The genomisotopic approach: a systematic method to isolate products of orphan biosynthetic gene clusters.

No abstract is available for this paper.

• Publication year

  2007

• Venue

  Chemistry and Biology

• Publication date

  Unknown publication date

• Fields of study

  Biology, Medicine, Chemistry

• Identifiers
  DOI 10.1016/J.CHEMBIOL.2006.11.007PMID 17254952
• External record

  Open on Semantic Scholar

• Source metadata

  Semantic Scholar, PubMed

• No claims are published for this paper.

• No concepts are published for this paper.

• Control of Rhizoctonia solani on Cotton Seedlings with Pseudomonas fluorescens and With an Antibiotic Produced by the Bacterium.

  2025cited by this paper
• Aurilides B and C, cancer cell toxins from a Papua New Guinea collection of the marine cyanobacterium Lyngbya majuscula.

  2006cited by this paper
• Cyclic lipopeptide production by plant-associated Pseudomonas spp.: diversity, activity, biosynthesis, and regulation.

  2006influential reference
• Isolation and Identification of Three New 5-Alkenyl-3,3(2H)-furanones from Two Streptomyces species using a Genomic Screening Approach

  2006cited by this paper
• Identification of the syr-syp Box in the Promoter Regions of Genes Dedicated to Syringomycin and Syringopeptin Production by Pseudomonas syringae pv. syringae B301D

  2006cited by this paper
• Genomic mining for Aspergillus natural products.

  2006cited by this paper
• Heterologous expression of a myxobacterial natural products assembly line in pseudomonads via red/ET recombineering.

  2005cited by this paper
• Genes Involved in Cyclic Lipopeptide Production Are Important for Seed and Straw Colonization by Pseudomonas sp. Strain DSS73

  2005cited by this paper
• Generation of D amino acid residues in assembly of arthrofactin by dual condensation/epimerization domains.

  2005cited by this paper
• Discovery of a new peptide natural product by Streptomyces coelicolor genome mining

  2005cited by this paper
• Specificity prediction of adenylation domains in nonribosomal peptide synthetases (NRPS) using transductive support vector machines (TSVMs)

  2005cited by this paper
• Microbial genomics as a guide to drug discovery and structural elucidation: ECO-02301, a novel antifungal agent, as an example.

  2005cited by this paper
• Pseudomonas syringae genes induced during colonization of leaf surfaces.

  2005cited by this paper
• Natural products to drugs: daptomycin and related lipopeptide antibiotics.

  2005cited by this paper
• Complete genome sequence of the plant commensal Pseudomonas fluorescens Pf-5

  2005cited by this paper
• Biosynthesis of nonribosomal peptides1.

  2004cited by this paper
• Production of Cyclic Lipopeptides by Fluorescent Pseudomonads

  2004influential reference
• Biosynthetic pathway and gene cluster analysis of curacin A, an antitubulin natural product from the tropical marine cyanobacterium Lyngbya majuscula.

  2004cited by this paper
• Marfey’s reagent for chiral amino acid analysis: A review

  2004cited by this paper
• NRPS-PKS: a knowledge-based resource for analysis of NRPS/PKS megasynthases

  2004cited by this paper
• Genome mining to identify new plant triterpenoids.

  2004cited by this paper
• Biochemical, Genetic, and Zoosporicidal Properties of Cyclic Lipopeptide Surfactants Produced by Pseudomonas fluorescens

  2003cited by this paper
• Characterization of two Pseudomonas putida lipopeptide biosurfactants, putisolvin I and II, which inhibit biofilm formation and break down existing biofilms

  2003influential reference
• Biosynthesis of nonribosomal peptides

  2003cited by this paper
• Cloning and characterization of the gene cluster encoding arthrofactin synthetase from Pseudomonas sp. MIS38.

  2003influential reference
• Nonribosomal peptides: from genes to products.

  2003cited by this paper
• The sypA, sypS, and sypC synthetase genes encode twenty-two modules involved in the nonribosomal peptide synthesis of syringopeptin by Pseudomonas syringae pv. syringae B301D.

  2003cited by this paper
• Aspergillicins A-E: five novel depsipeptides from the marine-derived fungus Aspergillus carneus.

  2003influential reference
• A genomics-guided approach for discovering and expressing cryptic metabolic pathways

  2003cited by this paper
• Hirsutellide A, a new antimycobacterial cyclohexadepsipeptide from the entomopathogenic fungus Hirsutella kobayasii.

  2002cited by this paper
• Phytophthora ramorum as the Cause of Extensive Mortality of Quercus spp. and Lithocarpus densiflorus in California.

  2002influential reference
• Cloning, Sequencing, and Characterization of the Iturin A Operon

  2001cited by this paper
• Natural roles of biosurfactants.

  2001cited by this paper
• NMR structure of antibiotics plipastatins A and B from Bacillus subtilis inhibitors of phospholipase A2

  2000cited by this paper
• Predictive, structure-based model of amino acid recognition by nonribosomal peptide synthetase adenylation domains.

  2000cited by this paper
• Lon Protease Influences Antibiotic Production and UV Tolerance of Pseudomonas fluorescens Pf-5

  2000cited by this paper
• The mycosubtilin synthetase of Bacillus subtilis ATCC6633: a multifunctional hybrid between a peptide synthetase, an amino transferase, and a fatty acid synthase.

  1999cited by this paper
• Nostophycin, a Novel Cyclic Peptide from the Toxic Cyanobacterium Nostoc sp. 152.

  1999cited by this paper
• The specificity-conferring code of adenylation domains in nonribosomal peptide synthetases.

  1999cited by this paper
• Characterization of the Syringomycin Synthetase Gene Cluster

  1998cited by this paper
• The Two-Component Regulators GacS and GacA Influence Accumulation of the Stationary-Phase Sigma Factor ςS and the Stress Response in Pseudomonas fluorescensPf-5

  1998cited by this paper
• Massetolides A-H, antimycobacterial cyclic depsipeptides produced by two pseudomonads isolated from marine habitats.

  1997cited by this paper
• Application of D, L-FDLA derivatization to determination of absolute configuration of constituent amino acids in peptide by advanced Marfey's method

  1996cited by this paper
• PRODUCTION OF 2, 4-DIACETYLPHLOROGLUCINOL BY THE BIOCONTROL AGENT PSEUDOMONAS FLUORESCENS PF-5

  1994cited by this paper
• The role of fatty acid biosynthesis and degradation in the supply of substrates for poly(3-hydroxyalkanoate) formation in Pseudomonas putida

  1992cited by this paper
• HPLC separation of DL-amino acids derivatized withN2-(5-fluoro-2,4-dinitrophenyl)-L-amino acid amides

  1990cited by this paper
• Determination ofD-amino acids. II. Use of a bifunctional reagent, 1,5-difluoro-2,4-dinitrobenzene

  1984cited by this paper
• A Broad Host Range Mobilization System for In Vivo Genetic Engineering: Transposon Mutagenesis in Gram Negative Bacteria

  1983cited by this paper
• Suppression of Pythium ultimum-induced damping-off of cotton seedlings by Pseudomonas fluorescens and its antibiotic, pyoluteorin.

  1980cited by this paper
• Mass spectrometry : organic chemical applications

  1962cited by this paper
• Two simple media for the demonstration of pyocyanin and fluorescin.

  1954cited by this paper
• Two simple media for the demonstration of pyocyanin and fluorescin.

  1954cited by this paper

• Advances in natural product discovery: strategies, technologies, and insights

  2026cites this paper
• Recent highlights of the total synthesis of cyclic peptide natural products.

  2025cites this paper
• Green genes from blue greens: challenges and solutions to unlocking the potential of cyanobacteria in drug discovery

  2025cites this paper
• Natural Cyclic Peptides: Synthetic Strategies and Biomedical Applications

  2025cites this paper
• Inverse stable isotope probing–metabolomics (InverSIP) identifies an iron acquisition system in a methane-oxidizing bacterial community

  2025cites this paper
• Genetic Drivers of Plant Root Colonisation by the Biocontrol Agent Pseudomonas protegens Pf‐5

  2025cites this paper
• Warfare under the waves: a review of bacteria-derived algaecidal natural products.

  2025cites this paper
• Exploring microbial natural products through NMR-based metabolomics.

  2025cites this paper
• Inverse stable isotope labeling (InverSIL) links predicted catecholate siderophore gene clusters to their products in diverse bacteria

  2025cites this paper
• A genome-wide approach uncovers the suite of genes important for swarming motility in the biocontrol bacteria Pseudomonas protegens Pf-5

  2025cites this paper
• Higher‐Level Structural Classification of Pseudomonas Cyclic Lipopeptides through Their Bioactive Conformation

  2025cites this paper
• Discovery of New Cyclic Lipodepsipeptide Orfamide N via Partnership with Middle School Students from the Boys and Girls Club

  2024cites this paper
• WLIP, WLIPβ, and WLIPγ Produced from Pseudomonas canadensis Q3-1 via Precursor-Directed Biosynthesis and Their Roles on Biocontrol of Phytophthora Blight in Peppers.

  2024cites this paper
• Detection of Inverse Stable Isotopic Labeling in Untargeted Metabolomic Data.

  2024cites this paper
• Orfamide production in Pseudomonas protegens CHA0T promotes rhizospheric colonization and influences assemblage of the bacterial community of wheat roots in soil.

  2024cites this paper
• Identifying the suite of genes central to swimming in the biocontrol bacterium Pseudomonas protegens Pf-5

  2024cites this paper
• Does regulation hold the key to optimizing lipopeptide production in Pseudomonas for biotechnology?

  2024cites this paper
• Linking biosynthetic genes to natural products using inverse stable isotopic labeling (InverSIL).

  2024cites this paper
• Endogenous Production and Vibrational Analysis of Heavy‐Isotope‐Labeled Peptides from Cyanobacteria

  2024cites this paper
• The genome of a steinernematid-associated Pseudomonas piscis bacterium encodes the biosynthesis of insect toxins

  2023cites this paper
• Occurrence of D-amino acids in natural products

  2023cites this paper
• Pseudomonas lipopeptide: An excellent biomedical agent

  2023cites this paper
• Relation of pest insect-killing and soilborne pathogen-inhibition abilities to species diversification in environmental Pseudomonas protegens

  2023cites this paper
• Characterization and Production of a Biosurfactant Viscosin from Pseudomonas sp. HN11 and its Application on Enhanced oil Recovery During oily Sludge Cleaning

  2023cites this paper
• Genome exploration and ecological competence are key to developing effective Pseudomonas-based biocontrol inoculants

  2023cites this paper
• Identifying the suite of genes central to swimming in the biocontrol bacteria Pseudomonas protegens Pf-5

  2023cites this paper
• The use of nitrogen-15 in microbial natural product discovery and biosynthetic characterization

  2023cites this paper
• Draft Genome Sequence of Pseudomonas sp. Strains MWU12-2319 and MWU12-2311, Isolated from a Wild Cranberry Bog in the Cape Cod National Seashore

  2022cites this paper
• The Role of Pyoluteorin from Pseudomonas protegens Pf-5 in Suppressing the Growth and Pathogenicity of Pantoea ananatis on Maize

  2022cites this paper
• Total Synthesis and Structure Correction of the Cyclic Lipodepsipeptide Orfamide A

  2022cites this paper
• An Nuclear Magnetic Resonance Fingerprint Matching Approach for the Identification and Structural Re-Evaluation of Pseudomonas Lipopeptides

  2022cites this paper
• Research Advances and Prospects of Orphan Genes in Plants

  2022cites this paper
• Advances and Perspectives in the Use of Biocontrol Agents against Fungal Plant Diseases

  2022cites this paper
• Integrated Metabolomic–Genomic Workflows Accelerate Microbial Natural Product Discovery

  2022cites this paper
• A cyclic lipopeptide produced by an antagonistic bacterium relies on its tail and TRP-type Ca2+ channels to immobilize a green alga.

  2022cites this paper
• Environmental structure impacts microbial composition and secondary metabolism

  2022cites this paper
• Reactivity-based screening for natural product discovery.

  2022cites this paper
• Biocontrol applications of microbial metabolites

  2022cites this paper
• An NMR fingerprint matching approach for the identification and structural re-evaluation of Pseudomonas lipopeptides

  2022cites this paper
• Pseudomonas bijieensis Strain XL17 within the P. corrugata Subgroup Producing 2,4-Diacetylphloroglucinol and Lipopeptides Controls Bacterial Canker and Gray Mold Pathogens of Kiwifruit

  2022cites this paper
• Pseudomonas Lipopeptide-Mediated Biocontrol: Chemotaxonomy and Biological Activity

  2022cites this paper
• A supervised fingerprint-based strategy to connect natural 1 product mass spectrometry fragmentation data to their 2 biosynthetic gene clusters 3

  2021cites this paper
• Rapid enantioselective amino acid analysis by ultra-high performance liquid chromatography-mass spectrometry combining 6-aminoquinolyl-N-hydroxysuccinimidyl carbamate derivatization with core-shell quinine carbamate anion exchanger separation

  2021cites this paper
• Enantioselective multiple heart cutting online two-dimensional liquid chromatography-mass spectrometry of all proteinogenic amino acids with second dimension chiral separations in one-minute time scales on a chiral tandem column.

  2021cites this paper
• The use of Pseudomonas spp. as bacterial biocontrol agents to control plant disease

  2021cites this paper
• A review on different approaches to isolate antibiotic compounds from fungi

  2021cites this paper
• Co‐occurring Congeners Reveal the Position of Enantiomeric Amino Acids in Nonribosomal Peptides

  2021cites this paper
• Methylotroph Natural Product Identification by Inverse Stable Isotopic Labeling

  2021cites this paper
• NPOmix: A machine learning classifier to connect mass spectrometry fragmentation data to biosynthetic gene clusters

  2021cites this paper
• Biofertilizers and Biocontrol Agents for Agriculture: How to Identify and Develop New Potent Microbial Strains and Traits

  2021cites this paper
• Methylotroph Quorum Sensing Signal Identification by Inverse Stable Isotopic Labeling.

  2021cites this paper
• Phloroglucinol Derivatives in Plant-Beneficial Pseudomonas spp.: Biosynthesis, Regulation, and Functions

  2021cites this paper
• Orfamide-A-mediated bacterial-algal interactions involve specific Ca2+ signalling pathways

  2021cites this paper
• Direct enantioselective gradient reversed-phase ultra-high performance liquid chromatography - tandem mass spectrometry method for 3-hydroxy alkanoic acids in lipopeptides on immobilized 1.6 μm amylose-based chiral stationary phase.

  2021cites this paper
• Transporter Gene-Mediated Typing for Detection and Genome Mining of Lipopeptide-Producing Pseudomonas

  2021cites this paper
• Fungicidal Activity of Volatile Organic Compounds Emitted by Burkholderia gladioli Strain BBB-01

  2021cites this paper
• The bacterium Pseudomonas protegens antagonizes the microalga Chlamydomonas reinhardtii using a blend of toxins.

  2021cites this paper
• 15N Stable Isotope Labeling and Comparative Metabolomics Facilitates Genome Mining in Cultured Cyanobacteria.

  2020cites this paper
• New metabolites from the marine-derived bacterium Pseudomonas sp. ZZ820R.

  2020cites this paper
• Structure elucidation of bacterial nonribosomal lipopeptides.

  2020cites this paper
• The (p)ppGpp-mediated stringent response regulatory system globally inhibits primary metabolism and activates secondary metabolism in Pseudomonas protegens H78

  2020cites this paper
• Draft Genome Sequences of Six Type Strains of the Genus Massilia

  2020cites this paper
• Methods for Management of Soilborne Diseases in Crop Production

  2020cites this paper
• Discovery of Cyanobacterial Natural Products Containing Fatty Acid Residues**

  2020cites this paper
• Discovery of Thanafactin A, a Linear, Proline-Containing Octalipopeptide from Pseudomonas sp. SH-C52, Motivated by Genome Mining.

  2020cites this paper
• Ranking microbial metabolomic and genomic links in the NPLinker framework using complementary scoring functions

  2020cites this paper
• Discovery of an Antibiotic-Related Small Protein of Biocontrol Strain Pseudomonas sp. Os17 by a Genome-Mining Strategy

  2020cites this paper
• Structure, properties, and biological functions of nonribosomal lipopeptides from pseudomonads.

  2020cites this paper
• Ranking microbial metabolomic and genomic links using correlation-based and feature-based scoring functions

  2020cites this paper
• Harnessing Pseudomonas protegens to Control Bacterial Panicle Blight of Rice.

  2020cites this paper
• An Overview of Recent Genomic Research on Biocontrol Pseudomonad Strains Isolated from the Field in Japan

  2019cites this paper
• Phenazines and cyclic lipopeptides produced by Pseudomonas sp. CMR12a are involved in the biological control of Pythium myriotylum on cocoyam (Xanthosoma sagittifolium)

  2019cites this paper
• Viscosin-like lipopeptides from frog skin bacteria inhibit Aspergillus fumigatus and Batrachochytrium dendrobatidis detected by imaging mass spectrometry and molecular networking

  2019cites this paper
• Orphan genes are involved in drought adaptations and ecoclimatic-oriented selections in domesticated cowpea.

  2019cites this paper
• Importance of Bioinformatics in Genome Mining of Cyanobacteria for Production of Bioactive Compounds

  2019cites this paper
• Biologically active marine natural products and their molecular targets discovered using a chemical genetics approach.

  2019cites this paper
• Antimicrobial secondary metabolites from agriculturally important bacteria as next-generation pesticides

  2019cites this paper
• Biological control of Phytophthora blight by Pseudomonas protegens strain 14D5

  2019cites this paper
• Discovery of the Cyclic Lipopeptide Gacamide A by Genome Mining and Repair of the Defective GacA Regulator in Pseudomonas fluorescens Pf0-1.

  2019cites this paper
• Pseudomonas protegens MP12: A plant growth-promoting endophytic bacterium with broad-spectrum antifungal activity against grapevine phytopathogens.

  2019cites this paper
• MetaMiner: A Scalable Peptidogenomics Approach for Discovery of Ribosomal Peptide Natural Products with Blind Modifications from Microbial Communities.

  2019cites this paper
• The hidden enzymology of bacterial natural product biosynthesis

  2019cites this paper
• In silico and Genetic Analyses of Cyclic Lipopeptide Synthetic Gene Clusters in Pseudomonas sp. 11K1

  2019cites this paper
• Molecular crosstalk between plant beneficial rhizobacteria: identification of Pseudomonas compounds influencing the growth and antimicrobial potential of Bacillus velezensis

  2019cites this paper
• Epigenetic modification, co-culture and genomic methods for natural product discovery

  2018cites this paper
• Bacillibactin and Bacillomycin Analogues with Cytotoxicities against Human Cancer Cell Lines from Marine Bacillus sp. PKU-MA00093 and PKU-MA00092

  2018cites this paper
• Peptide Antibiotics from Marine Microorganisms

  2018cites this paper
• Discovery of novel bioactive natural products driven by genome mining.

  2018cites this paper
• Current strategies to induce secondary metabolites from microbial biosynthetic cryptic gene clusters

  2018cites this paper
• Cyclic Lipodepsipeptides From Pseudomonas spp. – Biological Swiss-Army Knives

  2018influential citation
• Biological control of boxwood blight by Pseudomonas protegens recovered from recycling irrigation systems

  2018cites this paper
• Highlighting the Potency of Biosurfactants Produced by Pseudomonas Strains as Anti-Legionella Agents

  2018cites this paper
• Gram-negative bacilli-derived peptide antibiotics developed since 2000

  2018cites this paper
• A Genetics-Free Method for High-Throughput Discovery of Cryptic Microbial Metabolites

  2018cites this paper
• Coregulation of the cyclic lipopeptides orfamide and sessilin in the biocontrol strain Pseudomonas sp. CMR12a

  2017cites this paper
• The contribution of genome mining strategies to the understanding of active principles of PGPR strains.

  2017influential citation
• Characterization of the suppressive effects of the biological control strain VAR03-1 of Rhizobium vitis on the virulence of tumorigenic R. vitis

  2017cites this paper
• MetaRiPPquest: A Peptidogenomics Approach for the Discovery of Ribosomally Synthesized and Post-translationally Modified Peptides

  2017cites this paper
• A bioinformatics characterization of secondary metabolism and alkyl citric acid pathway reconstruction in Aspergillus niger NRRL3

  2017cites this paper
• Antibiotics from Gram-negative bacteria: a comprehensive overview and selected biosynthetic highlights.

  2017cites this paper