Quantitative RNA-seq Analysis Unveils Osmotic and Thermal Adaptation Mechanisms Relevant for Ectoine Production in Chromohalobacter salexigens

Insights into metabolic osmoadaptation of the ectoines-producer bacterium Chromohalobacter salexigens through a high-quality genome scale metabolic model

(2018) Francine Piubeli et al.   Microbial Cell Factories

Understanding the interplay of carbon and nitrogen supply for ectoines production and metabolic overflow in high density cultures of Chromohalobacter salexigens

(2017) María J. Salar-García et al.   Microbial Cell Factories

Osmoregulation in the Halophilic Bacterium Halomonas elongata: A Case Study for Integrative Systems Biology

(2017) Viktoria Kindzierski et al.   PLoS One

Protein homeostasis — more than resisting a hot bath

(2016) Changhan Lee et al.   CURRENT OPINION IN MICROBIOLOGY

Feeding on compatible solutes: A substrate-induced pathway for uptake and catabolism of ectoines and its genetic control by EnuR

(2016) Annina Schulz et al.   ENVIRONMENTAL MICROBIOLOGY

Biochemistry and Crystal Structure of Ectoine Synthase: A Metal-Containing Member of the Cupin Superfamily

(2016) Nils Widderich et al.   PLoS One

Characterization of the mechanism of prolonged adaptation to osmotic stress of Jeotgalibacillus malaysiensis via genome and transcriptome sequencing analyses

(2016) Amira Suriaty Yaakop et al.   Scientific Reports

YehZYXW of Escherichia coli Is a Low-Affinity, Non-Osmoregulatory Betaine-Specific ABC Transporter

(2015) Shenhui Lang et al.   BIOCHEMISTRY

Contribution of RpoS to metabolic efficiency and ectoines synthesis during the osmo- and heat-stress response in the halophilic bacteriumChromohalobacter salexigens

(2015) Manuel Salvador et al.   Environmental Microbiology Reports

Salt Stress Induced Changes in the Exoproteome of the Halotolerant Bacterium Tistlia consotensis Deciphered by Proteogenomics

(2015) Carolina Rubiano-Labrador et al.   PLoS One

Cytochrome bd oxidase and bacterial tolerance to oxidative and nitrosative stress

(2014) Alessandro Giuffrè et al.   BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS

The sodium pumping NADH:quinone oxidoreductase (Na+-NQR), a unique redox-driven ion pump

(2014) Blanca Barquera   JOURNAL OF BIOENERGETICS AND BIOMEMBRANES

Characterization of a ferric uptake regulator (Fur)-mutant of the cyanotrophic bacterium Pseudomonas pseudoalcaligenes CECT5344

(2014) Gracia Becerra et al.   JOURNAL OF BIOTECHNOLOGY

Gene and Protein Expression in Response to Different Growth Temperatures and Oxygen Availability in Burkholderia thailandensis

(2014) Clelia Peano et al.   PLoS One

Biochemical Properties of Ectoine Hydroxylases from Extremophiles and Their Wider Taxonomic Distribution among Microorganisms

(2014) Nils Widderich et al.   PLoS One

Comparative analysis of induction of osmotic-stress-dependent genes in Vibrio vulnificus exposed to hyper- and hypo-osmotic stress

(2013) Namrata V. Rao et al.   CANADIAN JOURNAL OF MICROBIOLOGY

Role of Central Metabolism in the Osmoadaptation of the Halophilic BacteriumChromohalobacter salexigens

(2013) José M. Pastor et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

PATRIC, the bacterial bioinformatics database and analysis resource

(2013) Alice R. Wattam et al.   NUCLEIC ACIDS RESEARCH

Thermo-Regulation of Genes Mediating Motility and Plant Interactions in Pseudomonas syringae

(2013) Kevin L. Hockett et al.   PLoS One

Temperature- and Salinity-Decoupled Overproduction of Hydroxyectoine by Chromohalobacter salexigens

(2012) Javier Rodríguez-Moya et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Removing technical variability in RNA-seq data using conditional quantile normalization

(2012) K. D. Hansen et al.   BIOSTATISTICS

Hyperosmotic Stress Response of Campylobacter jejuni

(2012) A. Cameron et al.   JOURNAL OF BACTERIOLOGY

Identification of a Third Osmoprotectant Transport System, the OsmU System, in Salmonella enterica

(2012) S. M. Frossard et al.   JOURNAL OF BACTERIOLOGY

EcoGene 3.0

(2012) Jindan Zhou et al.   NUCLEIC ACIDS RESEARCH

STRING v9.1: protein-protein interaction networks, with increased coverage and integration

(2012) Andrea Franceschini et al.   NUCLEIC ACIDS RESEARCH

Complete genome sequence of the halophilic and highly halotolerant Chromohalobacter salexigens type strain (1H11T)

(2012) Alex Copeland et al.   Standards in Genomic Sciences

GC-Content Normalization for RNA-Seq Data

(2011) Davide Risso et al.   BMC BIOINFORMATICS

Roles of Three Transporters, CbcXWV, BetT1, and BetT3, in Pseudomonas aeruginosa Choline Uptake for Catabolism

(2011) A. A. Malek et al.   JOURNAL OF BACTERIOLOGY

The Role and Specificity of the Catalytic and Regulatory Cation-binding Sites of the Na+-pumping NADH:Quinone Oxidoreductase fromVibrio cholerae

(2011) Oscar Juárez et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Structural adaptation of extreme halophilic proteins through decrease of conserved hydrophobic contact surface

(2011) Alessandro Siglioccolo et al.   BMC STRUCTURAL BIOLOGY

Interplay between Iron Homeostasis and the Osmotic Stress Response in the Halophilic Bacterium Chromohalobacter salexigens

(2010) M. Argandona et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Ectoines in cell stress protection: Uses and biotechnological production

(2010) José M. Pastor et al.   BIOTECHNOLOGY ADVANCES

Process optimization of the integrated synthesis and secretion of ectoine and hydroxyectoine under hyper/hypo-osmotic stress

(2010) C. Fallet et al.   BIOTECHNOLOGY AND BIOENGINEERING

ExprEssence - Revealing the essence of differential experimental data in the context of an interaction/regulation net-work

(2010) Gregor Warsow et al.   BMC Systems Biology

A blueprint of ectoine metabolism from the genome of the industrial producer Halomonas elongata DSM 2581T

(2010) Karin Schwibbert et al.   ENVIRONMENTAL MICROBIOLOGY

Validation of two ribosomal RNA removal methods for microbial metatranscriptomics

(2010) Shaomei He et al.   NATURE METHODS

Synthesis of 5-Hydroxyectoine from Ectoine: Crystal Structure of the Non-Heme Iron(II) and 2-Oxoglutarate-Dependent Dioxygenase EctD

(2010) Klaus Reuter et al.   PLoS One

RegB Kinase Activity Is Controlled in Part by Monitoring the Ratio of Oxidized to Reduced Ubiquinones in the Ubiquinone Pool

(2010) J. Wu et al.   mBio

Integrating Protein Homeostasis Strategies in Prokaryotes

(2010) A. Mogk et al.   Cold Spring Harbor Perspectives in Biology

Differential expression analysis for sequence count data

(2010) Simon Anders et al.   GENOME BIOLOGY

The low-salt stimulon in Vibrio parahaemolyticus

(2009) Lei Yang et al.   INTERNATIONAL JOURNAL OF FOOD MICROBIOLOGY

The ATP-binding cassette transporter Cbc (choline/betaine/carnitine) recruits multiple substrate-binding proteins with strong specificity for distinct quaternary ammonium compounds

(2009) Chiliang Chen et al.   MOLECULAR MICROBIOLOGY

Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources

(2009) Da Wei Huang et al.   Nature Protocols

Synthesis and Uptake of the Compatible Solutes Ectoine and 5-Hydroxyectoine by Streptomyces coelicolor A3(2) in Response to Salt and Heat Stresses

(2008) J. Bursy et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Motility and flagellin gene expression in the fish pathogen Vibrio salmonicida: Effects of salinity and temperature

(2008) Christian Karlsen et al.   MICROBIAL PATHOGENESIS