List of works - Karsten Zengler

A c-type cytochrome and a transcriptional regulator responsible for enhanced extracellular electron transfer in Geobacter sulfurreducens revealed by adaptive evolution

article

A community effort towards a knowledge-base and mathematical model of the human pathogen Salmonella Typhimurium LT2

scientific article

A logical data representation framework for electricity-driven bioproduction processes

scientific article

A road map for the development of community systems (CoSy) biology

scientific article published on 27 March 2012

A streamlined ribosome profiling protocol for the characterization of microorganisms

scientific article published on January 2014

Adaptive Evolution of Thermotoga maritima Reveals Plasticity of the ABC Transporter Network.

scientific article published on 5 June 2015

Anaerobic degradation of ethylbenzene and toluene in denitrifying strain EbN1 proceeds via independent substrate-induced pathways.

scientific article

Anaerobic degradation of hexadecane and phenanthrene coupled to sulfate reduction by enriched consortia from northern Gulf of Mexico seafloor sediment

scientific article published in Scientific Reports

Anaerobic oxidation of o-xylene, m-xylene, and homologous alkylbenzenes by new types of sulfate-reducing bacteria

scientific article

Anaerobic utilization of toluene by marine alpha- and gammaproteobacteria reducing nitrate

scientific article published on 4 October 2012

Antimicrobials from human skin commensal bacteria protect against Staphylococcus aureus and are deficient in atopic dermatitis.

scientific article published on February 2017

Author Correction: Environmental stimuli drive a transition from cooperation to competition in synthetic phototrophic communities

scientific article published on 01 December 2019

Characterization and modelling of interspecies electron transfer mechanisms and microbial community dynamics of a syntrophic association

scientific article published in January 2013

Characterizing acetogenic metabolism using a genome-scale metabolic reconstruction of Clostridium ljungdahlii

scientific article

Characterizing the interplay between multiple levels of organization within bacterial sigma factor regulatory networks

scientific article published in January 2013

Constraint-based modeling of carbon fixation and the energetics of electron transfer in Geobacter metallireducens

scientific article (publication date: April 2014)

Cultivating the uncultured

scientific article

De Novo assembly of the complete genome of an enhanced electricity-producing variant of Geobacter sulfurreducens using only short reads

scientific article published on 8 June 2010

Determining the control circuitry of redox metabolism at the genome-scale

scientific article

Efficient Synergistic Single-Cell Genome Assembly

scientific article published on 23 May 2016

Engineering of oleaginous organisms for lipid production.

scientific article published on 27 August 2015

Environmental stimuli drive a transition from cooperation to competition in synthetic phototrophic communities

scientific article published on 07 October 2019

Establishing microbial composition measurement standards with reference frames.

scientific article

Evidence for fungal and chemodenitrification based N2O flux from nitrogen impacted coastal sediments.

scientific article

FRT - FONDATION RENE TOURAINE: An International Foundation For Dermatology

scientific article published in November 2016

Flux balance analysis of the ammonia-oxidizing bacterium Nitrosomonas europaea ATCC19718 unravels specific metabolic activities while degrading toxic compounds

scientific article published on 02 February 2022

GABA-modulating bacteria of the human gut microbiota

scientific article published on 10 December 2018

Genome-Scale Metabolic Model for the Green Alga Chlorella vulgaris UTEX 395 Accurately Predicts Phenotypes under Autotrophic, Heterotrophic, and Mixotrophic Growth Conditions.

scientific article published on 2 July 2016

Genome-Scale Model Reveals Metabolic Basis of Biomass Partitioning in a Model Diatom

scientific article

Genome-scale reconstruction of the sigma factor network in Escherichia coli: topology and functional states.

scientific article published on 24 January 2014

Gut bacteria responding to dietary change encode sialidases that exhibit preference for red meat-associated carbohydrates

scientific article published on 23 September 2019

High-throughput cultivation of microorganisms using microcapsules

scientific article

In silico method for modelling metabolism and gene product expression at genome scale

scientific article published on 03 July 2012

Integrated Regulatory and Metabolic Networks of the Marine Diatom Phaeodactylum tricornutum Predict the Response to Rising CO2 Levels

scientific article

Investigating Moorella thermoacetica metabolism with a genome-scale constraint-based metabolic model.

scientific article

Methane formation from long-chain alkanes by anaerobic microorganisms

scientific article published in September 1999

Modelling approaches for studying the microbiome

scientific article published on 23 July 2019

Networks of energetic and metabolic interactions define dynamics in microbial communities

scientific article

Optimization of carbon and energy utilization through differential translational efficiency

scientific article published in Nature Communications

Phototrophic utilization of toluene under anoxic conditions by a new strain of blastochloris sulfoviridis

scientific article published on 01 October 1999

Predicting dynamic metabolic demands in the photosynthetic eukaryote Chlorella vulgaris.

scientific article published on 26 September 2017

Predicting proteome allocation, overflow metabolism, and metal requirements in a model acetogen

scientific article published on 07 March 2019

Production of pilus-like filaments in Geobacter sulfurreducens in the absence of the type IV pilin protein PilA

article

Quantifying Live Microbial Load in Human Saliva Samples over Time Reveals Stable Composition and Dynamic Load

scientific article published on 15 February 2021

Single-cell genome and metatranscriptome sequencing reveal metabolic interactions of an alkane-degrading methanogenic community

scientific article

Structural and operational complexity of the Geobacter sulfurreducens genome.

scientific article

Sulfide-driven microbial electrosynthesis.

scientific article

Supplementation of saturated long-chain fatty acids maintains intestinal eubiosis and reduces ethanol-induced liver injury in mice

scientific article

Synthetic microbial communities of heterotrophs and phototrophs facilitate sustainable growth

scientific article published on 30 July 2020

Tapping into microbial diversity.

scientific article

Targeted access to the genomes of low-abundance organisms in complex microbial communities.

scientific article published on 16 March 2007

The challenges of integrating multi-omic data sets

scientific article

The genome organization of Thermotoga maritima reflects its lifestyle

scientific article published in April 2013

The iron stimulon and fur regulon of Geobacter sulfurreducens and their role in energy metabolism

scientific article published on 28 February 2014

The social network of microorganisms - how auxotrophies shape complex communities.

scientific article published on 29 March 2018

Transcriptional profiling of lung macrophages identifies a predictive signature for inflammatory lung disease in preterm infants

scientific article published on 22 May 2020

Transcriptional regulation of central carbon and energy metabolism in bacteria by redox-responsive repressor Rex

scientific article published on 30 December 2011

Transcriptional regulation of the carbohydrate utilization network in Thermotoga maritima

scientific article published on 23 August 2013

Trash to treasure: production of biofuels and commodity chemicals via syngas fermenting microorganisms.

scientific article published on 28 December 2013

Unraveling interactions in microbial communities - from co-cultures to microbiomes.

scientific article published on 3 May 2015

synDNA—a Synthetic DNA Spike-in Method for Absolute Quantification of Shotgun Metagenomic Sequencing

scientific article published in 2022

List of works by Karsten Zengler

A c-type cytochrome and a transcriptional regulator responsible for enhanced extracellular electron transfer in Geobacter sulfurreducens revealed by adaptive evolution

A community effort towards a knowledge-base and mathematical model of the human pathogen Salmonella Typhimurium LT2

A logical data representation framework for electricity-driven bioproduction processes

A road map for the development of community systems (CoSy) biology

A streamlined ribosome profiling protocol for the characterization of microorganisms

Adaptive Evolution of Thermotoga maritima Reveals Plasticity of the ABC Transporter Network.

Anaerobic degradation of ethylbenzene and toluene in denitrifying strain EbN1 proceeds via independent substrate-induced pathways.

Anaerobic degradation of hexadecane and phenanthrene coupled to sulfate reduction by enriched consortia from northern Gulf of Mexico seafloor sediment

Anaerobic oxidation of o-xylene, m-xylene, and homologous alkylbenzenes by new types of sulfate-reducing bacteria

Anaerobic utilization of toluene by marine alpha- and gammaproteobacteria reducing nitrate

Antimicrobials from human skin commensal bacteria protect against Staphylococcus aureus and are deficient in atopic dermatitis.

Author Correction: Environmental stimuli drive a transition from cooperation to competition in synthetic phototrophic communities

Characterization and modelling of interspecies electron transfer mechanisms and microbial community dynamics of a syntrophic association

Characterizing acetogenic metabolism using a genome-scale metabolic reconstruction of Clostridium ljungdahlii

Characterizing the interplay between multiple levels of organization within bacterial sigma factor regulatory networks

Constraint-based modeling of carbon fixation and the energetics of electron transfer in Geobacter metallireducens

Cultivating the uncultured

De Novo assembly of the complete genome of an enhanced electricity-producing variant of Geobacter sulfurreducens using only short reads

Determining the control circuitry of redox metabolism at the genome-scale

Efficient Synergistic Single-Cell Genome Assembly

Engineering of oleaginous organisms for lipid production.

Environmental stimuli drive a transition from cooperation to competition in synthetic phototrophic communities

Establishing microbial composition measurement standards with reference frames.

Evidence for fungal and chemodenitrification based N2O flux from nitrogen impacted coastal sediments.

FRT - FONDATION RENE TOURAINE: An International Foundation For Dermatology

Flux balance analysis of the ammonia-oxidizing bacterium Nitrosomonas europaea ATCC19718 unravels specific metabolic activities while degrading toxic compounds

GABA-modulating bacteria of the human gut microbiota

Genome-Scale Metabolic Model for the Green Alga Chlorella vulgaris UTEX 395 Accurately Predicts Phenotypes under Autotrophic, Heterotrophic, and Mixotrophic Growth Conditions.

Genome-Scale Model Reveals Metabolic Basis of Biomass Partitioning in a Model Diatom

Genome-scale reconstruction of the sigma factor network in Escherichia coli: topology and functional states.

Gut bacteria responding to dietary change encode sialidases that exhibit preference for red meat-associated carbohydrates

High-throughput cultivation of microorganisms using microcapsules

In silico method for modelling metabolism and gene product expression at genome scale

Integrated Regulatory and Metabolic Networks of the Marine Diatom Phaeodactylum tricornutum Predict the Response to Rising CO2 Levels

Investigating Moorella thermoacetica metabolism with a genome-scale constraint-based metabolic model.

Methane formation from long-chain alkanes by anaerobic microorganisms

Modelling approaches for studying the microbiome

Networks of energetic and metabolic interactions define dynamics in microbial communities

Optimization of carbon and energy utilization through differential translational efficiency

Phototrophic utilization of toluene under anoxic conditions by a new strain of blastochloris sulfoviridis

Predicting dynamic metabolic demands in the photosynthetic eukaryote Chlorella vulgaris.

Predicting proteome allocation, overflow metabolism, and metal requirements in a model acetogen

Production of pilus-like filaments in Geobacter sulfurreducens in the absence of the type IV pilin protein PilA

Quantifying Live Microbial Load in Human Saliva Samples over Time Reveals Stable Composition and Dynamic Load

Single-cell genome and metatranscriptome sequencing reveal metabolic interactions of an alkane-degrading methanogenic community

Structural and operational complexity of the Geobacter sulfurreducens genome.

Sulfide-driven microbial electrosynthesis.

Supplementation of saturated long-chain fatty acids maintains intestinal eubiosis and reduces ethanol-induced liver injury in mice

Synthetic microbial communities of heterotrophs and phototrophs facilitate sustainable growth

Tapping into microbial diversity.

Targeted access to the genomes of low-abundance organisms in complex microbial communities.

The challenges of integrating multi-omic data sets

The genome organization of Thermotoga maritima reflects its lifestyle

The iron stimulon and fur regulon of Geobacter sulfurreducens and their role in energy metabolism

The social network of microorganisms - how auxotrophies shape complex communities.

Transcriptional profiling of lung macrophages identifies a predictive signature for inflammatory lung disease in preterm infants

Transcriptional regulation of central carbon and energy metabolism in bacteria by redox-responsive repressor Rex

Transcriptional regulation of the carbohydrate utilization network in Thermotoga maritima

Trash to treasure: production of biofuels and commodity chemicals via syngas fermenting microorganisms.

Unraveling interactions in microbial communities - from co-cultures to microbiomes.

synDNA—a Synthetic DNA Spike-in Method for Absolute Quantification of Shotgun Metagenomic Sequencing