and Rural Affairs of the P. R. China, Beijing, China
| | - Lei Lu
- College of Life Science and Technology, Jining Normal University, Ulanqab, China
| | - Mengqi Duan
- Turf Research Institute, Beijing Forestry University, Beijing, China
| | - Jun Zhou
- College of Life Sciences, Shandong Normal University, Jinan, China
| | - Yanling Cui
- National Engineering Research Center for Vegetables, Beijing Vegetable Research Center, Beijing Academy of Agriculture and Forestry Science, Beijing, China
- Beijing Key Laboratory of Vegetable Germplasm Improvement, Beijing, China
- Key Laboratory of Biology and Genetic Improvement of Horticultural Crops (North China), Ministry of Agriculture and Rural Affairs of the P. R. China, Beijing, China
- *Correspondence: Yanling Cui
| | - Dayong Li
- National Engineering Research Center for Vegetables, Beijing Vegetable Research Center, Beijing Academy of Agriculture and Forestry Science, Beijing, China
- Beijing Key Laboratory of Vegetable Germplasm Improvement, Beijing, China
- Key Laboratory of Biology and Genetic Improvement of Horticultural Crops (North China), Ministry of Agriculture and Rural Affairs of the P. R. China, Beijing, China
- College of Life Sciences, Shandong Normal University, Jinan, China
- Dayong Li
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13
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Wei Q, Wang W, Hu T, Hu H, Wang J, Bao C. Construction of a SNP-Based Genetic Map Using SLAF-Seq and QTL Analysis of Morphological Traits in Eggplant. Front Genet 2020; 11:178. [PMID: 32218801 PMCID: PMC7078336 DOI: 10.3389/fgene.2020.00178] [Citation(s) in RCA: 25] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/22/2019] [Accepted: 02/13/2020] [Indexed: 01/09/2023] Open
Abstract
Eggplant (Solanum melongena; 2n = 24) is an economically important fruit crop of the family Solanaceae that was domesticated in India and Southeast Asia. Construction of a high-resolution genetic map and map-based gene mining in eggplant have lagged behind other crops within the family such as tomato and potato. In this study, we conducted high-throughput single nucleotide polymorphism (SNP) discovery in the eggplant genome using specific length amplified fragment (SLAF) sequencing and constructed a high-density genetic map for the quantitative trait locus (QTL) analysis of multiple traits. An interspecific F2 population of 121 individuals was developed from the cross between cultivated eggplant "1836" and the wild relative S. linnaeanum "1809." Genomic DNA extracted from parental lines and the F2 population was subjected to high-throughput SLAF sequencing. A total of 111.74 Gb of data and 487.53 million pair-end reads were generated. A high-resolution genetic map containing 2,122 SNP markers and 12 linkage groups was developed for eggplant, which spanned 1530.75 cM, with an average distance of 0.72 cM between adjacent markers. A total of 19 QTLs were detected for stem height and fruit and leaf morphology traits of eggplant, explaining 4.08-55.23% of the phenotypic variance. These QTLs were distributed on nine linkage groups (LGs), but not on LG2, 4, and 9. The number of SNPs ranged from 2 to 11 within each QTL, and the genetic interval varied from 0.15 to 10.53 cM. Overall, the results establish a foundation for the fine mapping of complex QTLs, candidate gene identification, and marker-assisted selection of favorable alleles in eggplant breeding.
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Affiliation(s)
| | | | | | | | | | - Chonglai Bao
- Institute of Vegetables, Zhejiang Academy of Agricultural Sciences, Hangzhou, China
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14
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Wang H, Hu J, Lu Y, Zhang M, Qin N, Zhang R, He Y, Wang D, Chen Y, Zhao C, Coll NS, Valls M, Chen Q, Lu H. A quick and efficient hydroponic potato infection method for evaluating potato resistance and Ralstonia solanacearum virulence. PLANT METHODS 2019; 15:145. [PMID: 31798671 PMCID: PMC6884837 DOI: 10.1186/s13007-019-0530-9] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/01/2019] [Accepted: 11/18/2019] [Indexed: 05/28/2023]
Abstract
BACKGROUND Potato, the third most important crop worldwide, plays a critical role in human food security. Brown rot, one of the most destructive potato diseases caused by Ralstonia solanacearum, results in huge economic losses every year. A quick, stable, low cost and high throughout method is required to meet the demands of identification of germplasm resistance to bacterial wilt in potato breeding programs. RESULTS Here we present a novel R. solanacearum hydroponic infection assay on potato plants grown in vitro. Through testing wilt symptom appearance and bacterial colonization in aerial part of plants, we found that the optimum conditions for in vitro potato infection were using an OD600 0.01 bacterial solution suspended with tap water for infection, broken potato roots and an open container. Infection using R. solanacearum strains with differential degree of aggressivity demonstrated that this infection system is equally efficient as soil-drench inoculation for assessment of R. solanacearum virulence on potato. A small-scale assessment of 32 potato germplasms identified three varieties highly resistant to the pathogen, which indicates this infection system is a useful method for high-throughout screening of potato germplasm for resistance. Furthermore, we demonstrate the utility of a strain carrying luminescence to easily quantify bacterial colonization and the detection of latent infections in hydroponic conditions, which can be efficiently used in potato breeding programs. CONCLUSIONS We have established a quick and efficient in vitro potato infection system, which may facilitate breeding for new potato cultivars with high resistance to R. solanacearum.
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Affiliation(s)
- Huijuan Wang
- College of Agronomy and State Key Laboratory of Crop Stress Biology for Arid Areas, Northwest A&F University, Yangling, 712100 Shaanxi China
| | - Jinxue Hu
- College of Agronomy and State Key Laboratory of Crop Stress Biology for Arid Areas, Northwest A&F University, Yangling, 712100 Shaanxi China
| | - Yao Lu
- College of Agronomy and State Key Laboratory of Crop Stress Biology for Arid Areas, Northwest A&F University, Yangling, 712100 Shaanxi China
| | - Mancang Zhang
- College of Agronomy and State Key Laboratory of Crop Stress Biology for Arid Areas, Northwest A&F University, Yangling, 712100 Shaanxi China
| | - Ning Qin
- College of Agronomy and State Key Laboratory of Crop Stress Biology for Arid Areas, Northwest A&F University, Yangling, 712100 Shaanxi China
| | - Ruize Zhang
- College of Agronomy and State Key Laboratory of Crop Stress Biology for Arid Areas, Northwest A&F University, Yangling, 712100 Shaanxi China
| | - Yizhe He
- College of Agronomy and State Key Laboratory of Crop Stress Biology for Arid Areas, Northwest A&F University, Yangling, 712100 Shaanxi China
| | - Dongdong Wang
- College of Agronomy and State Key Laboratory of Crop Stress Biology for Arid Areas, Northwest A&F University, Yangling, 712100 Shaanxi China
| | - Yue Chen
- College of Agronomy and State Key Laboratory of Crop Stress Biology for Arid Areas, Northwest A&F University, Yangling, 712100 Shaanxi China
| | - Cuizhu Zhao
- College of Agronomy and State Key Laboratory of Crop Stress Biology for Arid Areas, Northwest A&F University, Yangling, 712100 Shaanxi China
| | - Núria S. Coll
- Centre for Research in Agricultural Genomics (CRAG), CSIC-IRTA-UAB-UB, Campus UAB, Bellaterra, 08193 Barcelona, Catalonia Spain
| | - Marc Valls
- Centre for Research in Agricultural Genomics (CRAG), CSIC-IRTA-UAB-UB, Campus UAB, Bellaterra, 08193 Barcelona, Catalonia Spain
- Department of Genetics, University of Barcelona, 08028 Barcelona, Catalonia Spain
| | - Qin Chen
- State Key Laboratory of Crop Stress Biology for Arid Areas, College of Food Science and Engineering, Northwest A & F University, Yangling, 712100 Shaanxi China
| | - Haibin Lu
- College of Agronomy and State Key Laboratory of Crop Stress Biology for Arid Areas, Northwest A&F University, Yangling, 712100 Shaanxi China
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15
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Qiu Z, Yan S, Xia B, Jiang J, Yu B, Lei J, Chen C, Chen L, Yang Y, Wang Y, Tian S, Cao B. The eggplant transcription factor MYB44 enhances resistance to bacterial wilt by activating the expression of spermidine synthase. JOURNAL OF EXPERIMENTAL BOTANY 2019; 70:5343-5354. [PMID: 31587071 DOI: 10.1093/jxb/erz259] [Citation(s) in RCA: 27] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/27/2019] [Indexed: 05/22/2023]
Abstract
Bacterial wilt (BW) caused by Ralstonia solanacearum is a serious disease affecting the production of Solanaceae species, including eggplant (Solanum melongena). However, few resistance genes have been identified in eggplant, and therefore the underlying mechanism of BW resistance remains unclear. Hence, we investigated a spermidine synthase (SPDS) gene from eggplant and created knock-down lines with virus-induced gene silencing. After eggplant was infected with R. solanacearum, the SmSPDS gene was induced, concurrent with increased spermidine (Spd) content, especially in the resistant line. We speculated that Spd plays a significant role in the defense response of eggplant to BW. Moreover, using the yeast one-hybrid approach and dual luciferase-based transactivation assay, an R2R3-MYB transcription factor, SmMYB44, was identified as directly binding to the SmSPDS promoter, activating its expression. Overexpression of SmMYB44 in eggplant induced the expression of SmSPDS and Spd content, increasing the resistance to BW. In contrast, the SmMYB44-RNAi transgenic plants showed more susceptibility to BW compared with the control plants. Our results provide insight into the SmMYB44-SmSPDS-Spd module involved in the regulation of resistance to R. solanacearum. This research also provides candidates to enhance resistance to BW in eggplant.
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Affiliation(s)
- Zhengkun Qiu
- Key Laboratory of Biology, Innovation and Utilization for Germplasm Resources in Horticultural Crops in Southern China, College of Horticulture, South China Agricultural University, Guangzhou, China
- Guangdong Vegetable Engineering and Technology Research Center, South China Agricultural University, Guangzhou, China
| | - Shuangshuang Yan
- Key Laboratory of Biology, Innovation and Utilization for Germplasm Resources in Horticultural Crops in Southern China, College of Horticulture, South China Agricultural University, Guangzhou, China
- Guangdong Vegetable Engineering and Technology Research Center, South China Agricultural University, Guangzhou, China
| | - Bin Xia
- Office of Key Laboratory Construction of South China Agricultural University, Guangzhou, China
| | - Jing Jiang
- Key Laboratory of Biology, Innovation and Utilization for Germplasm Resources in Horticultural Crops in Southern China, College of Horticulture, South China Agricultural University, Guangzhou, China
| | - Bingwei Yu
- Key Laboratory of Biology, Innovation and Utilization for Germplasm Resources in Horticultural Crops in Southern China, College of Horticulture, South China Agricultural University, Guangzhou, China
- Guangdong Vegetable Engineering and Technology Research Center, South China Agricultural University, Guangzhou, China
| | - Jianjun Lei
- Key Laboratory of Biology, Innovation and Utilization for Germplasm Resources in Horticultural Crops in Southern China, College of Horticulture, South China Agricultural University, Guangzhou, China
- Guangdong Vegetable Engineering and Technology Research Center, South China Agricultural University, Guangzhou, China
| | - Changming Chen
- Key Laboratory of Biology, Innovation and Utilization for Germplasm Resources in Horticultural Crops in Southern China, College of Horticulture, South China Agricultural University, Guangzhou, China
- Guangdong Vegetable Engineering and Technology Research Center, South China Agricultural University, Guangzhou, China
| | - Lin Chen
- Key Laboratory of Biology, Innovation and Utilization for Germplasm Resources in Horticultural Crops in Southern China, College of Horticulture, South China Agricultural University, Guangzhou, China
- Guangdong Vegetable Engineering and Technology Research Center, South China Agricultural University, Guangzhou, China
| | - Yang Yang
- The Institute of Vegetable and Flower Research, Chongqing Academy of Agricultural Sciences, Chongqing, China
| | - Yongqing Wang
- The Institute of Vegetable and Flower Research, Chongqing Academy of Agricultural Sciences, Chongqing, China
| | - Shibing Tian
- The Institute of Vegetable and Flower Research, Chongqing Academy of Agricultural Sciences, Chongqing, China
| | - Bihao Cao
- Key Laboratory of Biology, Innovation and Utilization for Germplasm Resources in Horticultural Crops in Southern China, College of Horticulture, South China Agricultural University, Guangzhou, China
- Guangdong Vegetable Engineering and Technology Research Center, South China Agricultural University, Guangzhou, China
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16
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Morel A, Guinard J, Lonjon F, Sujeeun L, Barberis P, Genin S, Vailleau F, Daunay M, Dintinger J, Poussier S, Peeters N, Wicker E. The eggplant AG91-25 recognizes the Type III-secreted effector RipAX2 to trigger resistance to bacterial wilt (Ralstonia solanacearum species complex). MOLECULAR PLANT PATHOLOGY 2018; 19:2459-2472. [PMID: 30073750 PMCID: PMC6638172 DOI: 10.1111/mpp.12724] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/22/2017] [Revised: 06/26/2018] [Accepted: 06/27/2018] [Indexed: 05/04/2023]
Abstract
To deploy durable plant resistance, we must understand its underlying molecular mechanisms. Type III effectors (T3Es) and their recognition play a central role in the interaction between bacterial pathogens and crops. We demonstrate that the Ralstonia solanacearum species complex (RSSC) T3E ripAX2 triggers specific resistance in eggplant AG91-25, which carries the major resistance locus EBWR9. The eggplant accession AG91-25 is resistant to the wild-type R. pseudosolanacearum strain GMI1000, whereas a ripAX2 defective mutant of this strain can cause wilt. Notably, the addition of ripAX2 from GMI1000 to PSS4 suppresses wilt development, demonstrating that RipAX2 is an elicitor of AG91-25 resistance. RipAX2 has been shown previously to induce effector-triggered immunity (ETI) in the wild relative eggplant Solanum torvum, and its putative zinc (Zn)-binding motif (HELIH) is critical for ETI. We show that, in our model, the HELIH motif is not necessary for ETI on AG91-25 eggplant. The ripAX2 gene was present in 68.1% of 91 screened RSSC strains, but in only 31.1% of a 74-genome collection comprising R. solanacearum and R. syzygii strains. Overall, it is preferentially associated with R. pseudosolanacearum phylotype I. RipAX2GMI1000 appears to be the dominant allele, prevalent in both R. pseudosolanacearum and R. solanacearum, suggesting that the deployment of AG91-25 resistance could control efficiently bacterial wilt in the Asian, African and American tropics. This study advances the understanding of the interaction between RipAX2 and the resistance genes at the EBWR9 locus, and paves the way for both functional genetics and evolutionary analyses.
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Affiliation(s)
- Arry Morel
- LIPMUniversité de Toulouse, INRA, CNRS,F‐31326Castanet‐TolosanFrance
| | - Jérémy Guinard
- Université de La RéunionUMR PVBMTF‐97410Saint‐Pierre, La RéunionFrance
- CIRADUMR PVBMTF‐97410Saint‐Pierre, La RéunionFrance
| | - Fabien Lonjon
- LIPMUniversité de Toulouse, INRA, CNRS,F‐31326Castanet‐TolosanFrance
| | | | - Patrick Barberis
- LIPMUniversité de Toulouse, INRA, CNRS,F‐31326Castanet‐TolosanFrance
| | - Stéphane Genin
- LIPMUniversité de Toulouse, INRA, CNRS,F‐31326Castanet‐TolosanFrance
| | - Fabienne Vailleau
- LIPMUniversité de Toulouse, INRA, CNRS,F‐31326Castanet‐TolosanFrance
| | | | | | - Stéphane Poussier
- LIPMUniversité de Toulouse, INRA, CNRS,F‐31326Castanet‐TolosanFrance
| | - Nemo Peeters
- LIPMUniversité de Toulouse, INRA, CNRS,F‐31326Castanet‐TolosanFrance
| | - Emmanuel Wicker
- CIRADUMR PVBMTF‐97410Saint‐Pierre, La RéunionFrance
- IPME, Université de Montpellier, CIRADIRDF‐34394MontpellierFrance
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17
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Salgon S, Raynal M, Lebon S, Baptiste JM, Daunay MC, Dintinger J, Jourda C. Genotyping by Sequencing Highlights a Polygenic Resistance to Ralstonia pseudosolanacearum in Eggplant (Solanum melongena L.). Int J Mol Sci 2018; 19:E357. [PMID: 29370090 PMCID: PMC5855579 DOI: 10.3390/ijms19020357] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/25/2017] [Revised: 01/19/2018] [Accepted: 01/22/2018] [Indexed: 12/02/2022] Open
Abstract
Eggplant cultivation is limited by numerous diseases, including the devastating bacterial wilt (BW) caused by the Ralstonia solanacearum species complex (RSSC). Within the RSSC, Ralstonia pseudosolanacearum (including phylotypes I and III) causes severe damage to all solanaceous crops, including eggplant. Therefore, the creation of cultivars resistant to R. pseudosolanacearum strains is a major goal for breeders. An intraspecific eggplant population, segregating for resistance, was created from the cross between the susceptible MM738 and the resistant EG203 lines. The population of 123 doubled haploid lines was challenged with two strains belonging to phylotypes I (PSS4) and III (R3598), which both bypass the published EBWR9 BW-resistance quantitative trait locus (QTL). Ten and three QTLs of resistance to PSS4 and to R3598, respectively, were detected and mapped. All were strongly influenced by environmental conditions. The most stable QTLs were found on chromosomes 3 and 6. Given their estimated physical position, these newly detected QTLs are putatively syntenic with BW-resistance QTLs in tomato. In particular, the QTLs' position on chromosome 6 overlaps with that of the major broad-spectrum tomato resistance QTL Bwr-6. The present study is a first step towards understanding the complex polygenic system, which underlies the high level of BW resistance of the EG203 line.
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Affiliation(s)
- Sylvia Salgon
- Centre de Coopération Internationale en Recherche Agronomique pour le Développement (CIRAD), Unité Mixte de Recherche Peuplements Végétaux et Bio-agresseurs en Milieu Tropical (UMR PVBMT), F-97410 Saint-Pierre, France.
- Unité Mixte de Recherche Peuplements Végétaux et Bio-agresseurs en Milieu Tropical (UMR PVBMT), Université de la Réunion, F-97410 Saint-Pierre, France.
- Association Réunionnaise pour la Modernisation de l'Economie Fruitière Légumière et Horticole (ARMEFLHOR), F-97410 Saint-Pierre, France.
| | | | - Sylvain Lebon
- Centre de Coopération Internationale en Recherche Agronomique pour le Développement (CIRAD), Unité Mixte de Recherche Peuplements Végétaux et Bio-agresseurs en Milieu Tropical (UMR PVBMT), F-97410 Saint-Pierre, France.
| | - Jean-Michel Baptiste
- Centre de Coopération Internationale en Recherche Agronomique pour le Développement (CIRAD), Unité Mixte de Recherche Peuplements Végétaux et Bio-agresseurs en Milieu Tropical (UMR PVBMT), F-97410 Saint-Pierre, France.
| | - Marie-Christine Daunay
- Institut National de la Recherche Agronomique (INRA), Unité de Recherche Génétique et Amélioration des Fruits et Légumes (UR GAFL), F-84143 Montfavet, France.
| | - Jacques Dintinger
- Centre de Coopération Internationale en Recherche Agronomique pour le Développement (CIRAD), Unité Mixte de Recherche Peuplements Végétaux et Bio-agresseurs en Milieu Tropical (UMR PVBMT), F-97410 Saint-Pierre, France.
| | - Cyril Jourda
- Centre de Coopération Internationale en Recherche Agronomique pour le Développement (CIRAD), Unité Mixte de Recherche Peuplements Végétaux et Bio-agresseurs en Milieu Tropical (UMR PVBMT), F-97410 Saint-Pierre, France.
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Boschi F, Schvartzman C, Murchio S, Ferreira V, Siri MI, Galván GA, Smoker M, Stransfeld L, Zipfel C, Vilaró FL, Dalla-Rizza M. Enhanced Bacterial Wilt Resistance in Potato Through Expression of Arabidopsis EFR and Introgression of Quantitative Resistance from Solanum commersonii. FRONTIERS IN PLANT SCIENCE 2017; 8:1642. [PMID: 29033958 PMCID: PMC5627020 DOI: 10.3389/fpls.2017.01642] [Citation(s) in RCA: 32] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/29/2017] [Accepted: 09/07/2017] [Indexed: 05/09/2023]
Abstract
Bacterial wilt (BW) caused by Ralstonia solanacearum is responsible for substantial losses in cultivated potato (Solanum tuberosum) crops worldwide. Resistance genes have been identified in wild species; however, introduction of these through classical breeding has achieved only partial resistance, which has been linked to poor agronomic performance. The Arabidopsis thaliana (At) pattern recognition receptor elongation factor-Tu (EF-Tu) receptor (EFR) recognizes the bacterial pathogen-associated molecular pattern EF-Tu (and its derived peptide elf18) to confer anti-bacterial immunity. Previous work has shown that transfer of AtEFR into tomato confers increased resistance to R. solanacearum. Here, we evaluated whether the transgenic expression of AtEFR would similarly increase BW resistance in a commercial potato line (INIA Iporá), as well as in a breeding potato line (09509.6) in which quantitative resistance has been introgressed from the wild potato relative Solanum commersonii. Resistance to R. solanacearum was evaluated by damaged root inoculation under controlled conditions. Both INIA Iporá and 09509.6 potato lines expressing AtEFR showed greater resistance to R. solanacearum, with no detectable bacteria in tubers evaluated by multiplex-PCR and plate counting. Notably, AtEFR expression and the introgression of quantitative resistance from S. commersonii had a significant additive effect in 09509.6-AtEFR lines. These results show that the combination of heterologous expression of AtEFR with quantitative resistance introgressed from wild relatives is a promising strategy to develop BW resistance in potato.
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Affiliation(s)
| | - Claudia Schvartzman
- Unidad de Biotecnología, Instituto Nacional de Investigación AgropecuariaCanelones, Uruguay
| | - Sara Murchio
- Unidad de Biotecnología, Instituto Nacional de Investigación AgropecuariaCanelones, Uruguay
| | - Virginia Ferreira
- Departamento de Biociencias, Facultad de Química, Universidad de la RepúblicaMontevideo, Uruguay
| | - Maria I. Siri
- Departamento de Biociencias, Facultad de Química, Universidad de la RepúblicaMontevideo, Uruguay
| | - Guillermo A. Galván
- Departamento de Producción Vegetal, Centro Regional Sur, Facultad de Agronomía, Universidad de la RepúblicaCanelones, Uruguay
| | - Matthew Smoker
- The Sainsbury Laboratory, Norwich Research ParkNorwich, United Kingdom
| | - Lena Stransfeld
- The Sainsbury Laboratory, Norwich Research ParkNorwich, United Kingdom
| | - Cyril Zipfel
- The Sainsbury Laboratory, Norwich Research ParkNorwich, United Kingdom
| | - Francisco L. Vilaró
- Programa de Producción Hortícola, Instituto Nacional de Investigación AgropecuariaCanelones, Uruguay
| | - Marco Dalla-Rizza
- Unidad de Biotecnología, Instituto Nacional de Investigación AgropecuariaCanelones, Uruguay
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Zhang C, Chen H, Cai T, Deng Y, Zhuang R, Zhang N, Zeng Y, Zheng Y, Tang R, Pan R, Zhuang W. Overexpression of a novel peanut NBS-LRR gene AhRRS5 enhances disease resistance to Ralstonia solanacearum in tobacco. PLANT BIOTECHNOLOGY JOURNAL 2017; 15:39-55. [PMID: 27311738 PMCID: PMC5253469 DOI: 10.1111/pbi.12589] [Citation(s) in RCA: 78] [Impact Index Per Article: 11.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/23/2016] [Revised: 05/16/2016] [Accepted: 06/10/2016] [Indexed: 05/20/2023]
Abstract
Bacterial wilt caused by Ralstonia solanacearum is a ruinous soilborne disease affecting more than 450 plant species. Efficient control methods for this disease remain unavailable to date. This study characterized a novel nucleotide-binding site-leucine-rich repeat resistance gene AhRRS5 from peanut, which was up-regulated in both resistant and susceptible peanut cultivars in response to R. solanacearum. The product of AhRRS5 was localized in the nucleus. Furthermore, treatment with phytohormones such as salicylic acid (SA), abscisic acid (ABA), methyl jasmonate (MeJA) and ethephon (ET) increased the transcript level of AhRRS5 with diverse responses between resistant and susceptible peanuts. Abiotic stresses such as drought and cold conditions also changed AhRRS5 expression. Moreover, transient overexpression induced hypersensitive response in Nicotiana benthamiana. Overexpression of AhRRS5 significantly enhanced the resistance of heterogeneous tobacco to R. solanacearum, with diverse resistance levels in different transgenic lines. Several defence-responsive marker genes in hypersensitive response, including SA, JA and ET signals, were considerably up-regulated in the transgenic lines as compared with the wild type inoculated with R. solanacearum. Nonexpressor of pathogenesis-related gene 1 (NPR1) and non-race-specific disease resistance 1 were also up-regulated in response to the pathogen. These results indicate that AhRRS5 participates in the defence response to R. solanacearum through the crosstalk of multiple signalling pathways and the involvement of NPR1 and R gene signals for its resistance. This study may guide the resistance enhancement of peanut and other economic crops to bacterial wilt disease.
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Affiliation(s)
- Chong Zhang
- College of Plant ProtectionFujian Agriculture and Forestry UniversityFuzhouChina
- Fujian Key Laboratory of Crop Molecular and Cell BiologyFujian Agriculture and Forestry UniversityFuzhouFujianChina
| | - Hua Chen
- College of Plant ProtectionFujian Agriculture and Forestry UniversityFuzhouChina
- Fujian Key Laboratory of Crop Molecular and Cell BiologyFujian Agriculture and Forestry UniversityFuzhouFujianChina
| | - Tiecheng Cai
- College of Plant ProtectionFujian Agriculture and Forestry UniversityFuzhouChina
- Fujian Key Laboratory of Crop Molecular and Cell BiologyFujian Agriculture and Forestry UniversityFuzhouFujianChina
| | - Ye Deng
- College of Plant ProtectionFujian Agriculture and Forestry UniversityFuzhouChina
- Fujian Key Laboratory of Crop Molecular and Cell BiologyFujian Agriculture and Forestry UniversityFuzhouFujianChina
| | - Ruirong Zhuang
- Fujian Key Laboratory of Crop Molecular and Cell BiologyFujian Agriculture and Forestry UniversityFuzhouFujianChina
| | - Ning Zhang
- Fujian Key Laboratory of Crop Molecular and Cell BiologyFujian Agriculture and Forestry UniversityFuzhouFujianChina
| | - Yuanhuan Zeng
- Fujian Key Laboratory of Crop Molecular and Cell BiologyFujian Agriculture and Forestry UniversityFuzhouFujianChina
| | - Yixiong Zheng
- Fujian Key Laboratory of Crop Molecular and Cell BiologyFujian Agriculture and Forestry UniversityFuzhouFujianChina
- College of AgronomyZhongkai Agriculture and Engineering CollegeGuangzhouGuangdongChina
| | - Ronghua Tang
- Cash Crops Research InstituteGuangxi Academy of Agricultural SciencesNanningChina
| | - Ronglong Pan
- Department of Life Science and Institute of Bioinformatics and Structural BiologyCollege of Life ScienceNational Tsing Hua UniversityHsinchuTaiwan
| | - Weijian Zhuang
- College of Plant ProtectionFujian Agriculture and Forestry UniversityFuzhouChina
- Fujian Key Laboratory of Crop Molecular and Cell BiologyFujian Agriculture and Forestry UniversityFuzhouFujianChina
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Salgon S, Jourda C, Sauvage C, Daunay MC, Reynaud B, Wicker E, Dintinger J. Eggplant Resistance to the Ralstonia solanacearum Species Complex Involves Both Broad-Spectrum and Strain-Specific Quantitative Trait Loci. FRONTIERS IN PLANT SCIENCE 2017; 8:828. [PMID: 28580001 PMCID: PMC5437220 DOI: 10.3389/fpls.2017.00828] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/16/2017] [Accepted: 05/02/2017] [Indexed: 05/20/2023]
Abstract
Bacterial wilt (BW) is a major disease of solanaceous crops caused by the Ralstonia solanacearum species complex (RSSC). Strains are grouped into five phylotypes (I, IIA, IIB, III, and IV). Varietal resistance is the most sustainable strategy for managing BW. Nevertheless, breeding to improve cultivar resistance has been limited by the pathogen's extensive genetic diversity. Identifying the genetic bases of specific and non-specific resistance is a prerequisite to breed improvement. A major gene (ERs1) was previously mapped in eggplant (Solanum melongena L.) using an intraspecific population of recombinant inbred lines derived from the cross of susceptible MM738 (S) × resistant AG91-25 (R). ERs1 was originally found to control three strains from phylotype I, while being totally ineffective against a virulent strain from the same phylotype. We tested this population against four additional RSSC strains, representing phylotypes I, IIA, IIB, and III in order to clarify the action spectrum of ERs1. We recorded wilting symptoms and bacterial stem colonization under controlled artificial inoculation. We constructed a high-density genetic map of the population using single nucleotide polymorphisms (SNPs) developed from genotyping-by-sequencing and added 168 molecular markers [amplified fragment length polymorphisms (AFLPs), simple sequence repeats (SSRs), and sequence-related amplified polymorphisms (SRAPs)] developed previously. The new linkage map based on a total of 1,035 markers was anchored on eggplant, tomato, and potato genomes. Quantitative trait locus (QTL) mapping for resistance against a total of eight RSSC strains resulted in the detection of one major phylotype-specific QTL and two broad-spectrum QTLs. The major QTL, which specifically controls three phylotype I strains, was located at the bottom of chromosome 9 and corresponded to the previously identified major gene ERs1. Five candidate R-genes were underlying this QTL, with different alleles between the parents. The two other QTLs detected on chromosomes 2 and 5 were found to be associated with partial resistance to strains of phylotypes I, IIA, III and strains of phylotypes IIA and III, respectively. Markers closely linked to these three QTLs will be crucial for breeding eggplant with broad-spectrum resistance to BW. Furthermore, our study provides an important contribution to the molecular characterization of ERs1, which was initially considered to be a major resistance gene.
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Affiliation(s)
- Sylvia Salgon
- UMR Peuplements Végétaux et Bioagresseurs en Milieu Tropical, Centre de Coopération Internationale en Recherche Agronomique pour le DéveloppementSaint-Pierre, Réunion
- Association Réunionnaise pour la Modernisation de l’Economie Fruitière, Légumière et HORticoleSaint-Pierre, Réunion
- UMR Peuplements Végétaux et Bioagresseurs en Milieu Tropical, Université de la RéunionSaint-Pierre, Réunion
- *Correspondence: Sylvia Salgon, Jacques Dintinger,
| | - Cyril Jourda
- UMR Peuplements Végétaux et Bioagresseurs en Milieu Tropical, Centre de Coopération Internationale en Recherche Agronomique pour le DéveloppementSaint-Pierre, Réunion
| | - Christopher Sauvage
- UR 1052 Génétique et Amélioration des Fruits et Légumes, Institut National de la Recherche AgronomiqueMontfavet, France
| | - Marie-Christine Daunay
- UR 1052 Génétique et Amélioration des Fruits et Légumes, Institut National de la Recherche AgronomiqueMontfavet, France
| | - Bernard Reynaud
- UMR Peuplements Végétaux et Bioagresseurs en Milieu Tropical, Centre de Coopération Internationale en Recherche Agronomique pour le DéveloppementSaint-Pierre, Réunion
- UMR Peuplements Végétaux et Bioagresseurs en Milieu Tropical, Université de la RéunionSaint-Pierre, Réunion
| | - Emmanuel Wicker
- UMR Peuplements Végétaux et Bioagresseurs en Milieu Tropical, Centre de Coopération Internationale en Recherche Agronomique pour le DéveloppementSaint-Pierre, Réunion
- UMR Interactions Plantes-Microorganismes-Environnement, Centre de Coopération Internationale en Recherche Agronomique pour le DéveloppementMontpellier, France
| | - Jacques Dintinger
- UMR Peuplements Végétaux et Bioagresseurs en Milieu Tropical, Centre de Coopération Internationale en Recherche Agronomique pour le DéveloppementSaint-Pierre, Réunion
- *Correspondence: Sylvia Salgon, Jacques Dintinger,
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21
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Schandry N. A Practical Guide to Visualization and Statistical Analysis of R. solanacearum Infection Data Using R. FRONTIERS IN PLANT SCIENCE 2017; 8:623. [PMID: 28484483 PMCID: PMC5401893 DOI: 10.3389/fpls.2017.00623] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/20/2017] [Accepted: 04/06/2017] [Indexed: 05/11/2023]
Abstract
This paper describes and summarizes approaches for visualization and statistical analysis using data from Ralstonia solanacearum infection experiments based on methods and concepts that are broadly applicable. Members of the R. solanacearum species complex cause bacterial wilt disease. Bacterial wilt is a lethal plant disease and has been studied for over 100 years. During this time various methods to quantify disease and different ways to analyze the generated data have been employed. Here, I aim to provide a general background on three distinct and commonly used measures of disease: the area under the disease progression curve, longitudinal recordings of disease severity and host survival. I will discuss how one can proceed with visualization, statistical analysis, and interpretation using different datasets while revisiting the general concepts of statistical analysis. Datasets and R code to perform all analyses discussed here are included in the supplement.
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Na C, Shuanghua W, Jinglong F, Bihao C, Jianjun L, Changming C, Jin J. Overexpression of the Eggplant (Solanum melongena) NAC Family Transcription Factor SmNAC Suppresses Resistance to Bacterial Wilt. Sci Rep 2016; 6:31568. [PMID: 27528282 PMCID: PMC4985710 DOI: 10.1038/srep31568] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/22/2016] [Accepted: 07/26/2016] [Indexed: 11/09/2022] Open
Abstract
Bacterial wilt (BW) is a serious disease that affects eggplant (Solanum melongena) production. Although resistance to this disease has been reported, the underlying mechanism is unknown. In this study, we identified a NAC family transcription factor (SmNAC) from eggplant and characterized its expression, its localization at the tissue and subcellular levels, and its role in BW resistance. To this end, transgenic eggplant lines were generated in which the expression of SmNAC was constitutively up regulated or suppressed using RNAi. The results indicated that overexpression of SmNAC decreases resistance to BW. Moreover, SmNAC overexpression resulted in the reduced accumulation of the plant immune signaling molecule salicylic acid (SA) and reduced expression of ICS1 (a gene that encode isochorismate synthase 1, which is involved in SA biosynthesis). We propose that reduced SA content results in increased bacterial wilt susceptibility in the transgenic lines. Our results provide important new insights into the regulatory mechanisms of bacterial wilt resistance in eggplant.
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Affiliation(s)
- Chen Na
- College of Horticulture, South Agricultural University, Guangzhou City, 510642, P.R. China
| | - Wu Shuanghua
- College of Horticulture, South Agricultural University, Guangzhou City, 510642, P.R. China
| | - Fu Jinglong
- College of Horticulture, South Agricultural University, Guangzhou City, 510642, P.R. China
| | - Cao Bihao
- College of Horticulture, South Agricultural University, Guangzhou City, 510642, P.R. China
| | - Lei Jianjun
- College of Horticulture, South Agricultural University, Guangzhou City, 510642, P.R. China
| | - Chen Changming
- College of Horticulture, South Agricultural University, Guangzhou City, 510642, P.R. China
| | - Jiang Jin
- College of Horticulture, South Agricultural University, Guangzhou City, 510642, P.R. China
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23
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Hanemian M, Barlet X, Sorin C, Yadeta KA, Keller H, Favery B, Simon R, Thomma BPHJ, Hartmann C, Crespi M, Marco Y, Tremousaygue D, Deslandes L. Arabidopsis CLAVATA1 and CLAVATA2 receptors contribute to Ralstonia solanacearum pathogenicity through a miR169-dependent pathway. THE NEW PHYTOLOGIST 2016; 211:502-15. [PMID: 26990325 DOI: 10.1111/nph.13913] [Citation(s) in RCA: 53] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/03/2015] [Accepted: 01/22/2016] [Indexed: 05/21/2023]
Abstract
Bacterial wilt caused by Ralstonia solanacearum is one of the most destructive bacterial plant diseases. Although many molecular determinants involved in R. solanacearum adaptation to hosts and pathogenesis have been described, host components required for disease establishment remain poorly characterized. Phenotypical analysis of Arabidopsis mutants for leucine-rich repeat (LRR)-receptor-like proteins revealed that mutations in the CLAVATA1 (CLV1) and CLAVATA2 (CLV2) genes confer enhanced disease resistance to bacterial wilt. We further investigated the underlying mechanisms using genetic, transcriptomic and molecular approaches. The enhanced resistance of both clv1 and clv2 mutants to the bacteria did not require the well characterized CLV signalling modules involved in shoot meristem homeostasis, and was conditioned by neither salicylic acid nor ethylene defence-related hormones. Gene expression microarray analysis performed on clv1 and clv2 revealed deregulation of genes encoding nuclear transcription factor Y subunit alpha (NF-YA) transcription factors whose post-transcriptional regulation is known to involve microRNAs from the miR169 family. Both clv mutants showed a defect in miR169 accumulation. Conversely, overexpression of miR169 abrogated the resistance phenotype of clv mutants. We propose that CLV1 and CLV2, two receptors involved in CLV3 perception during plant development, contribute to bacterial wilt through a signalling pathway involving the miR169/NF-YA module.
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Affiliation(s)
- Mathieu Hanemian
- Laboratoire des Interactions Plantes-Microorganismes (LIPM), INRA, UMR441, Chemin de Borde Rouge, F-31326, Castanet-Tolosan, France
- Laboratoire des Interactions Plantes-Microorganismes (LIPM), CNRS, UMR2594, Chemin de Borde Rouge, F-31326, Castanet-Tolosan, France
| | - Xavier Barlet
- Laboratoire des Interactions Plantes-Microorganismes (LIPM), INRA, UMR441, Chemin de Borde Rouge, F-31326, Castanet-Tolosan, France
- Laboratoire des Interactions Plantes-Microorganismes (LIPM), CNRS, UMR2594, Chemin de Borde Rouge, F-31326, Castanet-Tolosan, France
| | - Céline Sorin
- CNRS, Institut des Sciences du Végétal, Saclay Plant Sciences, UPR2355, 91198, Gif-sur-Yvette, France
| | - Koste A Yadeta
- Laboratory of Phytopathology, Wageningen University, Droevendaalsesteeg 1, 6708 PB, Wageningen, the Netherlands
| | - Harald Keller
- INRA, Univ. Nice Sophia Antipolis, CNRS, UMR 1355-7254 Institut Sophia Agrobiotech, 06900, Sophia Antipolis, France
| | - Bruno Favery
- INRA, Univ. Nice Sophia Antipolis, CNRS, UMR 1355-7254 Institut Sophia Agrobiotech, 06900, Sophia Antipolis, France
| | - Rüdiger Simon
- Institut für Entwicklungsgenetik, Heinrich-Heine-Universität, Universitätstr. 1, 40225, Düsseldorf, Germany
| | - Bart P H J Thomma
- Laboratory of Phytopathology, Wageningen University, Droevendaalsesteeg 1, 6708 PB, Wageningen, the Netherlands
| | - Caroline Hartmann
- Université Paris Diderot, 5 rue Thomas Mann, 75205, Paris Cedex 13, France
| | - Martin Crespi
- CNRS, Institut des Sciences du Végétal, Saclay Plant Sciences, UPR2355, 91198, Gif-sur-Yvette, France
| | - Yves Marco
- Laboratoire des Interactions Plantes-Microorganismes (LIPM), INRA, UMR441, Chemin de Borde Rouge, F-31326, Castanet-Tolosan, France
- Laboratoire des Interactions Plantes-Microorganismes (LIPM), CNRS, UMR2594, Chemin de Borde Rouge, F-31326, Castanet-Tolosan, France
| | - Dominique Tremousaygue
- Laboratoire des Interactions Plantes-Microorganismes (LIPM), INRA, UMR441, Chemin de Borde Rouge, F-31326, Castanet-Tolosan, France
- Laboratoire des Interactions Plantes-Microorganismes (LIPM), CNRS, UMR2594, Chemin de Borde Rouge, F-31326, Castanet-Tolosan, France
| | - Laurent Deslandes
- Laboratoire des Interactions Plantes-Microorganismes (LIPM), INRA, UMR441, Chemin de Borde Rouge, F-31326, Castanet-Tolosan, France
- Laboratoire des Interactions Plantes-Microorganismes (LIPM), CNRS, UMR2594, Chemin de Borde Rouge, F-31326, Castanet-Tolosan, France
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Draft Genome Sequences of Nine Strains of Ralstonia solanacearum Differing in Virulence to Eggplant (Solanum melongena). GENOME ANNOUNCEMENTS 2016; 4:4/1/e01415-15. [PMID: 26823572 PMCID: PMC4732325 DOI: 10.1128/genomea.01415-15] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
Abstract
Ralstonia solanacearum displays variability in its virulence to solanaceous crops. We report here the draft genome sequences of eight phylotype I strains and one phylotype III strain differing in virulence to the resistant eggplant genotype AG91-25. These data will allow the identification of virulence- and avirulence-related genes.
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25
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Pensec F, Lebeau A, Daunay MC, Chiroleu F, Guidot A, Wicker E. Towards the Identification of Type III Effectors Associated with Ralstonia solanacearum Virulence on Tomato and Eggplant. PHYTOPATHOLOGY 2015; 105:1529-44. [PMID: 26368514 DOI: 10.1094/phyto-06-15-0140-r] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/21/2023]
Abstract
For the development of pathogen-informed breeding strategies, identifying the microbial genes involved in interactions with the plant is a critical step. To identify type III effector (T3E) repertoires associated with virulence of the bacterial wilt pathogen Ralstonia solanacearum on Solanaceous crops, we used an original association genetics approach combining DNA microarray data and pathogenicity data on resistant eggplant, pepper, and tomato accessions. From this first screen, 25 T3Es were further full-length polymerase chain reaction-amplified within a 35-strain field collection, to assess their distribution and allelic diversity. Six T3E repertoire groups were identified, within which 11 representative strains were chosen to challenge the bacterial wilt-resistant egg plants 'Dingras multiple Purple' and 'AG91-25', and tomato Hawaii 7996. The virulence or avirulence phenotypes could not be explained by specific T3E repertoires, but rather by individual T3E genes. We identified seven highly avirulence-associated genes, among which ripP2, primarily referenced as conferring avirulence to Arabidopsis thaliana. Interestingly, no T3E was associated with avirulence to both egg-plants. Highly virulence-associated genes were also identified: ripA5_2, ripU, and ripV2. This study should be regarded as a first step toward investigating both avirulence and virulence function of the highlighted genes, but also their evolutionary dynamics in natural R. solanacearum populations.
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Affiliation(s)
- Flora Pensec
- First, second, fourth, and sixth authors: CIRAD, UMR 53 Peuplements Végétaux et Bioagresseurs en Milieu Tropical (PVBMT), Saint-Pierre, La Réunion, France; third author: INRA, Centre d'Avignon, Unité de Génétique et Amélioration des Fruits et Légumes, UR1052, Montfavet, France; and fifth author: INRA, UMR 441 Laboratoire des Interactions Plantes-Microorganismes (LIPM), Castanet-Tolosan, France. Current address of first author: Institut National de la Recherche Agronomique, UMR A 1131 Santé de la Vigne et Qualité du Vin (SVQV), Colmar, France. Université de Strasbourg, Strasbourg, France
| | - Aurore Lebeau
- First, second, fourth, and sixth authors: CIRAD, UMR 53 Peuplements Végétaux et Bioagresseurs en Milieu Tropical (PVBMT), Saint-Pierre, La Réunion, France; third author: INRA, Centre d'Avignon, Unité de Génétique et Amélioration des Fruits et Légumes, UR1052, Montfavet, France; and fifth author: INRA, UMR 441 Laboratoire des Interactions Plantes-Microorganismes (LIPM), Castanet-Tolosan, France. Current address of first author: Institut National de la Recherche Agronomique, UMR A 1131 Santé de la Vigne et Qualité du Vin (SVQV), Colmar, France. Université de Strasbourg, Strasbourg, France
| | - M C Daunay
- First, second, fourth, and sixth authors: CIRAD, UMR 53 Peuplements Végétaux et Bioagresseurs en Milieu Tropical (PVBMT), Saint-Pierre, La Réunion, France; third author: INRA, Centre d'Avignon, Unité de Génétique et Amélioration des Fruits et Légumes, UR1052, Montfavet, France; and fifth author: INRA, UMR 441 Laboratoire des Interactions Plantes-Microorganismes (LIPM), Castanet-Tolosan, France. Current address of first author: Institut National de la Recherche Agronomique, UMR A 1131 Santé de la Vigne et Qualité du Vin (SVQV), Colmar, France. Université de Strasbourg, Strasbourg, France
| | - Frédéric Chiroleu
- First, second, fourth, and sixth authors: CIRAD, UMR 53 Peuplements Végétaux et Bioagresseurs en Milieu Tropical (PVBMT), Saint-Pierre, La Réunion, France; third author: INRA, Centre d'Avignon, Unité de Génétique et Amélioration des Fruits et Légumes, UR1052, Montfavet, France; and fifth author: INRA, UMR 441 Laboratoire des Interactions Plantes-Microorganismes (LIPM), Castanet-Tolosan, France. Current address of first author: Institut National de la Recherche Agronomique, UMR A 1131 Santé de la Vigne et Qualité du Vin (SVQV), Colmar, France. Université de Strasbourg, Strasbourg, France
| | - Alice Guidot
- First, second, fourth, and sixth authors: CIRAD, UMR 53 Peuplements Végétaux et Bioagresseurs en Milieu Tropical (PVBMT), Saint-Pierre, La Réunion, France; third author: INRA, Centre d'Avignon, Unité de Génétique et Amélioration des Fruits et Légumes, UR1052, Montfavet, France; and fifth author: INRA, UMR 441 Laboratoire des Interactions Plantes-Microorganismes (LIPM), Castanet-Tolosan, France. Current address of first author: Institut National de la Recherche Agronomique, UMR A 1131 Santé de la Vigne et Qualité du Vin (SVQV), Colmar, France. Université de Strasbourg, Strasbourg, France
| | - Emmanuel Wicker
- First, second, fourth, and sixth authors: CIRAD, UMR 53 Peuplements Végétaux et Bioagresseurs en Milieu Tropical (PVBMT), Saint-Pierre, La Réunion, France; third author: INRA, Centre d'Avignon, Unité de Génétique et Amélioration des Fruits et Légumes, UR1052, Montfavet, France; and fifth author: INRA, UMR 441 Laboratoire des Interactions Plantes-Microorganismes (LIPM), Castanet-Tolosan, France. Current address of first author: Institut National de la Recherche Agronomique, UMR A 1131 Santé de la Vigne et Qualité du Vin (SVQV), Colmar, France. Université de Strasbourg, Strasbourg, France
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Bae C, Han SW, Song YR, Kim BY, Lee HJ, Lee JM, Yeam I, Heu S, Oh CS. Infection processes of xylem-colonizing pathogenic bacteria: possible explanations for the scarcity of qualitative disease resistance genes against them in crops. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2015; 128:1219-29. [PMID: 25917599 DOI: 10.1007/s00122-015-2521-1] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/10/2014] [Accepted: 04/17/2015] [Indexed: 05/22/2023]
Abstract
Disease resistance against xylem-colonizing pathogenic bacteria in crops. Plant pathogenic bacteria cause destructive diseases in many commercially important crops. Among these bacteria, eight pathogens, Ralstonia solanacearum, Xanthomonas oryzae pv. oryzae, X. campestris pv. campestris, Erwinia amylovora, Pantoea stewartii subsp. stewartii, Clavibacter michiganensis subsp. michiganensis, Pseudomonas syringae pv. actinidiae, and Xylella fastidiosa, infect their host plants through different infection sites and paths and eventually colonize the xylem tissues of their host plants, resulting in wilting symptoms by blocking water flow or necrosis of xylem tissues. Noticeably, only a relatively small number of resistant cultivars in major crops against these vascular bacterial pathogens except X. oryzae pv. oryzae have been found or generated so far, although these pathogens threaten productivity of major crops. In this review, we summarize the lifestyles of major xylem-colonizing bacterial pathogens and then discuss the progress of current research on disease resistance controlled by qualitative disease resistance genes or quantitative trait loci against them. Finally, we propose infection processes of xylem-colonizing bacterial pathogens as one of possible reasons for why so few qualitative disease resistance genes against these pathogens have been developed or identified so far in crops.
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Affiliation(s)
- Chungyun Bae
- Department of Horticultural Biotechnology and Institute of Life Science and Resources, College of Life Science, Kyung Hee University, Yongin, 446-701, Korea
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Clarke CR, Studholme DJ, Hayes B, Runde B, Weisberg A, Cai R, Wroblewski T, Daunay MC, Wicker E, Castillo JA, Vinatzer BA. Genome-Enabled Phylogeographic Investigation of the Quarantine Pathogen Ralstonia solanacearum Race 3 Biovar 2 and Screening for Sources of Resistance Against Its Core Effectors. PHYTOPATHOLOGY 2015; 105:597-607. [PMID: 25710204 DOI: 10.1094/phyto-12-14-0373-r] [Citation(s) in RCA: 32] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/27/2023]
Abstract
Phylogeographic studies inform about routes of pathogen dissemination and are instrumental for improving import/export controls. Genomes of 17 isolates of the bacterial wilt and potato brown rot pathogen Ralstonia solanacearum race 3 biovar 2 (R3bv2), a Select Agent in the United States, were thus analyzed to get insight into the phylogeography of this pathogen. Thirteen of fourteen isolates from Europe, Africa, and Asia were found to belong to a single clonal lineage while isolates from South America were genetically diverse and tended to carry ancestral alleles at the analyzed genomic loci consistent with a South American origin of R3bv2. The R3bv2 isolates share a core repertoire of 31 type III-secreted effector genes representing excellent candidates to be targeted with resistance genes in breeding programs to develop durable disease resistance. Toward this goal, 27 R3bv2 effectors were tested in eggplant, tomato, pepper, tobacco, and lettuce for induction of a hypersensitive-like response indicative of recognition by cognate resistance receptors. Fifteen effectors, eight of them core effectors, triggered a response in one or more plant species. These genotypes may harbor resistance genes that could be identified and mapped, cloned, and expressed in tomato or potato, for which sources of genetic resistance to R3bv2 are extremely limited.
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Affiliation(s)
- Christopher R Clarke
- First, third, fourth, fifth, sixth, and eleventh authors: Department of Plant Pathology, Physiology, and Weed Science, Virginia Tech, Latham Hall, Ag Quad Lane, Blacksburg, VA; second author: Biosciences, University of Exeter, Exeter, Devon, UK; seventh author: Genome Center and Department of Plant Sciences, University of California, Davis, CA 95616; eighth author: Unité de Genetique et Amelioration des Fruits et Legumes, INRA, Centre d'Avignon, Montfavet, France; ninth author: CIRAD, UMR Peuplements Vegetaux et Bioagresseurs en Milieu Tropical (PVBMT), Saint Pierre, La Reunion, France; and tenth author: PROINPA Foundation, Cochabamba, Bolivia
| | - David J Studholme
- First, third, fourth, fifth, sixth, and eleventh authors: Department of Plant Pathology, Physiology, and Weed Science, Virginia Tech, Latham Hall, Ag Quad Lane, Blacksburg, VA; second author: Biosciences, University of Exeter, Exeter, Devon, UK; seventh author: Genome Center and Department of Plant Sciences, University of California, Davis, CA 95616; eighth author: Unité de Genetique et Amelioration des Fruits et Legumes, INRA, Centre d'Avignon, Montfavet, France; ninth author: CIRAD, UMR Peuplements Vegetaux et Bioagresseurs en Milieu Tropical (PVBMT), Saint Pierre, La Reunion, France; and tenth author: PROINPA Foundation, Cochabamba, Bolivia
| | - Byron Hayes
- First, third, fourth, fifth, sixth, and eleventh authors: Department of Plant Pathology, Physiology, and Weed Science, Virginia Tech, Latham Hall, Ag Quad Lane, Blacksburg, VA; second author: Biosciences, University of Exeter, Exeter, Devon, UK; seventh author: Genome Center and Department of Plant Sciences, University of California, Davis, CA 95616; eighth author: Unité de Genetique et Amelioration des Fruits et Legumes, INRA, Centre d'Avignon, Montfavet, France; ninth author: CIRAD, UMR Peuplements Vegetaux et Bioagresseurs en Milieu Tropical (PVBMT), Saint Pierre, La Reunion, France; and tenth author: PROINPA Foundation, Cochabamba, Bolivia
| | - Brendan Runde
- First, third, fourth, fifth, sixth, and eleventh authors: Department of Plant Pathology, Physiology, and Weed Science, Virginia Tech, Latham Hall, Ag Quad Lane, Blacksburg, VA; second author: Biosciences, University of Exeter, Exeter, Devon, UK; seventh author: Genome Center and Department of Plant Sciences, University of California, Davis, CA 95616; eighth author: Unité de Genetique et Amelioration des Fruits et Legumes, INRA, Centre d'Avignon, Montfavet, France; ninth author: CIRAD, UMR Peuplements Vegetaux et Bioagresseurs en Milieu Tropical (PVBMT), Saint Pierre, La Reunion, France; and tenth author: PROINPA Foundation, Cochabamba, Bolivia
| | - Alexandra Weisberg
- First, third, fourth, fifth, sixth, and eleventh authors: Department of Plant Pathology, Physiology, and Weed Science, Virginia Tech, Latham Hall, Ag Quad Lane, Blacksburg, VA; second author: Biosciences, University of Exeter, Exeter, Devon, UK; seventh author: Genome Center and Department of Plant Sciences, University of California, Davis, CA 95616; eighth author: Unité de Genetique et Amelioration des Fruits et Legumes, INRA, Centre d'Avignon, Montfavet, France; ninth author: CIRAD, UMR Peuplements Vegetaux et Bioagresseurs en Milieu Tropical (PVBMT), Saint Pierre, La Reunion, France; and tenth author: PROINPA Foundation, Cochabamba, Bolivia
| | - Rongman Cai
- First, third, fourth, fifth, sixth, and eleventh authors: Department of Plant Pathology, Physiology, and Weed Science, Virginia Tech, Latham Hall, Ag Quad Lane, Blacksburg, VA; second author: Biosciences, University of Exeter, Exeter, Devon, UK; seventh author: Genome Center and Department of Plant Sciences, University of California, Davis, CA 95616; eighth author: Unité de Genetique et Amelioration des Fruits et Legumes, INRA, Centre d'Avignon, Montfavet, France; ninth author: CIRAD, UMR Peuplements Vegetaux et Bioagresseurs en Milieu Tropical (PVBMT), Saint Pierre, La Reunion, France; and tenth author: PROINPA Foundation, Cochabamba, Bolivia
| | - Tadeusz Wroblewski
- First, third, fourth, fifth, sixth, and eleventh authors: Department of Plant Pathology, Physiology, and Weed Science, Virginia Tech, Latham Hall, Ag Quad Lane, Blacksburg, VA; second author: Biosciences, University of Exeter, Exeter, Devon, UK; seventh author: Genome Center and Department of Plant Sciences, University of California, Davis, CA 95616; eighth author: Unité de Genetique et Amelioration des Fruits et Legumes, INRA, Centre d'Avignon, Montfavet, France; ninth author: CIRAD, UMR Peuplements Vegetaux et Bioagresseurs en Milieu Tropical (PVBMT), Saint Pierre, La Reunion, France; and tenth author: PROINPA Foundation, Cochabamba, Bolivia
| | - Marie-Christine Daunay
- First, third, fourth, fifth, sixth, and eleventh authors: Department of Plant Pathology, Physiology, and Weed Science, Virginia Tech, Latham Hall, Ag Quad Lane, Blacksburg, VA; second author: Biosciences, University of Exeter, Exeter, Devon, UK; seventh author: Genome Center and Department of Plant Sciences, University of California, Davis, CA 95616; eighth author: Unité de Genetique et Amelioration des Fruits et Legumes, INRA, Centre d'Avignon, Montfavet, France; ninth author: CIRAD, UMR Peuplements Vegetaux et Bioagresseurs en Milieu Tropical (PVBMT), Saint Pierre, La Reunion, France; and tenth author: PROINPA Foundation, Cochabamba, Bolivia
| | - Emmanuel Wicker
- First, third, fourth, fifth, sixth, and eleventh authors: Department of Plant Pathology, Physiology, and Weed Science, Virginia Tech, Latham Hall, Ag Quad Lane, Blacksburg, VA; second author: Biosciences, University of Exeter, Exeter, Devon, UK; seventh author: Genome Center and Department of Plant Sciences, University of California, Davis, CA 95616; eighth author: Unité de Genetique et Amelioration des Fruits et Legumes, INRA, Centre d'Avignon, Montfavet, France; ninth author: CIRAD, UMR Peuplements Vegetaux et Bioagresseurs en Milieu Tropical (PVBMT), Saint Pierre, La Reunion, France; and tenth author: PROINPA Foundation, Cochabamba, Bolivia
| | - Jose A Castillo
- First, third, fourth, fifth, sixth, and eleventh authors: Department of Plant Pathology, Physiology, and Weed Science, Virginia Tech, Latham Hall, Ag Quad Lane, Blacksburg, VA; second author: Biosciences, University of Exeter, Exeter, Devon, UK; seventh author: Genome Center and Department of Plant Sciences, University of California, Davis, CA 95616; eighth author: Unité de Genetique et Amelioration des Fruits et Legumes, INRA, Centre d'Avignon, Montfavet, France; ninth author: CIRAD, UMR Peuplements Vegetaux et Bioagresseurs en Milieu Tropical (PVBMT), Saint Pierre, La Reunion, France; and tenth author: PROINPA Foundation, Cochabamba, Bolivia
| | - Boris A Vinatzer
- First, third, fourth, fifth, sixth, and eleventh authors: Department of Plant Pathology, Physiology, and Weed Science, Virginia Tech, Latham Hall, Ag Quad Lane, Blacksburg, VA; second author: Biosciences, University of Exeter, Exeter, Devon, UK; seventh author: Genome Center and Department of Plant Sciences, University of California, Davis, CA 95616; eighth author: Unité de Genetique et Amelioration des Fruits et Legumes, INRA, Centre d'Avignon, Montfavet, France; ninth author: CIRAD, UMR Peuplements Vegetaux et Bioagresseurs en Milieu Tropical (PVBMT), Saint Pierre, La Reunion, France; and tenth author: PROINPA Foundation, Cochabamba, Bolivia
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Zuluaga AP, Solé M, Lu H, Góngora-Castillo E, Vaillancourt B, Coll N, Buell CR, Valls M. Transcriptome responses to Ralstonia solanacearum infection in the roots of the wild potato Solanum commersonii. BMC Genomics 2015; 16:246. [PMID: 25880642 PMCID: PMC4391584 DOI: 10.1186/s12864-015-1460-1] [Citation(s) in RCA: 43] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/20/2014] [Accepted: 03/09/2015] [Indexed: 12/12/2022] Open
Abstract
BACKGROUND Solanum commersonii is a wild potato species that exhibits high tolerance to both biotic and abiotic stresses and has been used as a source of genes for introgression into cultivated potato. Among the interesting features of S. commersonii is resistance to the bacterial wilt caused by Ralstonia solanacearum, one of the most devastating bacterial diseases of crops. RESULTS In this study, we used deep sequencing of S. commersonii RNA (RNA-seq) to analyze the below-ground plant transcriptional responses to R. solanacearum. While a majority of S. commersonii RNA-seq reads could be aligned to the Solanum tuberosum Group Phureja DM reference genome sequence, we identified 2,978 S. commersonii novel transcripts through assembly of unaligned S. commersonii RNA-seq reads. We also used RNA-seq to study gene expression in pathogen-challenged roots of S. commersonii accessions resistant (F118) and susceptible (F97) to the pathogen. Expression profiles obtained from read mapping to the S. tuberosum reference genome and the S. commersonii novel transcripts revealed a differential response to the pathogen in the two accessions, with 221 (F118) and 644 (F97) differentially expressed genes including S. commersonii novel transcripts in the resistant and susceptible genotypes. Interestingly, 22.6% of the F118 and 12.8% of the F97 differentially expressed genes had been previously identified as responsive to biotic stresses and half of those up-regulated in both accessions had been involved in plant pathogen responses. Finally, we compared two different methods to eliminate ribosomal RNA from the plant RNA samples in order to allow dual mapping of RNAseq reads to the host and pathogen genomes and provide insights on the advantages and limitations of each technique. CONCLUSIONS Our work catalogues the S. commersonii transcriptome and strengthens the notion that this species encodes specific genes that are differentially expressed to respond to bacterial wilt. In addition, a high proportion of S. commersonii-specific transcripts were altered by R. solanacearum only in F118 accession, while phythormone-related genes were highly induced in F97, suggesting a markedly different response to the pathogen in the two plant accessions studied.
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Affiliation(s)
- A Paola Zuluaga
- Genetics Department, Universitat de Barcelona and Centre for Research in Agricultural Genomics (CSIC-IRTA-UAB-UB) Edifici CRAG, Campus UAB, Bellaterra, 08193, Catalonia, Spain.
| | - Montserrat Solé
- Genetics Department, Universitat de Barcelona and Centre for Research in Agricultural Genomics (CSIC-IRTA-UAB-UB) Edifici CRAG, Campus UAB, Bellaterra, 08193, Catalonia, Spain.
| | - Haibin Lu
- Genetics Department, Universitat de Barcelona and Centre for Research in Agricultural Genomics (CSIC-IRTA-UAB-UB) Edifici CRAG, Campus UAB, Bellaterra, 08193, Catalonia, Spain.
| | - Elsa Góngora-Castillo
- Department of Plant Biology, Michigan State University, East Lansing, MI, 48824, USA.
| | - Brieanne Vaillancourt
- Department of Plant Biology, Michigan State University, East Lansing, MI, 48824, USA.
| | - Nuria Coll
- Genetics Department, Universitat de Barcelona and Centre for Research in Agricultural Genomics (CSIC-IRTA-UAB-UB) Edifici CRAG, Campus UAB, Bellaterra, 08193, Catalonia, Spain.
| | - C Robin Buell
- Department of Plant Biology, Michigan State University, East Lansing, MI, 48824, USA.
| | - Marc Valls
- Genetics Department, Universitat de Barcelona and Centre for Research in Agricultural Genomics (CSIC-IRTA-UAB-UB) Edifici CRAG, Campus UAB, Bellaterra, 08193, Catalonia, Spain.
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29
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Deberdt P, Guyot J, Coranson-Beaudu R, Launay J, Noreskal M, Rivière P, Vigné F, Laplace D, Lebreton L, Wicker E. Diversity of Ralstonia solanacearum in French Guiana expands knowledge of the "emerging ecotype". PHYTOPATHOLOGY 2014; 104:586-596. [PMID: 24283538 DOI: 10.1094/phyto-09-13-0264-r] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/02/2023]
Abstract
Although bacterial wilt remains a major plant disease throughout South America and the Caribbean, the diversity of prevalent Ralstonia solanacearum populations is largely unknown. The genetic and phenotypic diversity of R. solanacearum strains in French Guiana was assessed using diagnostic polymerase chain reactions and sequence-based (egl and mutS) genotyping on a 239-strain collection sampled on the families Solanaceae and Cucurbitaceae, revealing an unexpectedly high diversity. Strains were distributed within phylotypes I (46.9%), IIA (26.8%), and IIB (26.3%), with one new endoglucanase sequence type (egl ST) found within each group. Phylotype IIB strains consisted mostly (97%) of strains with the emerging ecotype (IIB/sequevar 4NPB). Host range of IIB/4NPB strains from French Guiana matched the original emerging reference strain from Martinique. They were virulent on cucumber; virulent and highly aggressive on tomato, including the resistant reference Hawaii 7996; and only controlled by eggplant SM6 and Surya accessions. The emerging ecotype IIB/4NPB is fully established in French Guiana in both cultivated fields and uncultivated forest, rendering the hypothesis of introduction via ornamental or banana cuttings unlikely. Thus, this ecotype may have originated from the Amazonian region and spread throughout the Caribbean region.
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30
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Zhi Y, Li H, Zhang H, Gang G. Identification and utility of sequence related amplified polymorphism (SRAP) markers linked to bacterial wilt resistance genes in potato. ACTA ACUST UNITED AC 2014. [DOI: 10.5897/ajb2013.13021] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/31/2022]
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31
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Cruz APZ, Ferreira V, Pianzzola MJ, Siri MI, Coll NS, Valls M. A novel, sensitive method to evaluate potato germplasm for bacterial wilt resistance using a luminescent Ralstonia solanacearum reporter strain. MOLECULAR PLANT-MICROBE INTERACTIONS : MPMI 2014; 27:277-85. [PMID: 24283938 DOI: 10.1094/mpmi-10-13-0303-fi] [Citation(s) in RCA: 33] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/19/2023]
Abstract
Several breeding programs are under way to introduce resistance to bacterial wilt caused by Ralstonia solanacearum in solanaceous crops. The lack of screening methods allowing easy measurement of pathogen colonization and the inability to detect latent (i.e., symptomless) infections are major limitations when evaluating resistance to this disease in plant germplasm. We describe a new method to study the interaction between R. solanacearum and potato germplasm that overcomes these restrictions. The R. solanacearum UY031 was genetically modified to constitutively generate light from a synthetic luxCDABE operon stably inserted in its chromosome. Colonization of this reporter strain on different potato accessions was followed using life imaging. Bacterial detection in planta by this nondisruptive system correlated with the development of wilting symptoms. In addition, we demonstrated that quantitative detection of the recombinant strain using a luminometer can identify latent infections on symptomless potato plants. We have developed a novel, unsophisticated, and accurate method for high-throughput evaluation of pathogen colonization in plant populations. We applied this method to compare the behavior of potato accessions with contrasting resistance to R. solanacearum. This new system will be especially useful to detect latency in symptomless parental lines before their inclusion in long-term breeding programs for disease resistance.
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32
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Huet G. Breeding for resistances to Ralstonia solanacearum. FRONTIERS IN PLANT SCIENCE 2014; 5:715. [PMID: 25566289 PMCID: PMC4264415 DOI: 10.3389/fpls.2014.00715] [Citation(s) in RCA: 50] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/22/2014] [Accepted: 11/27/2014] [Indexed: 05/20/2023]
Abstract
Ralstonia solanacearum is one of the most devastating bacterial plant pathogens due to its large host range, worldwide geographic distribution and persistence in fields. This soilborne pathogen is the causal agent of bacterial wilt and it can infect major agricultural crops thereby reducing significantly their yield. To favor infection, the bacterium delivers, through the type three secretion system, effectors that manipulate plant immunity. In this review, the relative efficiency of control strategies and existing resistances to R. solanacearum will be presented. Then, the genetic and molecular insights gained from the study of bacterial wilt in model plants will be described. Finally, I will explore how the knowledge gathered from unraveling avirulence and virulence mechanisms of R. solanacearum effectors could help to develop more durable resistances in crop plants toward this destructive pathogen.
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Affiliation(s)
- Gaëlle Huet
- INRA, Laboratoire des Interactions Plantes-Microorganismes, UMR441, Castanet-TolosanFrance
- CNRS, Laboratoire des Interactions Plantes-Microorganismes, UMR2594, Castanet-TolosanFrance
- *Correspondence: Gaëlle Huet, Laboratoire des Interactions Plantes Microorganismes, 24 chemin de Borde Rouge - Auzeville, CS 52627, 31326 Castanet-Tolosan, France e-mail:
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Peeters N, Guidot A, Vailleau F, Valls M. Ralstonia solanacearum, a widespread bacterial plant pathogen in the post-genomic era. MOLECULAR PLANT PATHOLOGY 2013; 14:651-62. [PMID: 23718203 PMCID: PMC6638647 DOI: 10.1111/mpp.12038] [Citation(s) in RCA: 194] [Impact Index Per Article: 17.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/19/2023]
Abstract
UNLABELLED Ralstonia solanacearum is a soil-borne bacterium causing the widespread disease known as bacterial wilt. Ralstonia solanacearum is also the causal agent of Moko disease of banana and brown rot of potato. Since the last R. solanacearum pathogen profile was published 10 years ago, studies concerning this plant pathogen have taken a genomic and post-genomic direction. This was pioneered by the first sequenced and annotated genome for a major plant bacterial pathogen and followed by many more genomes in subsequent years. All molecular features studied now have a genomic flavour. In the future, this will help in connecting the classical field of pathology and diversity studies with the gene content of specific strains. In this review, we summarize the recent research on this bacterial pathogen, including strain classification, host range, pathogenicity determinants, regulation of virulence genes, type III effector repertoire, effector-triggered immunity, plant signalling in response to R. solanacearum, as well as a review of different new pathosystems. TAXONOMY Bacteria; Proteobacteria; β subdivision; Ralstonia group; genus Ralstonia. DISEASE SYMPTOMS Ralstonia solanacearum is the agent of bacterial wilt of plants, characterized by a sudden wilt of the whole plant. Typically, stem cross-sections will ooze a slimy bacterial exudate. In the case of Moko disease of banana and brown rot of potato, there is also visible bacterial colonization of banana fruit and potato tuber. DISEASE CONTROL As a soil-borne pathogen, infected fields can rarely be reused, even after rotation with nonhost plants. The disease is controlled by the use of resistant and tolerant plant cultivars. The prevention of spread of the disease has been achieved, in some instances, by the application of strict prophylactic sanitation practices. USEFUL WEBSITES Stock centre: International Centre for Microbial Resources-French Collection for Plant-associated Bacteria CIRM-CFBP, IRHS UMR 1345 INRA-ACO-UA, 42 rue Georges Morel, 49070 Beaucouzé Cedex, France, http://www.angers-nantes.inra.fr/cfbp/. Ralstonia Genome browser: https://iant.toulouse.inra.fr/R.solanacearum. GMI1000 insertion mutant library: https://iant.toulouse.inra.fr/R.solanacearumGMI1000/GenomicResources. MaGe Genome Browser: https://www.genoscope.cns.fr/agc/microscope/mage/viewer.php?
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Affiliation(s)
- Nemo Peeters
- INRA UMR441 Laboratoire des Interactions Plantes Micro-organismes (LIPM), 24 chemin de Borde Rouge-Auzeville CS 52627, 31326, Castanet Tolosan Cedex, France
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Ben C, Debellé F, Berges H, Bellec A, Jardinaud MF, Anson P, Huguet T, Gentzbittel L, Vailleau F. MtQRRS1, an R-locus required for Medicago truncatula quantitative resistance to Ralstonia solanacearum. THE NEW PHYTOLOGIST 2013; 199:758-72. [PMID: 23638965 DOI: 10.1111/nph.12299] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/01/2013] [Accepted: 03/27/2013] [Indexed: 05/21/2023]
Abstract
Ralstonia solanacearum is a major soilborne pathogen that attacks > 200 plant species, including major crops. To characterize MtQRRS1, a major quantitative trait locus (QTL) for resistance towards this bacterium in the model legume Medicago truncatula, genetic and functional approaches were combined. QTL analyses together with disease scoring of heterogeneous inbred families were used to define the locus. The candidate region was studied by physical mapping using a bacterial artificial chromosome (BAC) library of the resistant line, and sequencing. In planta bacterial growth measurements, grafting experiments and gene expression analysis were performed to investigate the mechanisms by which this locus confers resistance to R. solanacearum. The MtQRRS1 locus was localized to the same position in two recombinant inbred line populations and was narrowed down to a 64 kb region. Comparison of parental line sequences revealed 15 candidate genes with sequence polymorphisms, but no evidence of differential gene expression upon infection. A role for the hypocotyl in resistance establishment was shown. These data indicate that the quantitative resistance to bacterial wilt conferred by MtQRRS1, which contains a cluster of seven R genes, is shared by different accessions and may act through intralocus interactions to promote resistance.
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Affiliation(s)
- Cécile Ben
- INP, UPS, Laboratoire d'Ecologie Fonctionnelle et Environnement (Ecolab), ENSAT, Université de Toulouse, Castanet Tolosan, France
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