Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Pseudomonas plecoglossicida and mutant supernatant LC-MS/MS analysis

ABSTRACT: A T3SS translocators deletion strain (△popBD) of P. plecoglossicida was constructed to investigate the function of T3SS. Then comparative secretome analysis of the P. plecoglossicida wild-type (WT) and △popBD mutant strains was conducted by label-free quantitation (LFQ) mass spectrometry.

INSTRUMENT(S): LTQ FT

ORGANISM(S): Unclassified Pseudomonas

SUBMITTER: Pan Qin

LAB HEAD: Pan Qin

PROVIDER: PXD042864 | Pride | 2024-01-26

REPOSITORIES: Pride

ACCESS DATA

Json Xml

Publications

Comparative secretome analysis reveals cross-talk between type III secretion system and flagella assembly in Pseudomonas plecoglossicida.

Qin Pan P Luan Yingjia Y Yang Jinmei J Chen Xingfu X Wu Tong T Li Yousheng Y Munang'andu Hetron Mweemba HM Shao Guangming G Chen Xinhua X

Heliyon 20231202 12

The Gram-negative bacterium Pseudomonas plecoglossicida has caused visceral granulomas disease in several farmed fish species, including large yellow croaker (Larimichthys crocea), which results in severe economic losses. Type III secretion systems (T3SS) are protein secretion and translocation nanomachines widely employed by many Gram-negative bacterial pathogens for infection and pathogenicity. However, the exact role of T3SS in the pathogenesis of P. plecoglossicida infec ...[more]

PMID: 38144336

Similar Datasets

Mice tPVAT proteome profiling using high-throughput comparative proteomic analysis based on TMT labeling

Project description:High-throughput comparative proteomic analysis based on TMT labeling combined with LC-MS/MS were performed on an in vivo Ang II infusion mice model to obtain a comprehensive view of the protein ensembles associated with thoracic PVAT (tPVAT) dysfunction induced by Ang II. In total, 5,037 proteins were confidently identified, of which 4,984 proteins were quantified. Compared with saline group, 145 proteins were upregulated and 146 proteins were downregulated during Ang II-induced tPVAT pathogenesis. Bioinformatics analyses revealed that the most enriched GO terms were annotated as gene silencing, monosaccharide binding, and extracellular matrix. In addition, some novel proteins potentially associated with Ang II infusion were identified, such as acyl-CoA carboxylase α, very long-chain acyl-CoA synthetase (ACSVL), uncoupling protein 1 (UCP1), perilipin, RAS protein-specific guanine nucleotide-releasing factor 2 (RasGRF2), and hypoxia inducible factor 1α (HIF-1α). Ang II could directly participate in the regulation of lipid metabolism, transportation, and adipocyte differentiation by affecting UCP1 and perilipin. Importantly, the key KEGG pathways were involved in fatty acid biosynthesis, FABP3-PPARα/γ, RasGRF2-ERK-HIF-1α, RasGRF2-PKC-HIF-1α, and STAT3-HIF-1α axis.

2022-02-17 | PXD029980 | Pride

carvacrol-rich essential oil Staphylococcus aureus LC-MSMS

Project description:The present study aimed to investigate the antibacterial effect and mechanism of a carvacrol-rich Oregano essential oil (OEO) on the inactivation of Staphylococcus aureus. A label-free proteomic analysis was applied to analyze the regulatory networks of S. aureus in response to 1/2 MIC OEO-treatment stress. These findings deepened our understanding regarding S. aureus survival and metabolism responses to the OEO treatment and suggested that the carvacrol-rich OEO could be used in food production environments to effectively control S. aureus.

2021-11-02 | PXD028357 | Pride

Effect of resveratrol on avian pathogenic Escherichia coli

Project description:APEC cells treated by resveratrol were investigated using a label-free differential proteomics method.

2021-11-03 | PXD025706 | Pride

Tomato seeds Phosphorylation Label-free Quantitative Proteomic Analysis

Project description:Mitogen-activated protein kinases usually affect biological processes by phosphorylating proteins. To further investigate the consequences of MAPK11 interacting with SnRK1 in controlling tomato seed dormancy, we performed a phosphorylation label-free quantitative proteomic assay in vivo with dry seeds of TS-9and MAPK11-OE lines. Data analysis showed that a total of 8261 phosphosites and 6026 phosphopeptides derived from 2711 phosphoproteins were identified. The phosphopeptides with an average fold-change >2 or <0.5 and a P value <0.05 were selected as being significantly different. Among all identified phosphopeptides, 87 phosphopeptides were significantly up-regulated and 83 phosphopeptides were significantly down-regulated in seeds of MAPK11-OE line. In addition, we also found that 348 phosphopeptides were just abundant in MAPK11-OE-13 line, and 221 phosphopeptides merely in TS-9, respectively. To explore potential biological function of MAPK11, we conducted GO function annotation and enrichment, KEGG passway annotation and enrichment, and protein protein interaction network (PPI) analyses, and detected that MAPK11 might have effect on binding, catalytic activity, transporter activity, molecular function regulator and signal transducer; and involved in cellular process, metabolic process, biological regulation, regulation of biological process and response to stimulus

2020-12-02 | PXD013026 | Pride

Protein profile analysis of 12 human vitreous samples using labelfree method

Project description:To study the differences in protein profiles before and after intravitreal ranibizumab (IVR) treatment, 12 vitreous humor (VH) samples were collected from 6 proliferative diabetic retinopathy (PDR) patients before (pre group) and after IVR treatment (post group). LC–MS/MS and bioinformatics analysis were performed to identify differentially expressed proteins.Targeted proteins were validated by parallel reaction monitoring (PRM).

2022-08-12 | PXD027592 | Pride

A ¨omic¨ approach to Pyrocystis lunula

Project description:Pyrocystis lunula (Schutt) is a photoautotrophic unarmoured dinoflagellate, commonly found in marine environments. Today it exist several biotechnological applications derived from the bioluminescent system of this species. From a post-genomic perspective, and in order to study the whole proteome of P. lunula, a ¨omic¨ approach (transcriptomic-proteomic analysis) was initiated using fresh microalgae samples. A total of 80.875.390 reads were generated (400.000 conting, XXX pb) and 17.461 peptides were detected, getting 3.182 protein identification hits. The identified proteins were categorized according to functional description and gene ontology classification. In this study, it has been developed and described the first proteomic analysis of the microalgae P. lunula. In addition to shed light on a series of important factors involved with the processes of regulation of gene expression. The presence of the luciferin-binding protein (LBP), which had not been described so far in Pyrocystis, is highlighted.

2019-04-12 | PXD011555 | Pride

The midguts transcriptome of Aedes aegypti (Liverpool strain) females knock down AaMesh and feed AaMesh antibody versus those knock down GFP and feed pre-immune.

Project description:We reported the RNA-seq based analyses of the transcriptional changes in the Aedes aegypti midguts knock down 3, 6days, feed antibody 18h transcriptome. Comparison of the midguts transcriptome of Aedes aegypti females at two knockdown time points and one feed condition; GFP dsRNA-3 or -6days: 3 or 6 days after 7day-old mosquitos were microinjected GFP dsRNA AaMesh dsRNA-3 or -6days: 3 or 6 days after 7day-old mosquitos were microinjected AaMesh dsRNA Pre-immune-18h: 18hrs after 7day-old wild type mosquitos were fed with Pre-immune AaMesh antibody-18h: 18hrs after 7day-old wild type mosquitos were fed with AaMesh antibody

2016-03-11 | E-GEOD-79070 | biostudies-arrayexpress

Pinctada fucata martensii mantle edge tissue LC-MS/MS

Project description:We have got a yellow shell variety of Pinctada fucata martensii after years of artificial breeding. To identify differentially expressed genes between yellow shell and normal black shell pearl oysters, we performed label-free proteomic analyses by LC-MS using mantle edge tissues.

2019-11-13 | PXD012211 | Pride

Uncovering the abilities of Agaricus bisporus to degrade plant biomass throughout its life cycle

Project description:The common edible mushroom Agaricus bisporus is a basidiomycete that thrives on decaying plant material in the forests and grasslands of North America and Europe. It is adapted to forest litter and contributes to global carbon recycling, degrading cellulose, hemicellulose and lignin in plant biomass to oligomers and monomers. A. bisporus is also an edible mushroom that is widely cultivated and economically important. However, relatively little is known about how A. bisporus grows in this controlled environment and utilizes its substrate. Using transcriptomics and proteomics, we showed that changes in plant biomass degradation by A. bisporus occur throughout its life cycle. Ligninolytic genes were highly expressed during the spawning stage day 16 and had low expression during all the other growth stages which could indicate that lignin is not modified after the spawning stage. Our results also revealed differences in gene expression involved in cellulose and hemicellulose degradation between the first and second flushes. This could partially explain the reduction in the number of mushrooms during the second flush. This study compares the gene expression of A. bisporus A15 at different stages of its life cycle using the controlled environment of indoor commercial cultivation. The samples were taken at the spawning stage, primordial stage, first flush, after first flush, second flush and after second flush, respectively

2015-09-23 | E-GEOD-65800 | biostudies-arrayexpress

iTRAQ quantitative proteomic analysis of human liver cancer cell HepG2/2.215

Project description:Trametenolic acid B (TAB) is a triterpenoid extracted from the Laetiporus sulphureus (Fr.) Murrill, which can effectively inhibit the proliferation of HepG2/2.215 cells and induce the autophagy. Proteomic analysis was performed to further study the anti-cancer mechanism of TAB. According to the peptide segment quantitative standard (FDR≤1%)，a total of 5324 proteins were identified in HepG2/2.215 by proteomic analysis.

2020-06-18 | PXD018963 | Pride