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Combined Proteomics and Transcriptomics Identifies Serpin Family C Member 1 Associated Protein as a Biomarker of Endometriosis

ABSTRACT: Objective: To explore potential biomarkers indicating endometriosis. Results: A sum of 979 mRNAs and 39 proteins were tested to be significantly differentially expression in the standard cluster compared with the endometriosis cluster. Venn analysis showed a filtered signature of only two down-regulated molecules in the EM group, i.e., fetuin B and serpin family C member 1; the latter showed a big variance between the control category and the EM set in the authentication test. Conclusion: Serpin family C member 1 may be a useful possible biomarker for the analysis of EM.

ORGANISM(S): Homo sapiens

PROVIDER: GSE232713 | GEO | 2023/05/22

REPOSITORIES: GEO

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Project description:This work reports on the identification and molecular characterization of a two-component regulatory system (2CRS), encoded by serRK, which is believed to control the expression of the ser2003 locus in Bifidobacterium breve UCC2003. The ser2003 locus consists of two genes, Bbr_1319 (sagA) and Bbr_1320 (serU), which are predicted to encode a hypothetical membrane-associated protein and a serpin-like protein, respectively. The response regulator SerR was shown to bind to the promoter region of ser2003 and the probable recognition sequence of SerR was determined by a combinatorial approach of in vitro site-directed mutagenesis, coupled to transcriptional fusion and EMSA assays. The importance of the serRK 2CRS in the response of B. breve to protease-mediated induction was confirmed by generating B. breve-s-serR and B. breve-::serU insertion mutants, which exhibited altered ser2003 transcriptional induction patterns as compared to their parent strain UCC2003. DNA-microarrays containing oligonucleotide primers representing each of the 1864 annotated genes on the genome of B. breve UCC2003 (O'Connell Motherway et al., 2011) were designed by and obtained from Agilent Technologies (Palo Alto, Ca., USA). Methods for cell disruption, RNA isolation, RNA quality control, complementary DNA synthesis and labeling were performed as described previously (Pokusaeva et al., 2009). Labeled cDNA was hybridized using the Agilent Gene Expression hybridization kit (part number 5188-5242) as described in the Agilent Two-Color Microarray-Based Gene Expression Analysis v4.0 manual (G4140-90050). Following hybridization, microarrays were washed in accordance with Agilent’s standard procedures and scanned using an Agilent DNA microarray scanner (model G2565A). Generated scans were converted to data files with Agilent's Feature Extraction software (Version 9.5). DNA-microarray data were processed as previously described (Garcia De La Nava et al., 2003). Differential expression tests were performed with the Cyber-T implementation of a variant of the t-test (Long et al., 2001). A gene was considered differentially expressed when p < 0.001 and an expression ratio of >3 or <0.33 relative to the control.

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Combined Proteomics and Transcriptomics Identifies Serpin Family C Member 1 Associated Protein as a Biomarker of Endometriosis

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