ArticlePloS one2012
Subcellular localization of extracytoplasmic proteins in monoderm bacteria: rational secretomics-based strategy for genomic and proteomic analyses.
Article in PloS one, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
24 citing papers in PubMed.
- The roles of theJournal of bacteriology · 2026Article
- Culture-independent discovery of a novel thermotolerant lipase and its producer from mesophilic anaerobic digestion sludge.Applied microbiology and biotechnology · 2025Article
- Identification of virulence-associated factors in Vibrio parahaemolyticus with special reference to moonlighting protein: a secretomics study.International microbiology : the official journal of the Spanish Society for Microbiology · 2024Article
- SecA2 Associates with Translating Ribosomes and Contributes to the Secretion of Potent IFN-β Inducing RNAs.International journal of molecular sciences · 2022Article
- Immunopeptidomics-based design of mRNA vaccine formulations against Listeria monocytogenes.Nature communications · 2022Article
- Measurement of Protein Mobility inFrontiers in microbiology · 2021Article
- Characterization of the biofilm phenotype of a Listeria monocytogenes mutant deficient in agr peptide sensing.MicrobiologyOpen · 2019Article
- PadR-type repressors controlling production of a non-canonical FtsW/RodA homologue and other trans-membrane proteins.Scientific reports · 2019Article
- Article
- A Multicolor Split-Fluorescent Protein Approach to Visualize Listeria Protein Secretion in Infection.Biophysical journal · 2018Article
- Surfaceome and Proteosurfaceome in Parietal Monoderm Bacteria: Focus on Protein Cell-Surface Display.Frontiers in microbiology · 2018Review
- Resistance ofFrontiers in microbiology · 2018Review
- Listeria monocytogenes encodes a functional ESX-1 secretion system whose expression is detrimental to in vivo infection.Virulence · 2017Article
- N-terminomics identifies Prli42 as a membrane miniprotein conserved in Firmicutes and critical for stressosome activation in Listeria monocytogenes.Nature microbiology · 2017Article
- Transferase Versus Hydrolase: The Role of Conformational Flexibility in Reaction Specificity.Structure (London, England : 1993) · 2017Article
- InlL fromFrontiers in microbiology · 2017Article
- Article
- Phenotypes Associated with the Essential Diadenylate Cyclase CdaA and Its Potential Regulator CdaR in the Human Pathogen Listeria monocytogenes.Journal of bacteriology · 2016Article
- A systematic proteomic analysis of Listeria monocytogenes house-keeping protein secretion systems.Molecular & cellular proteomics : MCP · 2014Article
- Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Genome-scale prediction of subcellular localization (SCL) is not only useful for inferring protein function but also for supporting proteomic data. In line with the secretome concept, a rational and original analytical strategy mimicking the secretion steps that determine ultimate SCL was developed for Gram-positive (monoderm) bacteria. Based on the biology of protein secretion, a flowchart and decision trees were designed considering (i) membrane targeting, (ii) protein secretion systems, (iii) membrane retention, and (iv) cell-wall retention by domains or post-translocational modifications, as well as (v) incorporation to cell-surface supramolecular structures. Using Listeria monocytogenes as a case study, results were compared with known data set from SCL predictors and experimental proteomics. While in good agreement with experimental extracytoplasmic fractions, the secretomics-based method outperforms other genomic analyses, which were simply not intended to be as inclusive. Compared to all other localization predictors, this method does not only supply a static snapshot of protein SCL but also offers the full picture of the secretion process dynamics: (i) the protein routing is detailed, (ii) the number of distinct SCL and protein categories is comprehensive, (iii) the description of protein type and topology is provided, (iv) the SCL is unambiguously differentiated from the protein category, and (v) the multiple SCL and protein category are fully considered. In that sense, the secretomics-based method is much more than a SCL predictor. Besides a major step forward in genomics and proteomics of protein secretion, the secretomics-based method appears as a strategy of choice to generate in silico hypotheses for experimental testing.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.