eggNOG-mapper v2: Functional Annotation, Orthology Assignments, and Domain Prediction at the Metagenomic Scale

被引：2324

作者：

Cantalapiedra, Carlos P. ^{[1
]}

Hernandez-Plaza, Ana ^{[1
]}

Letunic, Ivica ^{[2
]}

Bork, Peer ^{[3
,4
,5
]}

Huerta-Cepas, Jaime ^{[1
]}

机构：

[1] Univ Politecn Madrid UPM, Ctr Biotecnol & Genom Plantas, Inst Nacl Invest & Tecnol Agr & Alimentaria INIA, Campus Montegancedo UPM, Madrid, Spain

[2] Biobyte Solut GmbH, Heidelberg, Germany

[3] European Mol Biol Lab, Struct & Computat Biol Unit, Heidelberg, Germany

[4] Univ Wurzburg, Bioctr, Dept Bioinformat, Wurzburg, Germany

[5] Yonsei Univ, Yonsei Frontier Lab YFL, Seoul, South Korea

来源：

MOLECULAR BIOLOGY AND EVOLUTION | 2021年 / 38卷 / 12期

基金：

欧洲研究理事会;

关键词：

metagenomics; functional annotation; computational genomics; bioinformatics; DATABASE;

D O I：

10.1093/molbev/msab293

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

Even though automated functional annotation of genes represents a fundamental step in most genomic and metagenomic workflows, it remains challenging at large scales. Here, we describe a major upgrade to eggNOG-mapper, a tool for functional annotation based on precomputed orthology assignments, now optimized for vast (meta)genomic data sets. Improvements in version 2 include a full update of both the genomes and functional databases to those from eggNOG v5, as well as several efficiency enhancements and new features. Most notably, eggNOG-mapper v2 now allows for: 1) de novo gene prediction from raw contigs, 2) built-in pairwise orthology prediction, 3) fast protein domain discovery, and 4) automated GFF decoration. eggNOG-mapper v2 is available as a standalone tool or as an online service at http://eggnogmapper.embl.de.

引用

页码：5825 / 5829

页数：5

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