Microbiome composition modulates secondary metabolism in a multispecies bacterial community

Deciphering Chemical Mediators Regulating Specialized Metabolism in a Symbiotic Cyanobacterium

(2022) Julia Krumbholz et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Bacterial species rarely work together

(2022) Jacob D. Palmer et al.   SCIENCE

THOR’s Hammer: the Antibiotic Koreenceine Drives Gene Expression in a Model Microbial Community

(2022) Amanda Hurley et al.   mBio

Compendium of specialized metabolite biosynthetic diversity encoded in bacterial genomes

(2022) Athina Gavriilidou et al.   Nature Microbiology

Competition Sensing Changes Antibiotic Production in Streptomyces

(2021) Sanne Westhoff et al.   mBio

Genome Mining and Biosynthesis of Primary Amine-Acylated Desferrioxamines in a Marine Gliding Bacterium

(2020) Zong-Jie Wang et al.   ORGANIC LETTERS

Natural Products as Sources of New Drugs over the Nearly Four Decades from 01/1981 to 09/2019

(2020) David J. Newman et al.   JOURNAL OF NATURAL PRODUCTS

Bacillibactins E and F from a Marine Sponge-Associated Bacillus sp.

(2020) Qihao Wu et al.   JOURNAL OF NATURAL PRODUCTS

Research Progress of the Biosynthesis of Natural Bio-Antibacterial Agent Pulcherriminic Acid in Bacillus

(2020) Siqi Yuan et al.   MOLECULES

Introducing THOR, a Model Microbiome for Genetic Dissection of Community Behavior

(2019) Gabriel L. Lozano et al.   mBio

Bacterial analogs of plant tetrahydropyridine alkaloids mediate microbial interactions in a rhizosphere model system

(2019) Gabriel L. Lozano et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Omics Technologies to Understand Activation of a Biosynthetic Gene Cluster in Micromonospora sp. WMMB235: Deciphering Keyicin Biosynthesis

(2019) Deepa Acharya et al.   ACS Chemical Biology

Bioinformatic Mapping of Radical S-Adenosylmethionine-Dependent Ribosomally Synthesized and Post-Translationally Modified Peptides Identifies New Cα, Cβ, and Cγ-Linked Thioether-Containing Peptides

(2019) Graham A. Hudson et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

antiSMASH 5.0: updates to the secondary metabolite genome mining pipeline

(2019) Kai Blin et al.   NUCLEIC ACIDS RESEARCH

YhjX Regulates the Growth of Escherichia coli in the Presence of a Subinhibitory Concentration of Gentamicin and Mediates the Adaptive Resistance to Gentamicin

(2019) Shuqin Zhou et al.   Frontiers in Microbiology

Experimental Microbiomes: Models Not to Scale

(2019) Marc G. Chevrette et al.   mSystems

Pseudomonas Cyclic Lipopeptides Suppress the Rice Blast Fungus Magnaporthe oryzae by Induced Resistance and Direct Antagonism

(2019) Olumide Owolabi Omoboye et al.   Frontiers in Plant Science

Local Adaptation of Bacterial Symbionts within a Geographic Mosaic of Antibiotic Coevolution

(2019) Eric J. Caldera et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

The Natural Products Atlas: An Open Access Knowledge Base for Microbial Natural Products Discovery

(2019) Jeffrey A. van Santen et al.   ACS Central Science

Estimating pseudocounts and fold changes for digital expression measurements

(2018) Florian Erhard   BIOINFORMATICS

OUP accepted manuscript

(2018)   BIOINFORMATICS

Emerging evolutionary paradigms in antibiotic discovery

(2018) Marc G. Chevrette et al.   JOURNAL OF INDUSTRIAL MICROBIOLOGY & BIOTECHNOLOGY

Natural product drug discovery in the genomic era: realities, conjectures, misconceptions, and opportunities

(2018) Richard H. Baltz   JOURNAL OF INDUSTRIAL MICROBIOLOGY & BIOTECHNOLOGY

The genomic landscape of ribosomal peptides containing thiazole and oxazole heterocycles

(2015) Courtney L. Cox et al.   BMC GENOMICS

Socially mediated induction and suppression of antibiosis during bacterial coexistence

(2015) Monica I. Abrudan et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

HTSeq--a Python framework to work with high-throughput sequencing data

(2014) S. Anders et al.   BIOINFORMATICS

Prokka: rapid prokaryotic genome annotation

(2014) T. Seemann   BIOINFORMATICS

High-throughput platform for the discovery of elicitors of silent bacterial gene clusters

(2014) M. R. Seyedsayamdost   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Regulation of Bacillus subtilis bacillithiol biosynthesis operons by Spx

(2013) A. Gaballa et al.   MICROBIOLOGY-SGM

Nonhybrid, finished microbial genome assemblies from long-read SMRT sequencing data

(2013) Chen-Shan Chin et al.   NATURE METHODS

Interspecies Interactions Stimulate Diversification of the Streptomyces coelicolor Secreted Metabolome

(2013) M. F. Traxler et al.   mBio

Structure, biosynthesis, and properties of kurstakins, nonribosomal lipopeptides from Bacillus spp.

(2012) Max Béchet et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Natural Products As Sources for New Pesticides

(2012) Charles L. Cantrell et al.   JOURNAL OF NATURAL PRODUCTS

Interspecies modulation of bacterial development through iron competition and siderophore piracy

(2012) Matthew F. Traxler et al.   MOLECULAR MICROBIOLOGY

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Regulation of Petrobactin and Bacillibactin Biosynthesis in Bacillus anthracis under Iron and Oxygen Variation

(2011) Jung Yeop Lee et al.   PLoS One

Prodigal: prokaryotic gene recognition and translation initiation site identification

(2010) Doug Hyatt et al.   BMC BIOINFORMATICS

Siderophore-mediated iron acquisition in Bacillus anthracis and related strains

(2010) K. Hotta et al.   MICROBIOLOGY-SGM

Osmotically induced synthesis of the dipeptide N-acetylglutaminylglutamine amide is mediated by a new pathway conserved among bacteria

(2010) Brice Sagot et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Biosynthesis and functions of bacillithiol, a major low-molecular-weight thiol in Bacilli

(2010) A. Gaballa et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Interspecies Chemical Communication in Bacterial Development

(2009) Paul D. Straight et al.   Annual Review of Microbiology

Novel Features of the Polysaccharide-Digesting Gliding Bacterium Flavobacterium johnsoniae as Revealed by Genome Sequence Analysis

(2009) M. J. McBride et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

(2009) M. D. Robinson et al.   BIOINFORMATICS

Characterization of the Complete Zwittermicin A Biosynthesis Gene Cluster from Bacillus cereus

(2008) B. M. Kevany et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

A key developmental regulator controls the synthesis of the antibiotic erythromycin in Saccharopolyspora erythraea

(2008) C. Chng et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA