Identity of Neisseria gonorrhoeae MS11 membrane associated proteins in supernatant
Ontology highlight
ABSTRACT:
INSTRUMENT(S): LTQ Orbitrap Elite
ORGANISM(S): Neisseria Gonorrhoeae Ms11
TISSUE(S): Vesicle, Cell Suspension Culture
SUBMITTER: 
Greg Sabat
LAB HEAD: Dr. Joseph Dillard
PROVIDER: PXD051157 | Pride | 2024-04-04
REPOSITORIES: Pride
Similar Datasets
Project description:Pathogen-derived peptides presented by MHCII that are best able to activate cognate CD4+ T cells and initiate an adaptive immune response are termed immunodominant. The exact mechanisms and molecular determinants of antigen processing that contribute to immunodominance remain unclear. Recently, attention has been called to the events of proteolytic cleavage as a potential determinant. Here, we compare data generated through cleavage of hemagglutinin from influenza A, at varying pH and over a twenty-four hour time period in the presence of cathepsin B, H and S, to an immunodominant hierarchy previously established with an ex-vivo mouse model. We show that cleavage alone does not directly predict immunodominance, however resistance to digestion emerged as a determinant of immunodominance. Moreover, pH conditions contribute to shaping the peptidome available for MHCII binding and the size of the pools of unique peptides associated with immunodominance. These differences suggest the presence of multiple antigen processing pathways through which resistance to proteolytic cleavage and peptide redundancy may result in a more diverse peptidome for presentation.
2021-08-16 | PXD027327 | Pride
Project description:Type I, II, III and V collagens were commonly identified in human, pig, and mouse breast ECM. Mammary epithelial cells were able to form acini on certain types or combinations of the four collagens at normal breast tissue stiffness levels. Comparison of the collagen species in mouse normal breast and breast tumor ECM revealed common and distinct sets of collagens within the two types of tissues. Elevated collagen type I alpha 1 chain expression was found in human breast cancers. Collagen type XXV alpha 1 chain was identified in mouse breast tumors but not in normal breast tissues. Our data provide insights into modeling human breast pathophysiological structures and functions using native tissue-derived hydrogels and potential contributions of different collagen types or their monomers in breast cancer development.
2023-03-11 | PXD037900 | Pride
Project description:Type I, II, III and V collagens were commonly identified in human, pig, and mouse breast ECM. Mammary epithelial cells were able to form acini on certain types or combinations of the four collagens at normal breast tissue stiffness levels. Comparison of the collagen species in mouse normal breast and breast tumor ECM revealed common and distinct sets of collagens within the two types of tissues. Elevated collagen type I alpha 1 chain expression was found in human breast cancers. Collagen type XXV alpha 1 chain was identified in mouse breast tumors but not in normal breast tissues. Our data provide insights into modeling human breast pathophysiological structures and functions using native tissue-derived hydrogels and potential contributions of different collagen types or their monomers in breast cancer development.
2023-03-11 | PXD037920 | Pride
Project description:ECM is the physicochemical support for the cells living in the tissue microenvironment. it is important to know the protein contents within the ECM that are critical for extra- and intracellular signaling, cell growth, migration, cell-cell/ECM interactions. The ECM gel derived from the Engelbreth-Holm-Swarm murine sarcoma (commonly known as Matrigel or lrECM) purchased from the Sigma Aldrich in the liquid concentration of 8-12 mg/ml (Lot # 064M4075V) was used for the LC-MS/MS analysis and to prepare the 3D scaffolds used for downstream experiments. The Matrigel mass spectrometry data will be used to compare with those of the decellularized mice mammary tissue ECM/DBT-TMS.
2018-10-26 | PXD005696 | Pride
Project description:Small RNAs exert an effect through diverse RNA interference pathways to transcriptionally or post-transcriptionally silence their targets. The Piwi-interacting RNAs (piRNAs) represent a germline-specific small RNA pathway where Piwi proteins themselves are thought to mediate piRNA biosynthesis. Here, we provide strong evidence for a piRNA amplification loop in zebrafish, in which Ziwi and Zili bind piRNAs of opposite polarity. Furthermore, we describe a function for Zili in transposon defense and germ cell differentiation, as well as a crucial function in meiosis, significantly extending the function of Piwi proteins beyond the control of transposable elements in vertebrates. small RNA from total gonads or Argonaute IPs were cloned and sequenced using 454 GS FLX system.
2008-11-04 | E-GEOD-12547 | biostudies-arrayexpress
Project description:Our goal was to better understand the interaction between the Hsp70 Ssb1 and the atypical Hsp70 Ssz1, which we had uncovered by in vivo site-specific Bpa crosslinking. Ssz1 having Bpa incorporated was purified and incubated with purified Ssb1 and the J-domain protein Zuo1 during activation of photo cross-linking. After protein gel electrophoresis and protease digestion of excised bands, the resulting cross-linked peptides were analyzed by mass spectrometry and identified by StavroX.
2021-08-26 | PXD024065 | Pride
Project description:Skeletal muscle has emerged as an endocrine organ secreting exercise-induced factors (exerkines), which play a pivotal role in inter-organ crosstalk. Via MS-based proteomics, we identified thymosin beta-4 (TMSB4X) to be the most upregulated secreted protein in the media of contracting C2C12 myotubes. TMSB4X was also acutely increased in the plasma of exercising humans and there was a net uptake of TMSB4X across the thigh during exercise. Chronic treatment of TMSB4X in mice did not ameliorate the metabolic disruptions associated with diet induced-obesity, nor did it enhance muscle regeneration in vivo. However, TMSB4X did increase osteoblast proliferation and neurite outgrowth, consistent with its WADA-classification as a prohibited growth factor. Thus, we report TMSB4X as a novel human exerkine with a potential role in cellular crosstalk.
2021-09-15 | PXD024607 | Pride
Project description:Glioblastoma (GBM) is one of the most aggressive solid tumors for which treatment options and biomarkers are limited. Small extracellular vesicles (sEVs) produced by both GBM and stromal cells are central in the inter-cellular communication that is taking place in the tumor bulk. As tumor sEVs are accessible in biofluids, recent reports have suggested that sEVs contain valuable biomarkers for GBM patient diagnosis and follow-up. The aim of the current study was to describe the protein content of sEVs produced by different GBM cell lines and patient-derived stem cells. Our results revealed that the content of the sEVs mirrors the phenotypic signature of the respective GBM cells, leading to the description of potential informative sEV-associated biomarkers for GBM subtyping, such as CD44. Overall, these data could assist future GBM in vitro studies and provide insights for the development of new diagnostic and therapeutic methods as well as personalized treatment strategies.
2019-08-08 | PXD014579 | Pride
Project description:Comparison of multiple grade 3 invasive ductal carcinomas arrayed against a common reference.
2007-06-01 | E-MEXP-1007 | biostudies-arrayexpress
Project description:In higher plants, a P-type proton pumping ATPase generates the proton-motive force essential for the function of all other transporters and for proper growth and development. X-ray crystallographic studies of the plant plasma membrane proton pump have provided information on amino acids involved in ATP catalysis but provided no information on the structure of the C-terminal regulatory domain. Despite progress in elucidating enzymes involved in the signaling pathways that activate or inhibit this pump, the site of interaction of the C-terminal regulatory domain with the catalytic domains remains a mystery. Genetic studies have pointed to amino acids in various parts of the protein that may be involved but direct chemical evidence for which ones are specifically interacting with the C-terminus is lacking. In this study we used in vivo cross-linking experiments with a photo-reactive unnatural amino acid, p-benzoyl-phenylalanine (BPA) and tandem mass spectrometry, to obtain direct evidence that the carboxyl terminal regulatory domain directly interacts with amino acids located within the N-terminal actuator domain. Our observations are consistent with a mechanism in which intermolecular, rather than intramolecular, interactions are involved. Our model invokes a ‘head-to-tail’ organization of ATPase monomers in which the carboxyl terminal domain of one ATPase molecule interacts with the actuator domain of another ATPase molecule. This model serves to explain why cross-linked peptides are found only in dimers and trimers, and is consistent with prior studies suggesting that within the membrane, the protein can be organized as homopolymers, including dimers, trimers and hexamers.
2018-09-24 | PXD010892 | Pride