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

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Articles from the latest issue Latest Articles Rss Feed

- Genomic dissection of the Vibrio cholerae O-serogroup global reference strains: reassessing our view of diversity and plasticity between two chromosomes
  
  Kazunori Murase, Eiji Arakawa, Hidemasa Izumiya, Atsushi Iguchi, Taichiro Takemura, Taisei Kikuchi, Ichiro Nakagawa, Nicholas R. Thomson, Makoto Ohnishi and Masatomo Morita
- Insertion sequences and other mobile elements associated with antibiotic resistance genes in Enterococcus isolates from an inpatient with prolonged bacteraemia
  
  Zulema Udaondo, Kaleb Z. Abram, Atul Kothari and Se-Ran Jun
- Namco: a microbiome explorer
  
  Alexander Dietrich, Monica Steffi Matchado , Maximilian Zwiebel , Benjamin Ölke, Michael Lauber , Ilias Lagkouvardos , Jan Baumbach, Dirk Haller , Beate Brandl , Thomas Skurk , Hans Hauner , Sandra Reitmeier and Markus List

Most cited this month Most Cited RSS feed

- Completing bacterial genome assemblies with multiplex MinION sequencing
  
  Ryan R. Wick, Louise M. Judd, Claire L. Gorrie and Kathryn E. Holt
- SNP-sites: rapid efficient extraction of SNPs from multi-FASTA alignments
  
  Andrew J. Page, Ben Taylor, Aidan J. Delaney, Jorge Soares, Torsten Seemann, Jacqueline A. Keane and Simon R. Harris
- Microreact: visualizing and sharing data for genomic epidemiology and phylogeography
  
  Silvia Argimón, Khalil Abudahab, Richard J. E. Goater, Artemij Fedosejev, Jyothish Bhai, Corinna Glasner, Edward J. Feil, Matthew T. G. Holden, Corin A. Yeats, Hajo Grundmann, Brian G. Spratt and David M. Aanensen
- ClermonTyping: an easy-to-use and accurate in silico method for Escherichia genus strain phylotyping
  
  Johann Beghain, Antoine Bridier-Nahmias, Hervé Le Nagard, Erick Denamur and Olivier Clermont
- Identification of Klebsiella capsule synthesis loci from whole genome data
  
  Kelly L. Wyres, Ryan R. Wick, Claire Gorrie, Adam Jenney, Rainer Follador, Nicholas R. Thomson and Kathryn E. Holt
- MOB-suite: software tools for clustering, reconstruction and typing of plasmids from draft assemblies
  
  James Robertson and John H. E. Nash
- Genetic diversity, mobilisation and spread of the yersiniabactin-encoding mobile element ICEKp in Klebsiella pneumoniae populations
  
  Margaret M. C. Lam, Ryan R. Wick, Kelly L. Wyres, Claire L. Gorrie, Louise M. Judd, Adam W. J. Jenney, Sylvain Brisse and Kathryn E. Holt
- Emergence, molecular mechanisms and global spread of carbapenem-resistant Acinetobacter baumannii
  
  Mohammad Hamidian and Steven J. Nigro
- Fluoroquinolone resistance in Salmonella: insights by whole-genome sequencing
  
  Wim L. Cuypers, Jan Jacobs, Vanessa Wong, Elizabeth J. Klemm, Stijn Deborggraeve and Sandra Van Puyvelde
- On the (im)possibility of reconstructing plasmids from whole-genome short-read sequencing data
  
  Sergio Arredondo-Alonso, Rob J. Willems, Willem van Schaik and Anita C. Schürch
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Articles from the latest issue Latest Articles Rss Feed

Genomic dissection of the Vibrio cholerae O-serogroup global reference strains: reassessing our view of diversity and plasticity between two chromosomes

Insertion sequences and other mobile elements associated with antibiotic resistance genes in Enterococcus isolates from an inpatient with prolonged bacteraemia

Namco: a microbiome explorer

Most read this month

Most cited this month Most Cited RSS feed

Completing bacterial genome assemblies with multiplex MinION sequencing

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

Microreact: visualizing and sharing data for genomic epidemiology and phylogeography

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

Identification of Klebsiella capsule synthesis loci from whole genome data

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

Genetic diversity, mobilisation and spread of the yersiniabactin-encoding mobile element ICEKp in Klebsiella pneumoniae populations

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

Fluoroquinolone resistance in Salmonella: insights by whole-genome sequencing

On the (im)possibility of reconstructing plasmids from whole-genome short-read sequencing data