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Acevedo-Barrios R, Tirado-Ballestas I, Bertel-Sevilla A, Cervantes-Ceballos L, Gallego JL, Leal MA, Tovar D, Olivero-Verbel J. Bioprospecting of extremophilic perchlorate-reducing bacteria: report of promising Bacillus spp. isolated from sediments of the bay of Cartagena, Colombia. Biodegradation 2024:10.1007/s10532-024-10079-0. [PMID: 38625437 DOI: 10.1007/s10532-024-10079-0] [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: 12/18/2023] [Accepted: 03/06/2024] [Indexed: 04/17/2024]
Abstract
Three extremophile bacterial strains (BBCOL-009, BBCOL-014 and BBCOL-015), capable of degrading high concentrations of perchlorate at a range of pH (6.5 to 10.0), were isolated from Colombian Caribbean Coast sediments. Morphological features included Gram negative strain bacilli with sizes averaged of 1.75 × 0.95, 2.32 × 0.65 and 3.08 × 0.70 μm, respectively. The reported strains tolerate a wide range of pH (6.5 to 10.0); concentrations of NaCl (3.5 to 7.5% w/v) and KClO4- (250 to 10000 mg/L), reduction of KClO4- from 10 to 25%. LB broth with NaCl (3.5-30% w/v) and KClO4- (250-10000 mg/L) were used in independent trials to evaluate susceptibility to salinity and perchlorate, respectively. Isolates increased their biomass at 7.5 % (w/v) NaCl with optimal development at 3.5 % NaCl. Subsequently, ClO4- reduction was assessed using LB medium with 3.5% NaCl and 10000 mg/L ClO4-. BBCOL-009, BBCOL-014 and BBCOL-015 achieved 10%, 17%, and 25% reduction of ClO4-, respectively. The 16 S rRNA gene sequence grouped them as Bacillus flexus T6186-2, Bacillus marisflavi TF-11 (T), and Bacillus vietnamensis 15 - 1 (T) respectively, with < 97.5% homology. In addition, antimicrobial resistance to ertapenem, vancomycine, amoxicillin clavulanate, penicillin, and erythromycin was present in all the isolates, indicating their high adaptability to stressful environments. The isolated strains from marine sediments in Cartagena Bay, Colombia are suitable candidates to reduce perchlorate contamination in different environments. Although the primary focus of the study of perchlorate-reducing and resistant bacteria is in the ecological and agricultural realms, from an astrobiological perspective, perchlorate-resistant bacteria serve as models for astrobiological investigations.
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Affiliation(s)
- Rosa Acevedo-Barrios
- Environmental and Computational Chemistry Group, School of Pharmaceutical Sciences, University of Cartagena, Zaragocilla Campus, Cartagena, 130015, Colombia.
- Grupo de Estudios Químicos y Biológicos, Facultad de Ciencias Básicas, Universidad Tecnológica de Bolívar, POB 130001, Cartagena de Indias D. T. y C, Colombia.
| | - Irina Tirado-Ballestas
- GENOMA Group, Health Sciences Department, Universidad del Sinú, Santillana Campus, Cartagena, 130015, Colombia
- Group of Functional Toxicology, School of Pharmaceutical Sciences, University of Cartagena, Zaragocilla Campus, Cartagena, 130015, Colombia
| | - Angela Bertel-Sevilla
- Environmental and Computational Chemistry Group, School of Pharmaceutical Sciences, University of Cartagena, Zaragocilla Campus, Cartagena, 130015, Colombia
| | - Leonor Cervantes-Ceballos
- Group of Functional Toxicology, School of Pharmaceutical Sciences, University of Cartagena, Zaragocilla Campus, Cartagena, 130015, Colombia
| | - Jorge L Gallego
- Department of Engineering, University of Medellin, Medellín, 050026, Colombia
| | - María Angélica Leal
- Planetary Sciences and Astrobiology Research Group (GCPA), Universidad Nacional de Colombia and Corporación Científica Laguna, Bogotá, 111321, Colombia
- Biosphere and Cosmos Research Group (BIOC). Corporación Científica Laguna, Bogotá, 111163, Colombia
| | - David Tovar
- Planetary Sciences and Astrobiology Research Group (GCPA), Universidad Nacional de Colombia and Corporación Científica Laguna, Bogotá, 111321, Colombia
- Biosphere and Cosmos Research Group (BIOC). Corporación Científica Laguna, Bogotá, 111163, Colombia
| | - Jesús Olivero-Verbel
- Environmental and Computational Chemistry Group, School of Pharmaceutical Sciences, University of Cartagena, Zaragocilla Campus, Cartagena, 130015, Colombia
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Mandragutti T, Dokka MK, Panchagnula B, Godi S. Molecular characterization of marine bacterial isolates of Visakhapatnam coast-efficacy in dye decolorization and bioremediation of cadmium. J Genet Eng Biotechnol 2021; 19:87. [PMID: 34132923 PMCID: PMC8208438 DOI: 10.1186/s43141-021-00189-0] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/12/2021] [Accepted: 06/01/2021] [Indexed: 11/23/2022]
Abstract
Background Microbial community is one of the diversified communities of the marine environment. Studies have shown that microorganisms isolated from the marine environment are metabolically active and have adapted to life in the ocean. The marine microorganisms use various survival strategies to combat heavy metal stress and decolorization of various textile dyes, thus playing an important role in the bioremediation of cadmium and degradation of textile dyes. The present study deals with the isolation and 16S rRNA molecular characterization of M3 and M8 bacterial strains isolated from marine water samples collected from Visakhapatnam harbor. M3 and M8 isolates were also checked for their efficacy in the removal of cadmium and decolorization of various textile dyes from the environment. Results The water sample was subjected to tube dilution method to isolate bacterial strains, and ten different isolates were screened. The biochemical tests were performed for the isolates to prove their validity and 16S rRNA molecular sequencing and phylogenetic analysis for species identification. Out of interest, two bacterial strains, namely, M3 and M8 were subjected to 16S rRNA molecular sequencing and phylogenetic analysis and were identified as Bacillus subtilis and Pseudomonas resinovorans. The two bacterial strains showed promising dye degradation property when checked with nine different textile dyes of wavelength ranging from 400 to 600 nm and removal of cadmium from the growth medium. Conclusion The present study demonstrates the isolates M3 and M8 to be potential strains having dye decolorization and bioremediation of cadmium applications. Supplementary Information The online version contains supplementary material available at 10.1186/s43141-021-00189-0.
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Affiliation(s)
- Teja Mandragutti
- Department of Biotechnology, Andhra University, Visakhapatnam, 530 003, India.
| | - Muni Kumar Dokka
- Department of Biochemistry, Andhra University, Visakhapatnam, 530 003, India
| | - Bindiya Panchagnula
- Department of Biotechnology, Andhra University, Visakhapatnam, 530 003, India
| | - Sudhakar Godi
- Department of Human Genetics, Andhra University, Visakhapatnam, 530 003, India
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Genome Sequencing and Analysis of Bacillus pumilus ICVB403 Isolated from Acartia tonsa Copepod Eggs Revealed Surfactin and Bacteriocin Production: Insights on Anti-Staphylococcus Activity. Probiotics Antimicrob Proteins 2020; 11:990-998. [PMID: 30229513 DOI: 10.1007/s12602-018-9461-4] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Abstract
Here we show that Bacillus pumilus ICVB403 recently isolated from copepod eggs is able to produce, after 48-72 h of growth in Landy medium, extracellular inhibitory compounds, which are active against Staphylococcus aureus ATCC 25923, methicillin-resistant S. aureus (MRSA) ATCC 43300, MRSA-S1, Staphylococcus epidermidis 11EMB, Staphylococcus warneri 27EMB, and Staphylococcus hominis 13EMB. Moreover, these extracellular inhibitory compound(s) were able to potentiate erythromycin against the aforementioned staphylococci. The minimum inhibitory concentration (MIC) of erythromycin was reduced from 32 μg/mL to 8 μg/mL for MRSA ATCC 43300 and MRSA SA-1 strains, and from 32-64 μg/mL to 4 μg/mL for S. epidermidis 11EMB and S. hominis 13EMB strains.The genome sequencing and analysis of B. pumilus ICVB403 unveiled 3.666.195 nucleotides contained in 22 contigs with a G + C ratio of 42.0%, 3.826 coding sequences, and 73 RNAs. In silico analysis guided identification of two putative genes coding for synthesis of surfactin A, a lipopeptide with 7 amino acids, and for a circular bacteriocin belonging to the circularin A/uberolysin family, respectively.
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Ding MJ, Shang NJ, Xiao ZX, Shao F, Liu L, Huang Y, Zhou LK, Zhou JH, Zhang Y. Bacillus aciditolerans sp. nov., isolated from paddy soil. Int J Syst Evol Microbiol 2019; 69:1155-1161. [PMID: 30816840 DOI: 10.1099/ijsem.0.003285] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-stain-positive, motile, rod-shaped bacterial strain, YN-1T, was isolated from a rice field in the town of Jietou, Yunnan Province, PR China. Colonies were circular, 1-2 mm in diameter, creamy white, with slightly irregular margins. The isolate grew optimally at 37 °C, pH 7.0 and with 1.0 % (w/v) NaCl. On the basis of the results of 16S rRNA gene sequence similarity comparisons, YN-1T clustered together with other species of the genus Bacillus and showed highest similarities with Bacillus onubensis 0911MAR22V3T (98.0 %), Bacillus humi LMG22167T (97.5 %), 'Bacillus timonensis' 10403023 (97.4 %) and 'Bacillussinesaloumensis' P3516 (97.1 %). However, the DNA-DNA hybridization values between YN-1T and closely related strains of species of the genus Bacillus were well below 47 %, indicating that they represent different taxa. The average nucleotide identity and the Genome-to-Genome Distance Calculator also revealed low relatedness (below 95 and 70 %, respectively) between YN-1T and type strains of closely related species of the genus Bacillus. The DNA G+C content of the strain was 40 mol%. The major cellular fatty acids were iso-C15 : 0, anteiso-C15 : 0, and C16 : 0. The polar lipids were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, two unidentified phospholipids, three unidentified aminophospholipids and two other unidentified lipids. Physiological and biochemical test results were also different from those of the most closely related species. On the basis of the phenotypic, genetic and chemotaxonomic data, strain YN-1T is considered to represent a novel species of the genus Bacillus, for which the name Bacillusaciditolerans sp. nov. is proposed, with strain YN-1T (=CCTCC AB 2017280T=JCM 32973T) as the type strain.
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Affiliation(s)
- Meng-Jiao Ding
- College of Biological Science and Technology, Hunan Agricultural University, Changsha 410128, PR China
| | - Nian-Jie Shang
- College of Life Sciences, Shandong Normal University, Jinan 250014, PR China
| | - Zhi-Xin Xiao
- Yunnan Province Tobacco Company Baoshan City Company, Baoshan 678000, PR China
| | - Fei Shao
- College of Life Sciences, Shandong Normal University, Jinan 250014, PR China
| | - Li Liu
- College of Biological Science and Technology, Hunan Agricultural University, Changsha 410128, PR China
| | - Ying Huang
- Tobacco College of Guizhou University, Guiyang 550025, PR China
| | - Lu-Kuo Zhou
- College of Biological Science and Technology, Hunan Agricultural University, Changsha 410128, PR China.,Hunan Province Tobacco Company Chenzhou City Company, Chenzhou, PR China
| | - Ji-Heng Zhou
- College of Biological Science and Technology, Hunan Agricultural University, Changsha 410128, PR China
| | - Yi Zhang
- College of Biological Science and Technology, Hunan Agricultural University, Changsha 410128, PR China
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Kang Y, Li L, Li S, Zhou X, Xia K, Liu C, Qu Q. Temporary Inhibition of the Corrosion of AZ31B Magnesium Alloy by Formation of Bacillus subtilis Biofilm in Artificial Seawater. MATERIALS 2019; 12:ma12030523. [PMID: 30744166 PMCID: PMC6384576 DOI: 10.3390/ma12030523] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 12/10/2018] [Revised: 01/08/2019] [Accepted: 01/26/2019] [Indexed: 11/16/2022]
Abstract
It is well known that microorganisms tend to form biofilms on metal surfaces to accelerate/decelerate corrosion and affect their service life. Bacillus subtilis was used to produce a dense biofilm on an AZ31B magnesium alloy surface. Corrosion behavior of the alloy with the B. subtilis biofilm was evaluated in artificial seawater. The results revealed that the biofilm hampered extracellular electron transfer significantly, which resulted in a decrease of icorr and increase of Rt clearly compared to the control group. Moreover, an ennoblement of Ecorr was detected under the condition of B. subtilis biofilm covering. Significant reduction of the corrosion was observed by using the cyclic polarization method. All of these prove that the existence of the B. subtilis biofilm effectively enhances the anti-corrosion performance of the AZ31B magnesium alloy. This result may enhance the usage of bio-interfaces for temporary corrosion control. In addition, a possible corrosion inhibition mechanism of B. subtilis on AZ31B magnesium alloy was proposed.
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Affiliation(s)
- Yaxin Kang
- School of Chemical Science and Technology, Yunnan University, Kunming 650091, China.
| | - Lei Li
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan University, Kunming 650091, China.
| | - Shunling Li
- School of Chemical Science and Technology, Yunnan University, Kunming 650091, China.
| | - Xin Zhou
- School of Chemical Science and Technology, Yunnan University, Kunming 650091, China.
| | - Ke Xia
- School of Chemical Science and Technology, Yunnan University, Kunming 650091, China.
| | - Chang Liu
- School of Chemical Science and Technology, Yunnan University, Kunming 650091, China.
| | - Qing Qu
- School of Chemical Science and Technology, Yunnan University, Kunming 650091, China.
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Piewngam P, Zheng Y, Nguyen TH, Dickey SW, Joo HS, Villaruz AE, Glose KA, Fisher EL, Hunt RL, Li B, Chiou J, Pharkjaksu S, Khongthong S, Cheung GYC, Kiratisin P, Otto M. Pathogen elimination by probiotic Bacillus via signalling interference. Nature 2018; 562:532-537. [PMID: 30305736 PMCID: PMC6202238 DOI: 10.1038/s41586-018-0616-y] [Citation(s) in RCA: 334] [Impact Index Per Article: 55.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/11/2017] [Accepted: 08/14/2018] [Indexed: 12/19/2022]
Abstract
Probiotic nutrition is frequently claimed to improve human health. In particular, live probiotic bacteria obtained with food are thought to reduce intestinal colonization by pathogens, and thus to reduce susceptibility to infection. However, the mechanisms that underlie these effects remain poorly understood. Here we report that the consumption of probiotic Bacillus bacteria comprehensively abolished colonization by the dangerous pathogen Staphylococcus aureus in a rural Thai population. We show that a widespread class of Bacillus lipopeptides, the fengycins, eliminates S. aureus by inhibiting S. aureus quorum sensing-a process through which bacteria respond to their population density by altering gene regulation. Our study presents a detailed molecular mechanism that underlines the importance of probiotic nutrition in reducing infectious disease. We also provide evidence that supports the biological significance of probiotic bacterial interference in humans, and show that such interference can be achieved by blocking a pathogen's signalling system. Furthermore, our findings suggest a probiotic-based method for S. aureus decolonization and new ways to fight S. aureus infections.
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Affiliation(s)
- Pipat Piewngam
- Pathogen Molecular Genetics Section, Laboratory of Bacteriology, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, MD, USA
- Department of Microbiology, Faculty of Medicine Siriraj Hospital, Mahidol University, Bangkok, Thailand
| | - Yue Zheng
- Pathogen Molecular Genetics Section, Laboratory of Bacteriology, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, MD, USA
| | - Thuan H Nguyen
- Pathogen Molecular Genetics Section, Laboratory of Bacteriology, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, MD, USA
| | - Seth W Dickey
- Pathogen Molecular Genetics Section, Laboratory of Bacteriology, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, MD, USA
| | - Hwang-Soo Joo
- Pathogen Molecular Genetics Section, Laboratory of Bacteriology, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, MD, USA
- Department of Pre-PharmMed, College of Natural Sciences, Duksung Women's University, Seoul, South Korea
| | - Amer E Villaruz
- Pathogen Molecular Genetics Section, Laboratory of Bacteriology, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, MD, USA
| | - Kyle A Glose
- Pathogen Molecular Genetics Section, Laboratory of Bacteriology, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, MD, USA
| | - Emilie L Fisher
- Pathogen Molecular Genetics Section, Laboratory of Bacteriology, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, MD, USA
| | - Rachelle L Hunt
- Pathogen Molecular Genetics Section, Laboratory of Bacteriology, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, MD, USA
| | - Barry Li
- Pathogen Molecular Genetics Section, Laboratory of Bacteriology, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, MD, USA
| | - Janice Chiou
- Pathogen Molecular Genetics Section, Laboratory of Bacteriology, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, MD, USA
| | - Sujiraphong Pharkjaksu
- Department of Microbiology, Faculty of Medicine Siriraj Hospital, Mahidol University, Bangkok, Thailand
| | - Sunisa Khongthong
- Faculty of Veterinary Science, Rajamangala University of Technology Srivijaya, Nakhon Si Thammarat, Thailand
| | - Gordon Y C Cheung
- Pathogen Molecular Genetics Section, Laboratory of Bacteriology, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, MD, USA
| | - Pattarachai Kiratisin
- Department of Microbiology, Faculty of Medicine Siriraj Hospital, Mahidol University, Bangkok, Thailand
| | - Michael Otto
- Pathogen Molecular Genetics Section, Laboratory of Bacteriology, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, MD, USA.
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Phenotyping using semi-automated BIOLOG and conventional PCR for identification of Bacillus isolated from biofilm of sink drainage pipes. ACTA ACUST UNITED AC 2018. [DOI: 10.1016/j.chnaes.2018.01.011] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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Mukhtar S, Mehnaz S, Mirza MS, Mirza BS, Malik KA. Diversity of Bacillus-like bacterial community in the rhizospheric and non-rhizospheric soil of halophytes (Salsola stocksii and Atriplex amnicola), and characterization of osmoregulatory genes in halophilic Bacilli. Can J Microbiol 2018; 64:567-579. [DOI: 10.1139/cjm-2017-0544] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
Abstract
Salinity is one of the major abiotic stresses; a total of 3% of the world’s land mass is affected by salinity. Approximately 6.3 million hectares of land in Pakistan is affected by salinity to varying degrees, and most of the areas are arid to semiarid with low annual precipitation. The aim of the present study is to identify and characterize Bacillus and Bacillus-derived bacterial genera from the rhizospheric and non-rhizospheric soil samples from the Khewra Salt Mine, Pakistan, by using culture-independent and -dependent methods. Seven Bacillus-like bacterial genera, Bacillus, Halobacillus, Virgibacillus, Brevibacillus, Paenibacillus, Tumebacillus, and Lysinibacillus, were detected by using pyrosequencing analysis, whereas only four genera, Bacillus, Halobacillus, Oceanobacillus, and Virgibacillus, were identified by culture-dependent methods. Most of the Bacillus-like isolates identified in this study were moderately halophilic, alkaliphilic, and mesophilic bacteria and were considered a good source of hydrolytic enzymes because of their ability to degrade proteins, carbohydrates, and lipids. Eight Bacillus-like strains from the genera Bacillus, Halobacillus, Oceanobacillus, and Virgibacillus showed positive results for the presence of ectABC gene cluster (ectoine), six strains could synthesize betaine from choline, and six strains tested positive for the synthesis of proline from either glutamate or ornithine by using proline dehydrogenase enzyme.
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Affiliation(s)
- Salma Mukhtar
- Department of Biological Sciences, Forman Christian College (A Chartered University), Ferozepur Road, Lahore 54600, Pakistan
- Molecular, Cell & Developmental Biology, UCLA, 621 Charles Young Drive South, Los Angeles, CA 90095-1606, USA
| | - Samina Mehnaz
- Department of Biological Sciences, Forman Christian College (A Chartered University), Ferozepur Road, Lahore 54600, Pakistan
| | - Muhammad Sajjad Mirza
- Environmental Biotechnology Division, National Institute for Biotechnology and Genetic Engineering (NIBGE), Jhang Road, Faisalabad, Pakistan
| | - Babur Saeed Mirza
- Missouri State University, 901 S. National Avenue, Springfield, MO 65897, USA
| | - Kauser Abdulla Malik
- Department of Biological Sciences, Forman Christian College (A Chartered University), Ferozepur Road, Lahore 54600, Pakistan
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del Olmo A, Picon A, Nuñez M. The microbiota of eight species of dehydrated edible seaweeds from North West Spain. Food Microbiol 2018; 70:224-231. [DOI: 10.1016/j.fm.2017.10.009] [Citation(s) in RCA: 20] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/04/2017] [Revised: 10/20/2017] [Accepted: 10/23/2017] [Indexed: 11/25/2022]
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Saleh MY, Sarhan MS, Mourad EF, Hamza MA, Abbas MT, Othman AA, Youssef HH, Morsi AT, Youssef GH, El-Tahan M, Amer WA, Fayez M, Ruppel S, Hegazi NA. A novel plant-based-sea water culture media for in vitro cultivation and in situ recovery of the halophyte microbiome. J Adv Res 2017; 8:577-590. [PMID: 28794903 PMCID: PMC5540709 DOI: 10.1016/j.jare.2017.06.007] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/21/2017] [Revised: 06/24/2017] [Accepted: 06/26/2017] [Indexed: 11/29/2022] Open
Abstract
The plant-based-sea water culture medium is introduced to in vitro cultivation and in situ recovery of the microbiome of halophytes. The ice plant (Mesembryanthemum crystallinum) was used, in the form of juice and/or dehydrated plant powder packed in teabags, to supplement the natural sea water. The resulting culture medium enjoys the combinations of plant materials as rich source of nutrients and sea water exercising the required salt stress. As such without any supplements, the culture medium was sufficient and efficient to support very good in vitro growth of halotolerant bacteria. It was also capable to recover their in situ culturable populations in the phyllosphere, ecto-rhizosphere and endo-rhizosphere of halophytes prevailing in Lake Mariout, Egypt. When related to the total bacterial numbers measured for Suaeda pruinosa roots by quantitative-PCR, the proposed culture medium increased culturability (15.3-19.5%) compared to the conventional chemically-synthetic culture medium supplemented with (11.2%) or without (3.8%) NaCl. Based on 16S rRNA gene sequencing, representative isolates of halotolerant bacteria prevailed on such culture medium were closely related to Bacillus spp., Halomonas spp., and Kocuria spp. Seed germination tests on 25-50% sea water agar indicated positive interaction of such bacterial isolates with the germination and seedlings' growth of barley seeds.
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Affiliation(s)
- Mohamed Y. Saleh
- Department of Microbiology, Faculty of Agriculture, Cairo University, 12613 Giza, Egypt
| | - Mohamed S. Sarhan
- Department of Microbiology, Faculty of Agriculture, Cairo University, 12613 Giza, Egypt
| | - Elhussein F. Mourad
- Department of Microbiology, Faculty of Agriculture, Cairo University, 12613 Giza, Egypt
| | - Mervat A. Hamza
- Department of Microbiology, Faculty of Agriculture, Cairo University, 12613 Giza, Egypt
| | - Mohamed T. Abbas
- Microbiology Department, Faculty of Agriculture and Natural Resources, Aswan University, P.O. Box 81528, Aswan, Egypt
| | - Amal A. Othman
- Hydrobiology Laboratory, Inland Water and Lake Division, National Institute of Oceanography and Fisheries (NIOF), 11516 Cairo, Egypt
| | - Hanan H. Youssef
- Department of Microbiology, Faculty of Agriculture, Cairo University, 12613 Giza, Egypt
| | - Ahmed T. Morsi
- Department of Microbiology, Faculty of Agriculture, Cairo University, 12613 Giza, Egypt
| | - Gehan H. Youssef
- Soils, Water and Environment Research Institute, Agricultural Research Center, 12112 Giza, Egypt
| | - Mahmoud El-Tahan
- Institute of Feed Research, Agricultural Research Center, 12112 Giza, Egypt
| | - Wafaa A. Amer
- Department of Botany and Microbiology, Faculty of Science, Cairo University, 12613 Giza, Egypt
| | - Mohamed Fayez
- Department of Microbiology, Faculty of Agriculture, Cairo University, 12613 Giza, Egypt
| | - Silke Ruppel
- Leibniz Institute of Vegetable and Ornamental Crops (IGZ), 14979 Grossbeeren, Germany
| | - Nabil A. Hegazi
- Department of Microbiology, Faculty of Agriculture, Cairo University, 12613 Giza, Egypt
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11
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Chen Y, Liu SA, Mou H, Ma Y, Li M, Hu X. Characterization of Lipopeptide Biosurfactants Produced by Bacillus licheniformis MB01 from Marine Sediments. Front Microbiol 2017; 8:871. [PMID: 28559889 PMCID: PMC5432566 DOI: 10.3389/fmicb.2017.00871] [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: 01/26/2017] [Accepted: 04/28/2017] [Indexed: 01/06/2023] Open
Abstract
Antibiotic resistance has become one of the world’s most severe problems because of the overuse of antibiotics. Antibiotic-resistant bacteria are more difficult to kill and more expensive to treat. Researchers have been studied on antibiotic alternatives such as antimicrobial peptides and lipopeptides. A functional bacteria MB01 producing lipopeptides which can be used as bacteriostat was isolated from the Bohai Sea sediments, which had been identified as Bacillus licheniformis by the morphological, physiological, and biochemical identification and 16s rDNA sequence. The lipopeptides produced by MB01 were determined to be cyclic surfactin homologs by LC-ESI-MS structural identification after crude extraction and LH-20 chromatography. [M+H]+m/z 994, 1008, 1022, and 1036 were all the characteristic molecular weight of surfactin homologs. CID analysis revealed that the molecular structure of the lipopeptides was Rn-Glu1-Leu/Ile2-Leu3-Val4-Asp5-Leu6-Leu/Ile7. The lipopeptides showed well resistance to UV light and the change of pH and temperature.
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Affiliation(s)
- Yulin Chen
- Yantai Institute of Coastal Zone Research, Chinese Academy of SciencesYantai, China.,School of Food Science and Engineering, Ocean University of ChinaQingdao, China
| | - Shiliang A Liu
- School of Veterinary Medicine, Louisiana State University, Baton RougeLA, USA
| | - Haijin Mou
- School of Food Science and Engineering, Ocean University of ChinaQingdao, China
| | - Yunxiao Ma
- School of Food Science and Engineering, Ocean University of ChinaQingdao, China
| | - Meng Li
- Yantai Institute of Coastal Zone Research, Chinese Academy of SciencesYantai, China
| | - Xiaoke Hu
- Yantai Institute of Coastal Zone Research, Chinese Academy of SciencesYantai, China
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Kämpfer P, Busse HJ, McInroy JA, Hu CH, Kloepper JW, Glaeser SP. Bacillus zeae sp. nov., isolated from the rhizosphere of Zea mays. Int J Syst Evol Microbiol 2017; 67:1241-1246. [DOI: 10.1099/ijsem.0.001791] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Affiliation(s)
- Peter Kämpfer
- Institut für Angewandte Mikrobiologie, Universität Giessen, Giessen, Germany
| | - Hans-Jürgen Busse
- Institut für Mikrobiologie, Veterinärmedizinische Universität, A-1210 Wien, Austria
| | - John A McInroy
- Department of Entomology and Plant Pathology, Auburn University, Alabama 36849, USA
| | - Chia-Hui Hu
- Department of Entomology and Plant Pathology, Auburn University, Alabama 36849, USA
| | - Joseph W Kloepper
- Department of Entomology and Plant Pathology, Auburn University, Alabama 36849, USA
| | - Stefanie P Glaeser
- Institut für Angewandte Mikrobiologie, Universität Giessen, Giessen, Germany
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13
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Khowal S, Siddiqui MZ, Ali S, Khan MT, Khan MA, Naqvi SH, Wajid S. A report on extensive lateral genetic reciprocation between arsenic resistant Bacillus subtilis and Bacillus pumilus strains analyzed using RAPD-PCR. Mol Phylogenet Evol 2016; 107:443-454. [PMID: 27956257 DOI: 10.1016/j.ympev.2016.12.010] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/24/2016] [Revised: 10/26/2016] [Accepted: 12/08/2016] [Indexed: 12/16/2022]
Abstract
The study involves isolation of arsenic resistant bacteria from soil samples. The characterization of bacteria isolates was based on 16S rRNA gene sequences. The phylogenetic consanguinity among isolates was studied employing rpoB and gltX gene sequence. RAPD-PCR technique was used to analyze genetic similarity between arsenic resistant isolates. In accordance with the results Bacillus subtilis and Bacillus pumilus strains may exhibit extensive horizontal gene transfer. Arsenic resistant potency in Bacillus sonorensis and high arsenite tolerance in Bacillus pumilus strains was identified. The RAPD-PCR primer OPO-02 amplified a 0.5kb DNA band specific to B. pumilus 3ZZZ strain and 0.75kb DNA band specific to B. subtilis 3PP. These unique DNA bands may have potential use as SCAR (Sequenced Characterized Amplified Region) molecular markers for identification of arsenic resistant B. pumilus and B. subtilis strains.
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Affiliation(s)
- Sapna Khowal
- Department of Biotechnology, Faculty of Science, Hamdard University (Jamia Hamdard), New Delhi 110 062, India
| | - Md Zulquarnain Siddiqui
- Department of Biotechnology, Faculty of Science, Hamdard University (Jamia Hamdard), New Delhi 110 062, India
| | - Shadab Ali
- Department of Biotechnology, Faculty of Science, Hamdard University (Jamia Hamdard), New Delhi 110 062, India
| | - Mohd Taha Khan
- Department of Biotechnology, Faculty of Science, Hamdard University (Jamia Hamdard), New Delhi 110 062, India
| | - Mather Ali Khan
- 247, Bond Life Sciences Centre, 1201 Rollins Street, University of Missouri-Columbia, Columbia, MO 65211, USA
| | | | - Saima Wajid
- Department of Biotechnology, Faculty of Science, Hamdard University (Jamia Hamdard), New Delhi 110 062, India.
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14
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Liu M, Cui Y, Chen Y, Lin X, Huang H, Bao S. Diversity of Bacillus-like bacterial community in the sediments of the Bamenwan mangrove wetland in Hainan, China. Can J Microbiol 2016; 63:238-245. [PMID: 28177800 DOI: 10.1139/cjm-2016-0449] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
Members of the genus Bacillus and related spore-forming genera are ubiquitous. However, Bacillus-like species isolated from marine sediments have attracted less interest than their terrestrial relatives. Here, we investigated the diversity of Bacillus-like bacterial communities in the sediments of the Bamenwan mangrove wetland in Hainan, China, using culture-dependent and culture-independent methods, and present the first report on this subject. We also discovered some potential novel species from the sediment samples. Four families, Bacillaceae (58%), Paenibacillaceae (22%), Alicyclobacillaceae (15%), and Planococcaceae (5%), and 9 genera, Bacillus (42%), Paenibacillus (16%), Halobacillus (13%), Alicyclobacillus (11%), Rummeliibacillus (5%), Cohnella (5%), Tumebacillus (4%), Pontibacillus (3%), and Aneurinibacillus (2%), were identified by pyrosequencing. In contrast, only 4 genera, Bacillus (57%), Paenibacillus (23%), Halobacillus (14%), and Virgibacillus (6%), were detected by the culture-dependent method. In the 16S rDNA sequencing analysis, the isolates HB12036 and HB12037 were closest to Bacillus okuhidensis Kh10-101T and Paenibacillus xylanilyticus XIL14T with similarities of 94.8% and 95.9%, respectively, indicating that these were novel species. Bacillus sp. HB12035 and HB12040 exhibited antimicrobial activity against Staphylococcus aureus ATCC 25923, and Bacillus sp. HB12033 exhibited antimicrobial activity against Ustilago scitaminea Syd.
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Affiliation(s)
- Min Liu
- Institute of Tropical Biosciences and Biotechnology, Key Laboratory of Biology and Genetic Resources of Tropical Crops of Ministry of Agriculture, Chinese Academy of Tropical Agricultural Sciences, Haikou 571101, Hainan, People's Republic of China.,Institute of Tropical Biosciences and Biotechnology, Key Laboratory of Biology and Genetic Resources of Tropical Crops of Ministry of Agriculture, Chinese Academy of Tropical Agricultural Sciences, Haikou 571101, Hainan, People's Republic of China
| | - Ying Cui
- Institute of Tropical Biosciences and Biotechnology, Key Laboratory of Biology and Genetic Resources of Tropical Crops of Ministry of Agriculture, Chinese Academy of Tropical Agricultural Sciences, Haikou 571101, Hainan, People's Republic of China.,Institute of Tropical Biosciences and Biotechnology, Key Laboratory of Biology and Genetic Resources of Tropical Crops of Ministry of Agriculture, Chinese Academy of Tropical Agricultural Sciences, Haikou 571101, Hainan, People's Republic of China
| | - Yuqing Chen
- Institute of Tropical Biosciences and Biotechnology, Key Laboratory of Biology and Genetic Resources of Tropical Crops of Ministry of Agriculture, Chinese Academy of Tropical Agricultural Sciences, Haikou 571101, Hainan, People's Republic of China.,Institute of Tropical Biosciences and Biotechnology, Key Laboratory of Biology and Genetic Resources of Tropical Crops of Ministry of Agriculture, Chinese Academy of Tropical Agricultural Sciences, Haikou 571101, Hainan, People's Republic of China
| | - Xiangzhi Lin
- Institute of Tropical Biosciences and Biotechnology, Key Laboratory of Biology and Genetic Resources of Tropical Crops of Ministry of Agriculture, Chinese Academy of Tropical Agricultural Sciences, Haikou 571101, Hainan, People's Republic of China.,Institute of Tropical Biosciences and Biotechnology, Key Laboratory of Biology and Genetic Resources of Tropical Crops of Ministry of Agriculture, Chinese Academy of Tropical Agricultural Sciences, Haikou 571101, Hainan, People's Republic of China
| | - Huiqin Huang
- Institute of Tropical Biosciences and Biotechnology, Key Laboratory of Biology and Genetic Resources of Tropical Crops of Ministry of Agriculture, Chinese Academy of Tropical Agricultural Sciences, Haikou 571101, Hainan, People's Republic of China.,Institute of Tropical Biosciences and Biotechnology, Key Laboratory of Biology and Genetic Resources of Tropical Crops of Ministry of Agriculture, Chinese Academy of Tropical Agricultural Sciences, Haikou 571101, Hainan, People's Republic of China
| | - Shixiang Bao
- Institute of Tropical Biosciences and Biotechnology, Key Laboratory of Biology and Genetic Resources of Tropical Crops of Ministry of Agriculture, Chinese Academy of Tropical Agricultural Sciences, Haikou 571101, Hainan, People's Republic of China.,Institute of Tropical Biosciences and Biotechnology, Key Laboratory of Biology and Genetic Resources of Tropical Crops of Ministry of Agriculture, Chinese Academy of Tropical Agricultural Sciences, Haikou 571101, Hainan, People's Republic of China
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15
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Kämpfer P, Busse HJ, Glaeser SP, Kloepper JW, Hu CH, McInroy JA. Bacillus cucumis sp. nov. isolated from the rhizosphere of cucumber (Cucumis sativus). Int J Syst Evol Microbiol 2016; 66:1039-1044. [DOI: 10.1099/ijsem.0.000831] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Affiliation(s)
- Peter Kämpfer
- Institut für Angewandte Mikrobiologie, Universität Giessen, Germany
| | - Hans-Jürgen Busse
- Institut für Mikrobiologie, Veterinärmedizinische Universität, A-1210 Wien, Austria
| | | | - Joseph W. Kloepper
- Department of Entomology and Plant Pathology, Auburn University, AL 36849, USA
| | - Chia-Hui Hu
- Department of Entomology and Plant Pathology, Auburn University, AL 36849, USA
| | - John A. McInroy
- Department of Entomology and Plant Pathology, Auburn University, AL 36849, USA
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16
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Kämpfer P, Busse HJ, McInroy JA, Glaeser SP. Bacillus gossypii sp. nov., isolated from the stem of Gossypium hirsutum. Int J Syst Evol Microbiol 2015; 65:4163-4168. [PMID: 26303844 DOI: 10.1099/ijsem.0.000555] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-stain-positive, facultatively anaerobic, endospore-forming organism, isolated from the stem of Gossypium hirsutum, was studied to determine its taxonomic position. On the basis of 16S rRNA gene sequence similarity comparisons, strain JM-267T was grouped in the genus Bacillus, related most closely to the type strains of Bacillus simplex and Bacillus huizhouensis (both 97.8%), Bacillus muralis (97.7%), Bacillus butanolivorans and Bacillus psychrosaccharolyticus (both 97.3%). 16S rRNA gene sequence similarity to the sequences of the type strains of other Bacillus species was < 97.0%. The fatty acid profile supported the grouping of the strain to the genus Bacillus. As major fatty acids, anteiso-C15:0, iso-C15:0, iso-C14:0 and iso-C16:0 were detected. The polar lipid profile contained the major components diphosphatidylglycerol, phosphatidylglycerol and phosphatidylethanolamine. The major quinone was menaquinone 7 (MK-7). DNA-DNA hybridizations with B. simplex DSM 1321T, B. huizhouensis GSS03T, B. muralis LMG 20238T, B. butanolivorans LMG 23974T and B. psychrosaccharolyticus DSM 6T resulted in values clearly below 70%. In addition, physiological and biochemical test results allowed the clear phenotypic differentiation of strain JM-267T from the most closely related species. Hence, strain JM-267T is considered to represent a novel species of the genus Bacillus, for which the name Bacillus gossypii sp. nov. is proposed. The type strain is JM-267T ( = DSM 100034T = LMG 28742T).
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Affiliation(s)
- Peter Kämpfer
- Institut für Angewandte Mikrobiologie, Universität Giessen, Giessen, Germany
| | - Hans-Jürgen Busse
- Institut für Mikrobiologie, Veterinärmedizinische Universität, A-1210 Wien, Austria
| | - John A McInroy
- Department of Entomology and Plant Pathology, Auburn University, AL 36849, USA
| | - Stefanie P Glaeser
- Institut für Angewandte Mikrobiologie, Universität Giessen, Giessen, Germany
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17
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Mora I, Cabrefiga J, Montesinos E. Cyclic Lipopeptide Biosynthetic Genes and Products, and Inhibitory Activity of Plant-Associated Bacillus against Phytopathogenic Bacteria. PLoS One 2015; 10:e0127738. [PMID: 26024374 PMCID: PMC4449161 DOI: 10.1371/journal.pone.0127738] [Citation(s) in RCA: 60] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/08/2015] [Accepted: 04/19/2015] [Indexed: 11/23/2022] Open
Abstract
The antibacterial activity against bacterial plant pathogens and its relationships with the presence of the cyclic lipopeptide (cLP) biosynthetic genes ituC (iturin), bmyB (bacillomycin), fenD (fengycin) and srfAA (surfactin), and their corresponding antimicrobial peptide products have been studied in a collection of 64 strains of Bacillus spp. isolated from plant environments. The most frequent antimicrobial peptide (AMP) genes were bmyB, srfAA and fenD (34-50% of isolates). Most isolates (98.4%) produced surfactin isoforms, 90.6% iturins and 79.7% fengycins. The antibacterial activity was very frequent and generally intense among the collection of strains because 75% of the isolates were active against at least 6 of the 8 bacterial plant pathogens tested. Hierarchical and correspondence analysis confirmed the presence of two clearly differentiated groups. One group consisted of Bacillus strains that showed a strong antibacterial activity, presented several cLPs genes and produced several isoforms of cLPs simultaneously, mainly composed of B. subtilis and B. amyloliquefaciens, although the last one was exclusive to this group. Another group was characterized by strains with very low or none antibacterial activity, that showed one or none of the cLP genes and produced a few or none of the corresponding cLPs, and was the most heterogenous group including B. subtilis, B. licheniformis, B. megaterium, B. pumilus, B. cereus and B. thuringiensis, although the last two were exclusive to this group. This work demonstrated that the antagonistic capacity of plant-associated Bacillus against plant pathogenic bacteria is related to the presence of cLP genes and to the production of the corresponding cLPs, and it is mainly associated to the species B. subtilis and B. amyloliquefaciens. Our findings would help to increase the yield and efficiency of screening methods to obtain candidate strains to biocontrol agents with a mechanism of action relaying on the production of antimicrobial cLPs.
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Affiliation(s)
- Isabel Mora
- Laboratory of Plant Pathology, Institute of Food and Agricultural Technology-XaRTA-CIDSAV, University of Girona, Campus Montilivi, 17071, Girona, Spain
| | - Jordi Cabrefiga
- Laboratory of Plant Pathology, Institute of Food and Agricultural Technology-XaRTA-CIDSAV, University of Girona, Campus Montilivi, 17071, Girona, Spain
| | - Emilio Montesinos
- Laboratory of Plant Pathology, Institute of Food and Agricultural Technology-XaRTA-CIDSAV, University of Girona, Campus Montilivi, 17071, Girona, Spain
- * E-mail:
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18
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Broy S, Chen C, Hoffmann T, Brock NL, Nau-Wagner G, Jebbar M, Smits SHJ, Dickschat JS, Bremer E. Abiotic stress protection by ecologically abundant dimethylsulfoniopropionate and its natural and synthetic derivatives: insights from Bacillus subtilis. Environ Microbiol 2014; 17:2362-78. [PMID: 25384455 DOI: 10.1111/1462-2920.12698] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/03/2014] [Revised: 10/22/2014] [Accepted: 10/28/2014] [Indexed: 12/01/2022]
Abstract
Dimethylsulfoniopropionate (DMSP) is an abundant osmolyte and anti-stress compound produced primarily in marine ecosystems. After its release into the environment, microorganisms can exploit DMSP as a source of sulfur and carbon, or accumulate it as an osmoprotectant. However, import systems for this ecophysiologically important compatible solute, and its stress-protective properties for microorganisms that do not produce it are insufficiently understood. Here we address these questions using a well-characterized set of Bacillus subtilis mutants to chemically profile the influence of DMSP import on stress resistance, the osmostress-adaptive proline pool and on osmotically controlled gene expression. We included in this study the naturally occurring selenium analogue of DMSP, dimethylseleniopropionate (DMSeP), as well as a set of synthetic DMSP derivatives. We found that DMSP is not a nutrient for B. subtilis, but it serves as an excellent stress protectant against challenges conferred by sustained high salinity or lasting extremes in both low and high growth temperatures. DMSeP and synthetic DMSP derivatives retain part of these stress protective attributes, but DMSP is clearly the more effective stress protectant. We identified the promiscuous and widely distributed ABC transporter OpuC as a high-affinity uptake system not only for DMSP, but also for its natural and synthetic derivatives.
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Affiliation(s)
- Sebastian Broy
- Laboratory for Microbiology, Department of Biology, Philipps-University Marburg, Karl-von-Frisch Str. 8, D-35043, Marburg, Germany
| | - Chiliang Chen
- Laboratory for Microbiology, Department of Biology, Philipps-University Marburg, Karl-von-Frisch Str. 8, D-35043, Marburg, Germany.,LOEWE-Center for Synthetic Microbiology, Philipps-University Marburg, Hans-Meerwein Str., D-35043, Marburg, Germany
| | - Tamara Hoffmann
- Laboratory for Microbiology, Department of Biology, Philipps-University Marburg, Karl-von-Frisch Str. 8, D-35043, Marburg, Germany.,LOEWE-Center for Synthetic Microbiology, Philipps-University Marburg, Hans-Meerwein Str., D-35043, Marburg, Germany
| | - Nelson L Brock
- Institute of Organic Chemistry, Technical University of Braunschweig, Hagenring 30, D-38106, Braunschweig, Germany
| | - Gabriele Nau-Wagner
- Laboratory for Microbiology, Department of Biology, Philipps-University Marburg, Karl-von-Frisch Str. 8, D-35043, Marburg, Germany
| | - Mohamed Jebbar
- Laboratory for Microbiology, Department of Biology, Philipps-University Marburg, Karl-von-Frisch Str. 8, D-35043, Marburg, Germany.,Laboratory of Microbiology of Extreme Environments, UMR 6197 (CNRS - Ifremer - UBO), European Institute of Marine Studies, University of West Brittany (Brest), Technopole Brest-Iroise, F-29280, Plouzané, France
| | - Sander H J Smits
- Institute of Biochemistry, Heinrich-Heine-University Düsseldorf, Universitäts Str. 1, D-40225, Düsseldorf, Germany
| | - Jeroen S Dickschat
- Institute of Organic Chemistry, Technical University of Braunschweig, Hagenring 30, D-38106, Braunschweig, Germany.,Kekule-Institute for Organic Chemistry and Biochemistry, Friedrich Wilhelms-University Bonn, Gerhard-Domagk-Str. 1, D-53121, Bonn, Germany
| | - Erhard Bremer
- Laboratory for Microbiology, Department of Biology, Philipps-University Marburg, Karl-von-Frisch Str. 8, D-35043, Marburg, Germany.,LOEWE-Center for Synthetic Microbiology, Philipps-University Marburg, Hans-Meerwein Str., D-35043, Marburg, Germany
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19
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Kaewklom S, Chueakhalm W, Suthirawut S, Aunpad R. Development of a Novel PCR Primer to Differentiate and IdentifyBacillus subtilisand Closely Related Species Isolated from Thai Fermented Foods. FOOD BIOTECHNOL 2014. [DOI: 10.1080/08905436.2014.964252] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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20
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Bacillus aequororis sp. nov., Isolated From Marine Sediment. Curr Microbiol 2014; 69:758-62. [DOI: 10.1007/s00284-014-0654-0] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/27/2014] [Accepted: 05/14/2014] [Indexed: 10/25/2022]
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21
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Bacillus huizhouensis sp. nov., isolated from a paddy field soil. Antonie van Leeuwenhoek 2014; 106:357-63. [DOI: 10.1007/s10482-014-0208-2] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/23/2014] [Accepted: 05/23/2014] [Indexed: 11/26/2022]
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22
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Diversity and phylogenetic profiling of niche-specific Bacilli from extreme environments of India. ANN MICROBIOL 2014. [DOI: 10.1007/s13213-014-0897-9] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2022] Open
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23
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Phylogenetic Framework and Biosurfactant Gene Expression Analysis of Marine Bacillus spp. of Eastern Coastal Plain of Tamil Nadu. INTERNATIONAL JOURNAL OF BACTERIOLOGY 2014; 2014:860491. [PMID: 26904741 PMCID: PMC4745443 DOI: 10.1155/2014/860491] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/15/2013] [Accepted: 12/17/2013] [Indexed: 12/01/2022]
Abstract
The present study emphasizes the diversity assessment of marine Bacillus species with special reference to biosurfactant production, respective gene expression, and discrimination among Bacillus licheniformis and Bacillus subtilis. Among the 200 individual species of eastern coastal plain of Tamil Nadu screened, five biosurfactant producing potential bacterial species with entirely different morphology were selected. Biochemical and 16S rRNA gene sequence analysis suggested that all the said five species belong to Bacillus genera but differ in species levels. Biosurfactant of all the five species fluctuates in greater levels with respect to activity as well as to constituents but showed partial similarity to the commercially available surfactin. The expression of srf gene was realized in all of the five species. However, the sfp gene expression was observed only in three species. In conclusion, both B. licheniformis and B. subtilis demonstrate srf gene; nevertheless, sfp gene was expressed only by Bacillus subtilis.
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24
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Phylogenetic diversity of the Bacillus pumilus group and the marine ecotype revealed by multilocus sequence analysis. PLoS One 2013; 8:e80097. [PMID: 24244618 PMCID: PMC3823796 DOI: 10.1371/journal.pone.0080097] [Citation(s) in RCA: 69] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/17/2013] [Accepted: 09/30/2013] [Indexed: 11/19/2022] Open
Abstract
Bacteria closely related to Bacillus pumilus cannot be distinguished from such other species as B. safensis, B. stratosphericus, B. altitudinis and B. aerophilus simply by 16S rRNA gene sequence. In this report, 76 marine strains were subjected to phylogenetic analysis based on 7 housekeeping genes to understand the phylogeny and biogeography in comparison with other origins. A phylogenetic tree based on the 7 housekeeping genes concatenated in the order of gyrB-rpoB-pycA-pyrE-mutL-aroE-trpB was constructed and compared with trees based on the single genes. All these trees exhibited a similar topology structure with small variations. Our 79 strains were divided into 6 groups from A to F; Group A was the largest and contained 49 strains close to B. altitudinis. Additional two large groups were presented by B. safensis and B. pumilus respectively. Among the housekeeping genes, gyrB and pyrE showed comparatively better resolution power and may serve as molecular markers to distinguish these closely related strains. Furthermore, a recombinant phylogenetic tree based on the gyrB gene and containing 73 terrestrial and our isolates was constructed to detect the relationship between marine and other sources. The tree clearly showed that the bacteria of marine origin were clustered together in all the large groups. In contrast, the cluster belonging to B. safensis was mainly composed of bacteria of terrestrial origin. Interestingly, nearly all the marine isolates were at the top of the tree, indicating the possibility of the recent divergence of this bacterial group in marine environments. We conclude that B. altitudinis bacteria are the most widely spread of the B. pumilus group in marine environments. In summary, this report provides the first evidence regarding the systematic evolution of this bacterial group, and knowledge of their phylogenetic diversity will help in the understanding of their ecological role and distribution in marine environments.
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25
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Dastager SG, Mawlankar R, Tang SK, Srinivasan K, Ramana VV, Shouche YS. Bacillus enclensis sp. nov., isolated from sediment sample. Antonie van Leeuwenhoek 2013; 105:199-206. [DOI: 10.1007/s10482-013-0066-3] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/19/2013] [Accepted: 10/24/2013] [Indexed: 12/01/2022]
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Assessment of Microbial Richness in Pelagic Sediment of Andaman Sea by Bacterial Tag Encoded FLX Titanium Amplicon Pyrosequencing (bTEFAP). Indian J Microbiol 2012; 52:544-50. [PMID: 24293708 DOI: 10.1007/s12088-012-0310-y] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/10/2012] [Accepted: 09/18/2012] [Indexed: 01/07/2023] Open
Abstract
Microbial diversity of 1,000 m deep pelagic sediment from off Coast of Andaman Sea was analyzed by a culture independent technique, bacterial tag encoded FLX titanium amplicon pyrosequencing. The hypervariable region of small subunit ribosomal rRNA gene covering V6-V9, was amplified from the metagenomic DNA and sequenced. We obtained 19,271 reads, of which 18,206 high quality sequences were subjected to diversity analysis. A total of 305 operational taxonomic units (OTUs) were obtained corresponding to the members of firmicutes, proteobacteria, plantomycetes, actinobacteria, chloroflexi, bacteroidetes, and verucomicrobium. Firmicutes was the predominant phylum, which was largely represented with the family bacillaceae. More than 44 % of sequence reads could not be classified up to the species level and more than 14 % of the reads could not be assigned to any genus. Thus, the data indicates the possibility for the presence of uncultivable or unidentified novel bacterial species. In addition, the community structure identified in this study significantly differs with other reports from marine sediments.
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27
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H. Jacob J. Classification of Halophilic Heterotrophic Bacteria Thriving in the Jordanian
Dead Sea Littoral Zone. ACTA ACUST UNITED AC 2012. [DOI: 10.3923/jbs.2012.246.252] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
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28
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Hesham AEL, Mohamed NH, Ismail MA, Shoreit AAM. 16S rRNA gene sequences analysis of Ficus elastica rubber latex degrading thermophilic Bacillus strain ASU7 isolated from Egypt. Biodegradation 2012; 23:717-24. [PMID: 22453659 DOI: 10.1007/s10532-012-9547-8] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/05/2011] [Accepted: 03/06/2012] [Indexed: 11/29/2022]
Abstract
A thermophilic Bacillus strain ASU7 was isolated from soil sample collected from Assiut governorate in Upper Egypt on latex rubber-containing medium at 45 °C. Genetically, the 16S bacterial ribosomal RNA gene of the strain ASU7 was amplified by the polymerase chain reaction (PCR) and sequenced. The sequence of the PCR product was compared with known 16S rRNA gene sequences in the GenBank database. Based on phylogenetic analyses, strain ASU7 was identified as Bacillus amyloliquefaciens. The strain was able to utilize Ficus elastica rubber latex as a sole source for carbon and energy. The ability for degradation was determined by measuring the increase in protein content of bacterium (mg/g dry wt), reduction in molecular weight (g/mol), and inherent viscosity (dl/g) of the latex. Moreover, the degradation was also confirmed by observing the growth of bacterium and formation of aldehyde or keto group using scanning electron microscopy (SEM) and shiff's reagent, respectively.
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Affiliation(s)
- Abd El-Latif Hesham
- Department of Genetics, Faculty of Agriculture, Assiut University, Assiut 71516, Egypt
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29
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Phelan RW, O'Halloran JA, Kennedy J, Morrissey JP, Dobson ADW, O'Gara F, Barbosa TM. Diversity and bioactive potential of endospore-forming bacteria cultured from the marine sponge Haliclona simulans. J Appl Microbiol 2011; 112:65-78. [PMID: 21985154 DOI: 10.1111/j.1365-2672.2011.05173.x] [Citation(s) in RCA: 31] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
AIMS Despite the frequent isolation of endospore-formers from marine sponges, little is known about the diversity and characterization of individual isolates. The main aims of this study were to isolate and characterize the spore-forming bacteria from the marine sponge Haliclona simulans and to examine their potential as a source for bioactive compounds. METHODS AND RESULTS A bank of presumptive aerobic spore-forming bacteria was isolated from the marine sponge H. simulans. These represented c. 1% of the total culturable bacterial population. A subgroup of thirty isolates was characterized using morphological, phenotypical and phylogenetic analysis. A large diversity of endospore-forming bacteria was present, with the thirty isolates being distributed through a variety of Bacillus and Paenibacillus species. These included ubiquitous species, such as B. subtilis, B. pumilus, B. licheniformis and B. cereus group, as well as species that are typically associated with marine habitats, such as B. aquimaris, B. algicola and B. hwajinpoensis. Two strains carried the aiiA gene that encodes a lactonase known to be able to disrupt quorum-sensing mechanisms, and various isolates demonstrated protease activity and antimicrobial activity against different pathogenic indicator strains, including Clostridium perfringens, Bacillus cereus and Listeria monocytogenes. CONCLUSIONS The marine sponge H. simulans harbours a diverse collection of endospore-forming bacteria, which produce proteases and antibiotics. This diversity appears to be overlooked by culture-dependent and culture-independent methods that do not specifically target sporeformers. SIGNIFICANCE AND IMPACT OF STUDY Marine sponges are an as yet largely untapped and poorly understood source of endospore-forming bacterial diversity with potential biotechnological, biopharmaceutical and probiotic applications. These results also indicate the importance of combining different methodologies for the comprehensive characterization of complex microbial populations such as those found in marine sponges.
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Affiliation(s)
- R W Phelan
- Department of Microbiology, University College Cork, Cork, Ireland
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30
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Leyton Y, Riquelme C. Marine Bacillus spp. associated with the egg capsule of Concholepas concholepas (common name "loco") have an inhibitory activity toward the pathogen Vibrio parahaemolyticus. MICROBIAL ECOLOGY 2010; 60:599-605. [PMID: 20454959 DOI: 10.1007/s00248-010-9674-x] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/25/2009] [Accepted: 04/12/2010] [Indexed: 05/29/2023]
Abstract
The pandemic bacterium Vibrio parahaemolyticus, isolated from seawater, sediment, and marine organisms, is responsible for gastroenteric illnesses in humans and also cause diseases in aquaculture industry in Chile and other countries around the world. In this study, bacterial flora with inhibitory activity against pathogenic V. parahaemolyticus were collected from egg capsules of Concholepas concholepas and evaluated. The 16S rRNA fragment was sequenced from each isolated strain to determine its identity using the GenBank database. A phylogenetic analysis was made, and tests for the productions of antibacterial substance were performed using the double-layer method. Forty-five morphotypes of bacterial colonies were isolated, 8 of which presented an inhibitory effect on the growth of V. parahaemolyticus. 16S rRNA sequence and phylogenetic analysis show that these strains constitute taxa that are phylogenetically related to the Bacillus genus and are probably sister species or strains of the species Bacillus pumilus, Bacillus licheniform, or Bacillus sp. It is important to determine the nature of the antibacterial substance to evaluate their potential for use against the pathogen species V. parahaemolyticus.
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Affiliation(s)
- Yanett Leyton
- Microbial Ecology Laboratory, Aquaculture Department, Faculty of Marine Resources, University of Antofagasta, Casilla 170, Antofagasta, Chile.
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31
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Gupta S, Rajauria G, Abu-Ghannam N. Study of the microbial diversity and antimicrobial properties of Irish edible brown seaweeds. Int J Food Sci Technol 2010. [DOI: 10.1111/j.1365-2621.2009.02149.x] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
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32
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Ettoumi B, Raddadi N, Borin S, Daffonchio D, Boudabous A, Cherif A. Diversity and phylogeny of culturable spore-forming Bacilli isolated from marine sediments. J Basic Microbiol 2009; 49 Suppl 1:S13-23. [PMID: 19322832 DOI: 10.1002/jobm.200800306] [Citation(s) in RCA: 34] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Abstract
Members of the genus Bacillus and related genera are ubiquitous in nature. However, Bacillus species isolated from marine sediments have attracted less interest respect to their terrestrial relatives. Here, we report the phylogenetic diversity of a collection of 96 Bacilli, isolated from 17 distinct stations of 5 oceanographic campaigns. The diversity was analysed by phenotypic and molecular approaches based on the amplified rDNA restriction analysis (ARDRA), amplification of the internal transcribed spacers (ITS-PCR) and on 16S rRNA sequencing. Intra-specific polymorphism was efficiently detected by biochemical analysis and ARDRA while results of ITS-PCR were in agreement with 16S rRNA sequencing. The identification results assigned 68% of the isolates to the species B. subtilis, B. licheniformis, B. pumilus and B. cereus. Phylogenetic analysis allowed the separation of 9 isolates in a clade that may represent a group of obligate marine Bacillus since they clustered with B. firmus, B. foraminis and marine isolates with metal oxidation and bioaccumulation capabilities. The remaining isolates showed a close affiliation to the genera Virgibacillus, Gracilibacillus and Paenibacillus. The widespread of Bacilli and their high diversity level observed in this work point out the need of more extensive studies to understand their distribution and ecology in deep-sea environments.
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Affiliation(s)
- Besma Ettoumi
- Laboratoire Microorganismes et Biomolécules Actives, Faculté des Sciences de Tunis, Campus Universitaire, 2092, Tunis, Tunisia
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33
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Ki JS, Zhang W, Qian PY. Discovery of marine Bacillus species by 16S rRNA and rpoB comparisons and their usefulness for species identification. J Microbiol Methods 2009; 77:48-57. [PMID: 19166882 DOI: 10.1016/j.mimet.2009.01.003] [Citation(s) in RCA: 75] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/09/2008] [Revised: 12/11/2008] [Accepted: 01/03/2009] [Indexed: 10/21/2022]
Abstract
Systematic studies of the Bacillus group have been biased towards terrestrial and pathogenic isolates, and relatively few studies have examined Bacillus species from marine environments. Here we took twenty Bacillus strains from diverse marine environments and sequenced their 16S rRNA. Using molecular comparisons, we separated the strains into thirteen Bacillus genotypes and identified 9 species: B. aquaemaris. B. badius, B. cereus group, B. firmus, B. halmapalus, B. hwajinpoensis, B. litoralis, B. sporothermodurans, B. vietnamensis, and three indistinguishable Bacilli. In addition, we sequenced the DNA-directed RNA polymerase beta subunit (rpoB) gene and assessed its discriminative power in identifying Bacilli. Phylogenetic trees of Bacillus rpoB genes separated each Bacillus according to their taxonomic positions and were supported statistically. The resolution of Bacillus on the rpoB phylogenetic tree was approximately 4.5 times greater than on the 16S rRNA phylogenetic tree. These results demonstrate that the polymorphism of the Bacillus rpoB gene can be used to identify Bacillus species, providing an improved identification scheme for Bacillus species.
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Affiliation(s)
- Jang-Seu Ki
- Department of Biology, Coastal Marine Laboratory, Hong Kong University of Science and Technology, Clearwater Bay, Kowloon, Hong Kong
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Earl AM, Losick R, Kolter R. Ecology and genomics of Bacillus subtilis. Trends Microbiol 2008; 16:269-75. [PMID: 18467096 DOI: 10.1016/j.tim.2008.03.004] [Citation(s) in RCA: 252] [Impact Index Per Article: 15.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/16/2007] [Revised: 03/27/2008] [Accepted: 03/28/2008] [Indexed: 01/26/2023]
Abstract
Bacillus subtilis is a remarkably diverse bacterial species that is capable of growth within many environments. Recent microarray-based comparative genomic analyses have revealed that members of this species also exhibit considerable genomic diversity. The identification of strain-specific genes might explain how B. subtilis has become so broadly adapted. The goal of identifying ecologically adaptive genes could soon be realized with the imminent release of several new B. subtilis genome sequences. As we embark upon this exciting new era of B. subtilis comparative genomics we review what is currently known about the ecology and evolution of this species.
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Affiliation(s)
- Ashlee M Earl
- Department of Microbiology and Molecular Genetics, Harvard Medical School, Boston, MA 02115, USA
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