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Effect of ArcA and FNR on the expression of genes related to the oxygen regulation and the glycolysis pathway inEscherichia coli under microaerobic growth conditions
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The RegB/RegA two-component regulatory system controls synthesis of photosynthesis and respiratory electron transfer components in Rhodobacter capsulatus
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Microbiology and biochemistry of the enhanced biological phosphate removal process
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Phylogeny of the bacterial superfamily of Crp-Fnr transcription regulators: exploiting the metabolic spectrum by controlling alternative gene programs
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Metabolic behavior of denitrifying phosphate-accumulating organisms under nitrate and nitrite electron acceptor conditions
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Cistrome and Epicistrome Features Shape the Regulatory DNA Landscape
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Identification and validation of suitable reference genes for quantitative expression of xylA and xylE genes in Pseudomonas putida mt-2
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Bacterial sensors of oxygen
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Denitrifying phosphorus removal: Linking the process performance with the microbial community structure
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Incorporating microbial ecology into the metabolic modelling of polyphosphate accumulating organisms and glycogen accumulating organisms
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Monitoring associations between clade-level variation, overall community structure and ecosystem function in enhanced biological phosphorus removal (EBPR) systems using terminal-restriction fragment length polymorphism (T-RFLP)
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Population dynamics of bacteria involved in enhanced biological phosphorus removal in Danish wastewater treatment plants
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The impact of aeration on the competition between polyphosphate accumulating organisms and glycogen accumulating organisms
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Treating low carbon/nitrogen (C/N) wastewater in simultaneous nitrification-endogenous denitrification and phosphorous removal (SNDPR) systems by strengthening anaerobic intracellular carbon storage
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June 2015 |
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Accumulibacter clades Type I and II performing kinetically different glycogen-accumulating organisms metabolisms for anaerobic substrate uptake
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Candidatus Accumulibacter phosphatis clades enriched under cyclic anaerobic and microaerobic conditions simultaneously use different electron acceptors
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Denitrification of nitrate and nitrite by ‘Candidatus Accumulibacter phosphatis’ clade IC
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Non-denitrifying polyphosphate accumulating organisms obviate requirement for anaerobic condition
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March 2017 |
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Cooperation between Candidatus Competibacter and Candidatus Accumulibacter clade I, in denitrification and phosphate removal processes
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September 2017 |
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Pilot plant demonstration of stable and efficient high rate biological nutrient removal with low dissolved oxygen conditions
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September 2017 |
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The Diheme Cytochrome c 4 from Vibrio cholerae Is a Natural Electron Donor to the Respiratory cbb 3 Oxygen Reductase
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September 2010 |
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Genome Reconstruction and Gene Expression of “ Candidatus Accumulibacter phosphatis” Clade IB Performing Biological Phosphorus Removal
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‘Candidatus Accumulibacter’ gene expression in response to dynamic EBPR conditions
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Comparative genomics of two ‘Candidatus Accumulibacter’ clades performing biological phosphorus removal
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July 2013 |
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Deep-sea hydrothermal vent Epsilonproteobacteria encode a conserved and widespread nitrate reduction pathway (Nap)
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Metatranscriptomic insights on gene expression and regulatory controls in Candidatus Accumulibacter phosphatis
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November 2015 |
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Ancestral genome reconstruction identifies the evolutionary basis for trait acquisition in polyphosphate accumulating bacteria
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April 2016 |
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Metagenomic analysis of two enhanced biological phosphorus removal (EBPR) sludge communities
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Mapping and quantifying mammalian transcriptomes by RNA-Seq
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QIIME allows analysis of high-throughput community sequencing data
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Recovery of nearly 8,000 metagenome-assembled genomes substantially expands the tree of life
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September 2017 |
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Dominant and novel clades of Candidatus Accumulibacter phosphatis in 18 globally distributed full-scale wastewater treatment plants
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July 2015 |
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Nitrate and periplasmic nitrate reductases
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Competition between Escherichia coli strains expressing either a periplasmic or a membrane-bound nitrate reductase: does Nap confer a selective advantage during nitrate-limited growth?
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November 1999 |
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Cascade regulation of the two CRP/FNR‐related transcriptional regulators (ANR and DNR) and the denitrification enzymes in Pseudomonas aeruginosa
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Regulation of Pseudomonas aeruginosa hemF and hemN by the dual action of the redox response regulators Anr and Dnr
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A novel NO-responding regulator controls the reduction of nitric oxide in Ralstonia eutropha
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Regulation of expression of terminal oxidases in Paracoccus denitrificans : Regulation of expression of terminal oxidases
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Genomic insights that advance the species definition for prokaryotes
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Shifting the genomic gold standard for the prokaryotic species definition
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October 2009 |
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Global patterns of 16S rRNA diversity at a depth of millions of sequences per sample
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June 2010 |
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Bacterial Adaptation of Respiration from Oxic to Microoxic and Anoxic Conditions: Redox Control
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April 2012 |
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RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models
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FIMO: scanning for occurrences of a given motif
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February 2011 |
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UCHIME improves sensitivity and speed of chimera detection
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June 2011 |
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FLASH: fast length adjustment of short reads to improve genome assemblies
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September 2011 |
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SortMeRNA: fast and accurate filtering of ribosomal RNAs in metatranscriptomic data
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October 2012 |
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HTSeq--a Python framework to work with high-throughput sequencing data
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September 2014 |
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Structure and mechanism of the aberrant ba3-cytochrome c oxidase from Thermus thermophilus
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April 2000 |
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MEME: discovering and analyzing DNA and protein sequence motifs
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GenBank
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November 2015 |
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Microbial species delineation using whole genome sequences
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July 2015 |
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Transcriptional control of several aerobically induced cytochrome structural genes in Rhodobacter sphaeroides
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October 1997 |
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Bacterial respiration: a flexible process for a changing environment
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CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes
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May 2015 |
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metaSPAdes: a new versatile metagenomic assembler
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March 2017 |
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Exploiting extension bias in polymerase chain reaction to improve primer specificity in ensembles of nearly identical DNA templates: Primer design exploiting extension bias in PCR
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September 2013 |
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Expanding our view of genomic diversity in C andidatus Accumulibacter clades : Metabolic plasticity in Accumulibacter clades
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August 2014 |
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Metagenomic and metaproteomic analyses of Accumulibacter phosphatis-enriched floccular and granular biofilm: Meta-omics of floccular and granular biofilms
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October 2015 |
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Expression of nitrite reductase in Nitrosomonas europaea involves NsrR, a novel nitrite-sensitive transcription repressor: NsrR regulation of NirK expression in N. europaea
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July 2004 |
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Microbial distribution of Accumulibacter spp. and Competibacter spp. in aerobic granules from a lab-scale biological nutrient removal system
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February 2008 |
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Environmental distribution and population biology of Candidatus Accumulibacter, a primary agent of biological phosphorus removal: Environmental distribution of Accumulibacter
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July 2008 |
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Metatranscriptomic array analysis of ‘Candidatus Accumulibacter phosphatis’-enriched enhanced biological phosphorus removal sludge: Metatranscriptomic array analysis of EBPR sludge
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February 2010 |
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Confirmation of ‘aerobic denitrification’ in batch cultures, using gas chromatography and 15N mass spectrometry
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October 1995 |
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Microbiology of ‘Candidatus Accumulibacter’ in activated sludge: Microbiology of ‘Candidatus Accumulibacter’
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Denitrification capabilities of two biological phosphorus removal sludges dominated by different ‘ Candidatus Accumulibacter’ clades
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December 2009 |
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Nitrate/oxygen co-sensing by an NreA/NreB sensor complex of Staphylococcus carnosus : NreA function in
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December 2013 |
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Genome-Wide Mapping of in Vivo Protein-DNA Interactions
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June 2007 |
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"Candidatus Accumulibacter" Population Structure in Enhanced Biological Phosphorus Removal Sludges as Revealed by Polyphosphate Kinase Genes
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August 2007 |
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Characterization of the Denitrification-Associated Phosphorus Uptake Properties of “Candidatus Accumulibacter phosphatis” Clades in Sludge Subjected to Enhanced Biological Phosphorus Removal
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January 2013 |
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Involvement of Rhodocyclus-Related Organisms in Phosphorus Removal in Full-Scale Wastewater Treatment Plants
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June 2002 |
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Contributions of [4Fe-4S]-FNR and Integration Host Factor to fnr Transcriptional Regulation
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February 2007 |
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Oxygen Reactivity of Both Respiratory Oxidases in Campylobacter jejuni: the cydAB Genes Encode a Cyanide-Resistant, Low-Affinity Oxidase That Is Not of the Cytochrome bd Type
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December 2006 |
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The Periplasmic Nitrate Reductase Nap Is Required for Anaerobic Growth and Involved in Redox Control of Magnetite Biomineralization in Magnetospirillum gryphiswaldense
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June 2012 |
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Transcriptome Dynamics during the Transition from Anaerobic Photosynthesis to Aerobic Respiration in Rhodobacter sphaeroides 2.4.1
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October 2007 |
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Oxygen Regulation of the ccoN Gene Encoding a Component of the cbb3 Oxidase inRhodobacter sphaeroides 2.4.1T: Involvement of the FnrL Protein
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April 1998 |
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Terminal Oxidases of Bacillus subtilis Strain 168: One Quinol Oxidase, Cytochrome aa3 or Cytochrome bd, Is Required for Aerobic Growth
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Mobile Cytochrome c2 and Membrane-Anchored Cytochrome cy Are Both Efficient Electron Donors to the cbb3- and aa3-Type Cytochrome c Oxidases during Respiratory Growth of Rhodobacter sphaeroides
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March 2001 |
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Coordination of Ubiquinol Oxidase and Cytochrome cbb3 Oxidase Expression by Multiple Regulators in Rhodobacter capsulatus
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Genome-Wide Expression Analysis Indicates that FNR of Escherichia coli K-12 Regulates a Large Number of Genes of Unknown Function
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Epigenetic Gene Regulation in the Bacterial World
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A high-affinity cbb3-type cytochrome oxidase terminates the symbiosis-specific respiratory chain of Bradyrhizobium japonicum.
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March 1996 |
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Metabolic pathways for the whole community
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MaxBin: an automated binning method to recover individual genomes from metagenomes using an expectation-maximization algorithm
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August 2014 |
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Quantifying similarity between motifs
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January 2007 |
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DECIPHER: harnessing local sequence context to improve protein multiple sequence alignment
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October 2015 |
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LINKS: Scalable, alignment-free scaffolding of draft genomes with long reads
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August 2015 |
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Aerobic Denitrification of Pseudomonas putida AD-21 at Different C/N Ratios
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November 2008 |
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Genome-scale Analysis of Escherichia coli FNR Reveals Complex Features of Transcription Factor Binding
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June 2013 |
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Systematic Identification of Gene Families for Use as “Markers” for Phylogenetic and Phylogeny-Driven Ecological Studies of Bacteria and Archaea and Their Major Subgroups
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Long-term operation of a reactor enriched in Accumulibacter clade I DPAOs: performance with nitrate, nitrite and oxygen
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The Microbial Database for Danish wastewater treatment plants with nutrient removal (MiDas-DK) – a tool for understanding activated sludge population dynamics and community stability
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Taking Advantage of Aerated-Anoxic Operation in a Full-Scale University of Cape Town Process
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Anvi’o: an advanced analysis and visualization platform for ‘omics data
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PhyloSift: phylogenetic analysis of genomes and metagenomes
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January 2014 |