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Microorganisms publishes Special Issues to create collections of papers on specific topics, with the aim of building a community of authors and readers to discuss the latest research and develop new ideas and research directions. Special Issues are led by Guest Editors, who are experts on the topic and all Special Issue submissions follow MDPI's standard editorial process. The journal’s Editor-in-Chief and/or designated Editorial Board Member will oversee Guest Editor appointments and Special Issue proposals, checking their content for relevance and ensuring the suitability of the material for the journal. The papers published in a Special Issue will be collected and displayed on a dedicated page of the journal’s website. Further information on MDPI's Special Issue policies and Guest Editor responsibilities can be found here. For any inquiries related to a Special Issue, please contact the Editorial Office.

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Oral Bacteria, Viruses, and Fungi: Oral Health, Disease, and Systemic Links

edited by

Maria Pia Di Palo

Federica Di Spirito

and Nicoletta Capuano

submission deadline 30 Jun 2026 | 4 articles | Viewed by 2765 | Submission Open

Keywords: oral microbiota; host– microbe interactions; antimicrobial resistance; therapeutic approaches; probiotics

(This special issue belongs to the Section Medical Microbiology)

Laboratory Diagnosis and Epidemiology of Clinical Microbial Infections

edited by

Vassiliki Pitiriga

submission deadline 30 Jun 2026 | 2 articles | Viewed by 1803 | Submission Open

Keywords: infectious disease; laboratory diagnosis; epidemiology

(This special issue belongs to the Section Medical Microbiology)

Evolution and Spread of Drug-Resistant Pathogens

edited by

Marcos Paulo Vieira Cunha

and

Elena Bello-López

submission deadline 30 Jun 2026 | 2 articles | Viewed by 1784 | Submission Open

Keywords: antimicrobial resistance (AMR); food-borne pathogens; superbugs; one health; horizontal gene transfer; mobile genetic elements (MGEs); surveillance and monitoring; resistant pathogens outbreaks; resistance mechanisms

(This special issue belongs to the Section Antimicrobial Agents and Resistance)

Antimicrobial Resistance in Foodborne Pathogens: Surveillance, Mechanisms and Mitigation Strategies

edited by

Teresa Semedo-Lemsaddek

submission deadline 30 Jun 2026 | 1 articles | Viewed by 898 | Submission Open

Keywords: antimicrobial resistance; foodborne pathogens; One Health; AMR surveillance; mobile genetic elements; antimicrobial usage; food safety; mitigation strategies

(This special issue belongs to the Section Antimicrobial Agents and Resistance)

Interactions Between Parasites/Pathogens and Vectors, Second Edition

edited by Norman Ratcliffe and

Günter A. Schaub

submission deadline 30 Jun 2026 | 1 articles | Viewed by 880 | Submission Open

Keywords: arboviruses; vectors; insects

(This special issue belongs to the Section Public Health Microbiology)

Detection Techniques and Assay Development for Bacterial Susceptibility and Resistance

edited by Pavel Ivanoff Reyes

submission deadline 30 Jun 2026 | 1 articles | Viewed by 809 | Submission Open

Keywords: antimicrobial treatments; chemical assays; susceptibility; resistance

(This special issue belongs to the Section Antimicrobial Agents and Resistance)

New Advances in Sporothrix and Sporotrichosis

edited by

Sandro Pereira

and

Damiana Téllez-Martínez

submission deadline 30 Jun 2026 | 1 articles | Viewed by 782 | Submission Open

Keywords: Sporothrix; sporotrichosis; fungus– environment interactions; zoonotic transmission; molecular diagnosis; antifungal therapy; omics approaches; host– pathogen interactions; immunotherapeutic strategies; immune response

(This special issue belongs to the Section Molecular Microbiology and Immunology)

Advances in Fundamentals and Application of Microbial Industrial Biotechnology

edited by

J.H. de Winde

and

Arthur Ram

submission deadline 30 Jun 2026 | Viewed by 185 | Submission Open

Keywords: microbial industrial biotechnology; industrial microbiology; applied microbiology

(This special issue belongs to the Section Microbial Biotechnology)

State-of-the-Art Medical Microbiology in the USA

edited by Maria E. Aguero-Rosenfeld

submission deadline 30 Jun 2026 | Viewed by 141 | Submission Open

Keywords: medical microbiology; medical fungi; medical bacterial

(This special issue belongs to the Section Medical Microbiology)

Exploration of Marine Microbial Resources

edited by

Haibo Zhou

submission deadline 30 Jun 2026 | Viewed by 140 | Submission Open

Keywords: marine microorganisms; natural products; biosynthetic mechanism; genome mining; synthetic biology; microbial biotechnology

(This special issue belongs to the Section Microbial Biotechnology)

Ecology and Genetics of Medically Important Fungi

edited by

Caroline Maria Marcos

Liliana Scorzoni

and

Haroldo de Oliveira

submission deadline 30 Jun 2026 | Viewed by 89 | Submission Open

Keywords: medical mycology; fungal ecology; molecular genetics of pathogenic fungi; antifungal resistance; fungal omics; host– pathogen interaction; environmental adaptation; fungal virulence

(This special issue belongs to the Section Medical Microbiology)

Emerging Technologies for Pathogen Detection in Agriculture, Medicine, and Food Safety

edited by

Adriana Calderaro

and

Fangchi Shao

submission deadline 30 Jun 2026 | Viewed by 71 | Submission Open

Keywords: pathogen detection; biosensors; microfluidics; molecular diagnostics; antimicrobial resistance; point-of-care testing; food safety; artificial Intelligence

One Health Approaches to Combat Antimicrobial Resistance in Veterinary

edited by

Marina Spinu

Luminita Costinar

and

Corina Pascu

submission deadline 30 Jun 2026 | Viewed by 69 | Submission Open

Keywords: antimicrobial resistance (AMR); one health approach; veterinary epidemiology; zoonotic pathogens; antimicrobial stewardship

(This special issue belongs to the Section Antimicrobial Agents and Resistance)

Secondary Metabolism of Microorganisms, 4th Edition

edited by

Carlos García-Estrada

and

Carlos Barreiro

submission deadline 30 Jun 2026 | Viewed by 65 | Submission Open

Keywords: microbial secondary metabolites; the regulation of secondary metabolism; communication between microbial communities

(This special issue belongs to the Section Microbial Biotechnology)

Poultry Pathogens and Poultry Diseases, 3rd Edition

edited by

Renfu Yin

and

Aleksandar Dodovski

submission deadline 30 Jun 2026 | Viewed by 54 | Submission Open

Keywords: poultry pathogens; poultry diseases; avian viruses and diseases

(This special issue belongs to the Section Veterinary Microbiology)

The Oral Microbiome in Health and Disease: A Focus on Periodontics, Implants, and Endodontics

edited by

Maria Pia Di Palo

, Giuseppina De Benedetto and Flora Salzano

submission deadline 30 Jun 2026 | Viewed by 47 | Submission Open

Keywords: periodontal microbiota; oral microbiota; antibiotic

(This special issue belongs to the Section Medical Microbiology)

State-of-the-Art Gut Microbiota in the USA (2026)

edited by

Carl Gordon Johnston

and

Todd Riley Callaway

submission deadline 30 Jun 2026 | Viewed by 34 | Submission Open

Keywords: structure and function of the microbiota; microbial community genetics; transcriptomics; proteomics and metabolomics; interaction within the microbiota; metabolic interaction with the host; inflammatory diseases; interaction with the immune system; microbial biodegradation of nutrients and xenobiotics; microbial ecology; microbial functions in the different habitats within the gut; metabolic flux analysis; analysis of functionalities by stable isotope probing (dna; rna and protein); model systems for studying microbiome biology; novel technologies for the analysis of structure and function of the microbiota

(This special issue belongs to the Section Gut Microbiota)

Surveillance of Pathogens in Wastewater

edited by Maria Clementina Caputo,

Osvalda De Giglio

and

Antonietta Celeste Turturro

submission deadline 30 Jun 2026 | Viewed by 29 | Submission Open

Keywords: water pollution; emerging pathogens; wastewater; antibiotic resistant bacteria (ARBs); antibiotic-resistant genes (ARGs); public health; porous media; climate change

(This special issue belongs to the Section Environmental Microbiology)

State-of-the-Art Antimicrobial Agents and Resistance in Japan (2025, 2026)

edited by

Hideo Kato

submission deadline 30 Jun 2026 | Viewed by 22 | Submission Open

Keywords: antimicrobial resistance; antimicrobial agents; drug discovery; stewardship; epidemiology; multidrug-resistant bacteria; infection control; surveillance; mechanism of action

(This special issue belongs to the Section Antimicrobial Agents and Resistance)

Bats and Their Microbial Diversity

edited by

Olivier Reynard

and

Larissa M Bueno

submission deadline 30 Jun 2026 | Viewed by 19 | Submission Open

Keywords: bat microbiome; microbial diversity; One Health; bat epidemiology; host– microbial dynamics; spillover risk

(This special issue belongs to the Section Veterinary Microbiology)

Detection and Analysis of Clinical Microbial Infections, Third Edition

edited by

Stefano Ravaioli

submission deadline 30 Jun 2026 | Viewed by 19 | Submission Open

Keywords: microorganisms’ detection and analysis; clinical microbiology; identification technologies; new identification methods; heterogeneous dissemination; unculturable pathogens; mixed microbial populations; new emerging pathogens; genomics; transcriptomics; proteomics; metabolomics; standardization of testing; sample data centralization

(This special issue belongs to the Section Medical Microbiology)

Pathogens of the Respiratory Tract Infections

edited by

Piotr B. Heczko

and

Jadwiga Wójkowska-Mach

submission deadline 30 Jun 2026 | Viewed by 16 | Submission Open

Keywords: respiratory tract infections; pathomechanisms; viruses; bacteria; pathogenic fungi; pneumonia; vaccines

(This special issue belongs to the Section Medical Microbiology)

Treatments Against Microorganisms of the Oral Cavity

edited by

Tulio Ferrisse

submission deadline 30 Jun 2026 | Viewed by 16 | Submission Open

Keywords: oral microbiota; biofilms; antimicrobial therapy; dental caries; periodontal disease; candidiasis; osteonecrosis

(This special issue belongs to the Section Medical Microbiology)

State-of-the-Art Medical Microbiology in Italy (2025, 2026)

edited by

Laura Di Renzo

submission deadline 30 Jun 2026 | Submission Open

Keywords: medical microbiology; pathogens; host-pathogen interaction; antimicrobial resistance; epidemiology; infectious diseases

(This special issue belongs to the Section Medical Microbiology)

Foodborne Pathogens in Complex Food Systems: Ecology, Surface Interactions, and Sustainable Control Strategies

edited by

Wilson Jose Fernandes Lemos Junior

submission deadline 30 Jun 2026 | Submission Open

Keywords: foodborne pathogens; microbial ecology; predictive models; packaging– pathogen interactions; plastics; metals; food-contact surfaces; ozone; ohmic heating; sustainable interventions; biofilms; food safety monitoring

(This special issue belongs to the Section Food Microbiology)

Diversity and Evolution of Plant and Fungal Viruses

edited by Nina J Aboughanem and

Sead Sabanadzovic

submission deadline 15 Jul 2026 | 1 articles | Viewed by 1734 | Submission Open

Keywords: viral diversity; viral evolution; plant viruses; fungal viruses; host– pathogen interactions; agricultural impact; ecological significance

(This special issue belongs to the Section Virology)

Contemporary Perspectives on Bacterial Virulence Factors

edited by Matthew Jackson and Kevin Theis

submission deadline 31 Jul 2026 | 3 articles | Viewed by 13818 | Submission Open

Keywords: bacterial pathogens; virulence factors; immune response; staphylococcus aureus; pseudomonas aeruginosa

(This special issue belongs to the Section Molecular Microbiology and Immunology)

Fungal Infections and Antifungal Agents

edited by

Stefanie Bressan Waller

submission deadline 31 Jul 2026 | 3 articles | Viewed by 3789 | Submission Open

Keywords: fungal infections; antifungal agents; antifungal drug discovery

(This special issue belongs to the Section Antimicrobial Agents and Resistance)

Emerging Pathogen Infections and Host Immune

edited by

Barbara Camilloni

submission deadline 31 Jul 2026 | 2 articles | Viewed by 1230 | Submission Open

Keywords: emerging pathogens; pathogen-associated molecular patterns; virulence factors; innate immunity; cellular response; humoral response; immunocompromised host

(This special issue belongs to the Section Molecular Microbiology and Immunology)

Emerging Infectious Diseases of Aquatic Organisms-Special Issue Dedicated to Dr. Rocco Cipriano

edited by Mohamed Faisal and

Thomas Loch

submission deadline 31 Jul 2026 | Viewed by 172 | Submission Open

Keywords: antimicrobial resistance; emerging pathogens of aquatic organisms; epidemiology; pathogenesis; immunology; disease ecology; role of climatic change in pathogen emergence; prevention and control; vaccine; metagenomic and metatranscriptomic analyses

(This special issue belongs to the Section Veterinary Microbiology)

Paramecium as Modern Model System, 2nd Edition

edited by

Masahiro Fujishima

submission deadline 31 Jul 2026 | Submission Open

Keywords: endosymbiosis; differentiation of macro- and micronucleus in Paramecium; environmental adaptation in Paramecium; Paramecium's water purification capacity; cilia; genome evolution; tubulin; proteomics; trafficking; calcium; secretio

(This special issue belongs to the Section Molecular Microbiology and Immunology)

Bacterial Infections and Antimicrobial Resistance in Animal Populations

edited by

Kwang Won Seo

submission deadline 31 Aug 2026 | 2 articles | Viewed by 3590 | Submission Open

Keywords: zoonotic foodborne bacteria; salmonellosis; antimicrobial resistance; virulence gene; multiple drug resistance; ESBL; beta-lactamases; PMQR; carbapenemases; MRSA

(This special issue belongs to the Section Veterinary Microbiology)

Rumen Microorganisms

edited by

Lizhuang Hao

and Jianbo Zhang

submission deadline 31 Aug 2026 | 1 articles | Viewed by 525 | Submission Open

Keywords: rumen microbiota; rumen microbial ecology; rumen microbial interactions; rumen microbial metabolism; absorption; and function; bioinformatics and omics; feed conversion efficiency (FCE); methane emission

(This special issue belongs to the Section Veterinary Microbiology)

State-of-the-Art Plant Microbe Interactions in Japan

edited by

Yasuhiro Ishiga

and

Nanami Sakata

submission deadline 31 Aug 2026 | Viewed by 36 | Submission Open

Keywords: disease protection; endophytes; endosymbiosis; epiphytes; lichens; mycorrhizae; nitrogen fixation; pathogens; pathogenesis; phosphate solubilization; rhizobacteria; rhizophagy cycle; stress tolerance; symbiosis

(This special issue belongs to the Section Plant Microbe Interactions)

State-of-the-Art Plant Microbe Interactions in South Korea (2025, 2026)

edited by

Taegun Seo

submission deadline 31 Aug 2026 | Viewed by 24 | Submission Open

(This special issue belongs to the Section Plant Microbe Interactions)

Microbiomes and Host Health: The Importance of Host Self-Completion with Microbiota

edited by

Rodney R. Dietert

submission deadline 31 Aug 2026 | Viewed by 24 | Submission Open

Keywords: chronic disease; colonization resistance; pathogens; and infections; systems biology; metabolism; physiology; and function; microbiome-first health; microbiota; microbial dysbiosis; life stages; domestic; agricultural; and environmental species; microbiome-toxic drugs and chemicals

(This special issue belongs to the Section Microbiomes)

Bacterial Infections and Antimicrobial Resistance

edited by Weihui Li

submission deadline 30 Sep 2026 | Viewed by 70 | Submission Open

Keywords: antimicrobial resistance; Mycobacterium tuberculosis; bacterial pathogenesis; multidrug-resistant bacteria; antibiotic resistance mechanisms; genomics; novel therapeutics; biofilm; diagnostics; public health

(This special issue belongs to the Section Antimicrobial Agents and Resistance)

Gut Microbiota Axes and Human Health

edited by

Peter C. Konturek

submission deadline 1 Oct 2026 | Viewed by 1 | Submission Open

Keywords: irritable bowel syndrome; chronic inflammatory bowel diseases; chronic liver diseases; skin diseases; cancer immuntherapy; chronic diseaes; autoimmune diseases; gut metabolites; gut barrier disturbance; allergic diseases; post-COVID-19; chronic lung diseases

(This special issue belongs to the Section Gut Microbiota)

New Crucial Pathogens and Antimicrobial Resistance in Animals, Communities, Hospitals and the Environment in the One Health Context

edited by Xuewen Li

submission deadline 31 Oct 2026 | Viewed by 132 | Submission Open

Keywords: antimicrobial resistance; one health; emerging contaminants; evolution; mutation

(This special issue belongs to the Section Antimicrobial Agents and Resistance)

Microorganisms in Silage—2nd Edition

edited by

Musen Wang

Marcia De Oliveira Franco

Qing Zhang

Siran Wang

and

Chunsheng Bai

submission deadline 31 Oct 2026 | Viewed by 84 | Submission Open

Keywords: ensiling; microbial community; microbial contamination; functional lactic acid bacteria; fermented feed

(This special issue belongs to the Section Food Microbiology)

Microbial Fuel Cells: Innovations in Bioenergy Conversion

edited by John Greenman and Robin Thorn

submission deadline 31 Oct 2026 | Viewed by 29 | Submission Open

Keywords: MFC; PMFC; MDC; bioelectricity; bioremediation; microbial biofilms; biofilm electrodes; physical and chemical sensors; elemental molecular recycling

(This special issue belongs to the Section Microbial Biotechnology)

Hydrothermal Microorganisms

edited by

Erika Arcadi

submission deadline 30 Nov 2026 | Viewed by 32 | Submission Open

Keywords: extremophiles; chemosynthesis; thermophiles; hydrothermal microbial communities; symbiosis; biohazard

(This special issue belongs to the Section Environmental Microbiology)

Pathogenesis, Virulence and Host Responses to Infections by Candida spp

edited by