Genetic Profile and Functional Proteomics of Anal Squamous Cell Carcinoma: Proposal for a Molecular Classification

1. Download : Download high-res image (209KB)
2. Download : Download full-size image

Highlights

• •Two molecular groups in anal squamous carcinoma according proteomic profile.
• •Differences in possible targeted processes such as metabolism or immune response.
• •Different percentage of tumor lymphocyte infiltration.
• •Difference in the frequency of ATM variants, related to PPAR inhibitors.

     

Glutathionylation Decreases Methyltransferase Activity of PRMT5 and Inhibits Cell Proliferation

1. Download : Download high-res image (194KB)
2. Download : Download full-size image

Highlights

• •PRMT5 glutathionylation is increased in aged mice or under oxidative stress.
• •Deglutathionylation of PRMT5 is catalyzed by glutaredoxin-1.
• •PRMT5 glutathionylation decreases its methyltransferase activity.
• •PRMT5 glutathionylation results in G2/M arrest and inhibits cell proliferation.

     

An Interaction Network of RNA-Binding Proteins Involved in Drosophila Oogenesis

1. Download : Download high-res image (92KB)
2. Download : Download full-size image

Highlights

• •Label-free and dimethyl labeling MS analysis of 6 RBPs from Drosophila ovaries.
• •Functionally related RBPs show overlapping proteomes.
• •Selective co-purification of splicing factors and translational regulators.
• •Validation of 26 novel interactions by co-immunoprecipitation.

     

Global Proteome and Phosphoproteome Characterization of Sepsis-induced Kidney Injury

1. Download : Download high-res image (197KB)
2. Download : Download full-size image

Highlights

• •Cecal Ligation Puncture (CLP) mouse model to study sepsis-induced kidney disease.
• •Quantitative global proteome and phosphoproteome profiling of mouse kidneys.
• •Highly significant candidate markers for onset and progression of AKI to CKD.
• •Mechanistic insights into sepsis-associated kidney injuries.

     

Peptidomic Analysis of Urine from Youths with Early Type 1 Diabetes Reveals Novel Bioactivity of Uromodulin Peptides In Vitro

1. Download : Download high-res image (240KB)
2. Download : Download full-size image

Highlights

• •Urinary peptide profiling of youths with type 1 diabetes before clinical injury.
• •Internal validation of uromodulin peptides by parallel reaction monitoring.
• •Discovery of novel bioactivity of uromodulin peptides in vitro.
• •In silico prediction of proteases involved in uromodulin processing.

     

Proteomic Analysis of Salmonella-modified Membranes Reveals Adaptations to Macrophage Hosts

1. Download : Download high-res image (255KB)
2. Download : Download full-size image

Highlights

• •Affinity-based proteomics of infected macrophage cells.
• •Salmonella-modified membranes exhibit host-specific composition.
• •Proteome differences explain some host-dependent pathophysiological differences.

     

Arginine in C9ORF72 Dipolypeptides Mediates Promiscuous Proteome Binding and Multiple Modes of Toxicity

1. Download : Download high-res image (208KB)
2. Download : Download full-size image

Highlights

• •Quantitative proteome interactions with 5 different C9ORF72 dipolypeptides (DPRs).
• •The arg-rich DPRs promiscuously bound to the proteome compared with the other DPRs.
• •Long repeat lengths of arg-rich DPRs, but not short lengths, stalled ribosomes.
• •The arg-rich DPRs also reduced arginine methylation and actin cytoskeleton assembly.

     

Identification of Tumor Antigens in the HLA Peptidome of Patient-derived Xenograft Tumors in Mouse

1. Download : Download high-res image (147KB)
2. Download : Download full-size image

Highlights

• •Sufficient tumor tissues are often unavailable large HLA peptidome discovery.
• •Using patient derived xenograft (PDX) tumors can overcome this limitation.
• •The large PDX HLA peptidomes expand significantly those of the original biopsies.
• •The HLA peptidomes of the PDX tumors included many tumor antigens.

     

Phosphoproteomic Approaches to Discover Novel Substrates of Mycobacterial Ser/Thr Protein Kinases

1. Download : Download high-res image (137KB)
2. Download : Download full-size image

Highlights

• •Mapping kinase-substrate relationships is vital in discovering new tuberculosis drug targets.
• •LC-MS/MS-based phosphoproteomics expand mycobacterial STPK substrate catalogues.
• •We review and integrate MS-generated datasets on novel candidate substrates.
• •Validation studies are necessary to confirm true physiological substrates of STPKs.

     

Temporal Quantitative Proteomics of mGluR-induced Protein Translation and Phosphorylation in Neurons

1. Download : Download high-res image (183KB)
2. Download : Download full-size image

Highlights

• •Integrated phosphoproteomics and analyses of newly synthesized proteins in neurons.
• •Resource of temporal mGluR-induced signaling pathways upon DHPG stimulation.
• •Validation of PKC, MAPK1, CAMKIIa, and CDK2 in mGluR-activation and signaling.
• •Validation of Intersectin-1 in DHPG-induced AMPAR internalization.

     

Analytical Guidelines for co-fractionation Mass Spectrometry Obtained through Global Profiling of Gold Standard Saccharomyces cerevisiae Protein Complexes

1. Download : Download high-res image (101KB)
2. Download : Download full-size image

Highlights

• •Guidelines for studying protein complexes via co-fractionation mass spectrometry.
• •A novel procedure for profiling gold standard protein complexes in CF-MS data.
• •Recommendations for efficient CF-MS fractionation collection.
• •Scoring metric recommendations for precise and sensitive CF-MS data analysis.

     

Phenotypic Adaption of Pseudomonas aeruginosa by Hacking Siderophores Produced by Other Microorganisms

1. Download : Download high-res image (158KB)
2. Download : Download full-size image

Highlights

• •P. aeruginosa grown with exosiderophores and analyzed by proteomic and RT-qPCR.
• •Catechol-type exosiderophores strongly induce the expression of their transporters.
• •Repression of the endogenous iron uptake pathways.
• •Complex phenotypic plasticity in the expression of the various iron-uptake pathways.

     

Ionizing Radiation-induced Proteomic Oxidation in Escherichia coli

1. Download : Download high-res image (161KB)
2. Download : Download full-size image

Highlights

• •Quantifying ionizing radiation-induced oxidation in E. coli and D. radiodurans.
• •Amelioration of protein damage dependent upon cellular components.
• •GAPDH active site is highly modified and also IR-modified in H. sapiens.

     

Characterization of Prenylated C-terminal Peptides Using a Thiopropyl-based Capture Technique and LC-MS/MS

1. Download : Download high-res image (91KB)
2. Download : Download full-size image

Highlights

• •Brain membrane protein extraction.
• •Protein prenylation.
• •Prenyl peptide capture and characterization by LC-MS/MS.
• •HCD and EThcD peptide fragmentation.

     

The Aspergillus fumigatus Secretome Alters the Proteome of Pseudomonas aeruginosa to Stimulate Bacterial Growth: Implications for Co-infection

1. Download : Download high-res image (146KB)
2. Download : Download full-size image

Highlights

• •Pseudomonas aeruginosa growth increases in Aspergillus fumigatus culture filtrates.
• •A. fumigatus culture filtrates are characterized by a range of peptidases and proteases.
• •LFQ proteomics characterizes the response of P. aeruginosa to A. fumigatus culture filtrates.
• •A. fumigatus creates an environment for P. aeruginosa to proliferate.

     

N-glycosylation Site Analysis Reveals Sex-related Differences in Protein N-glycosylation in the Rice Brown Planthopper (Nilaparvata lugens)

1. Download : Download high-res image (275KB)
2. Download : Download full-size image

Highlights

• •N-glycosylation site analysis of the hemipteran pest insect Nilaparvata lugens.
• •Differential N-glycosylation of proteins is observed between male and female adults.
• •Sex-specific glycoproteins are involved in insect reproduction.

     

Measuring Site-specific Glycosylation Similarity between Influenza a Virus Variants with Statistical Certainty

1. Download : Download high-res image (94KB)
2. Download : Download full-size image

Highlights

• •Changes in N-linked glycosylation in influenza A virus affect antigenicity of the virus.
• •Glycosylation similarity can be quantified, even in heterogeneously glycosylated proteins.
• •Glycosylation is measurably and site-specifically distinct in influenza from related strains.

     

PolySTest: Robust Statistical Testing of Proteomics Data with Missing Values Improves Detection of Biologically Relevant Features

1. Download : Download high-res image (282KB)
2. Download : Download full-size image

Highlights

• •Novel statistical test combining missingness and quantitative profiles.
• •Unification of different statistical tests into a PolySTest FDR provides higher robustness and confidence.
• •PolySTest provides higher coverage of relevant biological pathways.
• •User-friendly interactive web service for statistical analysis and visualization.

     

A Cross-linking Mass Spectrometry Approach Defines Protein Interactions in Yeast Mitochondria

1. Download : Download high-res image (250KB)
2. Download : Download full-size image

Highlights

• •XL-MS reveals new PPIs in yeast mitochondria under glycerol and glucose condition.
• •Significant but limited results from quantitative XL-MS experiments.
• •Ndi1 participates in a CIII₂CIV₂ respiratory supercomplex.
• •Min8 promotes assembly of Cox12 into an intermediate complex IV.