Raw data on urine proteomics in buffaloes

Published: 23 May 2023| Version 1 | DOI: 10.17632/xk5g67mpgt.1
Contributors:
Viviane Codognoto, Fabiana Souza, Thais Cataldi, Carlos Labate, Laiza Camargo, Pedro Trindade, Roberto Rosa Filho, Diego Oliveira, Eunice Oba

Description

These data are related to a study aimed to compare urine proteomics from non- and pregnant buffaloes in order to identify potential biomarkers of early pregnancy. Forty-four females were submitted to a hormonal estrus synchronization and randomly divided into two groups: pregnant (n = 30) and non-pregnant (n = 14). The pregnant group was artificially inseminated and divided into two groups: P12 (n = 15) and P18 (n = 15), in which embryo and uterine fluid samples were collected 12 and 18 days after the insemination during slaughter. The non-pregnant group was also redivided into two groups at the synchronization end: NP12 (n = 7) and NP18 (n = 7). The urine samples were processed for proteomic analysis. Samples were prepared for proteomics (ESI Q-TOF MS/MS).

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Gene ontology annotation for the differentially expressed proteins in the clusters was obtained from UniprotKB (www.uniprot.org) using the categories molecular function, biological process, and cellular component. Gene ontology on the groups were obtained online (http://www.pantherdb.org, Panther version 10). The MetaboAnalyst 5.0 software was used for statistical analysis. The principal component analysis (PCA) was performed to explore protein clusters in each group using hierarchical cluster analysis with user-supplied data. Each sample started as a separate cluster, and the algorithm combined them until all samples belonged to a single cluster. The univariate analysis was also performed using t-test to compare each moment between the groups (NP12 versus P12, and NP18 versus P18) and Top10 proteins (1% false discovery rate - FDR) were considered to discussion. The Venn diagram demonstrated the number of proteins found in each group (http://bioinfogp.cnb.csic.es/tools/venny/). To indicate the urinary biomarker for pregnancy diagnosis based on proteomics (Top50) at the D12 and D18, was used the area under the curve (AUC) from the receiver operating characteristic (ROC) curve and its 95% interval obtained with 1,001 repetitions by bootstrap.

Institutions

Universidade Estadual Paulista Julio de Mesquita Filho Faculdade de Medicina Veterinaria e Zootecnia Campus de Botucatu

Categories

Proteomics, Biomarkers, Buffalo, Urinary Analysis

Funding

Fundação de Amparo à Pesquisa do Estado de São Paulo

2018/13338-3 and 2018/21211-3

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