Microbial Genomics

Microbial Genomics

E-ISSN: 2057-5858

Microbial Genomics is the open access journal of choice for pioneering research in genomics in microbial life. We welcome articles showing novel insights, exciting new applications, or innovative approaches to analysis using genomic data, as well as articles developing our understanding of microbial genomics, from large, long-term studies on microbial evolution and epidemiology to studies with immediate clinical or environmental relevance. More

Editorial Board
Editor-in-Chief: Professor Kathryn Holt, Monash University, Australia and London School of Hygiene and Tropical Medicine, UK
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Journal Status	Active

Latest articles

- Analysis of genetic recombination and the pan-genome of a highly recombinogenic bacteriophage species
  
  Koji Yahara , Philippe Lehours and Filipa F. Vale
- The speciation and hybridization history of the genus Salmonella
  
  Alexis Criscuolo , Sylvie Issenhuth-Jeanjean, Xavier Didelot , Kaisa Thorell , James Hale , Julian Parkhill , Nicholas R. Thomson , François-Xavier Weill , Daniel Falush and Sylvain Brisse
- A cluster of melioidosis infections in hatchling saltwater crocodiles (Crocodylus porosus) resolved using genome-wide comparison of a common north Australian strain of Burkholderia pseudomallei
  
  Audrey Rachlin, Mariana Kleinecke, Mirjam Kaestli , Mark Mayo, Jessica R. Webb , Vanessa Rigas, Cathy Shilton, Suresh Benedict, Kitman Dyrting and Bart J. Currie
- Gauging the epidemic potential of a widely circulating non-invasive meningococcal strain in Africa
  
  Ola Brønstad Brynildsrud , Vegard Eldholm , Adelina Rakhimova, Paul A. Kristiansen and Dominique A. Caugant

Most Cited This Month

- 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
- ARIBA: rapid antimicrobial resistance genotyping directly from sequencing reads
  
  Martin Hunt, Alison E Mather, Leonor Sánchez-Busó, Andrew J Page, Julian Parkhill, Jacqueline A Keane and Simon R Harris
- 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
- Genome-scale rates of evolutionary change in bacteria
  
  Sebastian Duchêne, Kathryn E. Holt, François-Xavier Weill, Simon Le Hello, Jane Hawkey, David J. Edwards, Mathieu Fourment and Edward C. Holmes
- Completing bacterial genome assemblies with multiplex MinION sequencing
  
  Ryan R. Wick, Louise M. Judd, Claire L. Gorrie and Kathryn E. Holt
- 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
- Robust high-throughput prokaryote de novo assembly and improvement pipeline for Illumina data
  
  Andrew J. Page, Nishadi De Silva, Martin Hunt, Michael A. Quail, Julian Parkhill, Simon R. Harris, Thomas D. Otto and Jacqueline A. Keane
- NASP: an accurate, rapid method for the identification of SNPs in WGS datasets that supports flexible input and output formats
  
  Jason W. Sahl, Darrin Lemmer, Jason Travis, James M. Schupp, John D. Gillece, Maliha Aziz, Elizabeth M. Driebe, Kevin P. Drees, Nathan D. Hicks, Charles Hall Davis Williamson, Crystal M. Hepp, David Earl Smith, Chandler Roe, David M. Engelthaler, David M. Wagner and Paul Keim
- Applying phylogenomics to understand the emergence of Shiga-toxin-producing Escherichia coli O157:H7 strains causing severe human disease in the UK
  
  Timothy J. Dallman, Philip M. Ashton, Lisa Byrne, Neil T. Perry, Liljana Petrovska, Richard Ellis, Lesley Allison, Mary Hanson, Anne Holmes, George J. Gunn, Margo E. Chase-Topping, Mark E. J. Woolhouse, Kathie A. Grant, David L. Gally, John Wain and Claire Jenkins
- EuPaGDT: a web tool tailored to design CRISPR guide RNAs for eukaryotic pathogens
  
  Duo Peng and Rick Tarleton
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Microbial Genomics

Latest articles

Analysis of genetic recombination and the pan-genome of a highly recombinogenic bacteriophage species

The speciation and hybridization history of the genus Salmonella

A cluster of melioidosis infections in hatchling saltwater crocodiles (Crocodylus porosus) resolved using genome-wide comparison of a common north Australian strain of Burkholderia pseudomallei

Gauging the epidemic potential of a widely circulating non-invasive meningococcal strain in Africa

Most Read This Month

Most Cited This Month

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

ARIBA: rapid antimicrobial resistance genotyping directly from sequencing reads

Identification of Klebsiella capsule synthesis loci from whole genome data

Genome-scale rates of evolutionary change in bacteria

Completing bacterial genome assemblies with multiplex MinION sequencing

Microreact: visualizing and sharing data for genomic epidemiology and phylogeography

Robust high-throughput prokaryote de novo assembly and improvement pipeline for Illumina data

NASP: an accurate, rapid method for the identification of SNPs in WGS datasets that supports flexible input and output formats

Applying phylogenomics to understand the emergence of Shiga-toxin-producing Escherichia coli O157:H7 strains causing severe human disease in the UK

EuPaGDT: a web tool tailored to design CRISPR guide RNAs for eukaryotic pathogens