ARTS 2.0: feature updates and expansion of the Antibiotic Resistant Target Seeker for comparative genome mining
Mehmet Direnç Mungan
Mohammad Alanjary
Kai Blin
Tilmann Weber
Marnix H. Medema
Nadine Ziemert
Nucleic Acids Research, 2020-7-2
Kai Blin
Blin Kai
ORCID: 0000-0003-3764-6051
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Tilmann Weber
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A biaryl-linked tripeptide from Planomonospora reveals a widespread class of minimal RiPP gene clusters
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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
Nadine Ziemert
Ziemert Nadine
ORCID: 0000-0002-7264-1857
Sequencing rare marine actinomycete genomes reveals high density of unique natural product biosynthetic gene clusters
10.1099/mic.0.000386
Antibiotic drug discovery
10.1111/1751-7915.12388
The evolution of genome mining in microbes - a review
10.1039/c6np00025h
Minimum Information about a Biosynthetic Gene cluster
10.1038/nchembio.1890
Salinipyrone and Pacificanone Are Biosynthetic By-products of the Rosamicin Polyketide Synthase
10.1002/cbic.201500177
Molecular networking and pattern-based genome mining improves discovery of biosynthetic gene clusters and their products from Salinispora species
10.1016/j.chembiol.2015.03.010
Direct capture and heterologous expression of Salinispora natural product genes for the biosynthesis of enterocin
10.1021/np500664q
Diversity and evolution of secondary metabolism in the marine actinomycete genus Salinispora
10.1073/pnas.1324161111
Glycogenomics as a mass spectrometry-guided genome-mining method for microbial glycosylated molecules
10.1073/pnas.1315492110
Challenges and triumphs to genomics-based natural product discovery
10.1007/s10295-013-1353-8
The natural product domain seeker NaPDoS: a phylogeny based bioinformatic tool to classify secondary metabolite gene diversity
10.1371/journal.pone.0034064
Phylogenetic approaches to natural product structure prediction
10.1016/b978-0-12-404634-4.00008-5
Leader peptide and a membrane protein scaffold guide the biosynthesis of the tricyclic peptide microviridin
10.1016/j.chembiol.2011.09.011
Exploiting the natural diversity of microviridin gene clusters for discovery of novel tricyclic depsipeptides
10.1128/aem.02858-09
Highly plastic genome of Microcystis aeruginosa PCC 7806, a ubiquitous toxic freshwater cyanobacterium
10.1186/1471-2164-9-274
Microcyclamide biosynthesis in two strains of Microcystis aeruginosa: from structure to genes and vice versa
10.1128/aem.02392-07
Ribosomal synthesis of tricyclic depsipeptides in bloom-forming cyanobacteria
10.1002/anie.200802730
Comparative genomics reveals phylogenetic distribution patterns of secondary metabolites in Amycolatopsis species
10.1186/s12864-018-4809-4
Applied evolution: phylogeny-based approaches in natural products research
10.1039/C9NP00027E
ARTS 2.0: feature updates and expansion of the Antibiotic Resistant Target Seeker for comparative genome mining
10.1093/nar/gkaa374
Comparative Genomics and Metabolomics in the Genus Nocardia
10.1128/mSystems.00125-20
The genus Micromonospora as a model microorganism for bioactive natural product discovery
10.1039/D0RA04025H
Modular Fragment Synthesis and Bioinformatic Analysis Propose a Revised Vancoresmycin Stereoconfiguration
10.1021/acs.orglett.0c03957
SYN-View: A Phylogeny-Based Synteny Exploration Tool for the Identification of Gene Clusters Linked to Antibiotic Resistance
10.3390/molecules26010144
Understanding condensation domain selectivity in non-ribosomal peptide biosynthesis: structural characterization of the acceptor bound state
10.21203/rs.3.rs-125509/v1
antiSMASH 5.0: updates to the secondary metabolite genome mining pipeline
10.1093/nar/gkz310
Analysis of the Genome and Metabolome of Marine Myxobacteria Reveals High Potential for Biosynthesis of Novel Specialized Metabolites
10.1038/s41598-018-34954-y
The Antibiotic Resistant Target Seeker (ARTS), an exploration engine for antibiotic cluster prioritization and novel drug target discovery
10.1093/nar/gkx360
Genomic insights into specialized metabolism in the marine actinomycete Salinispora
10.1111/1462-2920.13867
New Nocobactin Derivatives with Antimuscarinic Activity, Terpenibactins A-C, Revealed by Genome Mining of Nocardia terpenica IFM 0406
10.1002/cbic.202000062
Kistamicin biosynthesis reveals the biosynthetic requirements for production of highly crosslinked glycopeptide antibiotics
10.1038/s41467-019-10384-w
The ADEP Biosynthetic Gene Cluster in Streptomyces hawaiiensis NRRL 15010 Reveals an Accessory clpP Gene as a Novel Antibiotic Resistance Factor
10.1128/aem.01292-19
AutoMLST: an automated web server for generating multi-locus species trees highlighting natural product potential
10.1093/nar/gkz282
Recovery of the Peptidoglycan Turnover Product Released by the Autolysin Atl in Staphylococcus aureus Involves the Phosphotransferase System Transporter MurP and the Novel 6-phospho-N-acetylmuramidase MupG
10.3389/fmicb.2018.02725
Identification of a novel aminopolycarboxylic acid siderophore gene cluster encoding the biosynthesis of ethylenediaminesuccinic acid hydroxyarginine (EDHA)
10.1039/c8mt00009c
Assessing the Efficiency of Cultivation Techniques To Recover Natural Product Biosynthetic Gene Populations from Sediment
10.1021/acschembio.8b00254
Function-related replacement of bacterial siderophore pathways
10.1038/ismej.2017.137
An Integrated Metabolomic and Genomic Mining Workflow To Uncover the Biosynthetic Potential of Bacteria
10.1128/msystems.00028-15
Mining Bacterial Genomes for Secondary Metabolite Gene Clusters
10.1007/978-1-4939-6634-9_2
Mining Indonesian Microbial Biodiversity for Novel Natural Compounds by a Combined Genome Mining and Molecular Networking Approach
10.20944/preprints202105.0308.v1
Mining Indonesian Microbial Biodiversity for Novel Natural Compounds by a Combined Genome Mining and Molecular Networking Approach
10.3390/md19060316
A global survey of specialized metabolic diversity encoded in bacterial genomes
10.1101/2021.08.11.455920
The confluence of big data and evolutionary genome mining for the discovery of natural products
10.1039/D1NP00013F
