Effect of Capacitation on Proteomic Profile and Mitochondrial Parameters of Spermatozoa in Bulls.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:40133237", "kind": "science-record", "revision": 4, "content_hash": "sha256:0ccedff562d79a1112ff348c12c0ec2bab65f313ed71dbc886d7f15c849dd212", "created_at": "2026-11-01T20:30:19Z", "updated_at": "2026-11-01T22:56:17Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Effect of Capacitation on Proteomic Profile and Mitochondrial Parameters of Spermatozoa in Bulls.", "doi": "10.1021/acs.jproteome.4c00910", "pmid": "40133237", "authors": ["María Castelló-Ruiz", "Sabrina Gacem", "Manuel M Sánchez Del Pino", "Carlos O Hidalgo", "Carolina Tamargo", "Manuel Álvarez-Rodríguez", "Jesús L Yániz", "Miguel A Silvestre"], "journal": "Journal of proteome research", "year": 2025, "abstract": "Sperm capacitation is a critical process for fertilization. This work aims to analyze the effect in vitro capacitation had on the proteome and mitochondrial parameters of bull spermatozoa. Viability, mitochondrial membrane potential (MMP), and reactive oxygen species (mROS) were assessed by flow cytometry in noncapacitated (NC) and in vitro capacitated (IVC) sperm. Proteome was evaluated using SWATH-MS. In vitro capacitation significantly induced a decrease in sperm viability, a high MMP, and an increase in mROS production. Within the group of living spermatozoa, the capacitation significantly induced a decrease in healthy mitochondrial spermatozoa, as well as an increase in mROS production, without affecting the MMP intensity. A total number of 72 differentially abundant proteins were found of which 63 were over-represented in the NC sperm group and 9 in the IVC sperm group. It was observed that many proteins associated with the sperm membrane and acrosome were lost during the capacitation process. For the IVC sperm, the functional enrichment was found in proteins related to the oxidative phosphorylation process. Our results indicate that the capacitation process induces a significant loss of seminal plasma-derived membrane proteins and a significant increase in proteins related with the oxidative phosphorylation (OXPHOS) pathway. Data are available via ProteomeXchange with identifiers PXD056424 and PXD042286.", "claims": [{"id": "claim-method", "statement": "Results from identified proteins were transformed by calculating log base 2 and analyzed by a logistic regression model with Elastic Net penalty (ENLR), using the glmnet R package (version 4.1–2) with a train function of the caret package (lambda = 0.433; alpha = 0.1). To analyze data variation, a supervised classification analysis (see partial least-squares-discriminant analysis graphic) with the R package mixOmics (version 6.16.3) was performed. Those proteins analyzed by ENLR that have a VIP (variable importance in projection) function greater than 1.5 were selected. Finally, we analyzed all proteins using the Limma package for R software (version 3.48.3) and by making multiple comparisons with Benjamini and Hochberg.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:40133237", "locator": "sections[13] \"Proteomic Data Analysis of Sperm\" paragraph 2", "quote": "Results from identified proteins were transformed by calculating log base 2 and analyzed by a logistic regression model with Elastic Net penalty (ENLR), using the glmnet R package (version 4.1–2) with a train function of the caret package (lambda = 0.433; alpha = 0.1). To analyze data variation, a supervised classification analysis (see partial least-squares-discriminant analysis graphic) with the R package mixOmics (version 6.16.3) was performed. Those proteins analyzed by ENLR that have a VIP (variable importance in projection) function greater than 1.5 were selected. Finally, we analyzed all proteins using the Limma package for R software (version 3.48.3) and by making multiple comparisons with Benjamini and Hochberg."}], "state": "complete"}, {"id": "claim-data-access", "statement": "Data are available via ProteomeXchange with identifiers PXD056424 and PXD042286.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:40133237", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "Data are available via ProteomeXchange with identifiers PXD056424 and PXD042286."}], "state": "complete"}, {"id": "claim-target-result", "statement": "The capacitation process induces a significant loss of seminal plasma-derived membrane proteins and a significant increase in proteins related to the oxidative phosphorylation pathway.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:40133237", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "Our results indicate that the capacitation process induces a significant loss of seminal plasma-derived membrane proteins and a significant increase in proteins related with the oxidative phosphorylation (OXPHOS) pathway."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "partial", "objective": "The capacitation process induces a significant loss of seminal plasma-derived membrane proteins and a significant increase in proteins related to the oxidative phosphorylation pathway.", "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:40133237"], "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": "blocked", "blocked_on": "data:accession_absent", "description": "The GEO series accession resolves and its sample accessions are listed. 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Ten Holstein-Friesian bulls were u", "9; 10 IU/ml) at 5% CO2 at 37 °C for 4 h. For proteomic analysis, the samples were washed five times", "rating the TripleTOF 6600plus in SWATH mode. 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To analyze data variation, a supervised classification analysis (see partial least-squares-discriminant analysis graphic) with the R package mixOmics (version 6.16.3) was performed. Those proteins analyzed by ENLR that have a VIP (variable importance in projection) function greater than 1.5 were selected. Finally, we analyzed all proteins using the Limma package for R software (version 3.48.3) and by making multiple comparisons with Benjamini and Hochberg."], "order_basis": "consumes_earlier_output", "id": "assay:3"}]}