List of works - Konrad Förstner

Enterotypes of the human gut microbiome

scientific article

Dual RNA-seq unveils noncoding RNA functions in host–pathogen interactions

scientific article

High-resolution transcriptome maps reveal strain-specific regulatory features of multiple Campylobacter jejuni isolates

scientific article

Environments shape the nucleotide composition of genomes

scientific article

Global transcriptional start site mapping using differential RNA sequencing reveals novel antisense RNAs in Escherichia coli

scientific article

The primary transcriptome of barley chloroplasts: numerous noncoding RNAs and the dominating role of the plastid-encoded RNA polymerase

scientific article

The sigmaB regulon in Staphylococcus aureus and its regulation

scientific article

Grad-seq guides the discovery of ProQ as a major small RNA-binding protein

scientific article (publication date: 11 October 2016)

Differential RNA-seq of Vibrio cholerae identifies the VqmR small RNA as a regulator of biofilm formation

scientific article

Get the most out of your metagenome: computational analysis of environmental sequence data

scientific article

In Vivo Cleavage Map Illuminates the Central Role of RNase E in Coding and Non-coding RNA Pathways

scientific article

READemption—a tool for the computational analysis of deep-sequencing–based transcriptome data

scientific article published on August 13, 2014

SmashCommunity: a metagenomic annotation and analysis tool

scientific article

Functional high-throughput screening identifies the miR-15 microRNA family as cellular restriction factors for Salmonella infection

scientific article published on 22 August 2014

Evolution of resistance to a last-resort antibiotic in Staphylococcus aureus via bacterial competition

scientific article

Splicing factors stimulate polyadenylation via USEs at non-canonical 3' end formation signals

scientific article published on 6 June 2007

Genome-wide identification of transcriptional start sites in the haloarchaeon Haloferax volcanii based on differential RNA-Seq (dRNA-Seq)

scientific article (publication date: 12 August 2016)

Primary transcriptome map of the hyperthermophilic archaeon Thermococcus kodakarensis

scientific article (publication date: 16 August 2014)

Integrative "omics"-approach discovers dynamic and regulatory features of bacterial stress responses

scientific article

Regulation of transcription termination by glucosylated hydroxymethyluracil, base J, in Leishmania major and Trypanosoma brucei

scientific article

Natural mutations in a Staphylococcus aureus virulence regulator attenuate cytotoxicity but permit bacteremia and abscess formation

scientific article (publication date: 16 May 2016)

Genome-wide transcription start site mapping of Bradyrhizobium japonicum grown free-living or in symbiosis - a rich resource to identify new transcripts, proteins and to study gene regulation

scientific article

Target recognition, RNA methylation activity and transcriptional regulation of the Dictyostelium discoideum Dnmt2-homologue (DnmA)

scientific article

A computational screen for type I polyketide synthases in metagenomics shotgun data

scientific article

GT‐rich promoters can drive RNA pol II transcription and deposition of H2A.Z in African trypanosomes

scientific article

Functional characterization of the RNA chaperone Hfq in the opportunistic human pathogen Stenotrophomonas maltophilia

scientific article

Genome organization and DNA accessibility control antigenic variation in trypanosomes

scientific article published in Nature

Role of oxygen and the OxyR protein in the response to iron limitation in Rhodobacter sphaeroides

scientific article

RNA sequencing analysis of the broad-host-range strain Sinorhizobium fredii NGR234 identifies a large set of genes linked to quorum sensing-dependent regulation in the background of a traI and ngrI deletion mutant

scientific article

A nitrile hydratase in the eukaryote Monosiga brevicollis

scientific article published in 2008

Ten simple rules for organizing an unconference

scientific article

Genome-wide transcription start site profiling in biofilm-grown Burkholderia cenocepacia J2315

scientific article

Profound impact of Hfq on nutrient acquisition, metabolism and motility in the plant pathogen Agrobacterium tumefaciens

scientific article

A molecular study of microbe transfer between distant environments

scientific article

Comparative analysis of environmental sequences: potential and challenges

scientific article

Effect of Shear Stress on Pseudomonas aeruginosaIsolated from the Cystic Fibrosis Lung

scientific article (publication date: 2 August 2016)

An Open Science Peer Review Oath

scientific article published on 9 January 2015

ANNOgesic: a Swiss army knife for the RNA-seq based annotation of bacterial/archaeal genomes

article

Transcription Profiling of Bacillus subtilis Cells Infected with AR9, a Giant Phage Encoding Two Multisubunit RNA Polymerases

scientific article (publication date: 14 February 2017)

An open science peer review oath

scientific article, version 1

The Major RNA-Binding Protein ProQ Impacts Virulence Gene Expression in Salmonella enterica Serovar Typhimurium

article

cis-Encoded Small RNAs, a Conserved Mechanism for Repression of Polysaccharide Utilization in Bacteroides

scientific article (publication date: 15 September 2016)

The primary transcriptome of the Escherichia coli O104:H4 pAA plasmid and novel insights into its virulence gene expression and regulation

scientific article (publication date: 17 October 2016)

Analysis of the Microprocessor in Dictyostelium: The Role of RbdB, a dsRNA Binding Protein

scientific article

Insights into Microalga and Bacteria Interactions of Selected Phycosphere Biofilms Using Metagenomic, Transcriptomic, and Proteomic Approaches

scientific article published on 10 October 2017

APRICOT: an integrated computational pipeline for the sequence-based identification and characterization of RNA-binding proteins

scientific article (publication date: 2 March 2017)

Phenotypic Heterogeneity Affects Stenotrophomonas maltophilia K279a Colony Morphotypes and β-Lactamase Expression

scientific article (publication date: 2 December 2015)

SuhB, a small non-coding RNA involved in catabolite repression of tetralin degradation genes in Sphingopyxis granuli strain TFA

article

sRNA154 a newly identified regulator of nitrogen fixation in Methanosarcina mazei strain Gö1

scientific article (publication date: 15 March 2017)

An RpoHI-Dependent Response Promotes Outgrowth after Extended Stationary Phase in the Alphaproteobacterium Rhodobacter sphaeroides

article

List of works by Konrad Förstner

Enterotypes of the human gut microbiome

Dual RNA-seq unveils noncoding RNA functions in host–pathogen interactions

High-resolution transcriptome maps reveal strain-specific regulatory features of multiple Campylobacter jejuni isolates

Environments shape the nucleotide composition of genomes

Global transcriptional start site mapping using differential RNA sequencing reveals novel antisense RNAs in Escherichia coli

The primary transcriptome of barley chloroplasts: numerous noncoding RNAs and the dominating role of the plastid-encoded RNA polymerase

The sigmaB regulon in Staphylococcus aureus and its regulation

Grad-seq guides the discovery of ProQ as a major small RNA-binding protein

Differential RNA-seq of Vibrio cholerae identifies the VqmR small RNA as a regulator of biofilm formation

Get the most out of your metagenome: computational analysis of environmental sequence data

In Vivo Cleavage Map Illuminates the Central Role of RNase E in Coding and Non-coding RNA Pathways

READemption—a tool for the computational analysis of deep-sequencing–based transcriptome data

SmashCommunity: a metagenomic annotation and analysis tool

Functional high-throughput screening identifies the miR-15 microRNA family as cellular restriction factors for Salmonella infection

Evolution of resistance to a last-resort antibiotic in Staphylococcus aureus via bacterial competition

Splicing factors stimulate polyadenylation via USEs at non-canonical 3' end formation signals

Genome-wide identification of transcriptional start sites in the haloarchaeon Haloferax volcanii based on differential RNA-Seq (dRNA-Seq)

Primary transcriptome map of the hyperthermophilic archaeon Thermococcus kodakarensis

Integrative "omics"-approach discovers dynamic and regulatory features of bacterial stress responses

Regulation of transcription termination by glucosylated hydroxymethyluracil, base J, in Leishmania major and Trypanosoma brucei

Natural mutations in a Staphylococcus aureus virulence regulator attenuate cytotoxicity but permit bacteremia and abscess formation

Genome-wide transcription start site mapping of Bradyrhizobium japonicum grown free-living or in symbiosis - a rich resource to identify new transcripts, proteins and to study gene regulation

Target recognition, RNA methylation activity and transcriptional regulation of the Dictyostelium discoideum Dnmt2-homologue (DnmA)

A computational screen for type I polyketide synthases in metagenomics shotgun data

GT‐rich promoters can drive RNA pol II transcription and deposition of H2A.Z in African trypanosomes

Functional characterization of the RNA chaperone Hfq in the opportunistic human pathogen Stenotrophomonas maltophilia

Genome organization and DNA accessibility control antigenic variation in trypanosomes

Role of oxygen and the OxyR protein in the response to iron limitation in Rhodobacter sphaeroides

RNA sequencing analysis of the broad-host-range strain Sinorhizobium fredii NGR234 identifies a large set of genes linked to quorum sensing-dependent regulation in the background of a traI and ngrI deletion mutant

A nitrile hydratase in the eukaryote Monosiga brevicollis

Ten simple rules for organizing an unconference

Genome-wide transcription start site profiling in biofilm-grown Burkholderia cenocepacia J2315

Profound impact of Hfq on nutrient acquisition, metabolism and motility in the plant pathogen Agrobacterium tumefaciens

A molecular study of microbe transfer between distant environments

Comparative analysis of environmental sequences: potential and challenges

Effect of Shear Stress on Pseudomonas aeruginosaIsolated from the Cystic Fibrosis Lung

An Open Science Peer Review Oath

ANNOgesic: a Swiss army knife for the RNA-seq based annotation of bacterial/archaeal genomes

Transcription Profiling of Bacillus subtilis Cells Infected with AR9, a Giant Phage Encoding Two Multisubunit RNA Polymerases

An open science peer review oath

The Major RNA-Binding Protein ProQ Impacts Virulence Gene Expression in Salmonella enterica Serovar Typhimurium

cis-Encoded Small RNAs, a Conserved Mechanism for Repression of Polysaccharide Utilization in Bacteroides

The primary transcriptome of the Escherichia coli O104:H4 pAA plasmid and novel insights into its virulence gene expression and regulation

Analysis of the Microprocessor in Dictyostelium: The Role of RbdB, a dsRNA Binding Protein

Insights into Microalga and Bacteria Interactions of Selected Phycosphere Biofilms Using Metagenomic, Transcriptomic, and Proteomic Approaches

APRICOT: an integrated computational pipeline for the sequence-based identification and characterization of RNA-binding proteins

Phenotypic Heterogeneity Affects Stenotrophomonas maltophilia K279a Colony Morphotypes and β-Lactamase Expression

SuhB, a small non-coding RNA involved in catabolite repression of tetralin degradation genes in Sphingopyxis granuli strain TFA

sRNA154 a newly identified regulator of nitrogen fixation in Methanosarcina mazei strain Gö1

An RpoHI-Dependent Response Promotes Outgrowth after Extended Stationary Phase in the Alphaproteobacterium Rhodobacter sphaeroides