EsMeCaTa: Estimating metabolic capabilities from taxonomic affiliations - Archive ouverte HAL
Pré-Publication, Document De Travail Année : 2022

EsMeCaTa: Estimating metabolic capabilities from taxonomic affiliations

Résumé

Predicting the functional potential of microorganisms in environmental samples from cultivation-independent techniques is a major challenge. A persistent difficulty lies in associating taxonomic profiles obtained from metabarcoding experiment with accurate functional profiles, particularly for poorly-resolved taxonomic groups. In this paper, we present EsMeCaTa a python package predicting shared proteins from taxonomic affiliations. EsMeCaTa relies on the UniProt database to retrieve the public proteomes associated with a taxon and then uses MMseqs2 in order to compute the set of proteins shared in the taxon. Finally, EsMeCaTa extracts the functional annotations of these proteins to provide an accurate estimate of the functional potential associated to taxonomic affiliations.
Fichier principal
Vignette du fichier
2022.03.16.484574.full.pdf (222.09 Ko) Télécharger le fichier
Origine Fichiers produits par l'(les) auteur(s)

Dates et versions

hal-03697249 , version 1 (16-06-2022)

Identifiants

Citer

Arnaud Belcour, Baptiste Ruiz, Clémence Frioux, Samuel Blanquart, Anne Siegel. EsMeCaTa: Estimating metabolic capabilities from taxonomic affiliations. 2022. ⟨hal-03697249⟩
107 Consultations
94 Téléchargements

Altmetric

Partager

More