ProGenomes3: Approaching One Million Accurately and Consistently Annotated High-quality Prokaryotic Genomes

Overview

Journal Nucleic Acids Res

Publisher Oxford University Press

Specialty Biochemistry

Date 2022 Nov 21

PMID 36408900

Authors

Anthony Fullam

Ivica Letunic

Thomas S B Schmidt

Quinten R Ducarmon

Nicolai Karcher

Supriya Khedkar

Michael Kuhn

Martin Larralde

Oleksandr M Maistrenko

Lukas Malfertheiner

Alessio Milanese

Joao Frederico Matias Rodrigues

Claudia Sanchis-Lopez

Christian Schudoma

Damian Szklarczyk

Shinichi Sunagawa

Georg Zeller

Jaime Huerta-Cepas

Christian von Mering

Peer Bork

Daniel R Mende

Affiliations

Soon will be listed here.

Abstract

The interpretation of genomic, transcriptomic and other microbial 'omics data is highly dependent on the availability of well-annotated genomes. As the number of publicly available microbial genomes continues to increase exponentially, the need for quality control and consistent annotation is becoming critical. We present proGenomes3, a database of 907 388 high-quality genomes containing 4 billion genes that passed stringent criteria and have been consistently annotated using multiple functional and taxonomic databases including mobile genetic elements and biosynthetic gene clusters. proGenomes3 encompasses 41 171 species-level clusters, defined based on universal single copy marker genes, for which pan-genomes and contextual habitat annotations are provided. The database is available at http://progenomes.embl.de/.

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