Global analysis of adenylate-forming enzymes reveals β-lactone biosynthesis pathway in pathogenic Nocardia
Serina L. Robinson
Barbara R. Terlouw
Megan D. Smith
Sacha J. Pidot
Tim P. Stinear
Marnix H. Medema
Lawrence P. Wackett
Timothy Stinear
Stinear Timothy
ORCID: 0000-0003-0150-123X
Investigating the Role of Free-living Amoebae as a Reservoir for Mycobacterium ulcerans
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On the origin of Mycobacterium ulcerans, the causative agent of Buruli ulcer
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Mycolactone gene expression is controlled by strong SigA-like promoters with utility in studies of Mycobacterium ulcerans and buruli ulcer
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Mycobacterial pathogenomics and evolution
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In silico serotyping of E. Coli from short read data identifies limited novel o-loci but extensive diversity of O:H serotype combinations within and between pathogenic lineages
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A major role for mammals in the ecology of Mycobacterium ulcerans
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The lipoprotein LpqW is essential for the mannosylation of periplasmic glycolipids in corynebacteria
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Comprehensive antibiotic-linked mutation assessment by resistance mutation sequencing (RM-seq)
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First report of a mycolactone-producing Mycobacterium infection in fish agriculture in Belgium
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The dominant Australian community-acquired methicillin-resistant Staphylococcus aureus clone ST93-IV [2B] is highly virulent and genetically distinct
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Pathogenicity in the tubercle bacillus: Molecular and evolutionary determinants
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Pks5-recombination-mediated surface remodelling in Mycobacterium tuberculosis emergence
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Corrigendum: In silico serotyping of E. coli from short read data identifies limited novel O-loci but extensive diversity of O:H serotype combinations within and between pathogenic lineages
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Analysis of the Mycobacterium ulcerans genome sequence reveals new loci for variable number tandem repeats (VNTR) typing
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Buruli ulcer (M. ulcerans infection): New insights, new hope for disease control
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Complete genome sequence of Staphylococcus aureus strain JKD6008, an ST239 clone of methicillin-resistant Staphylococcus aureus with intermediate-level vancomycin resistance
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Mining the Methylome Reveals Extensive Diversity in Staphylococcus epidermidis Restriction Modification
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A novel mycolactone from a clinical isolate of Mycobacterium ulcerans provides evidence for additional toxin heterogeneity as a result of specific changes in the modular polyketide synthase
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Exposure risk for infection and lack of human-to-human transmission of Mycobacterium ulcerans disease, Australia
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Insights from the complete genome sequence of Mycobacterium marinum on the evolution of Mycobacterium tuberculosis
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Leprosy in red squirrels
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In-vitro Activity of Avermectins against Mycobacterium ulcerans
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Sharing Is Caring: International Sharing of Data Enhances Genomic Surveillance of Listeria monocytogenes
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Genome Mining and Heterologous Expression Reveal Two Distinct Families of Lasso Peptides Highly Conserved in Endofungal Bacteria
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Genomic analysis of multiresistant staphylococcus capitis associated with neonatal sepsis
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Correction to: Whole Genome Comparisons Suggest Random Distribution of Mycobacterium ulcerans Genotypes in a Buruli Ulcer Endemic Region of Ghana (PLoS Negl Trop Dis, 9, 5)
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Biosynthesis and Ether-Bridge Formation in Nargenicin Macrolides
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The changing landscape of vancomycin-resistant Enterococcus faecium in Australia: A population-level genomic study
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Use of bacterial whole-genome sequencing to understand and improve the management of invasive Staphylococcus aureus infections
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Genomic analysis reveals a point mutation in the two-component sensor gene graS that leads to intermediate vancomycin resistance in clinical Staphylococcus aureus
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A diagnostic PCR assay for the detection of an Australian epidemic strain of Pseudomonas aeruginosa
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Mycobacterium chimaera spread from heating and cooling units in heart surgery
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Multiple Introductions and Recent Spread of the Emerging Human Pathogen Mycobacterium ulcerans across Africa
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The RpoB H148 Y rifampicin resistance mutation and an active stringent response reduce virulence and increase resistance to innate immune responses in staphylococcus aureus
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The genome, evolution and diversity of Mycobacterium ulcerans
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Reply to "internet-based solutions for analysis of next-generation sequence data"
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Identification and Mobilization of a Cryptic Antibiotic Biosynthesis Gene Locus from a Human-Pathogenic Nocardia Isolate
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IFN-γ and IL-5 whole blood response directed against mycolactone polyketide synthase domains in patients with Mycobacterium ulcerans infection
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Genomic epidemiology and antimicrobial resistance of Neisseria gonorrhoeae in New Zealand
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Snapshot fecal survey of domestic animals in rural Ghana for Mycobacterium ulcerans
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Emergence of endemic MLST non-typeable vancomycin-resistant Enterococcus faecium
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Possible healthcare-associated transmission as a cause of secondary infection and population structure of Staphylococcus aureus isolates from two wound treatment centres in Ghana
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Regulation of Mycolactone, the Mycobacterium ulcerans Toxin, Depends on Nutrient Source
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Evaluation of VNTR typing for the identification of Mycobacterium ulcerans in environmental samples from Victoria, Australia
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Genome Mining Reveals Endopyrroles from a Nonribosomal Peptide Assembly Line Triggered in Fungal-Bacterial Symbiosis
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Genomic insights to control the emergence of vancomycin-resistant enterococci
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Comprehensive proteome analysis of Mycobacterium ulcerans and quantitative comparison of mycolactone biosynthesis
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Mycobacterium ulcerans population genomics to inform on the spread of Buruli ulcer across Central Africa
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Evolution of multidrug resistance during staphylococcus aureus infection involves mutation of the essential two component regulator WalKR
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1,2,4-Oxadiazole antimicrobials act synergistically with daptomycin and display rapid kill kinetics against MDR Enterococcus faecium
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Topical antibiotic use coselects for the carriage of mobile genetic elements conferring resistance to unrelated antimicrobials in staphylococcus aureus
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Whole Genome Comparisons Suggest Random Distribution of Mycobacterium ulcerans Genotypes in a Buruli Ulcer Endemic Region of Ghana
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Erratum: Buruli ulcer (M. ulcerans infection): New insights, new hope for disease control (PLoS Medicine 2:4 DOI: 10.1371/journal.pmed.0020108)
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Vancomycin-resistant Enterococcus faecium sequence type 796 - rapid international dissemination of a new epidemic clone
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Zinc-binding to the cytoplasmic PAS domain regulates the essential WalK histidine kinase of Staphylococcus aureus
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Genomic insights into a sustained national outbreak of yersinia pseudotuberculosis
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Detection of pathogenic Yersinia enterocolitica in environmental waters by PCR
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A supervised statistical learning approach for accurate Legionella pneumophila source attribution during outbreaks
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Ongoing genome reduction in Mycobacterium ulcerans
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Adaptive change inferred from genomic population analysis of the ST93 epidemic clone of community-associated methicillin-resistant Staphylococcus aureus
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First isolation of Mycobacterium ulcerans from an aquatic environment: The end of a 60-year search?
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Low incidence of recurrent Buruli ulcers in treated Australian patients living in an endemic region
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Bystander Activation of Pulmonary Trm Cells Attenuates the Severity of Bacterial Pneumonia by Enhancing Neutrophil Recruitment
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Genomic analysis of ST88 communityacquired methicillin resistant Staphylococcus aureus in Ghana
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NGMASTER:in silico multi-antigen sequence typing for Neisseria gonorrhoeae
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Genome comparisons provide insights into the role of secondary metabolites in the pathogenic phase of the Photorhabdus life cycle
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Complete genome sequence of Staphylococcus aureus strain JKD6159, a unique Australian clone of ST93-IV community methicillin-resistant Staphylococcus aureus
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Methicillin resistant Staphylococcus aureus transmission in a Ghanaian burn unit: The importance of active surveillance in resource-limited settings
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Mycolactones: Immunosuppressive and cytotoxic polyketides produced by aquatic mycobacteria
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Functional analysis of the first complete genome sequence of a multidrug resistant sequence type 2 Staphylococcus epidermidis
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Regulation of the 18-kDa heat shock protein in Mycobacterium ulcerans: An alpha-crystallin orthologue that promotes biofilm formation
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Genomewide profiling of the Enterococcus faecalis transcriptional response to teixobactin reveals CroRS as an essential regulator of antimicrobial tolerance
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Evolutionary origins of the emergent ST796 clone of vancomycin resistant Enterococcus faecium
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A novel mycolactone toxin obtained by biosynthetic engineering
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Identification of Mycobacterium ulcerans in the environment from regions in southeast Australia in which it is endemic with sequence capture-PCR
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Rapid and sensitive detection of Mycobacterium ulcerans by use of a loop-mediated isothermal amplification test
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Corrigendum to A glimpse into the past and predictions for the future: The molecular evolution of the tuberculosis agent [Mol Microbiol 93 (2014) 835-852]
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Giant plasmid-encoded polyketide synthases produce the macrolide toxin of Mycobacterium ulcerans
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The ΦBT1 large serine recombinase catalyzes DNA integration at pseudo-attB sites in the genus Nocardia
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Lack of insertional-deletional polymorphism in a collection of Mycobacterium ulcerans isolates from Ghanaian Buruli ulcer patients
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Buruli ulcer: Reductive evolution enhances pathogenicity of Mycobacterium ulcerans
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Genomics-Driven Discovery of NO-Donating Diazeniumdiolate Siderophores in Diverse Plant-Associated Bacteria
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Reconstruction of the genomes of drug-resistant pathogens for outbreak investigation through metagenomic sequencing
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Convergent adaptation in the dominant global hospital clone ST239 of methicillin-resistant Staphylococcus aureus
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Serological evaluation of mycobacterium ulcerans Antigens identified by comparative genomics
10.1371/journal.pntd.0000872
Single nucleotide polymorphism typing of mycobacterium ulcerans reveals focal transmission of buruli ulcer in a highly endemic Region of Ghana
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Population genetics and the evolution of virulence in Staphylococcus aureus
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Hyperexpression of -hemolysin explains enhanced virulence of sequence type 93 community-associated methicillin-resistant Staphylococcus aureus
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Vancomycin-intermediate Staphylococcus aureus isolates are attenuated for virulence when compared with susceptible progenitors
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A Genomic Approach to Resolving Relapse versus Reinfection among Four Cases of Buruli Ulcer
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Global spread of three multidrug-resistant lineages of Staphylococcus epidermidis
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Genomic exploration of sequential clinical isolates reveals a distinctive molecular signature of persistent Staphylococcus aureus bacteraemia
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Remodeling of pSK1 family plasmids and enhanced chlorhexidine tolerance in a dominant hospital lineage of methicillin-resistant staphylococcus aureus
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Rapid emergence and evolution of Staphylococcus aureus clones harboring fusC-containing staphylococcal cassette chromosome elements
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The molecular epidemiology of the highly virulent st93 australian community staphylococcus aureus strain
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Genomics for molecular epidemiology and detecting transmission of carbapenemase-producing enterobacterales in Victoria, Australia, 2012 to 2016
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Deciphering the genetic basis for polyketide variation among mycobacteria producing mycolactones
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The first isolation and whole genome sequencing of murray valley encephalitis virus from cerebrospinal fluid of a patient with encephalitis
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Convergent evolution driven by rifampin exacerbates the global burden of drug-resistant Staphylococcus aureus
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Common evolutionary origin for the unstable virulence plasmid pMUM found in geographically diverse strains of Mycobacterium ulcerans
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Human blood MAIT cell subsets defined using MR1 tetramers
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Identification of the Mycobacterium ulcerans Protein MUL_3720 as a Promising Target for the Development of a Diagnostic Test for Buruli Ulcer
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Genomic analysis of smooth tubercle bacilli provides insights into ancestry and pathoadaptation of Mycobacterium tuberculosis
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Functional genomics of staphylococcus aureus
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Unstable chromosome rearrangements in Staphylococcus aureus cause phenotype switching associated with persistent infections
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Structure and Biosynthesis of Isatropolones, Bioactive Amine-Scavenging Fluorescent Natural Products from Streptomyces Gö66
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Comment on: Benchmarking of methods for identification of antimicrobial resistance genes in bacterial whole genome data
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Genomic investigation of Staphylococcus aureus recovered from Gambian women and newborns following an oral dose of intra-partum azithromycin
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Outbreak investigation using high-throughput genome sequencing within a diagnostic microbiology laboratory
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Evolution of Mycobacterium ulcerans and other mycolactone-producing mycobacteria from a common Mycobacterium marinum progenitor
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Different bacterial gene expression patterns and attenuated host immune responses are associated with the evolution of low-level vancomycin resistance during persistent methicillin-resistant Staphylococcus aureus bacteraemia
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Buruli ulcers in a Spanish aid worker after a stay in Peru
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Dual gene expression analysis identifies factors associated with Staphylococcus aureus virulence in diabetic mice
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Mycobacterium ulcerans in mosquitoes captured during outbreak of Buruli ulcer, southeastern Australia
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Molecular epidemiology of enterococcal bacteremia in Australia
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Comparative genomics shows that Mycobacterium ulcerans migration and expansion preceded the rise of Buruli ulcer in southeastern Australia
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Complete bypass of restriction systems for major staphylococcus aureus lineages
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Burkholderia lata infections from intrinsically contaminated chlorhexidine Mouthwash, Australia, 2016
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Natural product diversity associated with the nematode symbionts Photorhabdus and Xenorhabdus
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Mycobacterium ulcerans DNA not detected in Faecal samples from Buruli ulcer patients: Results of a pilot study
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Functional analysis and annotation of the virulence plasmid pMUM001 from Mycobacterium ulcerans
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Increasing tolerance of hospital Enterococcus faecium to handwash alcohols
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Isolates with low-level vancomycin resistance associated with persistent methicillin-resistant Staphylococcus aureus bacteremia
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Genomics of vancomycin-resistant enterococcus faecium
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Bacterial membrane vesicles transport their DNA cargo into host cells
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Genomic analysis of teicoplanin resistance emerging during treatment of vanB vancomycin-resistant Enterococcus faecium infections in solid organ transplant recipients including donor-derived cases
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Mycobacterium ulcerans - A mini-review
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Target-specific assay for rapid and quantitative detection of Mycobacterium chimaera DNA
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Changes in protein abundance are observed in bacterial isolates from a natural host
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Analysis of a novel pncA mutation for susceptibility to pyrazinamide therapy
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Aquatic Plants Stimulate the Growth of and Biofilm Formation by Mycobacterium ulcerans in Axenic Culture and Harbor These Bacteria in the Environment
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Development and application of two multiplex real-time PCR assays for the detection of Mycobacterium ulcerans in clinical and environmental samples
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Whole-genome sequencing reveals transmission of gonococcal antibiotic resistance among men who have sex with men: An observational study
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A nanomechanical study of the effects of colistin on the Klebsiella pneumoniae AJ218 capsule
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Evolution of virulence in Enterococcus faecium, a hospital-adapted opportunistic pathogen
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Mycobacterial toxin induces analgesia in Buruli ulcer by targeting the angiotensin pathways
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A glimpse into the past and predictions for the future: The molecular evolution of the tuberculosis agent
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Reductive evolution and niche adaptation inferred from the genome of Mycobacterium ulcerans, the causative agent of Buruli ulcer
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Metabolomic profiles delineate mycolactone signature in Buruli ulcer disease
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Mining Symbionts of Spider-Transmitted Fungus Illuminates Uncharted Biosynthetic Pathways to Cytotoxic Benzolactones.
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Predicting nitroimidazole antibiotic resistance mutations in Mycobacterium tuberculosis with protein engineering.
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Global analysis of adenylate-forming enzymes reveals β-lactone biosynthesis pathway in pathogenic Nocardia
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Genomics‐Driven Discovery of NO‐Donating Diazeniumdiolate Siderophores in Diverse Plant‐Associated Bacteria
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Mining Symbionts of a Spider‐Transmitted Fungus Illuminates Uncharted Biosynthetic Pathways to Cytotoxic Benzolactones
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YycH and YycI Regulate Expression of Staphylococcus aureus Autolysins by Activation of WalRK Phosphorylation
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Global analysis of adenylate-forming enzymes reveals β-lactone biosynthesis pathway in pathogenic Nocardia
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Sacha Pidot
Pidot Sacha
ORCID: 0000-0003-1202-6614
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Analysis of the Vaccine Potential of Plasmid DNA Encoding Nine Mycolactone Polyketide Synthase Domains in Mycobacterium ulcerans Infected Mice
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Antibiotics from neglected bacterial sources
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The Cell Wall-Associated Mycolactone Polyketide Synthases Are Necessary but Not Sufficient for Mycolactone Biosynthesis
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A genomic approach to the cryptic secondary metabolome of the anaerobic world
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Regulation of the 18-kDa heat shock protein in Mycobacterium ulcerans: An alpha-crystallin orthologue that promotes biofilm formation
10.1111/j.1365-2958.2010.07401.x
Serological evaluation of mycobacterium ulcerans Antigens identified by comparative genomics
10.1371/journal.pntd.0000872
A major role for mammals in the ecology of Mycobacterium ulcerans
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Single nucleotide polymorphism typing of mycobacterium ulcerans reveals focal transmission of buruli ulcer in a highly endemic Region of Ghana
10.1371/journal.pntd.0000751
Mycobacterium ulcerans and other Mycolactone-producing mycobacteria should be considered a single species
10.1371/journal.pntd.0000663
Mycolactone gene expression is controlled by strong SigA-like promoters with utility in studies of Mycobacterium ulcerans and buruli ulcer
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The NanI and NanJ sialidases of Clostridium perfringens are not essential for virulence
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Deciphering the genetic basis for polyketide variation among mycobacteria producing mycolactones
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Mycolactones: Immunosuppressive and cytotoxic polyketides produced by aquatic mycobacteria
10.1039/b803101k
Reductive evolution and niche adaptation inferred from the genome of Mycobacterium ulcerans, the causative agent of Buruli ulcer
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Plant pathogenic anaerobic bacteria use aromatic polyketides to access aerobic territory.
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A supervised statistical learning approach for accurate Legionella pneumophila source attribution during outbreaks
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Mycobacterium ulcerans low infectious dose and mechanical transmission support insect bites and puncturing injuries in the spread of Buruli ulcer
10.1371/journal.pntd.0005553
Structure and Biosynthesis of Isatropolones, Bioactive Amine-Scavenging Fluorescent Natural Products from Streptomyces Gö66
10.1002/anie.201701223
Bacterial membrane vesicles transport their DNA cargo into host cells
10.1038/s41598-017-07288-4
A nanomechanical study of the effects of colistin on the Klebsiella pneumoniae AJ218 capsule
10.1007/s00249-016-1178-2
Natural product diversity associated with the nematode symbionts Photorhabdus and Xenorhabdus
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Increasing tolerance of hospital Enterococcus faecium to handwash alcohols
10.1126/scitranslmed.aar6115
IFN-γ and IL-5 whole blood response directed against mycolactone polyketide synthase domains in patients with Mycobacterium ulcerans infection.
10.7717/peerj.5294
The ΦBT1 large serine recombinase catalyzes DNA integration at pseudo-attB sites in the genus Nocardia
10.7717/peerj.4784
Comprehensive antibiotic-linked mutation assessment by Resistance Mutation Sequencing (RM-seq)
10.1101/257915
Convergent Evolution Driven by Rifampin Exacerbates the Global Burden of Drug-Resistant Staphylococcus aureus.
10.1128/mSphere.00550-17
A Supervised Statistical Learning Approach For Accurate Legionella pneumophila Source Attribution During Outbreaks
10.1101/133033
Functional analysis of the first complete genome sequence of a multidrug resistant sequence type 2 Staphylococcus epidermidis.
10.1099/mgen.0.000077
Mycobacterium ulcerans low infectious dose and atypical mechanical transmission support insect bites and puncturing injuries in the spread of Buruli ulcer.
10.1101/071753
Increasing tolerance of hospital Enterococcus faecium to hand-wash alcohols
10.1101/053728
Comprehensive antibiotic-linked mutation assessment by resistance mutation sequencing (RM-seq).
10.1186/s13073-018-0572-z
Zinc-binding to the cytoplasmic PAS domain regulates the essential WalK histidine kinase of Staphylococcus aureus
10.1101/405365
Biosynthesis and Ether‐Bridge Formation in Nargenicin Macrolides
10.1002/ange.201900290
Biosynthesis and Ether‐Bridge Formation in Nargenicin Macrolides
10.1002/anie.201900290
Zinc-binding to the cytoplasmic PAS domain regulates the essential WalK histidine kinase of Staphylococcus aureus
10.1038/s41467-019-10932-4
Genomics‐Driven Discovery of NO‐Donating Diazeniumdiolate Siderophores in Diverse Plant‐Associated Bacteria
10.1002/ange.201906326
Genomics‐Driven Discovery of NO‐Donating Diazeniumdiolate Siderophores in Diverse Plant‐Associated Bacteria
10.1002/anie.201906326
Identification and Mobilization of a Cryptic Antibiotic Biosynthesis Gene Locus from a Human-Pathogenic Nocardia Isolate
10.1021/acschembio.9b00763
Global analysis of adenylate-forming enzymes reveals β-lactone biosynthesis pathway in pathogenic Nocardia
10.1101/856955
The Nargenicin Family of Oxa‐Bridged Macrolide Antibiotics
10.1002/chem.201904053
Genome Mining and Heterologous Expression Reveal Two Distinct Families of Lasso Peptides Highly Conserved in Endofungal Bacteria
10.1021/acschembio.9b00805
Predicting nitroimidazole antibiotic resistance mutations in Mycobacterium tuberculosis with protein engineering
10.1371/journal.ppat.1008287
Frontispiece: The Nargenicin Family of Oxa‐Bridged Macrolide Antibiotics
10.1002/chem.202081362
Secreted TAL effectors protect symbiotic bacteria from entrapment within fungal hyphae
10.1101/2020.03.28.013177
Symbiosis, virulence and natural-product biosynthesis in entomopathogenic bacteria are regulated by a small RNA
10.1038/s41564-020-00797-5
In vitro activity of SPR719 against Mycobacterium ulcerans, Mycobacterium marinum and Mycobacterium chimaera
10.1371/journal.pntd.0009636
Accessible Platform for High-Throughput COVID-19 Molecular Diagnostics and Genome Sequencing Using a Repurposed 3D Printer for RNA Extraction
10.1021/acsbiomaterials.1c00775
Bacterial endosymbionts protect beneficial soil fungus from nematode attack
10.1073/pnas.2110669118
Megan Smith
Smith Megan
ORCID: 0000-0001-9000-6622
Global analysis of adenylate-forming enzymes reveals β-lactone biosynthesis pathway in pathogenic Nocardia
10.1101/856955
Machine learning-based prediction of activity and substrate specificity for OleA enzymes in the thiolase superfamily
10.1093/synbio/ysaa004
Barbara Terlouw
Terlouw Barbara
ORCID: 0000-0002-4058-6718
MIBiG 2.0: a repository for biosynthetic gene clusters of known function
10.1093/nar/gkz882
Global analysis of adenylate-forming enzymes reveals β-lactone biosynthesis pathway in pathogenic Nocardia
10.1101/856955
Dissecting Disease-Suppressive Rhizosphere Microbiomes by Functional Amplicon Sequencing and 10× Metagenomics
10.1128/mSystems.01116-20
Marnix H. Medema
Medema Marnix H.
ORCID: 0000-0002-2191-2821
antiSMASH
10.1007/978-1-4899-7478-5_703
Bioinformatics Approaches and Software for Detection of Secondary Metabolic Gene Clusters
10.1007/978-1-62703-122-6_2
Synthetic Biology in Streptomyces Bacteria
10.1016/b978-0-12-385075-1.00021-4
Computational approaches to natural product discovery
10.1038/nchembio.1884
Exploiting plug-and-play synthetic biology for drug discovery and production in microorganisms
10.1038/nrmicro2478
A Systematic Computational Analysis of Biosynthetic Gene Cluster Evolution: Lessons for Engineering Biosynthesis
10.1371/journal.pcbi.1004016
Comparative genome-scale metabolic modeling of actinomycetes: The topology of essential core metabolism
10.1016/j.febslet.2011.06.014
MultiMetEval: Comparative and Multi-Objective Analysis of Genome-Scale Metabolic Models
10.1371/journal.pone.0051511
The future of industrial antibiotic production: From random mutagenesis to synthetic biology
10.4161/bbug.2.4.16114
Metabolomics methods for the synthetic biology of secondary metabolism
10.1016/j.febslet.2012.02.008
Computational tools for the synthetic design of biochemical pathways
10.1038/nrmicro2717
A predicted physicochemically distinct sub-proteome associated with the intracellular organelle of the anammox bacterium Kuenenia stuttgartiensis
10.1186/1471-2164-11-299
Genome-wide gene expression changes in an industrial clavulanic acid overproduction strain of Streptomyces clavuligerus
10.1111/j.1751-7915.2010.00226.x
Denitrifying bacteria anaerobically oxidize methane in the absence of Archaea
10.1111/j.1462-2920.2008.01724.x
Insights into Secondary Metabolism from a Global Analysis of Prokaryotic Biosynthetic Gene Clusters
10.1016/j.cell.2014.06.034
Pep2Path: Automated Mass Spectrometry-Guided Genome Mining of Peptidic Natural Products
10.1371/journal.pcbi.1003822
antiSMASH 3.0—a comprehensive resource for the genome mining of biosynthetic gene clusters
10.1093/nar/gkv437
Design-based re-engineering of biosynthetic gene clusters: plug-and-play in practice
10.1016/j.copbio.2013.03.006
Functional Exchangeability of Oxidase and Dehydrogenase Reactions in the Biosynthesis of Hydroxyphenylglycine, a Nonribosomal Peptide Building Block
10.1021/sb500368w
antiSMASH 2.0--a versatile platform for genome mining of secondary metabolite producers
10.1093/nar/gkt449
antiSMASH: rapid identification, annotation and analysis of secondary metabolite biosynthesis gene clusters in bacterial and fungal genome sequences
10.1093/nar/gkr466
The Sequence of a 1.8-Mb Bacterial Linear Plasmid Reveals a Rich Evolutionary Reservoir of Secondary Metabolic Pathways
10.1093/gbe/evq013
MS/MS networking guided analysis of molecule and gene cluster families
10.1073/pnas.1303471110
Detecting Sequence Homology at the Gene Cluster Level with MultiGeneBlast
10.1093/molbev/mst025
Complete Genome Sequence of the Frog Pathogen Mycobacterium ulcerans Ecovar Liflandii
10.1128/jb.02132-12
NRPSpredictor2--a web server for predicting NRPS adenylation domain specificity
10.1093/nar/gkr323
Mechanisms and Evolution of Control Logic in Prokaryotic Transcriptional Regulation
10.1128/mmbr.00037-08
Genomic mutational analysis of the impact of the classical strain improvement program on β-lactam producing Penicillium chrysogenum.
10.1186/s12864-015-2154-4
Leucanicidin and endophenasides result from methyl-rhamnosylation by the same tailoring enzymes in Kitasatospora sp. MBT66
10.1021/acschembio.5b00801
Computational strategies for genome-based natural product discovery and engineering in fungi
10.1016/j.fgb.2016.01.006
The antiSMASH database, a comprehensive database of microbial secondary metabolite biosynthetic gene clusters
10.1093/nar/gkw960
Indexing the Pseudomonas specialized metabolome enabled the discovery of poaeamide B and the bananamides
10.1038/nmicrobiol.2016.197
Editorial: Synthetic biology and bioinformatics
10.1039/c6np90031c
plantiSMASH: automated identification, annotation and expression analysis of plant biosynthetic gene clusters
10.1093/nar/gkx305
Genome-based exploration of the specialized metabolic capacities of the genus Rhodococcus
10.1186/s12864-017-3966-1
Mining prokaryotes for antimicrobial compounds: from diversity to function
10.1093/femsre/fux014
Recent development of antiSMASH and other computational approaches to mine secondary metabolite biosynthetic gene clusters
10.1093/bib/bbx146
Standardization for natural product synthetic biology
10.1039/c6np00030d
Computational genomic identification and functional reconstitution of plant natural product biosynthetic pathways
10.1039/c6np00035e
Draft Genome Sequence of a Porcine Commensal, Rothia nasimurium , Encoding a Nonribosomal Peptide Synthetase Predicted To Produce the Ionophore Antibiotic Valinomycin
10.1128/genomea.00453-17
SANDPUMA: ensemble predictions of nonribosomal peptide chemistry reveal biosynthetic diversity across Actinobacteria
10.1093/bioinformatics/btx400
Collaborating with Undergraduates To Contribute to Biochemistry Community Resources
10.1021/acs.biochem.7b00872
Road MAPs to engineer host microbiomes.
10.1016/j.mib.2017.11.023
Genome-wide analysis of bacterial determinants of plant growth promotion and induced systemic resistance by Pseudomonas fluorescens.
10.1111/1462-2920.13927
Unearthing a sesterterpene biosynthetic repertoire in the Brassicaceae through genome mining reveals convergent evolution.
10.1073/pnas.1705567114
antiSMASH 4.0-improvements in chemistry prediction and gene cluster boundary identification.
10.1093/nar/gkx319
Comprehensive curation and analysis of fungal biosynthetic gene clusters of published natural products.
10.1016/j.fgb.2016.01.012
Exploration and exploitation of the environment for novel specialized metabolites.
10.1016/j.copbio.2018.01.017
Computational Genomics of Specialized Metabolism: from Natural Product Discovery to Microbiome Ecology
10.1128/mSystems.00182-17
Analysis of the Pseudouridimycin Biosynthetic Pathway Provides Insights into the Formation of C-nucleoside Antibiotics.
10.1016/j.chembiol.2018.02.008
HEx: A heterologous expression platform for the discovery of fungal natural products.
10.1126/sciadv.aar5459
luxR Homolog-Linked Biosynthetic Gene Clusters in Proteobacteria.
10.1128/msystems.00208-17
A Pressure Test to Make 10 Molecules in 90 Days: External Evaluation of Methods to Engineer Biology.
10.1021/jacs.7b13292
Evolution and Diversity of Biosynthetic Gene Clusters in Fusarium.
10.3389/fmicb.2018.01158
Involvement of Burkholderiaceae and sulfurous volatiles in disease-suppressive soils.
10.1038/s41396-018-0186-x
Genomic Identification and Analysis of Specialized Metabolite Biosynthetic Gene Clusters in Plants Using PlantiSMASH.
10.1007/978-1-4939-7874-8_15
A standardized workflow for submitting data to the Minimum Information about a Biosynthetic Gene cluster (MIBiG) repository: prospects for research-based educational experiences
10.1186/s40793-018-0318-y
The antiSMASH database version 2: a comprehensive resource on secondary metabolite biosynthetic gene clusters
10.1093/nar/gky1060
Comprehensive mass spectrometry-guided plant specialized metabolite phenotyping reveals metabolic diversity in the cosmopolitan plant family Rhamnaceae
10.1101/463620
Mining bacterial genomes to reveal secret synergy
10.1074/jbc.H118.006669
Computational identification of co-evolving multi-gene modules in microbial biosynthetic gene clusters
10.1038/s42003-019-0333-6
Comprehensive mass spectrometry-guided plant specialized metabolite phenotyping reveals metabolic diversity in the cosmopolitan plant family Rhamnaceae
10.1111/tpj.14292
A genetical metabolomics approach for bioprospecting plant biosynthetic gene clusters
10.1186/s13104-019-4222-3
antiSMASH 5.0: updates to the secondary metabolite genome mining pipeline
10.1093/nar/gkz310
MolNetEnhancer: enhanced molecular networks by integrating metabolome mining and annotation tools
10.1101/654459
BiosyntheticSPAdes: Reconstructing Biosynthetic Gene Clusters From Assembly Graphs
10.1101/gr.243477.118
Genome Mining Approaches to Bacterial Natural Product Discovery
10.1016/b978-0-12-409547-2.14627-x
Computer-aided re-engineering of nonribosomal peptide and polyketide biosynthetic assembly lines
10.1039/C9NP00021F
PlantiSMASH: automated identification, annotation and expression analysis of plant biosynthetic gene clusters
10.1101/083535
MolNetEnhancer: Enhanced Molecular Networks by Integrating Metabolome Mining and Annotation Tools
10.3390/metabo9070144
Assessing Specialized Metabolite Diversity in the Cosmopolitan Plant Genus Euphorbia L.
10.3389/fpls.2019.00846
Pathogen-induced activation of disease-suppressive functions in the endophytic root microbiome
10.1126/science.aaw9285
MIBiG 2.0: a repository for biosynthetic gene clusters of known function
10.1093/nar/gkz882
A metabolic pathway for bile acid dehydroxylation by the gut microbiome
10.1101/758557
Coevolution-based prediction of protein-protein interactions in polyketide biosynthetic assembly lines
10.1101/669291
The Natural Products Atlas: An Open Access Knowledge Base for Microbial Natural Products Discovery
10.1021/acscentsci.9b00806
Cultivation and functional characterization of 79 planctomycetes uncovers their unique biology
10.1038/s41564-019-0588-1
Global analysis of adenylate-forming enzymes reveals β-lactone biosynthesis pathway in pathogenic Nocardia
10.1101/856955
Drivers of metabolic diversification: how dynamic genomic neighbourhoods generate new biosynthetic pathways in the Brassicaceae
10.1111/nph.16338
Microbial and volatile profiling of soils suppressive to Fusarium culmorum of wheat
10.1098/rspb.2019.2527
Computational genomic discovery of diverse gene clusters harboring Fe-S flavoenzymes in anaerobic gut microbiota
10.1101/2020.03.06.976126
RRE-Finder: A Genome-Mining Tool for Class-Independent RiPP Discovery
10.1101/2020.03.14.992123
Linking genomics and metabolomics to chart specialized metabolic diversity
10.1039/D0CS00162G
Computational genomic discovery of diverse gene clusters harbouring Fe-S flavoenzymes in anaerobic gut microbiota
10.1099/mgen.0.000373
ARTS 2.0: feature updates and expansion of the Antibiotic Resistant Target Seeker for comparative genome mining
10.1093/nar/gkaa374
Integration of machine learning and pan-genomics expands the biosynthetic landscape of RiPP natural products
10.1101/2020.05.19.104752
Ecology and genomics of Actinobacteria: new concepts for natural product discovery
10.1038/s41579-020-0379-y
The planctomycete Stieleria maiorica Mal15T employs stieleriacines to alter the species composition in marine biofilms
10.1038/s42003-020-0993-2
BiG-SLiCE: A Highly Scalable Tool Maps the Diversity of 1.2 Million Biosynthetic Gene Clusters
10.1101/2020.08.17.240838
Global analysis of adenylate-forming enzymes reveals β-lactone biosynthesis pathway in pathogenic Nocardia
10.1074/jbc.RA120.013528
Microbial natural product databases: moving forward in the multi-omics era
10.1039/D0NP00053A
Author Correction: The planctomycete Stieleria maiorica Mal15T employs stieleriacines to alter the species composition in marine biofilms
10.1038/s42003-020-01228-1
RRE-Finder: a Genome-Mining Tool for Class-Independent RiPP Discovery
10.1128/mSystems.00267-20
Author Correction: The planctomycete Stieleria maiorica Mal15T employs stieleriacines to alter the species composition in marine biofilms
10.1038/s42003-020-01271-y
BiG-FAM: the biosynthetic gene cluster families database
10.1093/nar/gkaa812
Coevolution-based prediction of protein–protein interactions in polyketide biosynthetic assembly lines
10.1093/bioinformatics/btaa595
The antiSMASH database version 3: increased taxonomic coverage and new query features for modular enzymes
10.1093/nar/gkaa978
Pan-genome analysis and ancestral state reconstruction of class halobacteria: probability of a new super-order
10.1038/s41598-020-77723-6
BiG-MAP: an automated pipeline to profile metabolic gene cluster abundance and expression in microbiomes
10.1101/2020.12.14.422671
Expansion of RiPP biosynthetic space through integration of pan-genomics and machine learning uncovers a novel class of lanthipeptides
10.1371/journal.pbio.3001026
BiG-SLiCE: A highly scalable tool maps the diversity of 1.2 million biosynthetic gene clusters
10.1093/gigascience/giaa154
The year 2020 in natural product bioinformatics: an overview of the latest tools and databases
10.1039/D0NP00090F
Do size and shape matter? Exploring the interactions and the metabolome of the soil isolate Hylemonella gracilis
10.1101/2021.02.11.430889
A systematic analysis of metabolic pathways in the human gut microbiota
10.1101/2021.02.25.432841
Omics-based strategies to discover novel classes of RiPP natural products
10.1016/j.copbio.2020.12.008
Evolution of combinatorial diversity in trans-acyltransferase polyketide synthase assembly lines across bacteria
10.1038/s41467-021-21163-x
The Surfactin-Like Lipopeptides From Bacillus spp.: Natural Biodiversity and Synthetic Biology for a Broader Application Range
10.3389/fbioe.2021.623701
Mining metagenomes for natural product biosynthetic gene clusters: unlocking new potential with ultrafast techniques
10.1101/2021.01.20.427441
Extracting the GEMs: Genotype, Environment, and Microbiome Interactions Shaping Host Phenotypes
10.3389/fmicb.2020.574053
A mammalian commensal of the oropharyngeal cavity produces antibiotic and antiviral valinomycin in vivo
10.21203/rs.3.rs-126949/v1
A biaryl-linked tripeptide from Planomonospora reveals a widespread class of minimal RiPP gene clusters
10.1016/j.chembiol.2020.11.009
cblaster: a remote search tool for rapid identification and visualisation of homologous gene clusters
10.1101/2020.11.08.370601
antiSMASH 6.0: improving cluster detection and comparison capabilities
10.1093/nar/gkab335
The gutSMASH web server: automated identification of primary metabolic gene clusters from the gut microbiota
10.1093/nar/gkab353
Mining genomes to illuminate the specialized chemistry of life
10.1038/s41576-021-00363-7
Dominant drivers of the human plasma metabolome
10.21203/rs.3.rs-688716/v1
A global survey of specialized metabolic diversity encoded in bacterial genomes
10.1101/2021.08.11.455920
cblaster: a remote search tool for rapid identification and visualization of homologous gene clusters
10.1093/bioadv/vbab016
