Label-Free Quantitative Proteomic Analysis of Harmless and Pathogenic Strains of Infectious Microalgae, Prototheca spp.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:28036087", "kind": "science-record", "revision": 7, "content_hash": "sha256:e89dbe5abc005f99600bfefa731eec590ddb5bd48cb95a7c2c01eda344e6417b", "created_at": "2026-11-01T15:40:22Z", "updated_at": "2026-11-01T21:59:14Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Label-Free Quantitative Proteomic Analysis of Harmless and Pathogenic Strains of Infectious Microalgae, Prototheca spp.", "doi": "10.3390/ijms18010059", "pmid": "28036087", "authors": ["Jayaseelan Murugaiyan", "Murat Eravci", "Christoph Weise", "Uwe Roesler"], "journal": "International journal of molecular sciences", "year": 2016, "abstract": "Microalgae of the genus Prototheca (P.) spp are associated with rare algal infections of invertebrates termed protothecosis. Among the seven generally accepted species, P. zopfii genotype 2 (GT2) is associated with a severe form of bovine mastitis while P. blaschkeae causes the mild and sub-clinical form of mastitis. The reason behind the infectious nature of P. zopfii GT2, while genotype 1 (GT1) remains non-infectious, is not known. Therefore, in the present study we investigated the protein expression level difference between the genotypes of P. zopfii and P. blaschkeae. Cells were cultured to the mid-exponential phase, harvested, and processed for LC-MS analysis. Peptide data was acquired on an LTQ Orbitrap Velos, raw spectra were quantitatively analyzed with MaxQuant software and matching with the reference database of Chlorella variabilis and Auxenochlorella protothecoides resulted in the identification of 226 proteins. Comparison of an environmental strain with infectious strains resulted in the identification of 51 differentially expressed proteins related to carbohydrate metabolism, energy production and protein translation. The expression level of Hsp70 proteins and their role in the infectious process is worth further investigation. All mass spectrometry data are available via ProteomeXchange with identifier PXD005305.", "claims": [{"id": "claim-data-access", "statement": "All mass spectrometry data are available via ProteomeXchange with identifier PXD005305.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:28036087", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "All mass spectrometry data are available via ProteomeXchange with identifier PXD005305."}], "state": "complete"}, {"id": "claim-target-result", "statement": "Label-free quantitative proteomics analyzed with MaxQuant identified 51 differentially expressed proteins, and the mass-spectrometry source data are available through ProteomeXchange under identifier PXD005305.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:28036087", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "Cells were cultured to the mid-exponential phase, harvested, and processed for LC-MS analysis. Peptide data was acquired on an LTQ Orbitrap Velos, raw spectra were quantitatively analyzed with MaxQuant software and matching with the reference database of Chlorella variabilis and Auxenochlorella protothecoides resulted in the identification of 226 proteins."}, {"asset": "source:pmid:28036087", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "Comparison of an environmental strain with infectious strains resulted in the identification of 51 differentially expressed proteins related to carbohydrate metabolism, energy production and protein translation."}, {"asset": "source:pmid:28036087", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "All mass spectrometry data are available via ProteomeXchange with identifier PXD005305."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "partial", "objective": "Label-free quantitative proteomics analyzed with MaxQuant identified 51 differentially expressed proteins, and the mass-spectrometry source data are available through ProteomeXchange under identifier PXD005305.", "steps": [{"id": "read_published_estimate", "order": 1, "name": "Read the published estimate from the source", "kind": "other", "state": "complete", "blocked_on": null, "description": "The claim, method and evidence span published with the source article.", "duration_hours": null, "parameters": {}, "inputs": ["source:pmid:28036087"], "outputs": ["the published estimate and its evidence"], "instruments": [], "reagents": []}, {"id": "obtain_source_data", "order": 2, "name": "Obtain the source data from the named repository", "kind": "data-preparation", "state": "complete", "blocked_on": null, "description": "The GEO series accession resolves and its sample accessions are listed. 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No: serial number as number assigned α-betically to entry. Acc. No. is the accession number and proteins names are as listed in the Uniprot Knowledgebase database. Regulation: only those proteins which are significantly regulated and after filtering 1% false discovery rate (FDR). (+) indicates upregulated and (−) indicates downregulated.", "structure": {"pmcid": "PMC5297694", "section_index": 4, "section_title": "2.2. Differentially Expressed Proteins", "row_count": 53, "column_count": 6}, "table": {"label": "Table 1", "caption": "List of the differentially expressed proteins: S. No: serial number as number assigned α-betically to entry. Acc. No. is the accession number and proteins names are as listed in the Uniprot Knowledgebase database. Regulation: only those proteins which are significantly regulated and after filtering 1% false discovery rate (FDR). (+) indicates upregulated and (−) indicates downregulated.", "rows": [["S. No", "Acc. 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"(+)"], ["39", "E1ZCI5", "Putative uncharacterized protein", "(+)", "(+)", ""], ["40", "E1ZD41", "Putative uncharacterized protein", "", "", "(+)"], ["41", "E1ZG37", "Putative uncharacterized protein", "(+)", "(−)", "(+)"], ["42", "E1ZL24", "Putative uncharacterized protein", "(−)", "(−)", ""], ["43", "E1ZMD2", "Putative uncharacterized protein", "", "(+)", ""], ["44", "E1ZRV3", "Putative uncharacterized protein", "", "(+)", ""], ["45", "E1ZSM6", "Putative uncharacterized protein", "(+)", "", ""], ["46", "A0A087SNN6", "Stress-induced-phosphoprotein 1", "", "(+)", "(−)"], ["47", "A0A087SIY9", "Succinyl-CoA ligase (ADP-forming) subunit α-1, mitochondrial", "", "(+)", "(−)"], ["48", "E1ZJM1", "Tubulin β chain", "", "(−)", "(+)"], ["49", "E1ZK88", "Ubiquitin", "(−)", "", "(−)"], ["50", "A0A087SL21", "Ubiquitin-60S ribosomal protein L40-2", "", "(−)", ""], ["51", "E1ZT42", "V-type H+ ATPase subunit A", "(+)", "(+)", ""]], "row_count": 53, "column_count": 6, "numeric_cells": 119, 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