2026-04-21T09:29:58Zhttps://riubu.ubu.es/oai/request

oai:riubu.ubu.es:10259/94902024-07-27T00:05:25Zcom_10259_9491com_10259_5086com_10259_2604com_10259_6168col_10259_9492col_10259_6169

00925njm 22002777a 4500 dc González Plaza, Juan José author Furlan, Cristina author Rijavec, Tomaž author Lapanje, Aleš author Barros García, Rocío author Tamayo Ramos, Juan Antonio author Suarez Diez, Maria author 2022-11-28 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. 1664-302X http://hdl.handle.net/10259/9490 10.3389/fmicb.2022.1006946 1664-302X Biofilms Genomics Transcriptomics Metabolomics Proteomics Omics data integration Systems biology Advances in experimental and computational methodologies for the study of microbial-surface interactions at different omics levels