Combining metagenomics, metatranscriptomics and viromics to explore novel microbial interactions: towards a systems-level understanding of human microbiome
Por:
Bikel S., Valdez-Lara A., Cornejo-Granados F., Rico K., Canizales-Quinteros S., Soberón X., Del Pozo-Yauner L., Ochoa-Leyva A.
Publicada:
1 ene 2015
Resumen:
The advances in experimental methods and the development of high
performance bioinformatic tools have substantially improved our
understanding of microbial communities associated with human niches.
Many studies have documented that changes in microbial abundance and
composition of the human microbiome is associated with human health and
diseased state. The majority of research on human microbiome is
typically focused in the analysis of one level of biological
information, i.e., metagenomics or metatranscriptomics. In this review,
we describe some of the different experimental and bioinformatic
strategies applied to analyze the 16S rRNA gene profiling and shotgun
sequencing data of the human microbiome. We also discuss how some of the
recent insights in the combination of metagenomics, metatranscriptomics
and viromics can provide more detailed description on the interactions
between microorganisms and viruses in oral and gut microbiomes. Recent
studies on viromics have begun to gain importance due to the potential
involvement of viruses in microbial dysbiosis. In addition,
metatranscriptomic combined with metagenomic analysis have shown that a
substantial fraction of microbial transcripts can be differentially
regulated relative to their microbial genomic abundances. Thus,
understanding the molecular interactions in the microbiome using the
combination of metagenomics, metatranscriptomics and viromics is one of
the main challenges towards a system level understanding of human
microbiome. (C) 2015 Bikel et al. Published by Elsevier B.V.
Filiaciones:
Unidad de Genómica de Poblaciones Aplicada la Salud, Facultad de Química, UNAM, Instituto Nacional de Medicina Genómica (INMEGEN), México, D.F., 14610, Mexico
Departamento de Microbiología Molecular, Instituto de Biotecnología, Universidad Nacional Autónoma de Mexico, Avenida Universidad 2001, Cuernavaca, C.P. 62210, Mexico
Instituto Nacional de Medicina Genómica (INMEGEN), México, D.F., Mexico
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