RT info:eu-repo/semantics/article
T1 Advances in experimental and computational methodologies for the study of microbial-surface interactions at different omics levels
A1 González Plaza, Juan José
A1 Furlan, Cristina
A1 Rijavec, Tomaž
A1 Lapanje, Aleš
A1 Barros García, Rocío
A1 Tamayo Ramos, Juan Antonio
A1 Suarez Diez, Maria
K1 Biofilms
K1 Genomics
K1 Transcriptomics
K1 Metabolomics
K1 Proteomics
K1 Omics data integration
K1 Systems biology
K1 Química física
K1 Chemistry, Physical and theoretical
AB 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.
PB Frontiers Media
SN 1664-302X
YR 2022
FD 2022-11-28
LK http://hdl.handle.net/10259/9490
UL http://hdl.handle.net/10259/9490
LA eng
NO Artículo de revisión
NO This project has received funding under the European Union’s Horizon 2020 research & Innovation programme under grant agreement no. 952379, SURFBIO project. JG-P is currently supported by Junta de Castilla y León-FEDER under grant N° BU058P20 (NANOCOMP).
DS Repositorio Institucional de la Universidad de Burgos
RD 27-jul-2024