(Q37975973)

26 August 2017

title

The current state of microbial proteomics: where we are and where we want to go. (English)

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26 August 2017

Tzu-Chiao Chao

1

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26 August 2017

Nicole Hansmeier

series ordinal

2

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26 August 2017

publication date

19 January 2012

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26 August 2017

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26 August 2017

volume

12

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26 August 2017

issue

4-5

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26 August 2017

page(s)

638-650

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Current challenges and future applications for protein maps and post-translational vector maps in proteome projects

26 August 2017

cites work

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Fast visible dye staining of proteins in one- and two-dimensional sodium dodecyl sulfate-polyacrylamide gels compatible with matrix assisted laser desorption/ionization-mass spectrometry

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Evaluation of saturation labelling two-dimensional difference gel electrophoresis fluorescent dyes

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Difference gel electrophoresis: a single gel method for detecting changes in protein extracts

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Matrix-assisted laser desorption/ionization mass spectrometry of biopolymers

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Electrospray ionization for mass spectrometry of large biomolecules

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Probability-based protein identification by searching sequence databases using mass spectrometry data

21 January 2018

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A statistical model for identifying proteins by tandem mass spectrometry

21 January 2018

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Target-decoy search strategy for increased confidence in large-scale protein identifications by mass spectrometry

21 January 2018

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Two-dimensional difference gel electrophoresis

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Playing tag with quantitative proteomics.

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Liquid chromatography-mass spectrometry-based quantitative proteomics.

21 January 2018

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Role of spectral counting in quantitative proteomics.

21 January 2018

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Mass spectrometry in proteomics

21 January 2018

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Mass spectrometry-based proteomics turns quantitative

21 January 2018

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Less label, more free: approaches in label-free quantitative mass spectrometry.

21 January 2018

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Proteomics by mass spectrometry: approaches, advances, and applications

21 January 2018

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Utility of gel-free, label-free shotgun proteomics approaches to investigate microorganisms.

21 January 2018

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Sequencing technologies - the next generation

21 January 2018

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Genomics and bacterial pathogenesis.

21 January 2018

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Proteogenomic mapping as a complementary method to perform genome annotation

21 January 2018

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https://api.crossref.org/works/10.1002%2FPMIC.201100381

Proteomics-based refinement of Deinococcus deserti genome annotation reveals an unwonted use of non-canonical translation initiation codons

21 January 2018

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https://api.crossref.org/works/10.1002%2FPMIC.201100381

Proteogenomic analysis of polymorphisms and gene annotation divergences in prokaryotes using a clustered mass spectrometry-friendly database

21 January 2018

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https://api.crossref.org/works/10.1002%2FPMIC.201100381

Validating divergent ORF annotation of the Mycobacterium leprae genome through a full translation data set and peptide identification by tandem mass spectrometry

21 January 2018

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https://api.crossref.org/works/10.1002%2FPMIC.201100381

Proteogenomic monitoring of Geobacter physiology during stimulated uranium bioremediation

21 January 2018

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https://api.crossref.org/works/10.1002%2FPMIC.201100381

Proteogenomics and systems biology: quest for the ultimate missing parts

21 January 2018

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https://api.crossref.org/works/10.1002%2FPMIC.201100381

Proteomic studies of Bacillus anthracis

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Biotechnological applications of microbial proteomes

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Understanding and engineering of microbial cells based on proteomics and its conjunction with other omics studies

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

The Escherichia coli proteome: past, present, and future prospects

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Helicobacter pylori immunoproteomics in gastric cancer and gastritis of the carcinoma phenotype.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Profiling the surfacome of Staphylococcus aureus

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Proteomic approaches to study Staphylococcus aureus pathogenesis

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Proteomics of corynebacteria: From biotechnology workhorses to pathogens

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Pathogen proteomes during infection: A basis for infection research and novel control strategies

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Portrait of a pathogen: the Mycobacterium tuberculosis proteome in vivo

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Protein turnover in mycobacterial proteomics

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Comparative genomics and proteomics to study tissue-specific response and function in natural Mycobacterium bovis infections

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Campylobacter proteomics: guidelines, challenges and future perspectives

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Characterization and description of Anaeromyxobacter dehalogenans gen. nov., sp. nov., an aryl-halorespiring facultative anaerobic myxobacterium

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Comprehensive proteome profiling of the Fe(III)-reducing myxobacterium Anaeromyxobacter dehalogenans 2CP-C during growth with fumarate and ferric citrate

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Genome and proteome of long-chain alkane degrading Geobacillus thermodenitrificans NG80-2 isolated from a deep-subsurface oil reservoir

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Corynebacterium diphtheriae invasion-associated protein (DIP1281) is involved in cell surface organization, adhesion and internalization in epithelial cells

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Assessment of the IgA immunoassay diagnostic potential of the Mycobacterium tuberculosis MT10.3-MPT64 fusion protein in tuberculous pleural fluid

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Comprehensive analysis of exported proteins from Mycobacterium tuberculosis H37Rv

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

HLA-promiscuous Th1-cell reactivity of MPT64 (Rv1980c), a major secreted antigen of Mycobacterium tuberculosis, in healthy subjects

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Systems-wide temporal proteomic profiling in glucose-starved Bacillus subtilis

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Physiological adaptation of the bacterium Lactococcus lactis in response to the production of human CFTR.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Protein phosphorylation in signaling--50 years and counting

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Towards a phosphoproteome map of Corynebacterium glutamicum.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

The Ser/Thr/Tyr phosphoproteome of Lactococcus lactis IL1403 reveals multiply phosphorylated proteins

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

The phosphoproteome of the minimal bacterium Mycoplasma pneumoniae: analysis of the complete known Ser/Thr kinome suggests the existence of novel kinases

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Phosphoproteome analysis of E. coli reveals evolutionary conservation of bacterial Ser/Thr/Tyr phosphorylation

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Protein glycosylation in bacteria: sweeter than ever

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Glycoproteomics: a powerful tool for characterizing the diverse glycoforms of bacterial pilins and flagellins

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Bacterial protein acetylation: the dawning of a new age.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Acetylation of metabolic enzymes coordinates carbon source utilization and metabolic flux

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Identification of enzymes and regulatory proteins in Escherichia coli that are oxidized under nitrogen, carbon, or phosphate starvation

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Extensive lysine methylation in hyperthermophilic crenarchaea: potential implications for protein stability and recombinant enzymes

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

The application of two-dimensional polyacrylamide gel electrophoresis and downstream analyses to a mixed community of prokaryotic microorganisms

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Community proteomics of a natural microbial biofilm

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Identification of biofilm matrix-associated proteins from an acid mine drainage microbial community.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Computational prediction and experimental validation of signal peptide cleavages in the extracellular proteome of a natural microbial community

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Quantitative tracking of isotope flows in proteomes of microbial communities

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Environmental proteomics: analysis of structure and function of microbial communities.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Towards proteome standards: the use of absolute quantitation in high-throughput biomarker discovery

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Stoichiometric modelling of cell metabolism.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Modeling and simulation: tools for metabolic engineering

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Genome-scale models of microbial cells: evaluating the consequences of constraints

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

The application of flux balance analysis in systems biology

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

KEGG Atlas mapping for global analysis of metabolic pathways

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

The MetaCyc database of metabolic pathways and enzymes and the BioCyc collection of pathway/genome databases

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Regulation of gene expression in flux balance models of metabolism

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Metabolic modelling of microbes: the flux-balance approach

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Advances in flux balance analysis

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

The biomass objective function

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Applications of genome-scale metabolic reconstructions

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

An expanded genome-scale model of Escherichia coli K-12 (iJR904 GSM/GPR)

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Development and experimental verification of a genome-scale metabolic model for Corynebacterium glutamicum

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

In silico genome-scale reconstruction and validation of the Corynebacterium glutamicum metabolic network

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Genome-scale reconstruction of metabolic network in Bacillus subtilis based on high-throughput phenotyping and gene essentiality data

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

iBsu1103: a new genome-scale metabolic model of Bacillus subtilis based on SEED annotations

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

The growing scope of applications of genome-scale metabolic reconstructions using Escherichia coli

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Characterizing the metabolism of Dehalococcoides with a constraint-based model

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Constraint-based model of Shewanella oneidensis MR-1 metabolism: a tool for data analysis and hypothesis generation

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Constraint-based modeling analysis of the metabolism of two Pelobacter species

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Genome-scale constraint-based modeling of Geobacter metallireducens

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Genome-scale comparison and constraint-based metabolic reconstruction of the facultative anaerobic Fe(III)-reducer Rhodoferax ferrireducens

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Systematic evaluation of objective functions for predicting intracellular fluxes in Escherichia coli

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

The las enzymes control pyruvate metabolism in Lactococcus lactis during growth on maltose.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Extraction of elementary rate constants from global network analysis of E. coli central metabolism

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Staphylococcus aureus physiological growth limitations: insights from flux calculations built on proteomics and external metabolite data

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Integrating quantitative proteomics and metabolomics with a genome-scale metabolic network model

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

The minimum information about a proteomics experiment (MIAPE)

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

A high-confidence human plasma proteome reference set with estimated concentrations in PeptideAtlas

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Proteome-wide cellular protein concentrations of the human pathogen Leptospira interrogans

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Advances in fluorescent protein technology

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Probing gene expression in live cells, one protein molecule at a time.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Gene regulation at the single-cell level

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Quantifying E. coli Proteome and Transcriptome with Single-Molecule Sensitivity in Single Cells

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Microfluidic single-cell analysis of intracellular compounds

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Microfluidic platforms for single-cell analysis

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Location and architecture of the Caulobacter crescentus chemoreceptor array

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Why and how bacteria localize proteins

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Microcompartments in prokaryotes: carboxysomes and related polyhedra

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Protein Structures Forming the Shell of Primitive Bacterial Organelles

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Bacterial TEM: new insights from cryo-microscopy

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Toward detecting and identifying macromolecules in a cellular context: template matching applied to electron tomograms

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Visual proteomics of the human pathogen Leptospira interrogans

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Proteome organization in a genome-reduced bacterium

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Femtosecond X-ray protein nanocrystallography

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Proteomics uncovers extreme heterogeneity in theStaphylococcus aureusexoproteome due to genomic plasticity and variant gene regulation

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

Stochastic protein expression in individual cells at the single molecule level

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

The Serine/Threonine/Tyrosine Phosphoproteome of the Model BacteriumBacillus subtilis

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201100381

21 January 2018

Identifiers

DOI

10.1002/PMIC.201100381

1 reference

26 August 2017

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