FunOMIC : Pipeline with built-in fungal taxonomic and functional databases for human mycobiome profiling
Xie, Zixuan (Hospital Universitari Vall d'Hebron. Institut de Recerca)
Manichanh, Chaysavanh (Hospital Universitari Vall d'Hebron. Institut de Recerca)
Universitat Autònoma de Barcelona

Date:	2022
Abstract:	While analysis of the bacterial microbiome has become routine, that of the fungal microbiome is still hampered by the lack of robust databases and bioinformatic pipelines. Here, we present FunOMIC, a pipeline with built-in taxonomic (1. 6 million marker genes) and functional (3. 4 million non-redundant fungal proteins) databases for the identification of fungi. Applied to more than 2,600 human metagenomic samples, the tool revealed fungal species associated with geography, body sites, and diseases. Correlation network analysis provided new insights into inter-kingdom interactions. With this pipeline and two of the most comprehensive fungal databases, we foresee a fast-growing resource for mycobiome studies.
Grants:	Instituto de Salud Carlos III PI17/00614 Instituto de Salud Carlos III PI20/00130
Rights:	Aquest document està subjecte a una llicència d'ús Creative Commons. Es permet la reproducció total o parcial, la distribució, i la comunicació pública de l'obra, sempre que no sigui amb finalitats comercials, i sempre que es reconegui l'autoria de l'obra original. No es permet la creació d'obres derivades.
Language:	Anglès
Document:	Article ; recerca ; Versió publicada
Subject:	Mycobiome ; Fungal databases ; Taxonomy and functions ; Shotgun metagenomics ; Inter-kingdom interactions
Published in:	Computational and Structural Biotechnology Journal, Vol. 20 (july 2022) , p. 3685-3694, ISSN 2001-0370

DOI: 10.1016/j.csbj.2022.07.010
PMID: 35891785

10 p, 1.8 MB

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