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List of works by Dirk Benndorf

A Robust and Universal Metaproteomics Workflow for Research Studies and Routine Diagnostics Within 24 h Using Phenol Extraction, FASP Digest, and the MetaProteomeAnalyzer

scientific article published on 16 August 2019

A complete and flexible workflow for metaproteomics data analysis based on MetaProteomeAnalyzer and Prophane

scientific article published on 28 August 2020

A cytomic approach reveals population heterogeneity of Cupriavidus necator in response to harmful phenol concentrations

scientific article published on 01 November 2006

A robust, cost-effective method for DNA, RNA and protein co-extraction from soil, other complex microbiomes and pure cultures

scientific article published on 01 March 2019

Advanced tool for characterization of microbial cultures by combining cytomics and proteomics

scientific article published on 30 July 2010

Assimilatory detoxification of herbicides by Delftia acidovorans MC1: induction of two chlorocatechol 1,2-dioxygenases as a response to chemostress

scientific article

Augmenting Biogas Process Modeling by Resolving Intracellular Metabolic Activity.

scientific article published on 17 May 2019

Challenges and perspectives of metaproteomic data analysis

scientific article

Chemicals and heat generate different protein patterns in Acinetobacter calcoaceticus

scientific article published on 01 January 1997

Community shifts in a well-operating agricultural biogas plant: how process variations are handled by the microbiome.

scientific article published on 22 May 2015

Comparison of Influenza Virus Particle Purification Using Magnetic Sulfated Cellulose Particles with an Established Centrifugation Method for Analytics

scientific article published on 8 October 2015

Connecting MetaProteomeAnalyzer and PeptideShaker to Unipept for seamless end-to-end metaproteomics data analysis

scientific article published on 20 May 2020

Continuous synthesis and excretion of the compatible solute ectoine by a transgenic, nonhalophilic bacterium.

scientific article published on 16 March 2007

Critical Assessment of MetaProteome Investigation (CAMPI): a multi-laboratory comparison of established workflows

scientific article published on 15 December 2021

Detection, quantification and identification of fungal extracellular laccases using polyclonal antibody and mass spectrometry

Discovering Biomarkers for Non-Alcoholic Steatohepatitis Patients with and without Hepatocellular Carcinoma Using Fecal Metaproteomics

scientific article published on 9 August 2022

FMNH2-dependent monooxygenases initiate catabolism of sulfonamides in Microbacterium sp. strain BR1 subsisting on sulfonamide antibiotics.

scientific article published on 17 November 2017

Fractionation of biogas plant sludge material improves metaproteomic characterization to investigate metabolic activity of microbial communities.

scientific article published on 07 July 2015

Functional metaproteome analysis of protein extracts from contaminated soil and groundwater

scientific article published on 31 May 2007

Identification of the flavin monooxygenase responsible for ipso substitution of alkyl and alkoxyphenols in Sphingomonas sp. TTNP3 and Sphingobium xenophagum Bayram.

scientific article published on 20 October 2011

Impact of feeding and stirring regimes on the internal stratification of microbial communities in the fermenter of anaerobic digestion plants

scientific article published on 13 June 2020

Improving protein extraction and separation methods for investigating the metaproteome of anaerobic benzene communities within sediments.

scientific article

Induction of heat shock proteins in response to primary alcohols in Acinetobacter calcoaceticus

scientific article published on 01 April 1999

Insights into Pseudomonas putida KT2440 response to phenol-induced stress by quantitative proteomics

scientific article published in September 2004

Kinetics of chlorobenzene biodegradation under reduced oxygen levels.

scientific article published on 13 October 2007

MPA Portable: A Stand-Alone Software Package for Analyzing Metaproteome Samples on the Go.

scientific article published on 7 December 2017

Mechanistic insights into the global response to phenol in the phenol-biodegrading strain Pseudomonas sp. M1 revealed by quantitative proteomics

scientific article published in January 2007

Metagenome and metaproteome analyses of microbial communities in mesophilic biogas-producing anaerobic batch fermentations indicate concerted plant carbohydrate degradation

scientific article

Metaproteome analysis of sewage sludge from membrane bioreactors.

scientific article published on 23 May 2011

Metaproteome analysis of the microbial communities in agricultural biogas plants.

scientific article published on 29 January 2013

Metaproteome analysis reveals that syntrophy, competition, and phage-host interaction shape microbial communities in biogas plants

article

Metaproteome analysis to determine the metabolically active part of a thermophilic microbial community producing biogas from agricultural biomass.

scientific article published on 12 June 2012

Metaproteomics Applied to Activated Sludge for Industrial Wastewater Treatment Revealed a Dominant Methylotrophic Metabolism of Hyphomicrobium zavarzinii

scientific article

Metaproteomics of activated sludge from a wastewater treatment plant - a pilot study.

scientific article published on 23 July 2015

Metaproteomics of complex microbial communities in biogas plants

scientific article published on 15 April 2015

Monitoring changes in proteome during stepwise adaptation of a MDCK cell line from adherence to growth in suspension.

scientific article

OP7, a novel influenza A virus defective interfering particle: production, purification, and animal experiments demonstrating antiviral potential

scientific article published on 04 December 2020

Phylogenetic and proteomic analysis of an anaerobic toluene-degrading community

scientific article

Predicting compositions of microbial communities from stoichiometric models with applications for the biogas process.

scientific article

Prediction of flocculation ability of brewing yeast inoculates by flow cytometry, proteome analysis, and mRNA profiling

scientific article

Protein synthesis patterns in Acinetobacter calcoaceticus induced by phenol and catechol show specificities of responses to chemostress.

scientific article

Proteome analysis of virus-host cell interaction: rabies virus replication in Vero cells in two different media

scientific article published on 15 May 2013

Proteomic tracking and analysis of a bacterial mixed culture

scientific article

Proteotyping of biogas plant microbiomes separates biogas plants according to process temperature and reactor type

scientific article published on 26 July 2016

Proteotyping of laboratory-scale biogas plants reveals multiple steady-states in community composition.

scientific article published on 8 February 2017

Pseudomonas putida KT2440 responds specifically to chlorophenoxy herbicides and their initial metabolites

scientific article published on 01 June 2006

Purification and biochemical characterization of a laccase from the aquatic fungus Myrioconium sp. UHH 1-13-18-4 and molecular analysis of the laccase-encoding gene.

scientific article

Purification and characterization of NAD-dependent n-butanol dehydrogenase from solvent-tolerant n-butanol-degrading Enterobacter sp. VKGH12.

scientific article published in April 2008

Purification and characterization of hydroquinone dioxygenase from Sphingomonas sp. strain TTNP3

scientific article published on 27 May 2011

RedCom: A strategy for reduced metabolic modeling of complex microbial communities and its application for analyzing experimental datasets from anaerobic digestion

scientific article published on 01 February 2019

Reduced TCA cycle rates at high hydrostatic pressure hinder hydrocarbon degradation and obligate oil degraders in natural, deep-sea microbial communities

scientific article published on 12 December 2018

Regulation of catabolic enzymes during long-term exposure of Delftia acidovorans MC1 to chlorophenoxy herbicides.

scientific article published in April 2004

Response of Pseudomonas putida KT2440 to phenol at the level of membrane proteome.

scientific article published on 12 February 2010

SDS-PAGE fractionation to increase metaproteomic insight into the taxonomic and functional composition of microbial communities for biogas plant samples

scientific article published on 08 July 2018

Sample prefractionation with liquid isoelectric focusing enables in depth microbial metaproteome analysis of mesophilic and thermophilic biogas plants

scientific article

Searching for a needle in a stack of needles: challenges in metaproteomics data analysis

scientific article

Substrate-Dependent Fermentation of Bamboo in Giant Panda Gut Microbiomes: Leaf Primarily to Ethanol and Pith to Lactate

scientific article published on 31 March 2020

The Impact of ackA, pta, and ackA-pta Mutations on Growth, Gene Expression and Protein Acetylation in Escherichia coli K-12

scientific article published on 21 February 2020

The MetaProteomeAnalyzer: a powerful open-source software suite for metaproteomics data analysis and interpretation.

scientific article

The Role of <i>Petrimonas mucosa</i> ING2-E5A<sup>T</sup> in Mesophilic Biogas Reactor Systems as Deduced from Multiomics Analyses

scientific article published on 17 December 2020

The alkyl tert-butyl ether intermediate 2-hydroxyisobutyrate is degraded via a novel cobalamin-dependent mutase pathway.

scientific article published on June 2006

The coprophilous mushroom Coprinus radians secretes a haloperoxidase that catalyzes aromatic peroxygenation

scientific article

The two enantiospecific dichlorprop/alpha-ketoglutarate-dioxygenases from Delftia acidovorans MC1--protein and sequence data of RdpA and SdpA.

scientific article

Use of proteomics and physiological characteristics to elucidate ecotoxic effects of methyl tert-butyl ether in Pseudomonas putida KT2440.

scientific article published in August 2003

Vitellogenin cleavage products as indicators for toxic stress in zebra fish embryos: a proteomic approach

scientific article published in December 2007

smORFer: a modular algorithm to detect small ORFs in prokaryotes

scientific article published on 7 September 2021

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