Special Issues

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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Plant-Microbe Interactome: The Green Dialogue Within the Plant Holobiont submission deadline 31 Dec 2025 | 3 articles | Viewed by 2410 | Submission Open
Keywords: soil microbiome; plant holobiont; one health; sustainable agriculture
(This special issue belongs to the Section Plant Microbe Interactions)
Applied Gut Molecular Microbiology Technology
edited by and
submission deadline 31 Dec 2025 | 1 articles | Viewed by 2397 | Submission Open
Keywords: gut microorganisms; applied microbiology; probiotics
(This special issue belongs to the Section Microbial Biotechnology)
Host–Microbiome Cross-Talk in Cancer Development and Progression
edited by
submission deadline 31 Dec 2025 | 2 articles | Viewed by 1958 | Submission Open
Keywords: dietary factors; epigenetic responses; bioinformatic and deep learning techniques; therapy; tumor microenvironment; microbiome-targeted therapies
(This special issue belongs to the Section Microbiomes)
Microbiome- and Host-Mediated Effects of Prebiotics in Foods and Feeds
edited by and Adam Lee
submission deadline 31 Dec 2025 | 1 articles | Viewed by 1688 | 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)
Resource Utilization of Microorganisms: Fermentation and Biosynthesis
edited by Shoushuai Feng
submission deadline 31 Dec 2025 | 2 articles | Viewed by 1599 | Submission Open
Keywords: industrial microorganisms resources; microbial physiological traits; fermentation optimization; synthetic biology; sustainability application
(This special issue belongs to the Section Microbial Biotechnology)
Advances in Novel Antibacterial Agents, 2nd Edition
edited by Mariateresa Vitiello
submission deadline 31 Dec 2025 | 1 articles | Viewed by 1573 | Submission Open
Keywords: bacterial infections; multidrug-resistant bacteria; antimicrobials; natural products; resistance mechanisms
(This special issue belongs to the Section Antimicrobial Agents and Resistance)
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 1437 | 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)
Bioinformatics and Omic Data Analysis in Microbial Research, 2nd Edition
edited by
submission deadline 31 Dec 2025 | 2 articles | Viewed by 1409 | Submission Open
Keywords: bioinformatics; microorganisms; genomics; proteomics; metabolomics; software pipelines
(This special issue belongs to the Section Microbiomes)
Fungi and Health
edited by
submission deadline 31 Dec 2025 | 1 articles | Viewed by 1359 | 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)
The Epidemiology, Clinical Aspects, Treatment and Preventive Strategies for Infectious Diseases in the Era of Antimicrobial Resistance (AMR)
edited by Victoria Birlutiu
submission deadline 31 Dec 2025 | 1 articles | Viewed by 1351 | Submission Open
Keywords: antimicrobial resistance (AMR); multidrug-resistant bacteria; antifungal resistance; infectious disease epidemiology; clinical microbiology; rapid diagnostics; biofilm-related infections; antimicrobial stewardship; infection prevention; resistance surveillance
(This special issue belongs to the Section Antimicrobial Agents and Resistance)
From Sewers to Solutions: Wastewater Surveillance in the Fight Against Antimicrobial Resistance
edited by Mohamed M. H. Abdelbary, and Kazunari Sei
submission deadline 31 Dec 2025 | 1 articles | Viewed by 1314 | 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)
Research on Airborne Microbial Communities
edited by
submission deadline 31 Dec 2025 | 1 articles | Viewed by 1246 | Submission Open
Keywords: atmospheric microorganisms; bioaerosol; microbial community; air pollutant; climate change
(This special issue belongs to the Section Environmental Microbiology)
The Pathogenesis, Epidemiology and Diagnosis of Infectious Diseases in Livestock Animals, 2nd Edition submission deadline 31 Dec 2025 | 1 articles | Viewed by 1142 | Submission Open
Keywords: pathogenesis; epidemiology; diagnosis; livestock animals; infectious diseases
(This special issue belongs to the Section Veterinary Microbiology)
Laboratory Diagnosis and Epidemiology of Clinical Microbial Infections
edited by
submission deadline 31 Dec 2025 | 1 articles | Viewed by 1099 | Submission Open
Keywords: infectious disease; laboratory diagnosis; epidemiology
(This special issue belongs to the Section Medical Microbiology)
The Host Response to Animal Virus Infection
edited by Liwei Li
submission deadline 31 Dec 2025 | 1 articles | Viewed by 1086 | 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)
Microbiome Research for Animal, Plant and Environmental Health: Second Edition
edited by and
submission deadline 31 Dec 2025 | 2 articles | Viewed by 1067 | Submission Open
Keywords: environmental microbiome; soil microbiome; rhizobiome; host– microbe interactions; microbiome manipulation; sustainable agriculture
(This special issue belongs to the Section Microbiomes)
HIV Infections: Diagnosis and Drug Uses submission deadline 31 Dec 2025 | 1 articles | Viewed by 1066 | Submission Open
Keywords: HIV prevention and vaccines; drug resistance; HIV-1 coinfections; HIV diagnosis; natural products as antiviral agents; immunomodulation
(This special issue belongs to the Section Virology)
Microbiological Approaches to Water Pollution Control and Water Ecological Restoration submission deadline 31 Dec 2025 | 1 articles | Viewed by 1008 | 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)
Meningococcal Infections submission deadline 31 Dec 2025 | 1 articles | Viewed by 990 | Submission Open
Keywords: meningococcal infections; N. meningitidis; IMD; atypical presentations; IMD epidemiology; N. meningitidis vaccines
(This special issue belongs to the Section Molecular Microbiology and Immunology)
Beneficial Microbes: Food, Mood and Beyond—Third Edition submission deadline 31 Dec 2025 | 1 articles | Viewed by 983 | 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 submission deadline 31 Dec 2025 | 1 articles | Viewed by 961 | 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)
Novel Antimicrobial Approaches in Biofilm Control in the Food Industry: Future Perspectives submission deadline 31 Dec 2025 | 1 articles | Viewed by 899 | Submission Open
Keywords: microbial growth; biofilm formation; antimicrobial strategies; food industry; combined treatments
(This special issue belongs to the Section Biofilm)
Food- and Waterborne Pathogens: Epidemiology, Genomics, Virulence, and Resistance Profiles, 2nd Edition
edited by and
submission deadline 31 Dec 2025 | 1 articles | Viewed by 896 | 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)
Microbiota and Microbiomes in Plants, Animals and Environment: A One Health Perspective—Second Edition
edited by Moussa Diarra and
submission deadline 31 Dec 2025 | 1 articles | Viewed by 822 | Submission Open
Keywords: microbiota/microbiome; antimicrobial; disease and health; environment; climate; One Health approach
The Interactions Between Nutrients and Microbiota submission deadline 31 Dec 2025 | 1 articles | Viewed by 820 | Submission Open
Keywords: diet; nutrients; microbiota; human health
(This special issue belongs to the Section Food Microbiology)
Fruit Wine Fermentation and Microbial Communities
edited by
submission deadline 31 Dec 2025 | 1 articles | Viewed by 771 | Submission Open
Keywords: fruit wine; fermentation; lactic acid bacteria; yeast; microbial diversity; flavor; volatile compounds; metabolites
(This special issue belongs to the Section Food Microbiology)
Gene Expression Profiling in Leishmania: From Basic Research to Vaccines and Drug Targets
edited by and Ana M. Alonso
submission deadline 31 Dec 2025 | Viewed by 611 | 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)
Current Updates on Multidrug-Resistant Gram-Negative Bacterial Infections
edited by and Andreea-Loredana Golli
submission deadline 31 Dec 2025 | 1 articles | Viewed by 607 | 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 585 | 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 | Viewed by 402 | 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)
Resistance of Gram-Negative Bacteria to Last-Resort Antibacterials
edited by Sophia Vourli
submission deadline 31 Dec 2025 | Viewed by 396 | 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)
Trichomonas vaginalis and Trichomoniasis: Biomarkers and Possible Pharmacological Alternatives submission deadline 31 Dec 2025 | Viewed by 371 | Submission Open
Keywords: trichomoniasis in men; biomarkers; pharmaceutical alternatives
(This special issue belongs to the Section Medical Microbiology)
Microbial Biofilms and Biofouling
edited by
submission deadline 31 Dec 2025 | Viewed by 367 | 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)
Microbe-Plant-Environment Interactions over Time
edited by
submission deadline 31 Dec 2025 | Viewed by 350 | 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 332 | 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 230 | 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 215 | 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 and Sanja Matić Petrović
submission deadline 31 Dec 2025 | Viewed by 189 | Submission Open
Keywords: oral microbiome; biofilms; dysbiosis; antimicrobial strategies; host– microbiota interactions
(This special issue belongs to the Section Microbiomes)
Probiotic and Postbiotic Properties of Lactobacillus, 2nd Edition
edited by
submission deadline 31 Dec 2025 | Viewed by 178 | Submission Open
Keywords: Lactobacillus; probiotics; postbiotics; novel probiotic properties; next-generation probiotics
(This special issue belongs to the Section Food Microbiology)
Microbial Nutrient Cycling Mechanisms
edited by
submission deadline 31 Dec 2025 | Viewed by 176 | Submission Open
Keywords: microbes; nutrient cycling; mechanism; carbon; nitrogen; phosphorus; sulfur; environmental factors; biotechnology applications
(This special issue belongs to the Section Environmental Microbiology)
Gut Microbiota and Metabolic Disease Pathogenesis
edited by
submission deadline 31 Dec 2025 | Viewed by 173 | 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)
Anaerobic Gut Fungi: Ecological Role and Biotechnological Potential
edited by Radwa Hanafy
submission deadline 31 Dec 2025 | Viewed by 170 | 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)
Parasitic Diseases in Livestock, 2nd Edition submission deadline 31 Dec 2025 | Viewed by 166 | 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)
Microbiome Innovations in Food Systems for a Green Future submission deadline 31 Dec 2025 | Viewed by 163 | 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)
Bacterial Resistance and Adaptation in the Post-Antibiotic Ban Era
edited by and
submission deadline 31 Dec 2025 | Viewed by 154 | Submission Open
Keywords: impact of antibiotic bans; antibiotic use; antimicrobial resistance; antibiotic restrictions
(This special issue belongs to the Section Antimicrobial Agents and Resistance)
State-of-the-Art Environmental Microbiology in Canada 2025, 2026
edited by
submission deadline 31 Dec 2025 | Viewed by 146 | Submission Open
Keywords: microorganisms; environment; microbial communication; microbial ecology; biodegradation; bioremediation
(This special issue belongs to the Section Environmental Microbiology)
Chemolithoautotrophic Microorganisms—Pioneers of Biospheric Evolution and Sustainable Biotechnology
edited by Lijing Jiang
submission deadline 31 Dec 2025 | Viewed by 146 | 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)
Advances in Microbial Biofilm Formation (2nd Edition)
edited by
submission deadline 31 Dec 2025 | 1 articles | Viewed by 141 | Submission Open
Keywords: commensal; environment; metabolism; multi-disciplinarity; pathogen; second messenger signaling
(This special issue belongs to the Section Biofilm)
Advances in the Human Oral Microbiome: From Ecology to Precision Therapeutics
edited by
submission deadline 31 Dec 2025 | Viewed by 139 | 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)
State of the Art of Gut Microbiota in Italy (2025, 2026)
edited by and Francesco Candeliere
submission deadline 31 Dec 2025 | Viewed by 138 | Submission Open
Keywords: metagenomics; genomics; gut microbiota; probiotics; microbial ecology; microbial biotechnology
(This special issue belongs to the Section Gut Microbiota)
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