Commonalities and Differences in the Transcriptional Response of the Model Fungus Saccharomyces cerevisiae to Different Commercial Graphene Oxide Materials

Advances in experimental and computational methodologies for the study of microbial-surface interactions at different omics levels

The study of the biological response of microbial cells interacting with natural and synthetic interfaces has acquired a new dimension with the development and constant progress of advanced omics technologies. New methods allow the isolation and analysis of nucleic acids, proteins and metabolites from complex samples, of interest in diverse research areas, such as materials sciences, biomedical sciences, forensic sciences, biotechnology and archeology, among others. The study of the bacterial recognition and response to surface contact or the diagnosis and evolution of ancient pathogens contained in archeological tissues require, in many cases, the availability of specialized methods and tools. The current review describes advances in in vitro and in silico approaches to tackle existing challenges (e.g., low-quality sample, low amount, presence of inhibitors, chelators, etc.) in the isolation of high-quality samples and in the analysis of microbial cells at genomic, transcriptomic, proteomic and metabolomic levels, when present in complex interfaces. From the experimental point of view, tailored manual and automatized methodologies, commercial and in-house developed protocols, are described. The computational level focuses on the discussion of novel tools and approaches designed to solve associated issues, such as sample contamination, low quality reads, low coverage, etc. Finally, approaches to obtain a systems level understanding of these complex interactions by integrating multi omics datasets are presented.

Graphene Oxide Exhibits Antifungal Activity against Bipolaris sorokiniana In Vitro and In Vivo

The antimicrobial properties of graphene in vitro have been widely reported. However, compared to research performed on graphene’s antibacterial properties, there have been relatively few studies assessing graphene’s antifungal properties. In particular, evaluating graphene’s pathogenic effects on host plants in vivo, which is critical to using graphene in disease control, has rarely been performed. In this study, the fungal pathogen of wheat, barley, and other plants, Bipolaris sorokiniana (B. sorokiniana) and graphene oxide (GO) were selected for materials. A combination of physiological, cytological, and biochemical approaches was used to explore how GO affects the growth and pathogenicity of B. sorokiniana. The mycelial growth and spore germination of B. sorokiniana were both inhibited in a dose-dependent manner by GO treatment. The addition of GO significantly alleviated the infection of pathogenic fungi in host plants. The results of scanning electron microscopy demonstrated that the inhibitory effect of GO on B. sorokiniana was primarily related to the destruction of the cell membrane. Our study confirmed the antifungal effect of graphene in vitro and in vivo, providing an experimental basis for applying graphene in disease resistance, which is of great significance for agricultural and forestry production.

Low Toxicological Impact of Commercial Pristine Multi-Walled Carbon Nanotubes on the Yeast Saccharomyces cerevisiae

Carbon nanotubes (CNTs) have attracted the attention of academy and industry due to their potential applications, being currently produced and commercialized at a mass scale, but their possible impact on different biological systems remains unclear. In the present work, an assessment to understand the toxicity of commercial pristine multi-walled carbon nanotubes (MWCNTs) on the unicellular fungal model Saccharomyces cerevisiae is presented. Firstly, the nanomaterial was physico-chemically characterized, to obtain insights concerning its morphological features and elemental composition. Afterwards, a toxicology assessment was carried out, where it could be observed that cell proliferation was negatively affected only in the presence of 800 mg L^-1 for 24 h, while oxidative stress was induced at a lower concentration (160 mg L^-1) after a short exposure period (2 h). Finally, to identify possible toxicity pathways induced by the selected MWCNTs, the transcriptome of S. cerevisiae exposed to 160 and 800 mg L^-1, for two hours, was studied. In contrast to a previous study, reporting massive transcriptional changes when yeast cells were exposed to graphene nanoplatelets in the same exposure conditions, only a small number of genes (130) showed significant transcriptional changes in the presence of MWCNTs, in the higher concentration tested (800 mg L^-1), and most of them were found to be downregulated, indicating a limited biological response of the yeast cells exposed to the selected pristine commercial CNTs.