PhyloFunDB: A Pipeline to Create and Update Functional Gene Taxonomic Databases

TY - JOUR

T1 - PhyloFunDB

T2 - A Pipeline to Create and Update Functional Gene Taxonomic Databases

AU - Costa, Ohana Y.A.

AU - de Hollander, Mattias

AU - Kuramae, Eiko E.

AU - Bodelier, Paul L.E.

N1 - 7466, ME

PY - 2022

Y1 - 2022

N2 - The increase in sequencing capacity has amplified the number of taxonomically unclassified sequences in most databases. The classification of such sequences demands phylogenetic tree construction and comparison to currently classified sequences, a process that demands the processing of large amounts of data and use of several different software. Here, we present PhyloFunDB, a pipeline for extracting, processing, and inferring phylogenetic trees from specific functional genes. The goal of our work is to decrease processing time and facilitate the grouping of sequences that can be used for improved taxonomic classification of functional gene datasets.

AB - The increase in sequencing capacity has amplified the number of taxonomically unclassified sequences in most databases. The classification of such sequences demands phylogenetic tree construction and comparison to currently classified sequences, a process that demands the processing of large amounts of data and use of several different software. Here, we present PhyloFunDB, a pipeline for extracting, processing, and inferring phylogenetic trees from specific functional genes. The goal of our work is to decrease processing time and facilitate the grouping of sequences that can be used for improved taxonomic classification of functional gene datasets.

KW - functional genes

KW - pipeline

KW - taxonomy

U2 - 10.3390/microorganisms10061093

DO - 10.3390/microorganisms10061093

M3 - Article

AN - SCOPUS:85130974994

SN - 2076-2607

VL - 10

JO - Microorganisms

JF - Microorganisms

IS - 6

M1 - 1093

ER -