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Valdez-Nuñez RA, Ramos-Luna LC, Meza-Catalán PP, Asencios-Sifuentes NR, Ocaña-Rodriguez AW, Chávez-Galarza JC, Sandoval-Vergara AN, Béna G. Genetic Diversity and Virulence of Phytopathogenic Burkholderia glumae Strains Isolated from Rice Cultivars in Valleys of the High Jungle of Perú. PLANT DISEASE 2024; 108:2376-2388. [PMID: 38386299 DOI: 10.1094/pdis-09-23-1823-re] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/23/2024]
Abstract
Burkholderia glumae causes bacterial leaf blight in rice, and its global spread has been exacerbated by climate change. To understand the genetic diversity and virulence of B. glumae strains isolated from rice cultivars in Perú, 47 isolates were obtained from infected rice fields, all belonging to B. glumae, and confirmed by recA and toxB sequences. The BOX-PCR typing group has 38 genomic profiles, and these turn into seven variable number tandem repeats (VNTR) haplotypes. There was no correlation between clustering and geographical origin. Nineteen strains were selected for phenotypic characterization and virulence, using both the maceration level of the onion bulb proxy and inoculation of seeds of two rice cultivars. Several strains produced pigments other than toxoflavin, which correlated with onion bulb maceration. In terms of virulence at the seed level, all strains produced inhibition at the root and coleoptile level, but the severity of symptoms varied significantly between strains, revealing significant differences in pathogenicity. There is no correlation between maceration and virulence scores, probably reflecting different virulence mechanisms depending on the host infection stage. This is the first study to evaluate the VNTR diversity and virulence of Peruvian strains of B. glumae in two commercial cultivars.
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Affiliation(s)
- Renzo A Valdez-Nuñez
- Departamento Académico de Ciencias Básicas, Facultad de Ingeniería, Universidad Nacional de Barranca, Barranca 15169, Lima, Perú
- Biotechnology Research Laboratory, Universidad Nacional de Barranca, Barranca 15169, Lima, Perú
| | - Lucero C Ramos-Luna
- Biotechnology Research Laboratory, Universidad Nacional de Barranca, Barranca 15169, Lima, Perú
| | - Patricia P Meza-Catalán
- Biotechnology Research Laboratory, Universidad Nacional de Barranca, Barranca 15169, Lima, Perú
| | | | - Angel W Ocaña-Rodriguez
- Departamento Académico de Ciencias Básicas, Facultad de Ingeniería, Universidad Nacional de Barranca, Barranca 15169, Lima, Perú
| | - Julio C Chávez-Galarza
- Departamento Académico de Ciencias Básicas, Facultad de Ingeniería, Universidad Nacional de Barranca, Barranca 15169, Lima, Perú
| | - Ana N Sandoval-Vergara
- Departamento Académico Agrosilvopastoril, Universidad Nacional de San Martín, Tarapoto, Perú
| | - Gilles Béna
- IRD, CIRAD, INRAe, Institut Agro, PHIM (Plant Health Institute of Montpellier), University of Montpellier, Montpellier, France
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Gonzales M, Kergaravat B, Jacquet P, Billot R, Grizard D, Chabrière É, Plener L, Daudé D. Disrupting quorum sensing as a strategy to inhibit bacterial virulence in human, animal, and plant pathogens. Pathog Dis 2024; 82:ftae009. [PMID: 38724459 PMCID: PMC11110857 DOI: 10.1093/femspd/ftae009] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/04/2023] [Revised: 04/18/2024] [Accepted: 05/02/2024] [Indexed: 05/23/2024] Open
Abstract
The development of sustainable alternatives to conventional antimicrobials is needed to address bacterial virulence while avoiding selecting resistant strains in a variety of fields, including human, animal, and plant health. Quorum sensing (QS), a bacterial communication system involved in noxious bacterial phenotypes such as virulence, motility, and biofilm formation, is of utmost interest. In this study, we harnessed the potential of the lactonase SsoPox to disrupt QS of human, fish, and plant pathogens. Lactonase treatment significantly alters phenotypes including biofilm formation, motility, and infection capacity. In plant pathogens, SsoPox decreased the production of plant cell wall degrading enzymes in Pectobacterium carotovorum and reduced the maceration of onions infected by Burkholderia glumae. In human pathogens, lactonase treatment significantly reduced biofilm formation in Acinetobacter baumannii, Burkholderia cepacia, and Pseudomonas aeruginosa, with the cytotoxicity of the latter being reduced by SsoPox treatment. In fish pathogens, lactonase treatment inhibited biofilm formation and bioluminescence in Vibrio harveyi and affected QS regulation in Aeromonas salmonicida. QS inhibition can thus be used to largely impact the virulence of bacterial pathogens and would constitute a global and sustainable approach for public, crop, and livestock health in line with the expectations of the One Health initiative.
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Affiliation(s)
- Mélanie Gonzales
- Aix Marseille University, MEPHI, IHU-Méditerranée Infection, 19-21 Boulevard Jean Moulin, Marseille 13005, France
- Gene&GreenTK, 19-21 Boulevard Jean Moulin, Marseille 13005, France
| | - Baptiste Kergaravat
- Aix Marseille University, MEPHI, IHU-Méditerranée Infection, 19-21 Boulevard Jean Moulin, Marseille 13005, France
- Gene&GreenTK, 19-21 Boulevard Jean Moulin, Marseille 13005, France
| | - Pauline Jacquet
- Gene&GreenTK, 19-21 Boulevard Jean Moulin, Marseille 13005, France
| | - Raphaël Billot
- Gene&GreenTK, 19-21 Boulevard Jean Moulin, Marseille 13005, France
| | - Damien Grizard
- Gene&GreenTK, 19-21 Boulevard Jean Moulin, Marseille 13005, France
| | - Éric Chabrière
- Aix Marseille University, MEPHI, IHU-Méditerranée Infection, 19-21 Boulevard Jean Moulin, Marseille 13005, France
| | - Laure Plener
- Gene&GreenTK, 19-21 Boulevard Jean Moulin, Marseille 13005, France
| | - David Daudé
- Gene&GreenTK, 19-21 Boulevard Jean Moulin, Marseille 13005, France
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Kumar S, Mondal KK, Ghoshal T, Kulshreshtha A, Sreenayana B, Lakshmi MA, Mrutyunjaya S, Rashmi ER, Kalaivanan NS, Kundu A, Mani C. Phylogenetic analysis, molecular characterization and virulence profiling based on toxoflavin gene of an Indian BG1 strain of Burkholderia glumae causing panicle blight of rice. 3 Biotech 2023; 13:239. [PMID: 37337525 PMCID: PMC10276795 DOI: 10.1007/s13205-023-03660-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/23/2023] [Accepted: 06/05/2023] [Indexed: 06/21/2023] Open
Abstract
Bacterial panicle blight (BPB) caused by Burkholderia glumae (BG) has become significantly more prevalent in the rice-growing regions of North India. Based on virulence screening and in vitro quantification of toxoflavin, the BG strains were classified as hyper- (BG1 and BG3), moderate- (BG2, BG4, BG6, BG8, and BG9), and hypo- (BG5, BG7, and BG10) virulent. Plant inoculation assays with cell-free culture filtrate revealed strains with higher toxoflavin-producing ability had higher virulence. Based on 16S rRNA sequence, 6 isolates from Uttar Pradesh were grouped in clad C1; whereas, clad C2 exhibited 4 isolates, two each from Delhi and Uttar Pradesh. Strain BG1 being the most virulent Indian strain from Uttar Pradesh was further profiled for 11 tox genes. We found all the 11 tox genes present in strain BG1. In toxRABCDE cluster, all tox genes showed high similarity to B. glumae BGR1 except toxB, whereas in toxFGHIJ cluster toxF, toxG, toxH and toxI shared maximum similarity to B. glumae 336gr-1. tox genes of BG1 exhibited homology as well as divergence with B. gladioli. The domain prediction and protein association network analysis indicated the possible involvement of tox genes in the toxoflavin biosynthesis. As per our knowledge, this is the first report in India on characterization of tox genes cluster in B. glumae. Altogether, our study unravels a reliable method for identifying and characterizing B. glumae using tox genes and its relationship with disease production. Supplementary Information The online version contains supplementary material available at 10.1007/s13205-023-03660-6.
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Affiliation(s)
- Sanjeev Kumar
- Division of Plant Pathology, ICAR, Indian Agricultural Research Institute, New Delhi, India
| | - Kalyan K. Mondal
- Division of Plant Pathology, ICAR, Indian Agricultural Research Institute, New Delhi, India
| | - Thungri Ghoshal
- Division of Plant Pathology, ICAR, Indian Agricultural Research Institute, New Delhi, India
| | - Aditya Kulshreshtha
- Division of Plant Pathology, ICAR, Indian Agricultural Research Institute, New Delhi, India
| | - B. Sreenayana
- Division of Plant Pathology, ICAR, Indian Agricultural Research Institute, New Delhi, India
| | - M. Amrutha Lakshmi
- Division of Plant Pathology, ICAR, Indian Agricultural Research Institute, New Delhi, India
| | - S. Mrutyunjaya
- Division of Plant Pathology, ICAR, Indian Agricultural Research Institute, New Delhi, India
| | - E. R. Rashmi
- Division of Plant Pathology, ICAR, Indian Agricultural Research Institute, New Delhi, India
| | - N. S. Kalaivanan
- Division of Plant Pathology, ICAR, Indian Agricultural Research Institute, New Delhi, India
| | - Aditi Kundu
- Division of Agricultural Chemicals, ICAR, Indian Agricultural Research Institute, New Delhi, India
| | - Chandra Mani
- Division of Plant Pathology, ICAR, Indian Agricultural Research Institute, New Delhi, India
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Kang M, Lim JY, Kim J, Hwang I, Goo E. Influence of genomic structural variations and nutritional conditions on the emergence of quorum sensing-dependent gene regulation defects in Burkholderia glumae. Front Microbiol 2022; 13:950600. [PMID: 35910611 PMCID: PMC9335073 DOI: 10.3389/fmicb.2022.950600] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/23/2022] [Accepted: 06/29/2022] [Indexed: 11/30/2022] Open
Abstract
Bacteria often change their genetic and physiological traits to survive in harsh environments. To determine whether, in various strains of Burkholderia glumae, genomic diversity is associated with the ability to adapt to ever-changing environments, whole genomes of 44 isolates from different hosts and regions were analyzed. Whole-genome phylogenetic analysis of the 44 isolates revealed six clusters and two divisions. While all isolates possessed chromosomes 1 and 2, strains BGR80S and BGR81S had one chromosome resulting from the merging of the two chromosomes. Upon comparison of genomic structures to the prototype BGR1, inversions, deletions, and rearrangements were found within or between chromosomes 1 and/or 2 in the other isolates. When three isolates—BGR80S, BGR15S, and BGR21S, representing clusters III, IV, and VI, respectively—were grown in Luria-Bertani medium, spontaneous null mutations were identified in qsmR encoding a quorum-sensing master regulator. Six days after subculture, qsmR mutants were found at detectable frequencies in BGR15S and BGR21S, and reached approximately 40% at 8 days after subculture. However, the qsmR mutants appeared 2 days after subculture in BGR80S and dominated the population, reaching almost 80%. No qsmR mutant was detected at detectable frequency in BGR1 or BGR13S. The spontaneous qsmR mutants outcompeted their parental strains in the co-culture. Daily addition of glucose or casamino acids to the batch cultures of BGR80S delayed emergence of qsmR mutants and significantly reduced their incidence. These results indicate that spontaneous qsmR mutations are correlated with genomic structures and nutritional conditions.
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Affiliation(s)
- Minhee Kang
- Department of Agricultural Biotechnology, Seoul National University, Seoul, South Korea
| | - Jae Yun Lim
- School of Systems Biomedical Science, Soongsil University, Seoul, South Korea
| | - Jinwoo Kim
- Department of Plant Medicine and Institute of Agriculture and Life Sciences, Gyeongsang National University, Jinju, South Korea
| | - Ingyu Hwang
- Department of Agricultural Biotechnology, Seoul National University, Seoul, South Korea
- Research Institute of Agriculture and Life Sciences, Seoul National University, Seoul, South Korea
| | - Eunhye Goo
- Department of Agricultural Biotechnology, Seoul National University, Seoul, South Korea
- Research Institute of Agriculture and Life Sciences, Seoul National University, Seoul, South Korea
- *Correspondence: Eunhye Goo,
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Jungkhun N, Gomes de Farias AR, Watcharachaiyakup J, Kositcharoenkul N, Ham JH, Patarapuwadol S. Phylogenetic Characterization and Genome Sequence Analysis of Burkholderia glumae Strains Isolated in Thailand as the Causal Agent of Rice Bacterial Panicle Blight. Pathogens 2022; 11:pathogens11060676. [PMID: 35745530 PMCID: PMC9228322 DOI: 10.3390/pathogens11060676] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/18/2022] [Revised: 06/06/2022] [Accepted: 06/09/2022] [Indexed: 11/30/2022] Open
Abstract
Burkholderia glumae is one of the most critical rice-pathogenic bacteria, and it causes bacterial panicle blight (BPB) in rice plants. In 2017, BPB symptoms were observed from rice fields in Chiang Rai, Northern Thailand. Sixty-one isolates obtained from the symptomatic panicles of rice were initially identified as B. glumae by polymerase chain reaction (PCR) using species-specific primers. Among them, six selected strains isolated from the susceptible japonica rice cultivar DOA2 were characterized in terms of morpho-physiology, pathology, phylogenetics, and genomics. Our genome sequence analysis of the six selected strains revealed the presence of multiple prophages, which may reflect the high level of diversity in this bacterial species through dynamic horizontal gene transfer processes, including phage infection. This notion was supported by the results of phylogenetic and phylogenomic analyses, which showed the formation of several subgroups not related to the years of isolation or the geographical origins. This study reports the isolation of B. glumae as the causal pathogen of BPB disease in japonica rice in Thailand and provides genomic resources to better understand the biology and diversity of this plant pathogenic bacterium. Further studies with a vast collection of B. glumae strains from various rice-growing regions around the world are needed to elucidate the evolution, variability, and lifestyle of the pathogen.
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Affiliation(s)
- Nootjarin Jungkhun
- Department of Plant Pathology, Faculty of Agriculture at Kamphaeng Saen, Kasetsart University Kamphaeng Saen Campus, Nakhon Pathom 73140, Thailand;
- Rice Department, Chiang Rai Rice Research Center, Phan, Chiang Rai 57120, Thailand
| | | | - Jutatape Watcharachaiyakup
- Center for Agricultural Biotechnology, Kasetsart University Kamphaeng Saen Campus, Nakhon Pathom 73140, Thailand;
- Center of Excellence on Agricultural Biotechnology: (AG-BIO/MHESI), Bangkok 10900, Thailand
| | - Nuttima Kositcharoenkul
- Department of Agriculture, Plant Pathology Research Group, Plant Protection Research and Development Office, Bangkok 10900, Thailand;
| | - Jong Hyun Ham
- Department of Plant Pathology and Crop Physiology, Louisiana State University Agricultural Center, Baton Rouge, LA 70803, USA;
| | - Sujin Patarapuwadol
- Department of Plant Pathology, Faculty of Agriculture at Kamphaeng Saen, Kasetsart University Kamphaeng Saen Campus, Nakhon Pathom 73140, Thailand;
- Center for Agricultural Biotechnology, Kasetsart University Kamphaeng Saen Campus, Nakhon Pathom 73140, Thailand;
- Correspondence:
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