Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Ubiquitination regulation of streptococcus agalactiae infection in dairy cow mammary epithelial cells

ABSTRACT: A total of 5239 proteins were identified in this study, of which 4601 proteins contained quantitative information. If 1.5 times is used as the change threshold and t-test p-value<0.05 as the standard, then among the quantified proteins, the expression of 325 proteins in the T/C comparison group will be up-regulated and the expression of 704 proteins will be down-regulated. Based on the above data, we conducted a systematic bioinformatics analysis of proteins containing quantitative information, including protein annotation, functional classification, functional enrichment, and cluster analysis based on functional enrichment. And combining the above information provides a reference direction for the downstream in-depth research based on proteomics.

INSTRUMENT(S): 6220 Time-of-Flight LC/MS

ORGANISM(S): Bos Taurus (bovine)

TISSUE(S): Epithelial Cell, Cell Culture

DISEASE(S): Breast Cancer

SUBMITTER: Xin Li

LAB HEAD: Jinjin Tong

PROVIDER: PXD028659 | Pride | 2022-10-13

REPOSITORIES: Pride

ACCESS DATA

Json Xml

Publications

The Analysis of the Ubiquitylomic Responses to <i>Streptococcus agalactiae</i> Infection in Bovine Mammary Gland Epithelial Cells.

Tong Jinjin J Ji Xintong X Zhang Hua H Xiong Benhai B Cui Defeng D Jiang Linshu L

Journal of inflammation research 20220727

<h4>Purpose</h4><i>Streptococcus agalactiae</i> is one of the primary pathogens responsible for subclinical mastitis, a significant economic burden for dairy farms. An essential component of the immune response to infection is ubiquitination, which plays important roles in the complex interactions between the pathogen and host.<h4>Materials and methods</h4>In the present study, quantitative ubiquitylomics was performed to profile changes in the global ubiquitinome of bovine mammary gland epithel ...[more]

PMID: 35923910

Similar Datasets

Proteomics-based identification of potential therapeutic targets of artesunate in a lupus nephritis MRL/lpr mouse model

Project description:A total of 6527.0 proteins were identified in the First Affiliated Hospital of Sun Yat sen University, of which 5732.0 proteins contained quantitative information. If we take 1.5 times as the differential expression change threshold and t-test p-value < 0.05 as the significance threshold, we found that 440 proteins were up-regulated and 339 proteins were down regulated in the MRL vs normal comparison group. Based on the above data, we performed systematic bioinformatics analysis (protein function annotation) on all identified proteins, and performed functional classification, functional enrichment and cluster analysis based on functional enrichment on all differentially expressed proteins. Based on the above information, it provides a reference direction for downstream proteome based in-depth research.

2024-05-24 | PXD046815 | Pride

Quantitative proteomic analysis of whole protein in three melanoma samples of 92.1, 92.1-A and 92.1-B

Project description:A total of 6081 proteins were identified in this study, of which 5267 proteins contained quantitative information. If taking 1.2 times as the change threshold and t-test p-value < 0.05 as the standard, the expression of 335 proteins in 92.1-a / 92.1 comparison group was up-regulated and 302 proteins were down regulated; In the 92.1-b / 92.1 comparison group, 129 proteins were up-regulated and 160 proteins were down regulated. Based on the above data, we conducted a systematic bioinformatics analysis of proteins containing quantitative information, including protein annotation, functional classification, functional enrichment and cluster analysis based on functional enrichment. It provides a comprehensive reference for the downstream proteome research.

2022-03-21 | PXD032215 | Pride

Quantitative proteomic analysis of pseudomonas aeruginosa samples

Project description:Ionizing irradiation kills pathogens by destroying nucleic acids while retaining the immunogenicity of pathogen proteins. However, the overall proteome of bacteria exposed to X-ray irradiation still remain unclear. This experiment was aimed to investigate the proteome changes of the laboratory Pseudomonas aeruginosa PAO1 strain after exposure to X-ray irradiation. A total of 2963 proteins were identified in this study, of which 2599 proteins contained quantitative information. If the differential expression change threshold is 2 times, and the statistical test t-test p-value <0.05 is the significance threshold, then among the quantified proteins, the expression of 48 proteins was up-regulated and 8 protein expression was down-regulated. Based on the above data, we performed a systematic bioinformatics analysis of all identified proteins, and performed functional classification, functional enrichment, and clustering analysis based on functional enrichment for all differentially expressed proteins. Combined with the above information, it provides a reference direction for further investigation in the biological effect on P. aeruginosa PAO1 and its MV formation under X-ray irradiation.

2020-12-14 | PXD019035 | Pride

Effect of ATP2 deletion on protein expression in Candida albicans

Project description:To investigate the effect of ATP2 knockdown on the protein expression of Candida albicans, we performed proteomic assays for atp2Δ/Δ and wild type strains. A total of 4000.0 proteins were identified in this study, of which 3652.0 proteins contained quantitative information. If a 1.5-fold differential expression change threshold and a statistical test t-test p-value < 0.05 were used as the significance threshold, then among the quantified proteins, we found that 112 proteins were up-regulated and 268 proteins were down-regulated in atp2Δ/Δ cells. Based on the above data, we performed systematic bioinformatics analysis (protein functional annotation) of all identified proteins, and performed functional classification, functional enrichment and functional enrichment-based clustering analysis of all differentially expressed proteins.

2021-09-10 | PXD024039 | Pride

Quantitative Analysis of Global Proteome in Aspergillus Flavus

Project description:In total, 4,563 protein groups were identified, among which 4128 proteins were quantified. The fold-change cutoff was set when proteins with quantitative ratios above 1.5 or below 1/1.5 are deemed significant. The bioinformatic analyses of protein annotation, functional classification, functional enrichment and cluster analyses were performed as listed below. For detailed information, please read the following report and the attached supplementary data.

2018-07-11 | PXD007706 | Pride

First Comprehensive Proteome Analyses of Lysine Succinylation in Physalis angulata, a medicinal plant with a high pharmaceutical value

Project description:Physalis angulata is a medicinal plant with a high pharmaceutical value that is widely cultivated in East Asia. Lysine succinylation, a newly identified post-translational modification, is associated with various cellular processes. However, the regulatory mechanism underlying the metabolism of P. angulata is largely unknown. Here, liquid chromatography tandem-mass spectrometry combined with a high-efficiency succinyl-lysine antibody was used to identify the succinylated peptides in P. angulata. In total, 422 lysine succinylation sites in 242 proteins were identified.

2019-11-08 | PXD006778 | Pride

Quantitative Analysis of Global Proteome in human cell line

Project description:In total, 5,829 protein groups were identified, among which 4,470 proteins were quantified. The fold-change cutoff was set when proteins with quantitative ratios above 1.3 or below 0.77 are deemed significant. Among the quantified proteins, 12 proteins are up-regulated and 116 proteins are down-regulated in group H12vsCON, 19 proteins are up-regulated and 122 proteins are down-regulated in group H24vsCON, 23 proteins are up-regulated and 31 proteins are down-regulated in group H24vsH12.

2018-10-24 | PXD006386 | Pride

Global Proteomic Analysis of Lysine lactylation in HMC3 cells under Normoxia or Hypoxia

Project description:This project carried out a quantitative study of lactylation in HMC3 Cell Line. In order to ensure a high degree of credibility of the results, we used the standard of localization probability>0.75 to filter the authentication data. In this study, a total of 3093 lactylation sites located on 1270 proteins were identified, of which 1601 sites of 751 proteins contain quantitative information. Subsequently, we carried out a systematic bioinformatics analysis of proteins containing quantitative information sites, including protein annotation, functional classification, functional enrichment and cluster analysis based on functional enrichment.

2023-03-28 | PXD028737 | Pride

Proteome-wide analysis of Lysine 2-Hydroxyisobutyrylation in Aspergillus fumigatus

Project description:Aspergillus fumigatus is the main culprit of invasive aspergillosis, which has a high mortality rate in immunocompromised patients. Lysine 2-hydroxyisobutyrylation is a highly conserved posttranslational modification found in a wide variety of organisms. In this study, we survey the biological impact of 2-hydroxyisobutyrylation on lysine residuals (Khib) in A. fumigatus. Using an antibody-enrichment approach along with the traditional LC-MS/MS method, the pattern of Khib-modified proteins and sites were analyzed in one wild type strain of A. fumigatus. We identified 3494 Khib-modified proteins with 18091 modified sites in this strain, and a more detailed bioinformatics analysis indicated that the Khib-modified proteins are involved in a wide range of cellular functions with diverse subcellular locations. Functional enrichment analysis featured several prominent functional pathways, including ribosome, biosynthesis of amino acids and nucleocytoplasmic transport – of which the ribosome pathway is the most affected pathway. When compared with other reported Khib eukaryotes, both Khib-modified sites and Khib-modified proteins also remained the highest. It proves that this modification is of great importance in A. fumigatus. At the same time, several enzymes in the fungal ergosterol synthesis pathway are modified with Khib. These bioinformatic results suggest that 2-hydroxyisobutyrylation may play an indispensable role in the regulation of the ribosomal biogenesis and the process of fungal resistance. Findings in this study may provide new insights for studying PTM-associated mechanisms in fungal development and antifungal drug development.

2024-01-26 | PXD041490 | Pride

Effect of soybean agglutinin on biological function of gut

Project description:This study aims to investigate the effects of SBA on the cell cycle, apoptosis, and to verify the mechanism of SBA anti-nutritional characters based on proteomic-based analysis. The IPEC-J2 cell line was cultured with medium containing 0.0, 0.5 or 2.0 mg/mL SBA. With increasing SBA levels, the percentage of the cells at G0/G1 phase, cell apoptosis rates, expressions of Bax and p21, and the activities of Casp-3 and Casp-9 were increased, while cyclin D1 and Bcl-2 expressions were declined (p<0.05). The proteomic analysis showed that the numbers of differentially expressed proteins, induced by SBA, were mainly enriched in different pathways including DNA replication, base excision repair, nucleus excision repair, mismatch repair, amide and peptide biosynthesis, ubiquitin-mediated proteolysis, as well as structures and functions of mitochondria and ribosome. In conclusion, the anti-nutritional mechanism of SBA is a complex cellular process. Such process including DNA related activities; protein synthesis and metabolism; signal-conducting relation; as well as subcellular structure and function. This study provides comprehensive information to understand the toxic mechanism of SBA in monogastrics.

2021-05-04 | PXD025751 | Pride

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data