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About the journal: Microbial Genomics

Contents

  1. Overview
  2. Journal scope
  3. Article types
  4. Peer review process
  5. Information for authors and FAQ
  6. Submitting an article
  7. Contact information

1. Overview

Microbial Genomics is a fully open access, mandatory open data peer reviewed journal publishing high-profile original research on archaea, bacteria, microbial eukaryotes and viruses. Submissions are welcome from across the breadth of microbiology and should include a genomic approach.

Co-Editors-in-Chief:

Professor Nicholas Thomson, Wellcome Trust, Sanger Institute, UK

Professor Stephen Bentley, Wellcome Trust, Sanger Institute, UK

Abstracted and indexed in: MEDLINE, PubMed Central (PMC) and Google Scholar

Microbial Genomics at a glance

Key Features:

✔  Fully open access

✔  Free to publish: article processing charges (APC)s fully subsidised by the Society until 2018

✔  No submission charges

✔  Microbial Genomics is published by the Microbiology Society, a not-for-profit publisher

✔  Mandatory open data policy: journal portal on figshare as well as help towards uploading the data

✔  Fast and rigorous peer review

✔  Continuous Publication

✔  Copy-right retained by the author: All articles published under a default CC-BY-NC 4.0 licence, with optional CC-BY 4.0 available

✔  Pre-print policy

✔  Adheres to COPE guidelines on publishing ethics

✔  Published on a modern journal platform that offers Altmetrics and support for multimedia content

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2. Journal scope

Microbial Genomics is a fully open access, open data, peer reviewed journal that publishes high quality, original research on archaea, bacteria, microbial eukaryotes and viruses. Submissions are welcome from across the breadth of microbiology and should include a genomic approach.

Topics covered include, but are not limited to:

  • Microbial evolution (including viruses)
  • Population genomics and phylogeography
  • Outbreaks and epidemiological investigations
  • Ecosystems, community and niche interactions
  • Host pathogen, host commensal, host microbiota interactions
  • The microbiome
  • Responses to human interventions (e.g. clinical, agricultural)
  • Metagenomic and whole transcriptome studies
  • Functional genomics
  • New models and computational methods
  • Sequencing tools, algorithms and protocols

Our aim is to publish articles communicating novel insights, exciting new applications or innovative approaches to analysis using genomic data. Publications should aim towards a better understanding of all aspects of microbial genomics ranging from large long- term studies on microbial evolution and epidemiology to studies that have immediate clinical or environmental relevance.

Microbial Genomics is a mandatory open data journal and authors are required to submit supporting data, protocols, and/or bioinformatics programmes and software to relevant depositories. Article processing charges (APCs) are currently waived until end of 2017.

Microbial Genomics is part of the journal portfolio of the Microbiology Society, a registered charity, which reinvests income from publishing into the development of the journal, for fostering research in microbiology and virology, the organisation of international scientific conferences, or for education and outreach purposes.

For more information and help please see the Microbial Genomics FAQ’s page here.

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3. Article types

Microbial Genomics will publish the following articles:

Article category Description Structure (for guidance only) Submission template
Research Articles The study, results, and interpretations of original research
Re-analysis of published data, including meta-analyses and methods bringing together multiple datasets would also be considered, provided that novel insights are produced
Upper word limit ~6500
8 figures and tables max
No limit on references or supplementary data
Author statements – funding information, acknowledgements, conflicts of interest, ethical statements
LINK
Reviews Insights into a specific research area that has seen significant development or progress; including evaluation, critical assessment, and perspectives on current topics within microbial genomics Upper word limit ~6500
8 figures and tables max
No limit on references or supplementary data
Author statements – funding information, acknowledgements, conflicts of interest, ethical statements
LINK
Mini Reviews A targeted review (see above), that focusses on a specific area of research that has recently seen significant insights or advances within the scope of Microbial Genomics. 1000–2000 words
3 figures and tables max
No limit on references or supplementary data
Author statements – funding information, acknowledgements, conflicts of interest, ethical statements
LINK
Methods Applying and validating novel experimental approaches or computational methods or procedures, highlighting the practical application to real data and the novel contribution/advance provided by the method. Also includes new approaches to data visualisation Upper word limit ~2000
4 figures and tables max
No limit on references or supplementary data
Author statements – funding information, acknowledgements, conflicts of interest, ethical statements
LINK
Short Paper Providing the flexibility to write concise reports of importance to the field of microbiology that highlight the power and resolution provided by 'omics' approaches. For example, small outbreak investigations,the creation of genomics resources (including new resources linking data with samples and improved reference data) of broad interest/utility, genomics initiatives, genomic reanalysis of established concepts and novel non-genomicdata (e.g. electron micrographs) which support earlier genomic-driven hypotheses. Rapid communications of highly topical matters such as infectious disease outbreak, drug development breakthrough and environmental/climate management are also encouraged 500–2000 words
8 figures and tables max
No limit on references or supplementary data
Author statements – funding information, acknowledgements, conflicts of interest, ethical statements
LINK
Commentary Commentary is a very flexible format which does not usually contain
primary research data. It could be a comment, a response or rebuttal to be published with another article, or it may be published in direct response to an article already published. Commentaries will be mostly solicited, but may be submitted to Microbial Genomics independently
~1000 words
Title should read ‘Response to: …’ or ‘Commentary: Title of Original Article’
There should be no abstract in this article type
1 figure or table
10 references max
Commentaries should cite the article on which it comments. Author statements – funding information, acknowledgements, conflicts of interest, ethical statements
LINK
BioResource Designed to highlight research that generates analyses and presents work that is recognised by a broad section of the research community as a significant BioResource with potential long-term impact
The principle focus of this format is an accurate description of the data and samples, with emphasis on its significance and accessibility. Data must be presented in a format and manner that maximises its utility to the research community for the purposes outlined in the article
Upper word limit ~6500 words
8 figures and tables max
No limit on references or supplementary data
Author statements – funding information, acknowledgements, conflicts of interest, ethical statements
LINK
Outbreak Report All Outbreak Reports should provide a description of the outbreak’s basic epidemiology (case counts, demographics, etc); the genomics approach taken; results and an ‘Outcome’ box summarising the take-home points arising from the investigation, whether they be epidemiological or methodological. Analysis methods must be fully documented, including all parameters and reference sequences used (source code available or specify full details of commercial package) Upper word limit ~6500
8 figures and tables max
No limit on references or supplementary data.
Author statements – funding information, acknowledgements, conflicts of interest, ethical statements
LINK

It is not a conflict of interest to be an Editor as well as an author, as long as the Editor is not involved in any component of the peer review process.

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4. Peer review process

All articles submitted to Microbial Genomics undergo formal peer review by two expert referees. Microbial Genomics uses a single blind, ‘staged’ peer review system.

When an article is sent out for peer review, the authors’ names and affiliations are removed from the initial invitation in order to tackle unconscious bias at this stage. If a reviewer decides to accept the invitation, they are then given access to the full manuscript and supplementary data files along with the author names.

On submission, authors will be asked to suggest three suitable referees for their manuscript. They should not be current collaborators or those affiliated with the same institution as the authors. Please ensure that an institutional email address is provided for all suggested reviewers.

5. Information for authors and FAQ

The Society’s Information for Authors can be found here. For a list of frequent asked questions specific to Microbial Genomics please see our MGen FAQ.

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6. Submit an article

All articles must be submitted through our Editorial Manager online submission site using the relevant template, and accompanied by a cover letter summarising your reasons for submitting the article to Microbial Genomics and how it meets the Scope of the journal.

Please visit the Submit an article page for further information including the pre-submission checklist. More detailed advice on the formatting of figures, tables and reference lists can be found in the Information for authors.

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7. Contact Information

Queries or comments about online submission should be sent via email from the submission site.

General enquiries should be sent to the Editorial Office:

Microbial Genomics, Editorial Office, Microbiology Society, Charles Darwin House, 12 Roger Street, London, WC1N 2JU

Tel: +44 (0)20 7685 2543 Email: mgen@microbiologysociety.org

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