1
|
Kim N, Vargas P, Fortuna K, Wagemans J, Rediers H. Draft Genome Sequences of 27 Rhizogenic Agrobacterium Biovar 1 Strains, the Causative Agent of Hairy Root Disease. Microbiol Resour Announc 2023; 12:e0012423. [PMID: 37098915 DOI: 10.1128/mra.00124-23] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/27/2023] Open
Abstract
Rhizogenic Agrobacterium biovar 1 strains are important plant pathogens that cause hairy root disease in Cucurbitaceae and Solanaceae crops cultivated under hydroponic conditions. In contrast to tumorigenic agrobacteria, only a few genome sequences of rhizogenic agrobacteria are currently available. Here, we report the draft genome sequences of 27 rhizogenic Agrobacterium strains.
Collapse
Affiliation(s)
- N Kim
- Laboratory for Process Microbial Ecology and Bioinspirational Management, Centre of Microbial and Plant Genetics, Leuven, Belgium
- Leuven Plant Institute, KU Leuven, Leuven, Belgium
| | - P Vargas
- Laboratory for Process Microbial Ecology and Bioinspirational Management, Centre of Microbial and Plant Genetics, Leuven, Belgium
- Leuven Plant Institute, KU Leuven, Leuven, Belgium
| | - K Fortuna
- Leuven Plant Institute, KU Leuven, Leuven, Belgium
- Laboratory of Gene Technology, Department of Biosystems, KU Leuven, Leuven, Belgium
| | - J Wagemans
- Leuven Plant Institute, KU Leuven, Leuven, Belgium
- Laboratory of Gene Technology, Department of Biosystems, KU Leuven, Leuven, Belgium
| | - H Rediers
- Laboratory for Process Microbial Ecology and Bioinspirational Management, Centre of Microbial and Plant Genetics, Leuven, Belgium
- Leuven Plant Institute, KU Leuven, Leuven, Belgium
| |
Collapse
|
2
|
Fortuna KJ, Holtappels D, Venneman J, Baeyen S, Vallino M, Verwilt P, Rediers H, De Coninck B, Maes M, Van Vaerenbergh J, Lavigne R, Wagemans J. Back to the Roots: Agrobacterium-Specific Phages Show Potential to Disinfect Nutrient Solution from Hydroponic Greenhouses. Appl Environ Microbiol 2023; 89:e0021523. [PMID: 37010433 PMCID: PMC10132094 DOI: 10.1128/aem.00215-23] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/04/2023] Open
Abstract
Agrobacterium biovar 1 is a soilborne plant pathogen with the ability to colonize the irrigation system of greenhouses, causing hairy root disease (HRD). Currently, management focuses on using hydrogen peroxide to disinfect the nutrient solution, but due to the emergence of resistant strains, its efficacy and sustainability are questioned. Using a relevant collection of pathogenic Agrobacterium biovar 1 strains, OLIVR1 to 6, six phages specific to this pathogen and belonging to three different genera were isolated from Agrobacterium biovar 1-infected greenhouses. All phages were named OLIVR, referring to their location of isolation, Onze-Lieve-Vrouwe-Waver, and were characterized by whole-genome analysis, confirming their strictly lytic lifestyle. They remained stable under greenhouse-relevant conditions. To assess the efficacy of the phages, their ability to disinfect greenhouse nutrient solution inoculated with agrobacteria was tested. Each of the phages infected their host, but their ability to decrease the bacterial concentration differed. For instance, OLIVR1 reduced the bacterial concentration with 4 log units without phage resistance emerging. While OLIVR4 and OLIVR5 were also infectious in nutrient solution, they did not always decrease the bacterial load below the limit of detection, and phage resistance emerged. Finally, the mutations causing phage resistance by receptor modification were identified. For OLIVR4-resistant Agrobacterium isolates, but not for OLIVR5-resistant isolates, motility decreased. Together, these data show the potential of some of these phages as disinfectant of nutrient solution, and they might be a valuable tool to tackle HRD. IMPORTANCE Hairy root disease, caused by rhizogenic Agrobacterium biovar 1 is a rapidly emerging bacterial disease worldwide. It affects tomatoes, cucumbers, eggplant, and bell pepper, causing high yield losses in hydroponic greenhouses. Recent findings suggest that the current management practices, mainly focusing on UV-C and hydrogen peroxide to disinfect contaminated water, have a questionable efficacy. Hence, we investigate the potential of phages as a biological means of preventing this disease. Using a diverse collection of Agrobacterium biovar 1, we isolated three different phage species that together infect 75% of the collection. Since these phages are strictly lytic, while remaining both stable and infectious under greenhouse-relevant conditions, they might be suitable candidates for biological control.
Collapse
Affiliation(s)
- K J Fortuna
- Department of Biosystems, KU Leuven, Leuven, Belgium
- Leuven Plant Institute, KU Leuven, Leuven, Belgium
| | - D Holtappels
- Department of Biosystems, KU Leuven, Leuven, Belgium
| | - J Venneman
- Flanders Research Institute for Agriculture, Fisheries and Food (ILVO), Ghent, Belgium
| | - S Baeyen
- Flanders Research Institute for Agriculture, Fisheries and Food (ILVO), Ghent, Belgium
| | - M Vallino
- Institute for Sustainable Plant Protection, National Research Council of Italy, Turin, Italy
| | - P Verwilt
- Department of Biosystems, KU Leuven, Leuven, Belgium
- Leuven Plant Institute, KU Leuven, Leuven, Belgium
| | - H Rediers
- Leuven Plant Institute, KU Leuven, Leuven, Belgium
- Laboratory for Process Microbial Ecology & Bioinspirational Management (PME&BIM), Centre of Microbial and Plant Genetics (CMPG), Leuven, Belgium
| | - B De Coninck
- Department of Biosystems, KU Leuven, Leuven, Belgium
- Leuven Plant Institute, KU Leuven, Leuven, Belgium
| | | | - J Van Vaerenbergh
- Flanders Research Institute for Agriculture, Fisheries and Food (ILVO), Ghent, Belgium
| | - R Lavigne
- Department of Biosystems, KU Leuven, Leuven, Belgium
- Leuven Plant Institute, KU Leuven, Leuven, Belgium
| | - J Wagemans
- Department of Biosystems, KU Leuven, Leuven, Belgium
- Leuven Plant Institute, KU Leuven, Leuven, Belgium
| |
Collapse
|
3
|
Bosmans L, De Bruijn I, De Mot R, Rediers H, Lievens B. Agar composition affects in vitro screening of biocontrol activity of antagonistic microorganisms. J Microbiol Methods 2016; 127:7-9. [DOI: 10.1016/j.mimet.2016.05.004] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/03/2016] [Revised: 05/06/2016] [Accepted: 05/06/2016] [Indexed: 11/25/2022]
|
4
|
Bosmans L, Van Calenberge B, Paeleman A, Moerkens R, Wittemans L, Van Kerckhove S, De Mot R, Lievens B, Rediers H. Efficacy of hydrogen peroxide treatment for control of hairy root disease caused by rhizogenic agrobacteria. J Appl Microbiol 2016; 121:519-27. [DOI: 10.1111/jam.13187] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/24/2016] [Revised: 05/18/2016] [Accepted: 05/18/2016] [Indexed: 11/29/2022]
Affiliation(s)
- L. Bosmans
- Laboratory for Process Microbial Ecology and Bioinspirational Management (PME&BIM); Department of Microbial and Molecular Systems (M S); KU Leuven; Sint-Katelijne-Waver Belgium
| | - B. Van Calenberge
- Research Station for Vegetable Production vzw; Sint-Katelijne-Waver Belgium
| | - A. Paeleman
- Scientia Terrae vzw; Sint-Katelijne-Waver Belgium
| | - R. Moerkens
- Research Centre Hoogstraten vzw; Meerle Belgium
| | - L. Wittemans
- Research Station for Vegetable Production vzw; Sint-Katelijne-Waver Belgium
| | | | - R. De Mot
- Centre of Microbial and Plant Genetics, M S; KU Leuven; Leuven Belgium
| | - B. Lievens
- Laboratory for Process Microbial Ecology and Bioinspirational Management (PME&BIM); Department of Microbial and Molecular Systems (M S); KU Leuven; Sint-Katelijne-Waver Belgium
| | - H. Rediers
- Laboratory for Process Microbial Ecology and Bioinspirational Management (PME&BIM); Department of Microbial and Molecular Systems (M S); KU Leuven; Sint-Katelijne-Waver Belgium
| |
Collapse
|
5
|
Busschaert P, Frans I, Crauwels S, Zhu B, Willems K, Bossier P, Michiels C, Verstrepen K, Lievens B, Rediers H. Comparative genome sequencing to assess the genetic diversity and virulence attributes of 15 Vibrio anguillarum isolates. J Fish Dis 2015; 38:795-807. [PMID: 25073650 DOI: 10.1111/jfd.12290] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/02/2014] [Revised: 06/14/2014] [Accepted: 06/19/2014] [Indexed: 06/03/2023]
Abstract
Vibrio anguillarum is the causative agent of vibriosis, a deadly haemorrhagic septicaemic disease affecting various marine and fresh/brackish water fish, bivalves and crustaceans. However, the diversity and virulence mechanisms of this pathogen are still insufficiently known. In this study, we aimed to increase our understanding of V. anguillarum diversity and virulence through comparative genome analysis of 15 V. anguillarum strains, obtained from different hosts or non-host niches and geographical regions, among which 10 and 5 strains were found to be virulent and avirulent, respectively, against sea bass larvae. First, the 15 draft genomes were annotated and screened for putative virulence factors, including genes encoding iron uptake systems, transport systems and non-ribosomal peptide synthetases. Second, comparative genome analysis was performed, focusing on single nucleotide polymorphisms (SNPs) and small insertions and deletions (InDels). Five V. anguillarum strains showed a remarkably high nucleotide identity. However, these strains comprise both virulent and avirulent strains towards sea bass larvae, suggesting that differences in virulence may be caused by subtle nucleotide variations. Clearly, the draft genome sequence of these 15 strains represents a starting point for further genetic research of this economically important fish pathogen.
Collapse
Affiliation(s)
- P Busschaert
- Laboratory for Process Microbial Ecology and Bioinspirational Management, Cluster for Bioengineering Technology (CBeT), Department of Microbial and Molecular Systems (M2S), KU Leuven - Campus De Nayer, Sint-Katelijne-Waver, Belgium
| | - I Frans
- Laboratory for Process Microbial Ecology and Bioinspirational Management, Cluster for Bioengineering Technology (CBeT), Department of Microbial and Molecular Systems (M2S), KU Leuven - Campus De Nayer, Sint-Katelijne-Waver, Belgium
| | - S Crauwels
- Laboratory for Process Microbial Ecology and Bioinspirational Management, Cluster for Bioengineering Technology (CBeT), Department of Microbial and Molecular Systems (M2S), KU Leuven - Campus De Nayer, Sint-Katelijne-Waver, Belgium
| | - B Zhu
- VIB Lab for Systems Biology & Centre of Microbial and Plant Genetics (CMPG), Lab for Genetics and Genomics, M2S, KU Leuven, Leuven, Belgium
| | - K Willems
- Laboratory for Process Microbial Ecology and Bioinspirational Management, Cluster for Bioengineering Technology (CBeT), Department of Microbial and Molecular Systems (M2S), KU Leuven - Campus De Nayer, Sint-Katelijne-Waver, Belgium
| | - P Bossier
- Laboratory of Aquaculture & Artemia Reference Centre, Department of Animal Production, Faculty of Bioscience Engineering, Ghent University, Ghent, Belgium
| | - C Michiels
- Centre for Food and Microbial Technology, M2S, KU Leuven, Leuven, Belgium
| | - K Verstrepen
- VIB Lab for Systems Biology & Centre of Microbial and Plant Genetics (CMPG), Lab for Genetics and Genomics, M2S, KU Leuven, Leuven, Belgium
| | - B Lievens
- Laboratory for Process Microbial Ecology and Bioinspirational Management, Cluster for Bioengineering Technology (CBeT), Department of Microbial and Molecular Systems (M2S), KU Leuven - Campus De Nayer, Sint-Katelijne-Waver, Belgium
| | - H Rediers
- Laboratory for Process Microbial Ecology and Bioinspirational Management, Cluster for Bioengineering Technology (CBeT), Department of Microbial and Molecular Systems (M2S), KU Leuven - Campus De Nayer, Sint-Katelijne-Waver, Belgium
| |
Collapse
|
6
|
Frans I, Michiels CW, Bossier P, Willems KA, Lievens B, Rediers H. Vibrio anguillarum as a fish pathogen: virulence factors, diagnosis and prevention. J Fish Dis 2011; 34:643-661. [PMID: 21838709 DOI: 10.1111/j.1365-2761.2011.01279.x] [Citation(s) in RCA: 262] [Impact Index Per Article: 20.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/31/2023]
Abstract
Vibrio anguillarum, also known as Listonella anguillarum, is the causative agent of vibriosis, a deadly haemorrhagic septicaemic disease affecting various marine and fresh/brackish water fish, bivalves and crustaceans. In both aquaculture and larviculture, this disease is responsible for severe economic losses worldwide. Because of its high morbidity and mortality rates, substantial research has been carried out to elucidate the virulence mechanisms of this pathogen and to develop rapid detection techniques and effective disease-prevention strategies. This review summarizes the current state of knowledge pertaining to V. anguillarum, focusing on pathogenesis, known virulence factors, diagnosis, prevention and treatment.
Collapse
Affiliation(s)
- I Frans
- Laboratory for Process Microbial Ecology and Bioinspirational Management, Consortium for Industrial Microbiology and Biotechnology, Department of Microbial and Molecular Systems, K.U. Leuven Association, Lessius Mechelen, Sint-Katelijne-Waver, Belgium
| | | | | | | | | | | |
Collapse
|
7
|
Vankerckhoven E, Verbessem B, Crauwels S, Declerck P, Muylaert K, Willems KA, Rediers H. Exploring the potential synergistic effects of chemical disinfectants and UV on the inactivation of free-living bacteria and treatment of biofilms in a pilot-scale system. Water Sci Technol 2011; 64:1247-1253. [PMID: 22214077 DOI: 10.2166/wst.2011.718] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/31/2023]
Abstract
The main objective of this study is to explore possible synergistic or additive effects of combinations of chemical disinfectants (sodium hypochlorite, peracetic acid, hydrogen peroxide, chlorine dioxide) and UV in their efficacy in inactivating free-living bacteria and removing biofilms. In contrast to most studies, this study examines disinfection of municipal water in a pilot-scale system using a mixed bacterial suspension, which enables a better simulation of the conditions encountered in actual industrial environments. It was shown that the combination of either hypochlorite, hydrogen peroxide, peracetic acid, or chlorine dioxide with UV yielded additive effects on the inactivation of free-living bacteria. Actual synergy was observed for the combination of UV and 5 ppm hydrogen peroxide. Regarding biofilm treatment, additive effects were observed using the combination of hydrogen peroxide and UV. The promising results obtained in this study indicate that the combination of UV and chemical disinfectants can considerably reduce the amount of chemicals required for the effective disinfection and treatment of biofilms.
Collapse
Affiliation(s)
- E Vankerckhoven
- Laboratory for Process Microbial Ecology and Bio-lnspirational Management, Consortium Industrial Microbiology and Biotechnology, Department of Microbial and Molecular Systems (M2S), Katholieke Universiteit Leuven Association, Campus De Nayer, Jan De Nayerlaan 5, B-2860 Sint-Katelijne-Waver, Belgium
| | | | | | | | | | | | | |
Collapse
|
8
|
Lambert N, Rediers H, Hulsmans A, Joris K, Declerck P, De Laedt Y, Liers S. Evaluation of ultrasound technology for the disinfection of process water and the prevention of biofilm formation in a pilot plant. Water Sci Technol 2010; 61:1089-1096. [PMID: 20220229 DOI: 10.2166/wst.2010.735] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/28/2023]
Abstract
In this study, we investigated the use of ultrasound for the disinfection of process water as an alternative for more traditional techniques, like chlorination and UV-irradiation. A pilot plant was constructed to mimic circulating process water in industrial environments. The disinfection efficiency of ultrasound was assessed and compared to UV-treatment and chlorination. In addition, the operational costs for the different technologies were evaluated. Based on disinfection efficiency and operational costs, the pilot plant experiments indicate that chlorination is the method of preference to treat bacteria in suspension. In the prevention of biofilm formation, the results of UV irradiation and ultrasound are comparable, with a slightly higher energy consumption for the ultrasonic treatment. Finally, the use of ultrasound to prevent biofilms was also evaluated in an industrial environment (case study). The results obtained from the case study are in agreement with the results obtained from the pilot plant study. To our knowledge, this is the first study that evaluates the use of ultrasound technology for prevention of biofilm formation in realistic circumstances as encountered in an industrial environment.
Collapse
Affiliation(s)
- N Lambert
- Laboratory for Environmental and Chemical Process Technology - Department of Chemical Engineering, Catholic University Leuven Association, Campus De Nayer, B-2860 Sint-Katelijne-Waver, Belgium.
| | | | | | | | | | | | | |
Collapse
|