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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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Advances in Bacterial Genetics and Evolution

edited by

Renato Fani

and

Anna Maria Puglia

submission deadline 31 Jul 2026 | Viewed by 342 | Submission Open

Keywords: bacterial genetics; environmental adaptation; gene and genome evolution; regulatory networks; host microbiome; bacterial interactions; biotechnology; bioinformatics

(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 208 | 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)

Bacterial Resistance and Adaptation in the Post-Antibiotic Ban Era

edited by

Abdelaziz Ed-Dra

and

Min Yue

submission deadline 31 Jul 2026 | Viewed by 192 | Submission Open

Keywords: impact of antibiotic bans; antibiotic use; antimicrobial resistance; antibiotic restrictions

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

Paramecium as Modern Model System, 2nd Edition

edited by

Masahiro Fujishima

submission deadline 31 Jul 2026 | Viewed by 100 | Submission Open

Keywords: mating type; lifespan; parasitism and endosymbiosis; nuclear differentiation; evolution of species and syngen; genome rearrangement; signal transduction; intracellular trafficking; ciliary movement; contractile vacuole; sexual reproduction; surface antigen; environmental adaptation; water purification; use as food

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

Microorganisms in Plastics and Bioplastics: Biodegradation, Biosynthesis, and Environmental Impacts

edited by

Alane Beatriz Vermelho

submission deadline 31 Jul 2026 | Viewed by 48 | Submission Open

Keywords: plastic pollution; bioplastics; biodegradation; biosynthesis; synthetic polymers; sustainable development

(This special issue belongs to the Section Environmental Microbiology)

Microbial Interactions and Community Assembly Mechanisms

edited by

Yulin Wang

submission deadline 31 Jul 2026 | Viewed by 35 | Submission Open

Keywords: microbial ecology; microbial interactions; microbial adaptation; community reassembly; symbiotic interactions; phage– bacteria interactions; multiomics; microbial network; microbial stability; inter-species communication

(This special issue belongs to the Section Microbiomes)

Microbial Biotechnology in Biofuels and Bioproducts

edited by Silvia González-Rojo

submission deadline 31 Jul 2026 | Viewed by 35 | Submission Open

Keywords: microbial biotechnology; agro industrial residues; biorefineries; biofuels; biogas; bioplastics; polyhydroxyalkanoates (PHAs); bio-based products; waste valorization; circular bioeconomy

(This special issue belongs to the Section Microbial Biotechnology)

State-of-the-Art Environmental Microbiology in China 2026

edited by

Zhiyong Li

submission deadline 31 Jul 2026 | Viewed by 23 | Submission Open

Keywords: structure and function of microbial communities; microbial community genetics; transcriptomics; proteomics and metabolomics; microbial interaction; microbial communication; microbial ecology; microbial population biology; biogeochemical processes (C; N; P; S cycles); microbial life in extreme environments; evolutionary processes of microbial communities; biofilm formation and the surfaces of microbes; metabolic flux analysis and stable isotope probing (DNA; RNA and protein); microbiome biology of environmental habitats (e.g.; soil; rhizosphere or aquifer); microbial treatment: microbial biodegradation; microbial bioremediation; microbial and waste recycling; microbial pesticide; microbial fertilizer; etc.; microbial pollution: pathogenic microorganisms in the environment (water/soil/air/food); microbial metabolism and environmental pollution (e.g.; microbial toxin); etc.; microbiological monitoring: testing method and monitoring technique development

(This special issue belongs to the Section Environmental Microbiology)

Non-Tuberculous Mycobacteria: Emerging Diseases and Health Impacts, 2nd Edition

edited by

Roger Pickup

and

Gaurav Agrawal

submission deadline 31 Jul 2026 | Viewed by 14 | Submission Open

Keywords: Nontuberculous mycobacteria (NTM); Mycobacterium avium (M. avium); Mycobacterium abscessus (M. abscessus); Mycobacterium ulcerans; Mycobacterium chelonae; Mycobacterium chimaera

(This special issue belongs to the Section Medical Microbiology)

Bacterial Infections and Antimicrobial Resistance in Animal Populations

edited by

Kwang Won Seo

submission deadline 31 Aug 2026 | 2 articles | Viewed by 4079 | 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 | 5 articles | Viewed by 2194 | 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)

Microbe-Plant-Environment Interactions over Time

edited by

Phatu Mashela

submission deadline 31 Aug 2026 | Viewed by 377 | Submission Open

Keywords: microbe– plant– environment interaction; crops; plant pathogen

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

Molecular Mechanisms of Mammalian Intra-Amniotic Infection

edited by Matthew Jackson and Kevin Theis

submission deadline 31 Aug 2026 | Viewed by 98 | Submission Open

Keywords: intra-amniotic infections; microbes; pathogenic mechanisms

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

Advances in Veterinary Microbiology—2nd Edition

edited by

Simone Peletto

submission deadline 31 Aug 2026 | Viewed by 73 | Submission Open

Keywords: African swine fever virus; bluetongue virus; arboviruses; microbiota; metagenomics; brucellosis

(This special issue belongs to the Section Veterinary Microbiology)

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

edited by

Taegun Seo

submission deadline 31 Aug 2026 | Viewed by 66 | 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 Japan

edited by

Yasuhiro Ishiga

and

Nanami Sakata

submission deadline 31 Aug 2026 | Viewed by 62 | 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 55 | 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)

Biotechnological Advances in Cold-Adapted Marine Microorganisms

edited by

Ermenegilda Parrilli

and

Concetta Lauro

submission deadline 31 Aug 2026 | Viewed by 28 | Submission Open

Keywords: cold-adapted microorganisms; extremophiles; polar microbiology; marine biotechnology; cold-active enzymes; bioprospecting; secondary metabolites; environmental adaptation; marine natural products

Interactions Between Gut Microbiota and Its Host in Health and Diseases

edited by Anthony M. Buckley, Ioan-Tiberiu Tofolean, Luana Alexandrescu and

Andreea Nelson-Twakor

submission deadline 31 Aug 2026 | Viewed by 17 | Submission Open

Keywords: gut microbiota; host– microbe interactions; dysbiosis; microbial metabolism; immune modulation; microbiome– host signaling; chronic inflammatory diseases; metabolic disorders; microbiota-targeted therapies; multi-omics approaches

(This special issue belongs to the Section Gut Microbiota)

Research on Diseases of Aquatic Organisms, Second Edition

edited by

Guilherme Tavares

submission deadline 31 Aug 2026 | Viewed by 12 | Submission Open

Keywords: conservation and welfare of aquatic animals; ecotoxicology of aquatic environments; amphibian health and diseases; crustacean health and diseases; fish health and diseases; health and diseases of bivalve mollusks; health and diseases of other aquatic animals

(This special issue belongs to the Section Veterinary Microbiology)

From Plants to Microbes: Bioprospecting Phytobiotics for Next-Generation Natural Products

edited by

Panagiota Stathopoulou

and

Elias Asimakis

submission deadline 31 Aug 2026 | Viewed by 12 | Submission Open

Keywords: phytobiotics; biopesticides; antimicrobial activity; antioxidant activity; plant extracts; antibiotic resistance; cytotoxicity; sustainable agriculture; sustainable aquaculture; environmentally friendly; bioprospecting

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

Microbial Safety and Molecular Detection in Food Production and Processing

edited by

Julio Parra-Flores

submission deadline 15 Sep 2026 | Viewed by 344 | Submission Open

Keywords: microbiological quality of foods; pathogens and opportunistic foodborne pathogens; molecular epidemiology of foodborne illness; molecular characterization of foodborne pathogens; biofilm; sanitizers; and control of pathogens in food production plants; virulence factors; antibiotic resistance

(This special issue belongs to the Section Food Microbiology)

From Sewers to Solutions: Wastewater Surveillance in the Fight Against Antimicrobial Resistance

edited by Mohamed M. H. Abdelbary,

Guido Werner

and Kazunari Sei

submission deadline 30 Sep 2026 | 2 articles | Viewed by 2005 | Submission Open

Keywords: AMR pathogens in wastewater; carbapenem-resistant enterobacterales; wastewater resistome; culture-based detection; molecular methodologies for pathogens detection; digital PCR; hospital and urban Wastewater; wastewater microbiome; mobile genetic elements; AMR plasmids

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

Bacterial Infections and Antimicrobial Resistance

edited by Weihui Li

submission deadline 30 Sep 2026 | Viewed by 114 | 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 73 | 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 153 | 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 | 1 articles | Viewed by 121 | 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 69 | 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 60 | 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