Microbial Genomics

E-ISSN: 2057-5858

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

As part of our continuing commitment to Open Access, from January 2023 the Society's founding journal Microbiology will be moving to a fully open access publication model. Read more about it, and our wider OA journey, in this news story.

Browse these key collections:

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

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Co-transfer of functionally interdependent genes contributes to genome mosaicism in lambdoid phages

A step forward for Shiga toxin-producing Escherichia coli identification and characterization in raw milk using long-read metagenomics

Distinct evolutionary trajectories in the Escherichia coli pangenome occur within sequence types

Increased phage resistance through lysogenic conversion accompanying emergence of monophasic Salmonella Typhimurium ST34 pandemic strain

Genomic insights into antibiotic-resistance and virulence genes of Enterococcus faecium strains from the gut of Apis mellifera

Evaluation of tangential flow filtration coupled to long-read sequencing for ostreid herpesvirus type 1 genome assembly

Combining analytical epidemiology and genomic surveillance to identify risk factors associated with the spread of antimicrobial resistance in Salmonella enterica subsp. enterica serovar Heidelberg

Shared properties of gene transfer agent and core genes revealed by comparative genomics of Alphaproteobacteria

Comparison of the genetic basis of biofilm formation between Salmonella Typhimurium and Escherichia coli

Novel application of metagenomics for the strain-level detection of bacterial contaminants within non-sterile industrial products – a retrospective, real-time analysis

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

Completing bacterial genome assemblies with multiplex MinION sequencing

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

Microreact: visualizing and sharing data for genomic epidemiology and phylogeography

ResFinder – an open online resource for identification of antimicrobial resistance genes in next-generation sequencing data and prediction of phenotypes from genotypes

The diversity of Klebsiella pneumoniae surface polysaccharides

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

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

Identification of Klebsiella capsule synthesis loci from whole genome data