Microbial Genomics

E-ISSN: 2057-5858

The Microbiology Society's founding journal, Microbiology, is now fully Open Access (OA). Find out more about the transformation here.

Microbial Genomics pioneers all areas of genome research spanning the breadth of microbial life including viruses, bacteria, archaea and microbial eukaryotes. We welcome articles showing novel insights, new applications, or innovative approaches using genomic data. Content ranges from comparative and functional genomics of model organisms to population-scale evolution, epidemiology and microbiome studies, and real-world genomics applications with clinical, veterinary or environmental relevance. See full journal scope

Browse these key collections:

Methods and Software
Bacteriophage
Microreact
Implementation of Genomics in Clinical and Public Health Microbiology
Microbial Genomics of Sexually Transmitted Infections (Open for submissions)

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Leveraging comparative genomics to uncover alien genes in bacterial genomes

Analysis of variola virus molecular evolution suggests an old origin of the virus consistent with historical records

TransAAP: an automated annotation pipeline for membrane transporter prediction in bacterial genomes

Using a combination of short- and long-read sequencing to investigate the diversity in plasmid- and chromosomally encoded extended-spectrum beta-lactamases (ESBLs) in clinical Shigella and Salmonella isolates in Belgium

Multidrug-resistant toxigenic Corynebacterium diphtheriae sublineage 453 with two novel resistance genomic islands

Biosynthetic novelty index reveals the metabolic potential of rare actinobacteria isolated from highly oligotrophic sediments

Multiplex MinION sequencing suggests enteric adenovirus F41 genetic diversity comparable to pre-COVID-19 era

A bittersweet fate: detection of serotype switching in Pseudomonas aeruginosa

Population genomics of Australian indigenous Mesorhizobium reveals diverse nonsymbiotic genospecies capable of nitrogen-fixing symbioses following horizontal gene transfer

The genomic characterization of Salmonella Paratyphi A from an outbreak of enteric fever in Vadodara, India

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SNP-sites: rapid efficient extraction of SNPs from multi-FASTA alignments

Completing bacterial genome assemblies with multiplex MinION sequencing

Microreact: visualizing and sharing data for genomic epidemiology and phylogeography

MOB-suite: software tools for clustering, reconstruction and typing of plasmids from draft assemblies

Polysaccharide utilization loci and nutritional specialization in a dominant group of butyrate-producing human colonic Firmicutes

ARIBA: rapid antimicrobial resistance genotyping directly from sequencing reads

ClermonTyping: an easy-to-use and accurate in silico method for Escherichia genus strain phylotyping

Emergence, molecular mechanisms and global spread of carbapenem-resistant Acinetobacter baumannii

Dynamic linkage of COVID-19 test results between Public Health England’s Second Generation Surveillance System and UK Biobank

Identification of Klebsiella capsule synthesis loci from whole genome data