Molecular processes underlying synergistic linuron mineralization in a triple-species bacterial consortium biofilm revealed by differential transcriptomics

Identification of bacterial species by untargeted NMR spectroscopy of the exo-metabolome

(2016) T. L. Palama et al.   ANALYST

Influence of 3-Chloroaniline on the Biofilm Lifestyle of Comamonas testosteroni and Its Implications on Bioaugmentation

(2016) Yichao Wu et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Functional Redundancy of Linuron Degradation in Microbial Communities in Agricultural Soil and Biopurification Systems

(2016) Benjamin Horemans et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Distinct gene expression profile of Xanthomonas retroflexus engaged in synergistic multispecies biofilm formation

(2016) Lea Benedicte Skov Hansen et al.   ISME Journal

Interbacterial signaling viaBurkholderiacontact-dependent growth inhibition system proteins

(2016) Erin C. Garcia et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Interactions between Closely Related Bacterial Strains Are Revealed by Deep Transcriptome Sequencing

(2015) Pedro González-Torres et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

PheNetic: network-based interpretation of molecular profiling data

(2015) Dries De Maeyer et al.   NUCLEIC ACIDS RESEARCH

Identification of sdiA-regulated genes in a mouse commensal strain of Enterobacter cloacae

(2015) Anice Sabag-Daigle et al.   Frontiers in Cellular and Infection Microbiology

Interactions of Nitrosomonas europaea and Nitrobacter winogradskyi grown in co-culture

(2014) José Pérez et al.   ARCHIVES OF MICROBIOLOGY

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

(2014) S. Anders et al.   BIOINFORMATICS

RNA sequencing provides evidence for functional variability between naturally co-existing Alteromonas macleodii lineages

(2014) Nikole E Kimes et al.   BMC GENOMICS

Biofilm formation of a bacterial consortium on linuron at micropollutant concentrations in continuous flow chambers and the impact of dissolved organic matter

(2014) Benjamin Horemans et al.   FEMS MICROBIOLOGY ECOLOGY

Inference of interactions in cyanobacterial–heterotrophic co-cultures via transcriptome sequencing

(2014) Alexander S Beliaev et al.   ISME Journal

Type VI secretion system effectors: poisons with a purpose

(2014) Alistair B. Russell et al.   NATURE REVIEWS MICROBIOLOGY

Prediction of antibiotic resistance by gene expression profiles

(2014) Shingo Suzuki et al.   Nature Communications

HylA, an Alternative Hydrolase for Initiation of Catabolism of the Phenylurea Herbicide Linuron in Variovorax sp. Strains

(2013) K. Bers et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Metabolic analysis of Chlorobium chlorochromatii CaD3 reveals clues of the symbiosis in ‘Chlorochromatium aggregatum’.

(2013) Daniel Cerqueda-García et al.   ISME Journal

DNA Damage Repair and Bacterial Pathogens

(2013) Darja Žgur-Bertok   PLoS Pathogens

A comparative transcriptomic study of an allotetraploid and its diploid progenitors illustrates the unique advantages and challenges of RNA-seq in plant species

(2012) Daniel C. Ilut et al.   AMERICAN JOURNAL OF BOTANY

Competition, Not Cooperation, Dominates Interactions among Culturable Microbial Species

(2012) Kevin R. Foster et al.   CURRENT BIOLOGY

Carbon source utilization profiles suggest additional metabolic interactions in a synergistic linuron-degrading bacterial consortium

(2012) Benjamin Horemans et al.   FEMS MICROBIOLOGY ECOLOGY

Effect of Periodontal Pathogens on the Metatranscriptome of a Healthy Multispecies Biofilm Model

(2012) J. Frias-Lopez et al.   JOURNAL OF BACTERIOLOGY

Models and estimators linking individual-based and sample-based rarefaction, extrapolation and comparison of assemblages

(2012) R. K. Colwell et al.   Journal of Plant Ecology

Role of IncP-1β Plasmids pWDL7::rfpand pNB8c in Chloroaniline Catabolism as Determined by Genomic and Functional Analyses

(2011) J. E. Król et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

RNA-seq reveals cooperative metabolic interactions between two termite-gut spirochete species in co-culture

(2011) Adam Z Rosenthal et al.   ISME Journal

Transcriptional and antagonistic responses of Pseudomonas fluorescens Pf0-1 to phylogenetically different bacterial competitors

(2011) Paolina Garbeva et al.   ISME Journal

PHAST: A Fast Phage Search Tool

(2011) Y. Zhou et al.   NUCLEIC ACIDS RESEARCH

KEGG for integration and interpretation of large-scale molecular data sets

(2011) M. Kanehisa et al.   NUCLEIC ACIDS RESEARCH

Transcriptome analysis of parallel-evolved Escherichia coli strains under ethanol stress

(2010) Takaaki Horinouchi et al.   BMC GENOMICS

Single live-bacterial cell assay of promoter activity and regulation

(2010) Jun Teramoto et al.   GENES TO CELLS

The  -ketoadipate pathway of Acinetobacter baylyi undergoes carbon catabolite repression, cross-regulation and vertical regulation, and is affected by Crc

(2010) F. S. Bleichrodt et al.   MICROBIOLOGY-SGM

Whole-genome microarray analyses ofSynechococcus-Vibriointeractions

(2009) Vera Tai et al.   ENVIRONMENTAL MICROBIOLOGY

LuxR-family 'solos': bachelor sensors/regulators of signalling molecules

(2009) S. Subramoni et al.   MICROBIOLOGY-SGM

Flagellum Mediates Symbiosis

(2009) T. Shimoyama et al.   SCIENCE

The RAST Server: Rapid Annotations using Subsystems Technology

(2008) Ramy K Aziz et al.   BMC GENOMICS

Architecture and spatial organization in a triple-species bacterial biofilm synergistically degrading the phenylurea herbicide linuron

(2008) Philip Breugelmans et al.   FEMS MICROBIOLOGY ECOLOGY

Velvet: Algorithms for de novo short read assembly using de Bruijn graphs

(2008) D. R. Zerbino et al.   GENOME RESEARCH