51
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Adeniji AA, Loots DT, Babalola OO. Bacillus velezensis: phylogeny, useful applications, and avenues for exploitation. Appl Microbiol Biotechnol 2019; 103:3669-3682. [PMID: 30911788 DOI: 10.1007/s00253-019-09710-5] [Citation(s) in RCA: 62] [Impact Index Per Article: 12.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/25/2018] [Revised: 02/21/2019] [Accepted: 02/22/2019] [Indexed: 02/06/2023]
Abstract
Some members of the Bacillus velezensis (Bv) group (e.g., Bv FZB42T and AS3.43) were previously assigned grouping with B. subtilis and B. amyloliquefaciens, based on the fact that they shared a 99% DNA-DNA percentage phylogenetic similarity. However, hinging on current assessments of the pan-genomic reassignments, the differing phylogenomic characteristics of Bv from B. subtilis and B. amyloliquefaciens are now better understood. Within this re-grouping/reassignment, the various strains within the Bv share a close phylogenomic resemblance, and a number of these strains have received a lot of attention in recent years, due to their genomic robustness, and the growing evidence for their possible utilization in the agricultural industry for managing plant diseases. Only a few applications for their use medicinally/pharmaceutically, environmentally, and in the food industry have been reported, and this may be due to the fact that the majority of those strains investigated are those typically occurring in soil. Although the intracellular unique biomolecules of Bv strains have been revealed via in silico genome modeling and investigated using transcriptomics and proteomics, a further inquisition into the Bv metabolome using newer technologies such as metabolomics could elucidate additional applications of this economically relevant Bacillus species, beyond that of primarily the agricultural sector.
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Affiliation(s)
- Adetomiwa Ayodele Adeniji
- Faculty of Natural and Agricultural Science, North-West University, Food Security and Safety, Private Bag X2046, Mmabatho, 2735, South Africa.,Faculty of Natural and Agricultural Science, North-West University, Human Metabolomics Private Bag X6001, Box 269, Potchefstroom, 2531, South Africa
| | - Du Toit Loots
- Faculty of Natural and Agricultural Science, North-West University, Human Metabolomics Private Bag X6001, Box 269, Potchefstroom, 2531, South Africa
| | - Olubukola Oluranti Babalola
- Faculty of Natural and Agricultural Science, North-West University, Food Security and Safety, Private Bag X2046, Mmabatho, 2735, South Africa.
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52
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Rabbee MF, Ali MS, Choi J, Hwang BS, Jeong SC, Baek KH. Bacillus velezensis: A Valuable Member of Bioactive Molecules within Plant Microbiomes. Molecules 2019; 24:molecules24061046. [PMID: 30884857 PMCID: PMC6470737 DOI: 10.3390/molecules24061046] [Citation(s) in RCA: 163] [Impact Index Per Article: 32.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/19/2019] [Revised: 03/08/2019] [Accepted: 03/12/2019] [Indexed: 11/16/2022] Open
Abstract
Bacillus velezensis is an aerobic, gram-positive, endospore-forming bacterium that promotes plant growth. Numerous strains of this species have been reported to suppress the growth of microbial pathogens, including bacteria, fungi, and nematodes. Based on recent phylogenetic analysis, several Bacillus species have been reclassified as B. velezensis. However, this information has yet to be integrated into a well-organized resource. Genomic analysis has revealed that B. velezensis possesses strain-specific clusters of genes related to the biosynthesis of secondary metabolites, which play significant roles in both pathogen suppression and plant growth promotion. More specifically, B. velezensis exhibits a high genetic capacity for synthesizing cyclic lipopeptides (i.e., surfactin, bacillomycin-D, fengycin, and bacillibactin) and polyketides (i.e., macrolactin, bacillaene, and difficidin). Secondary metabolites produced by B. velezensis can also trigger induced systemic resistance in plants, a process by which plants defend themselves against recurrent attacks by virulent microorganisms. This is the first study to integrate previously published information about the Bacillus species, newly reclassified as B. velezensis, and their beneficial metabolites (i.e., siderophore, bacteriocins, and volatile organic compounds).
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Affiliation(s)
- Muhammad Fazle Rabbee
- Department of Biotechnology, Yeungnam University, Gyeongsan 38541, Gyeongbuk, Korea.
| | - Md Sarafat Ali
- Department of Biotechnology, Yeungnam University, Gyeongsan 38541, Gyeongbuk, Korea.
| | - Jinhee Choi
- Department of Biotechnology, Yeungnam University, Gyeongsan 38541, Gyeongbuk, Korea.
| | - Buyng Su Hwang
- Nakdonggang National Institute of Biological Resources, Sangju 37242, Gyeongbuk, Korea.
| | - Sang Chul Jeong
- Nakdonggang National Institute of Biological Resources, Sangju 37242, Gyeongbuk, Korea.
| | - Kwang-Hyun Baek
- Department of Biotechnology, Yeungnam University, Gyeongsan 38541, Gyeongbuk, Korea.
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53
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Posada LF, Álvarez J, Romero-Tabarez M, de-Bashan L, Villegas-Escobar V. Enhanced molecular visualization of root colonization and growth promotion by Bacillus subtilis EA-CB0575 in different growth systems. Microbiol Res 2018; 217:69-80. [DOI: 10.1016/j.micres.2018.08.017] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/23/2018] [Revised: 08/08/2018] [Accepted: 08/10/2018] [Indexed: 11/26/2022]
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54
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Jeong SY, Jeong DY, Kim DS, Park S. Chungkookjang with High Contents of Poly-γ-Glutamic Acid Improves Insulin Sensitizing Activity in Adipocytes and Neuronal Cells. Nutrients 2018; 10:E1588. [PMID: 30380669 PMCID: PMC6266770 DOI: 10.3390/nu10111588] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/24/2018] [Revised: 10/20/2018] [Accepted: 10/26/2018] [Indexed: 12/20/2022] Open
Abstract
We hypothesized that soybeans fermented with Bacillus spp. for 48 h (chungkookjang) would be rich in poly-γ-glutamate (γ-PGA) and would have greater efficacy for improving insulin sensitivity and insulin secretion in 3T3-L1 adipocytes, min6 cells, and PC12 neuronal cells. We screened 20 different strains of B. subtillus and B. amyloliquefaciens spp. for γ-polyglutamate (PGA) production and their anti-diabetic and anti-dementia activities in cell-based studies. Chungkookjang made with two B. amyloliquefaciens spp. (BA730 and BA731) were selected to increase the isoflavonoid and γ-PGA. Insulin-stimulated glucose uptake was higher in 3T3-L1 adipocytes given both chungkookjang extracts than in the cells given vehicle (control). The ethanol extract of BA731 (BA731-E) increased the uptake the most. Triglyceride accumulation decreased in BA731-E and BA731-W and the accumulation increased in BA730-W and BA730-E. The mRNA expression of fatty acid synthetase and acetyl CoA carboxylase was much lower in BA731-E and BA731-W and it was higher in BA730-W than the control. BA730-E and BA730-W also increased peroxisome proliferator-activated receptor (PPAR)-γ activity. Glucose-stimulated insulin secretion increased with the high dosage of BA730-W and BA730-E in insulinoma cells, compared to the control. Insulin contents and cell survival in high glucose media were higher in cells with both BA731-E and BA730-E. Triglyceride deposition and TNF-α mRNA expression were lower in BA731 than the control. The high-dosage treatment of BA730-E and BA731-E increased differentiated neuronal cell survival after treating amyloid-β(25-35) compared to the control. Brain-derived neurotrophic factor and ciliary neurotrophic factor, indices of neuronal cell proliferation, were higher in BA730 and BA731 than in the control. Tau expression was also reduced in BA731 more than the control and it was a similar level of the normal-control. In conclusion, BA730 increased PPAR-γ activity and BA731 enhanced insulin sensitivity in the brain and periphery. BA730 and BA731 prevented and alleviated the symptoms of type 2 diabetes and Alzheimer's disease with different pathways.
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Affiliation(s)
- Seong-Yeop Jeong
- Department of R & D, Sunchang Research Center for Fermentation Microbes, Sunchang-Gun, Sunchang-yup 56048, Korea.
| | - Do Yeon Jeong
- Department of R & D, Sunchang Research Center for Fermentation Microbes, Sunchang-Gun, Sunchang-yup 56048, Korea.
| | - Da Sol Kim
- Department of Food and Nutrition, Obesity/Diabetes Research Center, Hoseo University, Asan 31499, Korea.
| | - Sunmin Park
- Department of Food and Nutrition, Obesity/Diabetes Research Center, Hoseo University, Asan 31499, Korea.
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55
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Kulimushi PZ, Basime GC, Nachigera GM, Thonart P, Ongena M. Efficacy of Bacillus amyloliquefaciens as biocontrol agent to fight fungal diseases of maize under tropical climates: from lab to field assays in south Kivu. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2018; 25:29808-29821. [PMID: 28600796 DOI: 10.1007/s11356-017-9314-9] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/13/2017] [Accepted: 05/18/2017] [Indexed: 06/07/2023]
Abstract
In the province of South Kivu (Democratic Republic of Congo), warm and humid climatic conditions favor the development and spreading of phytopathogens. The resulting diseases cause important losses in production both in crop and after harvest. In this study, we wanted to evaluate the potential of Bacillus amyloliquefaciens as biocontrol agent to fight some newly isolated endemic fungal pathogens infesting maize. The strain S499 has been selected based on its high in vitro antagonistic activity correlating with a huge potential to secrete fungitoxic lipopeptides upon feeding on maize root exudates. Biocontrol activity of S499 was further tested on infected plantlets in growth chamber and on plants grown under field conditions over an entire cropping period. We observed a strong protective effect of this strain evaluated at two different locations with specific agro-ecological conditions. Interestingly, disease protection was associated with higher yields and our data strongly suggest that, in addition to directly inhibit pathogens, the strain may also act as biofertilizer through the solubilization of phosphorus and/or by producing plant growth hormones in the rhizosphere. This work supports the hope of exploiting such technologically advantageous bacilli for the sake of sustainable local production of this important crop in central Africa.
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Affiliation(s)
- Parent Zihalirwa Kulimushi
- Microbial Processes and Interactions Laboratory, Faculty Gembloux Agro-BioTech, University of Liège, Passage des Déportés 2, 5030, Gembloux, Belgium
- Laboratory of Biotechnology and Molecular Biology, Faculty of Agricultural and Environmental Sciences, Université Evangélique en Afrique, 3323, Bukavu, Democratic Republic of the Congo
| | - Géant Chuma Basime
- Laboratory of Ecophysiology and Plants Nutrition, Faculty of Agricultural and Environmental Sciences, Université Evangélique en Afrique, 3323, Bukavu, Democratic Republic of the Congo
| | - Gustave Mushagalusa Nachigera
- Laboratory of Ecophysiology and Plants Nutrition, Faculty of Agricultural and Environmental Sciences, Université Evangélique en Afrique, 3323, Bukavu, Democratic Republic of the Congo
| | - Philippe Thonart
- Microbial Processes and Interactions Laboratory, Faculty Gembloux Agro-BioTech, University of Liège, Passage des Déportés 2, 5030, Gembloux, Belgium
| | - Marc Ongena
- Microbial Processes and Interactions Laboratory, Faculty Gembloux Agro-BioTech, University of Liège, Passage des Déportés 2, 5030, Gembloux, Belgium.
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56
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Caselli E, Brusaferro S, Coccagna M, Arnoldo L, Berloco F, Antonioli P, Tarricone R, Pelissero G, Nola S, La Fauci V, Conte A, Tognon L, Villone G, Trua N, Mazzacane S. Reducing healthcare-associated infections incidence by a probiotic-based sanitation system: A multicentre, prospective, intervention study. PLoS One 2018; 13:e0199616. [PMID: 30001345 PMCID: PMC6042698 DOI: 10.1371/journal.pone.0199616] [Citation(s) in RCA: 54] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/08/2018] [Accepted: 06/11/2018] [Indexed: 01/05/2023] Open
Abstract
Healthcare Associated Infections (HAI) are a global concern, further threatened by the increasing drug resistance of HAI-associated pathogens. On the other hand, persistent contamination of hospital surfaces contributes to HAI transmission, and it is not efficiently controlled by conventional cleaning, which does not prevent recontamination, has a high environmental impact and can favour selection of drug-resistant microbial strains. In the search for effective approaches, an eco-sustainable probiotic-based cleaning system (Probiotic Cleaning Hygiene System, PCHS) was recently shown to stably abate surface pathogens, without selecting antibiotic-resistant species. The aim of this study was to determine whether PCHS application could impact on HAI incidence. A multicentre, pre-post interventional study was performed for 18 months in the Internal Medicine wards of six Italian public hospitals (January 1st 2016-June 30th 2017). The intervention consisted of the substitution of conventional sanitation with PCHS, maintaining unaltered any other procedure influencing HAI control. HAI incidence in the pre and post-intervention period was the main outcome measure. Surface bioburden was also analyzed in parallel. Globally, 11,842 patients and 24,875 environmental samples were surveyed. PCHS was associated with a significant decrease of HAI cumulative incidence from a global 4.8% (284 patients with HAI over 5,930 total patients) to 2.3% (128 patients with HAI over 5,531 total patients) (OR = 0.44, CI 95% 0.35-0.54) (P<0.0001). Concurrently, PCHS was associated with a stable decrease of surface pathogens, compared to conventional sanitation (mean decrease 83%, range 70-96.3%), accompanied by a concurrent up to 2 Log drop of surface microbiota drug-resistance genes (P<0.0001; Pc = 0.008). Our study provides findings which support the impact of a sanitation procedure on HAI incidence, showing that the use of a probiotic-based environmental intervention can be associated with a significant decrease of the risk to contract a HAI during hospitalization. Once confirmed in larger experiences and other target populations, this eco-sustainable approach might be considered as a part of infection control and prevention (IPC) strategies. Trial registration-ISRCTN International Clinical Trials Registry, ISRCTN58986947.
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Affiliation(s)
- Elisabetta Caselli
- Section of Microbiology and Medical Genetics, Department of Medical Sciences, University of Ferrara, Ferrara, Italy
- CIAS Interdepartmental Research Centre, Departments of Medical Sciences and Architecture, University of Ferrara, Ferrara, Italy
- * E-mail:
| | | | - Maddalena Coccagna
- CIAS Interdepartmental Research Centre, Departments of Medical Sciences and Architecture, University of Ferrara, Ferrara, Italy
| | - Luca Arnoldo
- Department of Medicine, University of Udine, Udine, Italy
| | - Filippo Berloco
- Fondazione Policlinico Universitario Agostino Gemelli, Roma, Italy
| | - Paola Antonioli
- Department of Infection Prevention Control and Risk Management, S. Anna University Hospital, Ferrara, Italy
| | - Rosanna Tarricone
- Centre for Research on Health and Social Care Management (CERGAS), Department of Policy Analysis and Public Management, Bocconi University, Milan, Italy
| | - Gabriele Pelissero
- Department of Public Health, Experimental and Forensic Medicine, University of Pavia, Pavia, Italy
| | | | - Vincenza La Fauci
- Department of Biomedical Sciences and Dental and Functional Images, University of Messina, Messina, Italy
| | | | - Lorenzo Tognon
- Ospedale di Santa Maria del Prato, Feltre (Belluno), Italy
| | - Giovanni Villone
- Azienda Ospedaliera Universitaria Ospedali Riuniti di Foggia, Foggia, Italy
| | - Nelso Trua
- Ospedale Sant’Antonio Abate, Tolmezzo (Udine), Italy
| | - Sante Mazzacane
- CIAS Interdepartmental Research Centre, Departments of Medical Sciences and Architecture, University of Ferrara, Ferrara, Italy
| | - for the SAN-ICA Study Group
- Section of Microbiology and Medical Genetics, Department of Medical Sciences, University of Ferrara, Ferrara, Italy
- CIAS Interdepartmental Research Centre, Departments of Medical Sciences and Architecture, University of Ferrara, Ferrara, Italy
- Department of Medicine, University of Udine, Udine, Italy
- Fondazione Policlinico Universitario Agostino Gemelli, Roma, Italy
- Department of Infection Prevention Control and Risk Management, S. Anna University Hospital, Ferrara, Italy
- Centre for Research on Health and Social Care Management (CERGAS), Department of Policy Analysis and Public Management, Bocconi University, Milan, Italy
- Department of Public Health, Experimental and Forensic Medicine, University of Pavia, Pavia, Italy
- Azienda USL di Ferrara, Ferrara, Italy
- Department of Biomedical Sciences and Dental and Functional Images, University of Messina, Messina, Italy
- Ospedale di Santa Maria del Prato, Feltre (Belluno), Italy
- Azienda Ospedaliera Universitaria Ospedali Riuniti di Foggia, Foggia, Italy
- Ospedale Sant’Antonio Abate, Tolmezzo (Udine), Italy
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57
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Wang TT, Ding P, Chen P, Xing K, Bai JL, Wan W, Jiang JH, Qin S. Complete genome sequence of endophyte Bacillus flexus KLBMP 4941 reveals its plant growth promotion mechanism and genetic basis for salt tolerance. J Biotechnol 2017; 260:38-41. [DOI: 10.1016/j.jbiotec.2017.09.001] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/20/2017] [Revised: 09/01/2017] [Accepted: 09/02/2017] [Indexed: 12/16/2022]
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58
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Belbahri L, Chenari Bouket A, Rekik I, Alenezi FN, Vallat A, Luptakova L, Petrovova E, Oszako T, Cherrad S, Vacher S, Rateb ME. Comparative Genomics of Bacillus amyloliquefaciens Strains Reveals a Core Genome with Traits for Habitat Adaptation and a Secondary Metabolites Rich Accessory Genome. Front Microbiol 2017; 8:1438. [PMID: 28824571 PMCID: PMC5541019 DOI: 10.3389/fmicb.2017.01438] [Citation(s) in RCA: 50] [Impact Index Per Article: 7.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/20/2017] [Accepted: 07/17/2017] [Indexed: 12/04/2022] Open
Abstract
The Gram positive, non-pathogenic endospore-forming soil inhabiting prokaryote Bacillus amyloliquefaciens is a plant growth-promoting rhizobacterium. Bacillus amyloliquefaciens processes wide biocontrol abilities and numerous strains have been reported to suppress diverse bacterial, fungal and fungal-like pathogens. Knowledge about strain level biocontrol abilities is warranted to translate this knowledge into developing more efficient biocontrol agents and bio-fertilizers. Ever-expanding genome studies of B. amyloliquefaciens are showing tremendous increase in strain-specific new secondary metabolite clusters which play key roles in the suppression of pathogens and plant growth promotion. In this report, we have used genome mining of all sequenced B. amyloliquefaciens genomes to highlight species boundaries, the diverse strategies used by different strains to promote plant growth and the diversity of their secondary metabolites. Genome composition of the targeted strains suggest regions of genomic plasticity that shape the structure and function of these genomes and govern strain adaptation to different niches. Our results indicated that B. amyloliquefaciens: (i) suffer taxonomic imprecision that blurs the debate over inter-strain genome diversity and dynamics, (ii) have diverse strategies to promote plant growth and development, (iii) have an unlocked, yet to be delimited impressive arsenal of secondary metabolites and products, (iv) have large number of so-called orphan gene clusters, i.e., biosynthetic clusters for which the corresponding metabolites are yet unknown, and (v) have a dynamic pan genome with a secondary metabolite rich accessory genome.
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Affiliation(s)
- Lassaad Belbahri
- Laboratory of Soil Biology, University of NeuchatelNeuchatel, Switzerland.,NextBiotechAgareb, Tunisia
| | - Ali Chenari Bouket
- NextBiotechAgareb, Tunisia.,Graduate School of Life and Environmental Sciences, Osaka Prefecture UniversitySakai, Japan.,Young Researchers and Elite Club, Tabriz Branch, Islamic Azad UniversityTabriz, Iran
| | | | | | - Armelle Vallat
- Neuchâtel Platform of Analytical Chemistry, Institute of Chemistry, University of NeuchâtelNeuchâtel, Switzerland
| | - Lenka Luptakova
- NextBiotechAgareb, Tunisia.,Department of Biology and Genetics, Institute of Biology, Zoology and Radiobiology, University of Veterinary Medicine and PharmacyKosice, Slovakia
| | - Eva Petrovova
- Institute of Anatomy, University of Veterinary Medicine and PharmacyKosice, Slovakia
| | | | | | | | - Mostafa E Rateb
- School of Science and Sport, University of the West of ScotlandPaisley, United Kingdom
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59
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Gao T, Li Y, Ding M, Chai Y, Wang Q. The phosphotransferase system gene ptsI in Bacillus cereus regulates expression of sodA2 and contributes to colonization of wheat roots. Res Microbiol 2017; 168:524-535. [PMID: 28478075 DOI: 10.1016/j.resmic.2017.04.003] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/20/2016] [Revised: 04/01/2017] [Accepted: 04/04/2017] [Indexed: 12/21/2022]
Abstract
Plant growth-promoting rhizobacteria effectively enhance plant growth and root colonization by the bacteria is a prerequisite during the process. Bacillus cereus 905, a rhizosphere bacterium originally isolated from wheat roots, colonizes the wheat rhizosphere with a large population size. We previously showed that a manganese-containing superoxide dismutase (MnSOD2), encoded by the sodA2 gene, plays an important role in colonization of the wheat rhizosphere by B. cereus 905. In this study, we identified a gene, ptsI, which positively regulates transcription of sodA2. ptsI encodes Enzyme I of the phosphotransferase system (PTS), a major regulator of carbohydrate uptake in bacteria. Assays of β-galactosidase activity and real-time quantitative PCR showed that loss of ptsI caused a 70% reduction in sodA2 expression. The ΔptsI mutant also showed a 1000-fold reduction in colonization of wheat roots, as well as a reduced growth rate in minimal media with either glucose or succinate as the sole carbon source. Artificial induction of sodA2 in the ΔptsI mutant partially restored root colonizing ability and utilization of succinate, but not glucose. These results suggest that the PTS plays an important role in rhizosphere colonization by both promoting nutrient utilization and regulating sodA2 expression in B. cereus 905.
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Affiliation(s)
- Tantan Gao
- Department of Plant Pathology, College of Plant Protection, China Agricultural University, Beijing 100193, China; Department of Biology, Northeastern University, 360 Huntington Avenue, Boston, MA 02215, USA
| | - Yan Li
- Department of Plant Pathology, College of Plant Protection, China Agricultural University, Beijing 100193, China
| | - Mingzheng Ding
- Department of Plant Pathology, College of Plant Protection, China Agricultural University, Beijing 100193, China
| | - Yunrong Chai
- Department of Biology, Northeastern University, 360 Huntington Avenue, Boston, MA 02215, USA.
| | - Qi Wang
- Department of Plant Pathology, College of Plant Protection, China Agricultural University, Beijing 100193, China.
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60
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Whole-genome sequencing of Bacillus velezensis LS69, a strain with a broad inhibitory spectrum against pathogenic bacteria. J Biotechnol 2017; 249:20-24. [PMID: 28323017 DOI: 10.1016/j.jbiotec.2017.03.018] [Citation(s) in RCA: 41] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/14/2016] [Revised: 03/14/2017] [Accepted: 03/14/2017] [Indexed: 11/21/2022]
Abstract
Bacillus velezensis LS69 was found to exhibit antagonistic activity against a diverse spectrum of pathogenic bacteria. It has one circular chromosome of 3,917,761bp with 3,643 open reading frames. Genome analysis identified ten gene clusters involved in nonribosomal synthesis of polyketides (macrolactin, bacillaene and difficidin), lipopeptides (surfactin, fengycin, bacilysin and iturin A) and bacteriocins (amylolysin and amylocyclicin). In addition, B. velezensis LS69 was found to contain a series of genes involved in enhancing plant growth and triggering plant immunity. Whole genome sequencing of Bacillus velezensis LS69 will provide a basis for elucidation of its biocontrol mechanisms and facilitate its applications in the future.
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61
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Fan B, Blom J, Klenk HP, Borriss R. Bacillus amyloliquefaciens, Bacillus velezensis, and Bacillus siamensis Form an "Operational Group B. amyloliquefaciens" within the B. subtilis Species Complex. Front Microbiol 2017; 8:22. [PMID: 28163698 PMCID: PMC5247444 DOI: 10.3389/fmicb.2017.00022] [Citation(s) in RCA: 192] [Impact Index Per Article: 27.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/19/2016] [Accepted: 01/04/2017] [Indexed: 11/13/2022] Open
Abstract
The plant growth promoting model bacterium FZB42T was proposed as the type strain of Bacillus amyloliquefaciens subsp. plantarum (Borriss et al., 2011), but has been recently recognized as being synonymous to Bacillus velezensis due to phylogenomic analysis (Dunlap C. et al., 2016). However, until now, majority of publications consider plant-associated close relatives of FZB42 still as "B. amyloliquefaciens." Here, we reinvestigated the taxonomic status of FZB42 and related strains in its context to the free-living soil bacterium DSM7T, the type strain of B. amyloliquefaciens. We identified 66 bacterial genomes from the NCBI data bank with high similarity to DSM7T. Dendrograms based on complete rpoB nucleotide sequences and on core genome sequences, respectively, clustered into a clade consisting of three tightly linked branches: (1) B. amyloliquefaciens, (2) Bacillus siamensis, and (3) a conspecific group containing the type strains of B. velezensis, Bacillus methylotrophicus, and B. amyloliquefaciens subsp. plantarum. The three monophyletic clades shared a common mutation rate of 0.01 substitutions per nucleotide position, but were distantly related to Bacillus subtilis (0.1 substitutions per nucleotide position). The tight relatedness of the three clusters was corroborated by TETRA, dDDH, ANI, and AAI analysis of the core genomes, but dDDH and ANI values were found slightly below species level thresholds when B. amyloliquefaciens DSM7T genome sequence was used as query sequence. Due to these results, we propose that the B. amyloliquefaciens clade should be considered as a taxonomic unit above of species level, designated here as "operational group B. amyloliquefaciens" consisting of the soil borne B. amyloliquefaciens, and plant associated B. siamensis and B. velezensis, whose members are closely related and allow identifying changes on the genomic level due to developing the plant-associated life-style.
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Affiliation(s)
- Ben Fan
- Co-Innovation Center for Sustainable Forestry in Southern China, College of Forestry, Nanjing Forestry University Nanjing, China
| | - Jochen Blom
- Bioinformatics and Systems Biology, Justus-Liebig-Universität Giessen Giessen, Germany
| | | | - Rainer Borriss
- Fachgebiet Phytomedizin, Institut für Agrar- und Gartenbauwissenschaften, Humboldt Universität zu BerlinBerlin, Germany; Nord Reet UGGreifswald, Germany
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62
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Tahir HAS, Gu Q, Wu H, Niu Y, Huo R, Gao X. Bacillus volatiles adversely affect the physiology and ultra-structure of Ralstonia solanacearum and induce systemic resistance in tobacco against bacterial wilt. Sci Rep 2017; 7:40481. [PMID: 28091587 PMCID: PMC5238454 DOI: 10.1038/srep40481] [Citation(s) in RCA: 130] [Impact Index Per Article: 18.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/08/2016] [Accepted: 12/06/2016] [Indexed: 01/23/2023] Open
Abstract
Volatile organic compounds (VOCs) produced by various bacteria have significant potential to enhance plant growth and to control phytopathogens. Six of the most effective antagonistic Bacillus spp. were used in this study against Ralstonia solanacearum (Rsc) TBBS1, the causal agent of bacterial wilt disease in tobacco. Bacillus amyloliquefaciens FZB42 and Bacillus artrophaeus LSSC22 had the strongest inhibitory effect against Rsc. Thirteen VOCs produced by FZB42 and 10 by LSSC22 were identified using gas chromatography-mass spectrometry analysis. Benzaldehyde, 1,2-benzisothiazol-3(2 H)-one and 1,3-butadiene significantly inhibited the colony size, cell viability, and motility of pathogens and negatively influenced chemotaxis. Transmission and scanning electron microscopy revealed severe morphological and ultra-structural changes in cells of Rsc. Furthermore, VOCs altered the transcriptional expression level of PhcA (a global virulence regulator), type III secretion system (T3SS), type IV secretion system (T4SS), extracellular polysaccharides and chemotaxis-related genes, which are major contributors to pathogenicity, resulting in decreased wilt disease. The VOCs significantly up-regulated the expression of genes related to wilt resistance and pathogen defense. Over-expression of EDS1 and NPR1 suggest the involvement of SA pathway in induction of systemic resistance. Our findings provide new insights regarding the potential of antibacterial VOCs as a biocontrol tool against bacterial wilt diseases.
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Affiliation(s)
- Hafiz Abdul Samad Tahir
- Department of Plant Pathology, College of Plant Protection, Nanjing Agricultural University, Key Laboratory of Integrated Management of Crop Diseases and Pests, Ministry of Education, Nanjing 210095, PR China
| | - Qin Gu
- Department of Plant Pathology, College of Plant Protection, Nanjing Agricultural University, Key Laboratory of Integrated Management of Crop Diseases and Pests, Ministry of Education, Nanjing 210095, PR China
| | - Huijun Wu
- Department of Plant Pathology, College of Plant Protection, Nanjing Agricultural University, Key Laboratory of Integrated Management of Crop Diseases and Pests, Ministry of Education, Nanjing 210095, PR China
| | - Yuedi Niu
- Department of Plant Pathology, College of Plant Protection, Nanjing Agricultural University, Key Laboratory of Integrated Management of Crop Diseases and Pests, Ministry of Education, Nanjing 210095, PR China
| | - Rong Huo
- Department of Plant Pathology, College of Plant Protection, Nanjing Agricultural University, Key Laboratory of Integrated Management of Crop Diseases and Pests, Ministry of Education, Nanjing 210095, PR China
| | - Xuewen Gao
- Department of Plant Pathology, College of Plant Protection, Nanjing Agricultural University, Key Laboratory of Integrated Management of Crop Diseases and Pests, Ministry of Education, Nanjing 210095, PR China
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63
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Mardanova AM, Fanisovna Hadieva G, Tafkilevich Lutfullin M, Valer’evna Khilyas I, Farvazovna Minnullina L, Gadelevna Gilyazeva A, Mikhailovna Bogomolnaya L, Rashidovna Sharipova M. <i>Bacillus subtilis Strains</i> with Antifungal Activity against the Phytopathogenic Fungi. ACTA ACUST UNITED AC 2017. [DOI: 10.4236/as.2017.81001] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
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64
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Paterson J, Jahanshah G, Li Y, Wang Q, Mehnaz S, Gross H. The contribution of genome mining strategies to the understanding of active principles of PGPR strains. FEMS Microbiol Ecol 2016; 93:fiw249. [PMID: 27986826 DOI: 10.1093/femsec/fiw249] [Citation(s) in RCA: 42] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Revised: 08/11/2016] [Accepted: 12/14/2016] [Indexed: 12/22/2022] Open
Abstract
Pathogenic microorganisms and insects affecting plant health are a major and chronic threat to food production and the ecosystem worldwide. As agricultural production has intensified over the years, the use of agrochemicals has in turn increased. However, this extensive usage has had several detrimental effects, with a pervasive environmental impact and the emergence of pathogen resistance. In addition, there is an increasing tendency among consumers to give preference to pesticide-free food products. Biological control, through the employment of plant growth-promoting rhizobacteria (PGPR), is therefore considered a possible route to the reduction, even the elimination, of the use of agrochemicals. PGPR exert their beneficial influence by a multitude of mechanisms, often involving antibiotics and proteins, to defend the host plant against pathogens. To date, these key metabolites have been uncovered only by systematic investigation or by serendipity; their discovery has nevertheless been propelled by the genomic revolution of recent years, as increasing numbers of genomic studies have been integrated into this field, facilitating a holistic view of this topic and the rapid identification of ecologically important metabolites. This review surveys the highlights and advances of genome-driven compound and protein discovery in the field of bacterial PGPR strains, and aims to advocate for the benefits of this strategy.
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Affiliation(s)
- Julia Paterson
- Department of Pharmaceutical Biology, Pharmaceutical Institute, University of Tübingen, 72076 Tübingen, Germany
| | - Ghazaleh Jahanshah
- Department of Pharmaceutical Biology, Pharmaceutical Institute, University of Tübingen, 72076 Tübingen, Germany
| | - Yan Li
- Department of Plant Pathology, China Agricultural University, Beijing 100193, P. R. China
| | - Qi Wang
- Department of Plant Pathology, China Agricultural University, Beijing 100193, P. R. China
| | - Samina Mehnaz
- Department of Biological Sciences, Forman Christian College University, Lahore 54600, Pakistan
| | - Harald Gross
- Department of Pharmaceutical Biology, Pharmaceutical Institute, University of Tübingen, 72076 Tübingen, Germany
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65
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Kim SY, Lee SY, Weon HY, Sang MK, Song J. Complete genome sequence of Bacillus velezensis M75, a biocontrol agent against fungal plant pathogens, isolated from cotton waste. J Biotechnol 2016; 241:112-115. [PMID: 27899334 DOI: 10.1016/j.jbiotec.2016.11.023] [Citation(s) in RCA: 41] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/19/2016] [Revised: 11/24/2016] [Accepted: 11/25/2016] [Indexed: 11/24/2022]
Abstract
Bacillus species have been widely used as biological control agents in agricultural fields due to their ability to suppress plant pathogens. Bacillus velezensis M75 was isolated from cotton waste used for mushroom cultivation in Korea, and was found to be antagonistic to fungal plant pathogens. Here, we report the complete genome sequence of the M75 strain, which has a 4,007,450-bp single circular chromosome with 3921 genes and a G+C content of 46.60%. The genome contained operons encoding various non-ribosomal peptide synthetases and polyketide synthases, which are responsible for the biosynthesis of secondary metabolites. Our results will provide a better understanding of the genome of B. velezensis strains for their application as biocontrol agents against fungal plant pathogens in agricultural fields.
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Affiliation(s)
- Sang Yoon Kim
- Agricultural Microbiology Division, National Institute of Agricultural Sciences (NAS), Rural Development Administration (RDA), 55365, Republic of Korea
| | - Sang Yeob Lee
- Agricultural Microbiology Division, National Institute of Agricultural Sciences (NAS), Rural Development Administration (RDA), 55365, Republic of Korea
| | - Hang-Yeon Weon
- Agricultural Microbiology Division, National Institute of Agricultural Sciences (NAS), Rural Development Administration (RDA), 55365, Republic of Korea
| | - Mee Kyung Sang
- Agricultural Microbiology Division, National Institute of Agricultural Sciences (NAS), Rural Development Administration (RDA), 55365, Republic of Korea
| | - Jaekyeong Song
- Agricultural Microbiology Division, National Institute of Agricultural Sciences (NAS), Rural Development Administration (RDA), 55365, Republic of Korea.
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