scholarly journals Cell Wall Strengthening and Remodeling Provide New Insights on Sclerotia Development of Medicinal Fungus Polyporus Umbellatus

2020 ◽  
Author(s):  
Bing Li ◽  
Le Sun ◽  
Yongmei Xing ◽  
Liu Liu ◽  
Shunxing Guo
Keyword(s):  
Cell Wall ◽  
Wall Thickening ◽  
Reaction Monitoring ◽  
Differentially Expressed Proteins ◽  
Parallel Reaction ◽  
Fungal Cell ◽  
Medicinal Fungus ◽  
Polyporus Umbellatus ◽  
Fragment Ions ◽  
Parallel Reaction Monitoring

Abstract Sclerotium is a special form of many species of fungi and cell wall thickening is a common phenomenon in sclerotium. Rational manipulation of sclerotium would be an innovative approach for pathogenic control as well as for medicinal fungal resource revival. Sclerotia of Polyporus umbellatus were used to treat multiple human diseases. However, the mechanism of thickened cell wall (TCW) is still unclear. In this study, Sequential Windowed Acquisition of all THeoretical fragment ions spectra-MS (SWATH-MS) and parallel reaction monitoring (PRM) technology were introduced to demonstrate biomarkers at protein level associated with TCW as sclerotia development from initial sclerotia (IS) to developmental and mature sclerotia (DS and MS). 72 differentially expressed proteins (DEPs) were associated with TCW, and evidence supported presence and accumulation of chitin, glycan, xylcan and hydrophobins in the cell wall of P. umbellatus sclerotia. Puctg112, a new hydrophobin in P. umbellatus expressed up sharply with DS/IS 119.85 and MS/IS 128.17, and located at cell wall and septum of hypha in sclerotia by immune colloidal gold technique. In addition, sclerotial cell wall could be remodeled via O-mannosylation, O-fucosylation and deacetylation to strengthen cell wall. This study provides new insights on fungal cell wall especially to sclerotia-formed fungus.

scholarly journals Quantitative analysis of differentially expressed proteins in psoriasis vulgaris using tandem mass tags and parallel reaction monitoring

2020 ◽  
Author(s):  
Yu Li ◽  
Peng Lin ◽  
Siyao Wang ◽  
shuang Li ◽  
Rui Wang ◽  
...  
Keyword(s):  
Drug Metabolism ◽  
Immune Cells ◽  
Psoriasis Vulgaris ◽  
Tandem Mass ◽  
Reaction Monitoring ◽  
Differentially Expressed Proteins ◽  
Parallel Reaction ◽  
Metabolism Pathway ◽  
Parallel Reaction Monitoring ◽  
Tandem Mass Tags

Abstract Background: psoriasis vulgaris (PV) is a chronic autoimmune inflammatory disease with epidermal hyperkeratosis and parakeratosis. Methods: the study was to elucidate the pathogenesis of PV by quantitative proteomic analysis of skin lesion biopsies of PV and healthy tissues with tandem mass tags (TMTs) coupled with liquid chromatography–mass spectrometry (LC-MS)/MS. Results: a total of 4562 differentially expressed proteins (DEPs) between PV lesional tissues (n = 11) and healthy tissues (n = 11) were identified, of which 299 were upregulated and 206 were downregulated using |fold change| > 1.3 as the cutoff threshold. The Gene Ontology (GO) annotation and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analysis revealed that the DEPs were mainly enriched in the activation of immune cells (drug metabolism pathway, NOD-like pathway, and IL-17 pathway), cell proliferation (ribosomal pathway, DNA replication pathway, and base replication pathway), metabolism-related pathways (fatty acid biosynthesis and metabolism, PPAR pathway, glycerophospholipid metabolism, and cortisol synthesis and breakdown), and glandular secretion (saliva secretion, gastric acid secretion, and pancreatic fluid secretion). Thirteen DEPs that were relatively highly expressed in the drug metabolism pathway were validated with parallel reaction monitoring (PRM), of which MPO, TYMP, IMPDH2, GSTM4, and ALDH3A1 were highly expressed in PV, whereas CES1, MAOB, MGST1, and GSTT1 were less expressed in PV. Conclusions: These findings confirmed that these proteins participate in the drug metabolism-other enzyme pathways and play crucial roles in the activation and proliferation of immune cells in the pathogenesis of PV.

scholarly journals Quantitative analysis of differentially expressed proteins in psoriasis vulgaris using tandem mass tags and parallel reaction monitoring

2020 ◽  
Author(s):  
Yu Li ◽  
Peng Lin ◽  
Siyao Wang ◽  
shuang Li ◽  
Rui Wang ◽  
...  
Keyword(s):  
Drug Metabolism ◽  
Immune Cells ◽  
Differentially Expressed ◽  
Tandem Mass ◽  
Reaction Monitoring ◽  
Differentially Expressed Proteins ◽  
Parallel Reaction ◽  
Metabolism Pathway ◽  
Parallel Reaction Monitoring ◽  
Tandem Mass Tags

Abstract BackgroundPsoriasis vulgaris (PV) is a chronic autoimmune inflammatory disease with epidermal hyperkeratosis and parakeratosis.MethodsThe study was to elucidate the pathogenesis of PV by quantitative proteomic analysis of skin lesion biopsies of PV and healthy tissues with tandem mass tags (TMTs) coupled with liquid chromatography–mass spectrometry (LC-MS)/MS.ResultsA total of 4562 differentially expressed proteins (DEPs) between PV lesional tissues (n = 11) and healthy tissues (n = 11) were identified, of which 299 were upregulated and 206 were downregulated using |fold change| > 1.3 as the cutoff threshold. The Gene Ontology (GO) annotation and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analysis revealed that the DEPs were mainly enriched in the activation of immune cells (drug metabolism pathway, NOD-like pathway, and IL-17 pathway), cell proliferation (ribosomal pathway, DNA replication pathway, and base replication pathway), metabolism-related pathways (fatty acid biosynthesis and metabolism, PPAR pathway, glycerophospholipid metabolism, and cortisol synthesis and breakdown), and glandular secretion (saliva secretion, gastric acid secretion, and pancreatic fluid secretion). Thirteen DEPs that were relatively highly expressed in the drug metabolism pathway were validated with parallel reaction monitoring (PRM), of which MPO, TYMP, IMPDH2, GSTM4, and ALDH3A1 were highly expressed in PV, whereas CES1, MAOB, MGST1, and GSTT1 were less expressed in PV.ConclusionsThese findings confirmed that these proteins participate in the drug metabolism-other enzyme pathways and play crucial roles in the activation and proliferation of immune cells in the pathogenesis of PV.

scholarly journals Thesaurus: quantifying phosphoprotein positional isomers

2018 ◽  
Author(s):  
Brian C. Searle ◽  
Robert T. Lawrence ◽  
Michael J. MacCoss ◽  
Judit Villén
Keyword(s):  
Reaction Monitoring ◽  
Positional Isomers ◽  
Parallel Reaction ◽  
Akt Signaling Pathway ◽  
Data Independent Acquisition ◽  
Fragment Ions ◽  
Parallel Reaction Monitoring ◽  
Functional States ◽  
Specific Fragment ◽  
Neighboring Sites

AbstractProteins can be phosphorylated at neighboring sites resulting in different functional states, and studying the regulation of these sites has been challenging. Here we present Thesaurus, a search engine that detects new positional isomers using site-specific fragment ions from parallel reaction monitoring and data independent acquisition mass spectrometry experiments. We apply Thesaurus to analyze phosphorylation events in the PI3K/AKT signaling pathway and show neighboring sites with distinct quantitative profiles, indicating regulation by different kinases.

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