Comparative proteomic and transcriptomic profile of Staphylococcus epidermidis biofilms grown in glucose-enriched medium

Abstract

Staphylococcus epidermidis is an important nosocomial agent among carriers of indwelling medical devices, due to its strong ability to form biofilms on inert surfaces. Contrary to some advances made in the transcriptomic field, proteome characterization of S. epidermidis biofilms is less developed. To highlight the relation between transcripts and proteins of S. epidermidis biofilms, we analyzed the proteomic profile obtained by two mechanical lysis methods (sonication and bead beating), associated with two distinct detergent extraction buffers, namely SDS and CHAPS. Based on gel electrophoresis-LC-MS/MS, we identified a total of 453 proteins. While lysis with glass beads provided greater amounts of protein, CHAPS extraction buffer allowed identification of a higher number of proteins compared to SDS. Our data shows the impact of different protein isolation methods in the characterization of the S. epidermidis biofilm proteome. Furthermore, the correlation between proteomic and transcriptomic profiles was evaluated. The results confirmed that proteomic and transcriptomic data should be analyzed simultaneously in order to have a comprehensive understanding of a specific microbiological condition.

Photodynamic inactivation to prevent and disrupt Staphylococcus aureus biofilm under different media conditions

“…In particular, the presence of glucose in the culture medium has been reported to promote or enhance biofilm growth in vitro. This affirmation depends on microbial specie and glucose concentration, since high concentrations affect biofilm gene expression . In this work, high glucose concentrations were used in order to compare how this sugar affects PDI of biofilm.…”

“…This affirmation depends on microbial specie and glucose concentration, since high concentrations affect biofilm gene expression. 31,32 In this work, high glucose concentrations were used in order to compare how this sugar affects PDI of biofilm. Thereby, the extra addition of sugar to culture media that contain glucose in their composition decreases the development of biofilm.…”

Proteome signatures—how are they obtained and what do they teach us?

“…Consequently, most bacterial proteomic studies consist of the use of quantitative tools in the analysis of the changes in the abundance of proteins under carefully regulated experimental conditions, in order to assess the effect of various parameters, such as temperature, nutrients, and environmental stresses (such as exposure to antibiotics) (Carvalhais et al 2015c;Jain et al 2011;Hessling et al 2013). Although these studies often combine both 2D and MALDI time-of-flight mass spectrometry (MALDI-TOF MS) for protein identification, novel non-gel-based, mass spectrometric methods for quantitative proteomics are becoming increasingly important.…”

“…Nowadays, a combination of omics is becoming an important way to characterize a condition (Carvalhais et al 2015c;Ghazalpour et al 2011;Resch et al 2006). For instance, DNA-sequencing technologies and mass spectrometry are being used to identify microorganisms and test for antimicrobial susceptibility (Didelot et al 2012), to distinguish commensal from virulent strains (Savijoki et al 2014), and to identify resistance markers to antimicrobials based on transcriptomic and proteomic profiles (Fischer et al 2011;Scherl et al 2006).…”

Proteomic profile of dormancy within Staphylococcus epidermidis biofilms using iTRAQ and label-free strategies

“…However, the expression level of a gene does not necessarily indicate the amount of protein produced, nor its biological activity (Zhang et al 2010). Similar to other bacteria (reviewed by de Sousa et al (2009)), S. epidermidis transcripts and proteins showed a modest correlation (Carvalhais et al 2015), which suggests that transcript regulation and protein modifications may determine the biological importance of a gene (Cain et al 2013;Guell et al 2011;Straub 2011).…”