Overview
Submission Instructions
Recent Publications
Frequently Asked Questions
Research Topics
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Gut Pathogens publishes research on the biology and medicine of pathogens, commensals, and functional microbiota of the gut, including probiotic bacteria, yeasts, and their products. The journal covers topics from microbial causes of gut ailments to treatment and drug resistance mechanisms, and welcomes work on genomics, metagenomics, microbiota profiling, and systems biology.
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Subject
Gastroenterology & Hepatology
Impact Factor
4
Quartile
Q1
Open Access Type
Open
ISSN
1757-4749
eISSN
1757-4749
Invitation Only
No
Cost Range
£2490.00 GBP / $3390.00 USD / €2890.00 EUR APC; subject to VAT or local taxes where applicable.
Submission Instructions
Gut Pathogens accepts the following article types. Click on an article type to view submission instructions.
Research Article
Cover Letter
Cover letter is required. Cover letter must explain why the manuscript should be published, address any issues relating to journal policies, declare any potential competing interests, confirm all authors approved the submission, and confirm the manuscript has not been published or submitted elsewhere.
Abstract
Abstract is required. Abstract must not exceed 350 words. Abstract must be structured. Abstract must include the headings Background, Results, and Conclusions.
Manuscript
Manuscript should include the section headings Title page, Abstract, Keywords, Background, Methods, Results, Discussion, Conclusions, List of abbreviations, Declarations, Footnotes, References, and Figures, tables and additional files. Manuscript must include three to ten keywords and a Declarations section with the subheadings Ethics approval and consent to participate, Consent for publication, Availability of data and materials, Competing interests, Funding, Authors' contributions, and Acknowledgements, using 'Not applicable' for any irrelevant subsection, and any use of a Large Language Model should be documented in the Methods section.
References
References must use Vancouver style. Web links and URLs must be assigned a reference number and included in the reference list in full with the site title, URL, and access date, unpublished abstracts, unpublished data, and personal communications must not appear in the reference list, and journal abbreviations must follow Index Medicus/MEDLINE.
Figures & Tables
Figure titles and legends must be provided in the main manuscript rather than in the graphic file, tables shorter than one page may be placed in the manuscript at the appropriate location, and longer tables may be placed at the end of the document with their intended placement indicated in the text. Figures must be numbered and uploaded in the order first cited, multi-panel figures must be submitted as a single composite file, and tables must be numbered in sequence and created using the word processor's Table object rather than embedded as figures or spreadsheet files.
Review
Cover Letter
A cover letter is required. Cover letter must explain why the manuscript should be published, explain any issues relating to journal policies, declare any potential competing interests, confirm all authors approved the submission, confirm the content has not been published or submitted elsewhere, and name the special issue if applicable.
Abstract
A structured abstract is required. Abstract must not exceed 350 words. Abstract must be structured with background, main body of the abstract, and short conclusion. Abstract headings must be Background, main body of the abstract, and short conclusion.
Manuscript
Manuscript must include a title page, Background section, main text with possible subsections, Conclusions section, and a Declarations section with specified subheadings. Manuscript must include three to ten keywords, a list of abbreviations if abbreviations are used, and a Declarations section containing Ethics approval and consent to participate, Consent for publication, Availability of data and materials, Competing interests, Funding, Authors' contributions, Acknowledgements, and optional Authors' information, with any Large Language Model use documented in the Methods or another suitable section.
References
References must follow Vancouver style. Web links and URLs must be cited with a reference number and included in the reference list rather than in the text, unpublished abstracts, unpublished data, and personal communications must not appear in the reference list, and journal abbreviations must follow Index Medicus/MEDLINE.
Figures & Tables
Figure titles and legends must be provided in the main manuscript, tables shorter than one page can be placed within the manuscript, and tables longer than one page can be placed at the end of the document with callouts in the text. Figures and tables must be numbered in the order first cited in the text, multi-panel figures must be submitted as a single composite file, tables must not be embedded as figures, and footnotes to tables must use superscript lower-case letters or asterisks for significance values and other statistical data.
Case Report
Cover Letter
A cover letter is required. Cover letter must explain why the manuscript should be published, explain any issues relating to journal policies, declare any potential competing interests, confirm all authors approved submission, and confirm the manuscript has not been published or submitted elsewhere.
Abstract
An abstract is required. Abstract must not exceed 350 words. Abstract must be structured. Abstract must include the headings Background, Case presentation, and Conclusions.
Manuscript
Manuscript should include Background, Case presentation, Discussion and Conclusions, and a Declarations section. Manuscript must include three to ten keywords, a list of abbreviations if abbreviations are used, and a Declarations section with the subheadings Ethics approval and consent to participate, Consent for publication, Availability of data and materials, Competing interests, Funding, Authors' contributions, Acknowledgements, and Authors' information (optional), using 'Not applicable' for any irrelevant section.
References
References must follow Vancouver reference style. Web links and URLs must be assigned a reference number and included in the reference list rather than in the text, unpublished abstracts, unpublished data, and personal communications must not appear in the reference list, and journal abbreviations must follow Index Medicus/MEDLINE.
Figures & Tables
Tables shorter than one page may be placed within the manuscript, tables longer than one page may be placed at the end of the document, and figure titles and legends must be provided in the main manuscript rather than in the graphic file. Clinical photographs may be included only with written patient consent, multi-panel figures must be submitted as a single composite file, and tables must not be embedded as figures or spreadsheet files.
Genome Report
Cover Letter
A cover letter is required. Cover letter must explain why the manuscript should be published, address any journal policy issues, declare any potential competing interests, confirm all authors approved the submission, and confirm the manuscript has not been published or submitted elsewhere.
Abstract
An abstract is required. Abstract must not exceed 250 words. Abstract must be structured. Abstract must use the headings Background, Results, and Conclusions.
Manuscript
Manuscript must include a title page identifying the corresponding author and listing all authors’ full names, institutional addresses, and email addresses, with the main text including Background, Quality assurance, Results and discussion, and a Declarations section with all required subheadings. Manuscript must include three to ten keywords, metadata and relevant data resources as tabular additional files, a supplemental methods document as an additional file, and a Declarations section containing Ethics approval and consent to participate, Consent for publication, Availability of data and materials, Competing interests, Funding, Authors' contributions, Acknowledgements, and Authors' information, with any irrelevant subsection marked 'Not applicable'.
References
References must be fewer than twenty. References must follow Vancouver style. Web links and URLs must be cited with a reference number and included in the reference list rather than in the text.
Figures & Tables
Genome reports must include no more than two figures. Tables shorter than one page may be placed within the manuscript, tables longer than one page may be placed at the end of the document, and metadata and relevant data resources must be submitted as tabular additional files. Footnotes must be used instead of endnotes, text footnotes must be numbered consecutively, table footnotes must use superscript lower-case letters or asterisks for significance values and other statistical data, and footnotes must not consist solely of a reference citation or contain figures or tables.
Correspondence
Cover Letter
A cover letter is required. Cover letter must explain why the manuscript should be published, address any issues relating to journal policies, declare any potential competing interests, confirm all authors approved submission, and confirm the manuscript has not been published or submitted elsewhere.
Abstract
An abstract is required. Abstract must not exceed 250 words. Abstract should be unstructured and briefly summarize the aim, findings, or purpose of the article.
Manuscript
Main text should contain the body of the article and may be divided into subsections with short informative headings, and the manuscript must include a Declarations section with the specified subheadings. Manuscript must include three to ten keywords, an Availability of data and materials statement, a list of abbreviations if abbreviations are used, and a Declarations section containing Ethics approval and consent to participate, Consent for publication, Availability of data and materials, Competing interests, Funding, Authors' contributions, Acknowledgements, and optional Authors' information, with any Large Language Model use documented in the Methods section or another suitable section if no Methods section is available.
References
References must follow Vancouver reference style. Web links and URLs must be assigned a reference number and included in the reference list rather than in the text, journal abbreviations must follow Index Medicus/MEDLINE, unpublished abstracts unpublished data and personal communications must not be included in the reference list, and publicly available datasets cited should include a persistent identifier such as a DOI.
Figures & Tables
Tables shorter than one page may be placed within the manuscript, whereas longer tables may be placed at the end of the document with their intended placement indicated in the text, and figure titles and legends must be provided in the main manuscript rather than in the graphic file. Figures and tables must be numbered in the order first cited, multi-panel figures must be submitted as a single composite file, tables must not be embedded as figures, and table footnotes should use superscript lower-case letters or asterisks for significance values and other statistical data.
Brief Report
Cover Letter
A cover letter is required. Cover letter must explain why the manuscript should be published, address any journal policy issues, declare any potential competing interests, confirm all authors approved the submission, and confirm the manuscript has not been published or submitted elsewhere.
Abstract
An abstract is required. Abstract should not exceed 250 words.
Manuscript
Manuscript must include a title page and a Declarations section with the subheadings 'Ethics approval and consent to participate', 'Consent for publication', 'Availability of data and materials', 'Competing interests', 'Funding', 'Authors' contributions', and 'Acknowledgements'. Manuscript must include an 'Availability of data and materials' statement, three to ten keywords, a list of abbreviations if abbreviations are used, required 'Not applicable' statements for irrelevant Declarations subsections, and disclosure of any Large Language Model use in the Methods or another suitable section.
References
References must follow Vancouver style. Web links and URLs must be numbered and included in the reference list rather than the text, and unpublished abstracts, unpublished data, and personal communications must not be included in the reference list.
Figures & Tables
Figure titles and legends must be provided in the main manuscript rather than the graphic file, tables under one page may be placed within the manuscript, and tables over one page may be placed at the end of the document. Figures and tables must be numbered in the order first cited in the text, multi-panel figures must be submitted as a single composite file, tables must not be embedded as figures or spreadsheet files, and footnotes must not contain figures or tables.
Recent Publications
Comparative effects of vonoprazan-based and esomeprazole-based dual therapy on Helicobacter pylori eradication and short-term gut microbiota changes
Yi Liu, Xuetian Qian, Jiayue Yao, Chunming Fei, Zhenyu Zhang, Zongdan Jiang
10.1186/s13099-026-00867-9
View Publication
Fecal S100 calcium-binding protein B as a marker for disease severity in patients with Clostridioides difficile infection
Laasya Doppalapudi, Matthew Z. Behm, Xin-Qun Wang, Mônica J. Rodrigues-Jesus, Ayesha E. Tora, Jae Hyun Shin, Cirle A. Warren, Deiziane V. S. Costa
10.1186/s13099-026-00874-w
View Publication
Microbiome dysbiosis in long COVID: a scoping review of mechanistic insights, symptom associations, and therapeutic targets
Leonardo Cano-Cevallos, Gabriela Patiño-Aveiga, Alice Gaibor-Pazmiño, Esteban Ortiz-Prado, Juan S. Izquierdo-Condoy
10.1186/s13099-026-00853-1
View Publication
Gut virome instability in HSCT
Crystel Hajjar, Claudio Neidhöfer, Marianne Abifadel
10.1186/s13099-026-00870-0
View Publication
Propensity-matched case control study of anti-interleukin-23 therapies in Clostridioides difficile Infection
Gregory R. Madden, Jennie Z. Ma
10.1186/s13099-026-00871-z
View Publication
Frequently asked questions
How long does it take to publish?
Submission to first decision (median): 6 days.
Reformat to Gut Pathogens using Livewrite PremiumIs a cover letter required?
A cover letter is required. It should explain why the manuscript should be published in Gut Pathogens, address any issues relating to journal policies, declare potential competing interests, confirm that all authors approved the submission, confirm that the work has not been published or submitted elsewhere, and name the special issue if applicable. Authors may also suggest preferred and non-preferred peer reviewers in the cover letter.
Reformat to Gut Pathogens using Livewrite PremiumWhat are the publication costs?
The APC is £2490.00 GBP / $3390.00 USD / €2890.00 EUR for each accepted article, subject to VAT or local taxes where applicable.
Reformat to Gut Pathogens using Livewrite PremiumResearch Topics
Gut microbiota and health
Clostridium difficile and Clostridium perfringens research
Salmonella and Campylobacter epidemiology
Escherichia coli research studies
Probiotics and Fermented Foods
Helicobacter pylori-related gastroenterology studies
Viral gastroenteritis research and epidemiology
Antibiotic Resistance in Bacteria
Vibrio bacteria research studies
Veterinary medicine and infectious diseases
Mycobacterium research and diagnosis
Parasitic Infections and Diagnostics
Gastrointestinal motility and disorders
Amoebic Infections and Treatments
Inflammatory Bowel Disease
Antimicrobial Resistance in Staphylococcus
Aquaculture disease management and microbiota
Listeria monocytogenes in Food Safety
Bacteriophages and microbial interactions
Bacterial Genetics and Biotechnology
Cancer Research and Treatments
Microscopic Colitis
Genomics and Phylogenetic Studies
Parasites and Host Interactions
Nosocomial Infections in ICU