A model industrial workhorse: Bacillus subtilis strain 168 and its genome after a quarter of a century

Microbial Biotechnology, Год журнала: 2023, Номер 16(6), С. 1203 - 1231

Опубликована: Апрель 1, 2023

Abstract The vast majority of genomic sequences are automatically annotated using various software programs. accuracy these annotations depends heavily on the very few manual annotation efforts that combine verified experimental data with from model organisms. Here, we summarize updated functional Bacillus subtilis strain 168, a quarter century after its genome sequence was first made public. Since last such effort 5 years ago, 1168 genetic functions have been updated, allowing construction new metabolic this organism environmental and industrial interest. emphasis in review is insights, role metals metabolism macromolecule biosynthesis, involved biofilm formation, features controlling cell growth, finally, protein agents allow class discrimination, thus maintenance management, all processes. New ‘genomic objects’ an extensive literature included for sequence, now available at International Nucleotide Sequence Database Collaboration (INSDC: AccNum AL009126.4).

Язык: Английский

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Comparative transcriptome analysis reveals the biocontrol mechanism of Bacillus velezensis E68 against Fusarium graminearum DAOMC 180378, the causal agent of Fusarium head blight

PLoS ONE, Год журнала: 2023, Номер 18(1), С. e0277983 - e0277983

Опубликована: Янв. 26, 2023

Fusarium graminearum is the causal agent of Head Blight, a serious disease affecting grain crops worldwide. Biological control involves use microorganisms to combat plant pathogens such as F . Strains Bacillus velezensis are common biological candidates for against and other pathogens, they can secrete antifungal secondary metabolites. Here we study interaction between B E68 DAOMC 180378 by employing dual RNA-seq approach assess transcriptional changes in both organisms. In culture, up-regulated genes related sporulation phosphate stress down-regulated metabolism, biofilm formation tricarboxylic acid cycle. encoding killer protein 4-like proteins relating heavy metal tolerance, trichothecene biosynthesis phenol metabolism. This provides insight into molecular mechanisms involved biocontrol bacterium phytopathogenic fungus.

Язык: Английский

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Mechanisms of probiotic Bacillus against enteric bacterial infections

One Health Advances, Год журнала: 2023, Номер 1(1)

Опубликована: Авг. 15, 2023

Abstract Gastrointestinal infection is a leading cause of gut diseases attracting global health concerns. The emerging antimicrobial resistance in enteric pathogens drives the search viable and renewable alternatives to antibiotics for both human beings animals. Spore-forming probiotic Bacillus have received extensively interests their multiple benefits, including restoration microbiota dysbiosis reduction drug-resistant pathogens. These promising benefits are mainly attributed activity structurally diverse -derived metabolites, such as antibacterial compounds, short-chain fatty acids, other small molecules. Such metabolites show capacity directly target either individual or community bacterial pathogens, potentiate host cells microbiota. better understanding mechanisms by which modulate metabolism hosts will advance screening development . In this review, we discuss interaction among , host, summarize Bacillus- derived that act key players interactions, shedding light on mechanistic against infections.

Язык: Английский

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Bacillus subtilis -derived peptides disrupt quorum sensing and biofilm assembly in multidrug-resistant Staphylococcus aureus

mSystems, Год журнала: 2024, Номер 9(8)

Опубликована: Июль 11, 2024

ABSTRACT Multidrug-resistant Staphylococcus aureus is one of the most clinically important pathogens in world, with infections leading to high rates morbidity and mortality both humans animals. The ability S. form biofilms protects cells from antibiotics promotes transfer antibiotic resistance genes; therefore, new strategies aimed at inhibiting biofilm growth are urgently needed. Probiotic species, including Bacillus subtilis, gaining interest as potential therapies against for their reduce colonization virulence. Here, we search strains microbially derived compounds strong antibiofilm activity multidrug-resistant by isolating screening a variety agricultural environments. From total 1,123 environmental isolates, identify single strain B. subtilis 6D1, potent inhibit growth, disassemble mature biofilm, improve sensitivity through an Agr quorum sensing interference mechanism. Biochemical molecular networking analysis active organic fraction revealed multiple surfactin isoforms, uncharacterized peptide was driving this activity. Compared commercial high-performance liquid chromatography grade obtained , show these 6D1 peptides significantly better formation all four S . backgrounds preventing -induced cytotoxicity when applied HT29 human intestinal cells. Our study illustrates exploring microbial diversity discover novel agents that may help combat enhance efficacy clinical veterinary settings. IMPORTANCE bacterial pathogens, such increases microorganisms’ virulence decreases common regimens. Probiotics possess strain-specific competing organisms; however, mechanisms responsible phenomena often go uncharacterized. In study, identified mixture small probiotic-derived capable This collection also improved killing protected gut epithelial toxicity stimulating adaptive cytokine response. We conclude purposeful selection efforts can be used unique probiotic specially desired action. information further our understanding ways which prevent or

Язык: Английский

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Bacillus lipopeptides as key players in rhizosphere chemical ecology

Trends in Microbiology, Год журнала: 2024, Номер 33(1), С. 80 - 95

Опубликована: Авг. 29, 2024

HighlightsCyclic lipopeptides (CLPs) represent unique bacterial natural products with an amazing chemical diversity driving multiple potent bioactivities.More than just lubricants, solubilizers or killing agents, CLPs retain unsuspected array of functions and feature as private tools shared goods produced on demand.Resolving the molecular rules CLP selectivity for a given function requires combined expertise in biology, structural chemistry, biophysics to comprehensively understand their intricate interactions biological membranes.Discovering new should exploit multilevel microbial involve recent advances metagenomics, genome mining, community metabolomicsDeciphering ultimate proximate aspects lipopeptide science highlights relevance ecology.AbstractMicrobial are widely explored therapeutic potential. Understanding underlying evolutionary adaptive forces production remains fundamental question biology. Amphiphilic cyclic (CLPs), prominent category specialized metabolites, show strong antimicrobial activity, particularly against phytopathogens. It is thus assumed that these compounds deployed by soil- rhizosphere-dwelling bacteria weapons competitive environments. Here, we challenge this reductionist perspective present evidence Bacillus mediators ecological interactions. They help communicate, compete, defend predators, cooperate establish mutualistic relationships other (micro)organisms. Additional parallel examples highlighted genera, such Pseudomonas. This broader underscores need further investigation into role shaping strategies key rhizobacterial species.

Язык: Английский

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Deciphering the distinct biocontrol activities of lipopeptides fengycin and surfactin through their differential impact on lipid membranes

Colloids and Surfaces B Biointerfaces, Год журнала: 2024, Номер 239, С. 113933 - 113933

Опубликована: Апрель 29, 2024

Язык: Английский

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Species-specificity of the secondary biosynthetic potential in Bacillus

Frontiers in Microbiology, Год журнала: 2023, Номер 14

Опубликована: Окт. 23, 2023

Although Bacillus species have produced a wide variety of structurally diverse and biologically active natural products, the secondary biosynthetic potential is widely underestimated due to limited number gene clusters (BGCs) in this genus. The significant variation diversity novelty BGCs across different within genus presents major obstacle efficient discovery novel products from Bacillus.In study, each class all 6,378 high-quality genomes was predicted using antiSMASH, species-specificity BGC distribution investigated by Principal component analysis. Then structural metabolites with specific distributions were analyzed molecular networking.Our results revealed certain degree Bacillus, which mainly contributed siderophore, type III polyketide synthase (T3PKS), transAT-PKS BGCs. B. wiedmannii, thuringiensis, cereus are rich RiPP-like siderophore BGCs, but lack T3PKS while amyloliquefaciens velezensis abundant These collectively encode 77,541 NRPS RiPPs being two most dominant types, further categorized into 4,291 GCFs. Remarkably, approximately 54.5% GCFs 93.8% metabolite scaffolds found exclusively single species. Notably, cereus, exhibit highest for producing species-specific PKS bioinformatic products. Taking as examples, synthesize illustrated.This study highlights provides valuable insights targeted

Язык: Английский

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Pangenome mining of theStreptomycesgenus redefines their biosynthetic potential

bioRxiv (Cold Spring Harbor Laboratory), Год журнала: 2024, Номер unknown

Опубликована: Фев. 22, 2024

Abstract Background Streptomyces is a highly diverse genus known for the production of secondary or specialized metabolites with wide range applications in medical and agricultural industries. Several thousand complete nearly-complete genome sequences are now available, affording opportunity to deeply investigate biosynthetic potential within these organisms advance natural product discovery initiatives. Result We performed pangenome analysis on 2,371 genomes, including approximately 1,200 assemblies. Employing data-driven approach based similarities, was classified into 7 primary 42 MASH-clusters, forming basis comprehensive mining. A refined workflow grouping gene clusters (BGCs) redefined their diversity across different MASH-clusters. This also reassigned 2,729 BGC families only 440 families, reduction caused by inaccuracies boundary detections. When genomic location BGCs included analysis, conserved structure (synteny) among becomes apparent species synteny suggests that vertical inheritance major factor acquisition new BGCs. Conclusion Our dataset at scale thousands genomes predictions using MASH-clusters as analysis. The observed conservation order BGCs’ locations showed vertically inherited. presented in-depth pave way large-scale investigations enhance our understanding genus.

Язык: Английский

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How to identify and quantify the members of the Bacillus genus?

Environmental Microbiology, Год журнала: 2024, Номер 26(2)

Опубликована: Фев. 1, 2024

Abstract Members of the Bacillus genus are widely distributed throughout natural environments and have been studied for decades among others their physiology, genetics, ecological functions, applications. However, despite its prevalence in nature, characterization classification remain challenging due to complex ever‐evolving taxonomic framework. This review addresses current state landscape summarizes critical points development phylogeny. With a clear view phylogeny as foundation, we subsequently methodologies applied identifying quantifying , while also discussing respective advantages disadvantages.

Язык: Английский

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Inhibition mechanism of crude lipopeptide from Bacillus subtilis against Aeromonas veronii growth, biofilm formation, and spoilage of channel catfish flesh

Food Microbiology, Год журнала: 2024, Номер 120, С. 104489 - 104489

Опубликована: Фев. 12, 2024

Язык: Английский

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