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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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Microbiome- and Host-Mediated Effects of Prebiotics in Foods and Feeds

edited by

Ian Connerton

and Adam Lee

submission deadline 31 Dec 2025 | 1 articles | Viewed by 2293 | Submission Open

Keywords: prebiotics; gut microbiota; gut health; gut architecture; gut immunomodulation; beneficial microbes; oligosaccharides; microbiome manipulation

(This special issue belongs to the Section Food Microbiology)

Bioinformatics and Omic Data Analysis in Microbial Research, 2nd Edition

edited by

Douglas D. Rhoads

submission deadline 31 Dec 2025 | 2 articles | Viewed by 2052 | Submission Open

Keywords: bioinformatics; microorganisms; genomics; proteomics; metabolomics; software pipelines

(This special issue belongs to the Section Microbiomes)

Microbiome Research for Animal, Plant and Environmental Health: Second Edition

edited by

Alex Galanis

and

Aglaia Pappa

submission deadline 31 Dec 2025 | 2 articles | Viewed by 2047 | Submission Open

Keywords: environmental microbiome; soil microbiome; rhizobiome; host– microbe interactions; microbiome manipulation; sustainable agriculture

(This special issue belongs to the Section Microbiomes)

Novel Antimicrobial Approaches in Biofilm Control in the Food Industry: Future Perspectives

edited by

Ružica Tomičić

and

Meta Sterniša

submission deadline 31 Dec 2025 | 3 articles | Viewed by 2046 | Submission Open

Keywords: microbial growth; biofilm formation; antimicrobial strategies; food industry; combined treatments

(This special issue belongs to the Section Biofilm)

Microbiological Approaches to Water Pollution Control and Water Ecological Restoration

edited by

Haiya Zhang

Weigao Zhao

and

Xiaoou Wang

submission deadline 31 Dec 2025 | 3 articles | Viewed by 1771 | Submission Open

Keywords: microbial bioremediation; aquatic microbiome; nutrient removal (nitrogen/phosphorus); biofilm-mediated purification; artificial wetland microbiology; biochar-enhanced wastewater treatment; microbial fuel cells (MFCs); emerging contaminants degradation; microbial ecology in water distribution systems; climate-resilient water restoration

(This special issue belongs to the Section Microbial Biotechnology)

Interplays Between Gut Microbiome and Animal Health, Disease and Production Performance

edited by Shi-Yi Chen

submission deadline 31 Dec 2025 | 1 articles | Viewed by 1711 | Submission Open

Keywords: gut microbiota; host health and disease; production traits; domestic animals; microbiability; microbial heritability

(This special issue belongs to the Section Veterinary Microbiology)

The Host Response to Animal Virus Infection

edited by Liwei Li

submission deadline 31 Dec 2025 | 2 articles | Viewed by 1697 | Submission Open

Keywords: respiratory virus; coronavirus; emerging pathogens in animals; host immune response; innate immunity; neutralizing antibody; non-coding RNA; viral infection; antiviral agents; antiviral strategy

(This special issue belongs to the Section Veterinary Microbiology)

Fungi and Health

edited by

Jialing Bao

submission deadline 31 Dec 2025 | 1 articles | Viewed by 1571 | Submission Open

Keywords: fungi; human health; human pathogenic fungi; Aspergillus fumigatus; Cryptococcus neoformans and gattii; Candida albicans spp.; Coccidioides spp.; Microsporidia phylum; diagnostic methods; clinical data

(This special issue belongs to the Section Medical Microbiology)

Beneficial Microbes: Food, Mood and Beyond—Third Edition

edited by

Mohamed Zommiti

and

Marc G. J. Feuilloley

submission deadline 31 Dec 2025 | 1 articles | Viewed by 1251 | Submission Open

Keywords: prebiotics; probiotics; postbiotics; parabiotics; psycho-biotics; food; mood; benefactions; safety; antibiotics; neurotransmitters; humans; animals

Novel Sequencing Technologies for the Characterization of Multidrug-Resistant Bacteria

edited by

Costas C. Papagiannitsis

submission deadline 31 Dec 2025 | 1 articles | Viewed by 1242 | Submission Open

Keywords: antimicrobial resistance (AMR) genomics; next-generation sequencing (NGS); mobile genetic elements (plasmids/transposons); resistome profiling; One Health surveillance; metagenomic AMR detection; long-read sequencing (e.g.; Nanopore/PacBio); bioinformatic pipelines for AMR; nosocomial pathogen transmission; precision antimicrobial stewardship

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

Food- and Waterborne Pathogens: Epidemiology, Genomics, Virulence, and Resistance Profiles, 2nd Edition

edited by

Angela Pista

and

Rita Batista

submission deadline 31 Dec 2025 | 1 articles | Viewed by 1149 | Submission Open

Keywords: antimicrobial resistance; mobile genetic elements; persistence and biofilms; whole-genome sequencing; public health and epidemiology; trends of microbial pathogens; influence of environmental changes in gene expression; animal health; food safety; water quality; prevention and control of food- and waterborne pathogens

(This special issue belongs to the Section Environmental Microbiology)

The Interactions Between Nutrients and Microbiota

edited by

Renata Barczyńska-Felusiak

and

Agnieszka Rudzka

submission deadline 31 Dec 2025 | 1 articles | Viewed by 1090 | Submission Open

Keywords: diet; nutrients; microbiota; human health

(This special issue belongs to the Section Food Microbiology)

Microbiota and Microbiomes in Plants, Animals and Environment: A One Health Perspective—Second Edition

edited by Moussa Diarra and

Wen Chen

submission deadline 31 Dec 2025 | 1 articles | Viewed by 1005 | Submission Open

Keywords: microbiota/microbiome; antimicrobial; disease and health; environment; climate; One Health approach

Current Updates on Multidrug-Resistant Gram-Negative Bacterial Infections

edited by

Maria Balasoiu

and Andreea-Loredana Golli

submission deadline 31 Dec 2025 | 1 articles | Viewed by 962 | Submission Open

Keywords: antimicrobial resistance; gram-negative bacterial infections; pathogens; Acinetobacter baumannii; hospital-acquired infections

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

Microparasites: Diversity, Phylogeny and Molecular Characterization

edited by Alena Mayo Iniguez

submission deadline 31 Dec 2025 | 1 articles | Viewed by 792 | Submission Open

Keywords: parasitology; diversity; molecular biology; phylogeny; genomics; paleogenetics; taxonomy

(This special issue belongs to the Section Environmental Microbiology)

Role of Microbes in the Remediation of Pollutants in the Environment, 2nd Edition

edited by Lilan Zhang and Xiaowei Liu

submission deadline 31 Dec 2025 | 1 articles | Viewed by 744 | Submission Open

Keywords: bioremediation; bacteria; archaea; fungi; microalgae; viruses; petroleum hydrocarbons; heavy metals; emerging pollutants; experimental biostimulation and bioaugmentation; bioindicators and biosensors; microbial and microbiome engineering; biosurfactants; hydrocarbon-degrading enzymes

(This special issue belongs to the Section Environmental Microbiology)

Microbial Biofilms and Biofouling

edited by

James S. Maki

submission deadline 31 Dec 2025 | 1 articles | Viewed by 715 | Submission Open

Keywords: microbial attachment; biofilm formation; microbial extracellular production of cues; interactions between all microbes in a natural biofilm community; sessile invertebrate larvae; algal zoospores

(This special issue belongs to the Section Environmental Microbiology)

Gene Expression Profiling in Leishmania: From Basic Research to Vaccines and Drug Targets

edited by

Pedro José Alcolea

and Ana M. Alonso

submission deadline 31 Dec 2025 | Viewed by 632 | Submission Open

Keywords: Leishmania spp.; genomics; transcriptomics; proteomics; promastigotes; amastigotes; extracellular vesicles; vaccine candidates; drug target candidates; meta-analysis

(This special issue belongs to the Section Medical Microbiology)

New Developments in Virus Detection and Disinfection in the Environment

edited by

Jinge Huang

and Xiuping Jiang

submission deadline 31 Dec 2025 | 1 articles | Viewed by 486 | Submission Open

Keywords: virus; environmental surface; air; water; detection; disinfection

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

Breaking Barriers: The Breakdown of Epithelial Defenses by Pathogens

edited by

Karen Bohmwald

submission deadline 31 Dec 2025 | 1 articles | Viewed by 437 | Submission Open

Keywords: epithelial barrier; blood– brain barrier; barrier breakdown; pathogen invasion; tight junctions; endothelial cells; mucosal immunity; host– pathogen interaction; epithelial remodeling; neuroinvasion; respiratory tract

(This special issue belongs to the Section Medical Microbiology)

Resistance of Gram-Negative Bacteria to Last-Resort Antibacterials

edited by Sophia Vourli

submission deadline 31 Dec 2025 | Viewed by 420 | Submission Open

Keywords: last-resort antimicrobials; mechanisms of resistance to new antimicrobials; PK/PD of new and old antimicrobials; combination therapy; resistance genomics

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

Microbe-Plant-Environment Interactions over Time

edited by

Phatu Mashela

submission deadline 31 Dec 2025 | Viewed by 368 | Submission Open

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

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

Rare Human Pathogens

edited by Percy Schröttner

submission deadline 31 Dec 2025 | Viewed by 339 | Submission Open

Keywords: rare; pathogen; diseases; pathogenic bacteria

(This special issue belongs to the Section Medical Microbiology)

Diagnosis, Treatment, and Prevention of Biofilm Infections—How to Proceed?

edited by Niels Høiby and Claus Moser

submission deadline 31 Dec 2025 | Viewed by 290 | Submission Open

Keywords: biofilm; biofilm infections; chronic infections; foreign body infections; implant infections

(This special issue belongs to the Section Biofilm)

Bloodstream Infection: Common and Uncommon Pathogens

edited by Carola Mauri

submission deadline 31 Dec 2025 | Viewed by 269 | Submission Open

Keywords: bloodstream infection (BSI); pathogens; antibiotic resistance; new drugs

(This special issue belongs to the Section Medical Microbiology)

Human Microbiome and Microbial Ecology of Oral Diseases

edited by

Ana Pucar

and Sanja Matić Petrović

submission deadline 31 Dec 2025 | Viewed by 220 | Submission Open

Keywords: oral microbiome; biofilms; dysbiosis; antimicrobial strategies; host– microbiota interactions

(This special issue belongs to the Section Microbiomes)

Parasitic Diseases in Livestock, 2nd Edition

edited by

Aleksandra Uzelac

Luca Villa

and

Ivana Klun

submission deadline 31 Dec 2025 | Viewed by 217 | Submission Open

Keywords: epidemiology of parasitic diseases in the livestock industry; impact of parasites on herd economy; zoonotic parasites of livestock; molecular characterization and influence on virulence; implementation of innovative tools for diagnostics; treatment and drug resistance; control and prevention

(This special issue belongs to the Section Veterinary Microbiology)

Probiotic and Postbiotic Properties of Lactobacillus, 2nd Edition

edited by

Sang-Ho Baik

submission deadline 31 Dec 2025 | Viewed by 212 | Submission Open

Keywords: Lactobacillus; probiotics; postbiotics; novel probiotic properties; next-generation probiotics

(This special issue belongs to the Section Food Microbiology)

Gut Microbiota and Metabolic Disease Pathogenesis

edited by

Gerald Maarman

submission deadline 31 Dec 2025 | Viewed by 197 | Submission Open

Keywords: gut microbiota dynamics (structural/morphological/anatomical changes; eubiosis; and dysbiosis); exploring healthy gut microbiota; gut microbiota; host genetics; and epigenetics; gut microbiota shotgun metagenomics; single-cell sequencing; CRISPR editing; and spatial profiling; transcriptomics; proteomics; and metabolomics; mitochondrial bioenergetics and metabolism; mitochondrial signaling; personalized and precision microbiome therapies; microbial metabolites as therapeutics; gut– brain axis and neuroactive microbes; gut– brain axis in cardio-pulmonary vascular diseases; gut involvement in metabolic diseases; gut microbiota in immune-oncology and cancer

(This special issue belongs to the Section Gut Microbiota)

Microbiome Innovations in Food Systems for a Green Future

edited by

and

submission deadline 31 Dec 2025 | Viewed by 195 | Submission Open

Keywords: soil fertility; climate change; crop resilience; sustainable food processes; global food security; alternative protein production; dietary sustainability; food preservation; functional foods; human and animal health; waste management; circular economy; sustainable food policies and regulations

(This special issue belongs to the Section Microbiomes)

State-of-the-Art Environmental Microbiology in Canada 2025, 2026

edited by

Cassandre Lazar

submission deadline 31 Dec 2025 | Viewed by 193 | Submission Open

Keywords: microorganisms; environment; microbial communication; microbial ecology; biodegradation; bioremediation

(This special issue belongs to the Section Environmental Microbiology)

State of the Art of Gut Microbiota in Italy (2025, 2026)

edited by

Maddalena Rossi

and Francesco Candeliere

submission deadline 31 Dec 2025 | Viewed by 185 | Submission Open

Keywords: metagenomics; genomics; gut microbiota; probiotics; microbial ecology; microbial biotechnology

(This special issue belongs to the Section Gut Microbiota)

Anaerobic Gut Fungi: Ecological Role and Biotechnological Potential

edited by Radwa Hanafy

submission deadline 31 Dec 2025 | Viewed by 183 | Submission Open

Keywords: anaerobic gut fungi; neocallimastigomycota; CAZymes; rumen microbiome; microbial symbiosis; methanogenesis; host– microbe interaction; bioenergy; fungal biotechnology

(This special issue belongs to the Section Gut Microbiota)

Chemolithoautotrophic Microorganisms—Pioneers of Biospheric Evolution and Sustainable Biotechnology

edited by Lijing Jiang

submission deadline 31 Dec 2025 | Viewed by 178 | Submission Open

Keywords: chemolithoautotrophic microorganisms; ancient metabolic pathways; extreme environmental; microbial– mineral interactions; industrial applications; extraterrestrial life

(This special issue belongs to the Section Environmental Microbiology)

Bacterial Resistance and Adaptation in the Post-Antibiotic Ban Era

edited by

Abdelaziz Ed-Dra

and

Min Yue

submission deadline 31 Dec 2025 | Viewed by 178 | Submission Open

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

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

Advances in the Human Oral Microbiome: From Ecology to Precision Therapeutics

edited by

Dennis Cvitkovitch

submission deadline 31 Dec 2025 | Viewed by 170 | Submission Open

Keywords: oral microbiome; biofilm ecology; multi-omics profiling; host– microbe interactions; precision therapeutics; salivary diagnostics; dysbiosis and disease; probiotics and phage therapy; spatial imaging; oral– systemic axis

(This special issue belongs to the Section Microbiomes)

Exploring the Gut–Brain Axis in Dementia: Biomarkers, Microbiota, and Machine Learning Approaches

edited by

Bing-Mu Hsu

submission deadline 31 Dec 2025 | Viewed by 168 | Submission Open

Keywords: gut-brain axis; microbiota; biomarkers; machine learning; dementia

(This special issue belongs to the Section Gut Microbiota)

Infectious Disease in Companion Animals

edited by

Olga Szalus̈-Jordanow

submission deadline 31 Dec 2025 | Viewed by 156 | Submission Open

Keywords: companion animals; veterinary medicine; infectious diseases

(This special issue belongs to the Section Veterinary Microbiology)

Antimicrobial Research: In Silico Strategies for Drug Discovery Against Microbial Infections

edited by

Alejandro Speck-Planche

submission deadline 31 Dec 2025 | Viewed by 152 | Submission Open

Keywords: antibacterial; antifungal; antiparasitic; antiviral; AI/machine learning; QSAR; complex network analysis; ligand-based drug discovery; structure-based drug discovery; de novo design; molecular modeling; chemoinformatics

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

Diagnostic and Molecular Epidemiology of Infectious Diseases in Veterinary Medicine

edited by Seyed Ali Ghorashi

submission deadline 31 Dec 2025 | Viewed by 151 | Submission Open

Keywords: ⁠veterinary medicine; ⁠veterinary science; ⁠veterinary pathology; ⁠molecular epidemiology; ⁠animal science; veterinary diagnostics; molecular diagnostics; infectious diseases; point-of-care testing; animal pathogens; zoonotic diseases; molecular typing; surveillance and monitoring; veterinary microbiology; diagnostic assay development; rapid diagnostics; veterinary pathogens; wildlife microbiology

(This special issue belongs to the Section Veterinary Microbiology)

Integrative Metabolic Modelling of Bacterial Systems in Microbiome Contexts: From Genomes to Community Functions

edited by Arianna Basile

submission deadline 31 Dec 2025 | 1 articles | Viewed by 149 | Submission Open

Keywords: microbiome; multi-omics; microbial communities; metabolic modelling; bioinformatics tools

(This special issue belongs to the Section Microbiomes)

Engineering of Microbial Factories for the Production of Useful Compounds

edited by

Yun-Peng Chao

and

Chung-Jen Chiang

submission deadline 31 Dec 2025 | Viewed by 142 | Submission Open

Keywords: microbial factories; metabolic engineering; synthetic biology; sustainable bioprocess

(This special issue belongs to the Section Microbial Biotechnology)

Marine Agricultural Microorganisms

edited by

Donglin Zhao

submission deadline 31 Dec 2025 | Viewed by 126 | Submission Open

Keywords: marine agricultural microorganisms; natural products; microbial pesticides; microbial fertilizers; microbial stimulants

(This special issue belongs to the Section Environmental Microbiology)

Unraveling the Mysteries of Gut Microbiota to Advance Sustainable Aquaculture

edited by Qunlan Zhou

submission deadline 31 Dec 2025 | Viewed by 126 | Submission Open

Keywords: gut microbiota; functional probiotics; immunity; nutrition; multi-omics

(This special issue belongs to the Section Gut Microbiota)

Sexually Transmitted Infections and Host Immune Response

edited by MacIej Pastuszczak

submission deadline 31 Dec 2025 | Viewed by 123 | Submission Open

Keywords: host immune response; syphilis; gonorrhea; non-gonococcal infections; HIV; STI

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

Microbial Community Structure and Functions in Marine Sediments

edited by

Asunción Lago-Lestón

submission deadline 31 Dec 2025 | Viewed by 121 | Submission Open

Keywords: sediment microbiome; marine microbial ecology; deep-sea sediments; coastal sediments; biogeochemical cycles; metagenomics

(This special issue belongs to the Section Environmental Microbiology)

Biofilms and Implantable Device-Related Infections

edited by

Felipe Francisco Tuon

submission deadline 31 Dec 2025 | Viewed by 110 | Submission Open

Keywords: biofilm formation; implant-associated infections; medical devices; antimicrobial resistance; infection prevention

(This special issue belongs to the Section Biofilm)

Environmental Microbes in Antimicrobial Resistance and Soil Pollution Mitigation

edited by Yan Wang

submission deadline 31 Dec 2025 | Viewed by 107 | Submission Open

Keywords: antimicrobial resistance; genes; microbial bioremediation; soil; microbial communities; pollutant degradation; bioremediation

(This special issue belongs to the Section Environmental Microbiology)

The Gut–CKD Axis: Thinking Outside the Box

edited by

Julie Kemp

Denise Mafra

and Marcia Ribeiro

submission deadline 31 Dec 2025 | Viewed by 107 | Submission Open

Keywords: gut microbiota; cardiometabolic diseases; cardiovascular disease; diabetes; kidney disease; immune responses; host metabolism; microbiota-targeted therapies

(This special issue belongs to the Section Gut Microbiota)

Nanoparticle-Based Vaccines and Therapeutics for Multidrug-Resistant Pathogens

edited by

Victor Nizet

and Elisabet Bjånes

submission deadline 31 Dec 2025 | Viewed by 103 | Submission Open

Keywords: antimicrobial resistance; nanotherapeutic; nanovaccine; nanomedicine; pathogen; multidrug resistance

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

Displaying special issue 51-100 on page 2 of 12.

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