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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 the Plant Microbiome: Rhizosphere, Endosphere and Phyllosphere, Second Edition

edited by

Gustavo Santoyo

and

Ma. Del Carmen Orozco-Mosqueda

submission deadline 31 Mar 2026 | Viewed by 144 | Submission Open

Keywords: PGPR; plant– microbe interactions; biocontrol; plant growth promotion

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

Advances in the Diagnosis and Treatment of Mycobacterial Infections

edited by Hung-Ling Huang

submission deadline 31 Mar 2026 | Viewed by 141 | Submission Open

Keywords: mycobacterial infection; tuberculosis; latent TB infection; nontuberculous mycobacterial infection; immunity; transmission; drug resistance

(This special issue belongs to the Section Medical Microbiology)

Microbial Genome Analysis and Interpretation Using Computational Approaches—Third Edition

edited by

Rajeev K. Azad

submission deadline 31 Mar 2026 | Viewed by 140 | Submission Open

Keywords: microbial genome; whole-genome sequencing; bioinformatics

(This special issue belongs to the Section Microbiomes)

Microbial Metabolism and Application in Biodegradation—Second Edition

edited by

Ronnie Lubbers

submission deadline 31 Mar 2026 | Viewed by 139 | Submission Open

Keywords: bioremediation; utilization of renewable resources; carbon and nitrogen metabolism; aromatic compounds; microbial plastic degradation; lignin; pollutants

(This special issue belongs to the Section Microbial Biotechnology)

Microbial Responses to Nutrient and Trace Metal Stress in Marine and Extreme Environments

edited by

Annarita Ricciardelli

and Bernardo Barosa

submission deadline 31 Mar 2026 | Viewed by 126 | Submission Open

Keywords: marine microbes; extremophiles; nutrient; trace metal stress; biogeochemical cycles; biogeochemistry

(This special issue belongs to the Section Environmental Microbiology)

Tailored Therapies and Targeted Diagnostics: The Role of AI in Precision Medical Microbiology

edited by

Yash Gupta

submission deadline 31 Mar 2026 | Viewed by 122 | Submission Open

Keywords: artificial intelligence in medical microbiology; machine learning for pathogen detection; automation in clinical diagnostics; high-throughput screening in drug discovery; AI-augmented MALDI-TOF MS; next-generation sequencing (NGS)

(This special issue belongs to the Section Medical Microbiology)

Pros and Cons of Microorganisms in Plant Tissue Culture

edited by

Ewa Joanna Hanus-Fajerska

submission deadline 31 Mar 2026 | Viewed by 119 | Submission Open

Keywords: plant tissue culture; micropropagation; disinfection protocols; plant beneficial microbes; microbial contamination

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

Advances in Candida and Candidiasis

edited by

Arja Kullaa

submission deadline 31 Mar 2026 | Viewed by 118 | Submission Open

Keywords: Candida; microorganism; Candidiasis; fungal diseases; dysbiosis; cancer; metabolic diseases; oral diseases; systemic diseases

(This special issue belongs to the Section Medical Microbiology)

Microbial Interactions Including Candida Concerning Health and Disease (2nd Edition)

edited by Tomoko Ohshima

submission deadline 31 Mar 2026 | Viewed by 117 | Submission Open

Keywords: microbial interkingdom interaction; microbiota; microbiome; epidemiology; oral and intestinal candidiasis; novel means for diagnosis; novel remedy for candidiasis; drug-resistant

(This special issue belongs to the Section Medical Microbiology)

Beneficial Microbes in Fermentation, Functional Foods and the Modulation of Gut Microbiota

edited by

Christian Anumudu

submission deadline 31 Mar 2026 | Viewed by 116 | Submission Open

Keywords: beneficial microorganisms; probiotic strains; food-associated microbes; fermented foods; gut microbiota modulation; functional foods

(This special issue belongs to the Section Food Microbiology)

Food Microbiology: State-of-the-Art Research in China

edited by

Jingyu Chen

submission deadline 31 Mar 2026 | Viewed by 113 | Submission Open

Keywords: food microbiology; pathogenic microorganisms; foodborne pathogens

(This special issue belongs to the Section Food Microbiology)

Immune Modulation to SARS-CoV-2 Vaccination and Infection (Second Edition)

edited by

Fabio Fiorino

submission deadline 31 Mar 2026 | Viewed by 110 | Submission Open

Keywords: COVID-19; SARS-CoV-2; infection; immune response; antibody response; memory cells; vaccine; vaccine delivery; route of immunization; immune persistence

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

State-of-the-Art Advances of Medical Virology in Italy

edited by

Massimiliano Galdiero

Arnaldo Caruso

Enzo Tramontano

and

Guido Antonelli

submission deadline 31 Mar 2026 | Viewed by 108 | Submission Open

Keywords: virology; viral pathogenesis; viral entry; viral replication; antivirals; viral diseases; viral vaccines; viral immunology; virus-host interactions

(This special issue belongs to the Section Virology)

Endophytic Fungus as Producers of New and/or Bioactive Substances, Second Edition

edited by Cecilia Veronica Nunez

submission deadline 31 Mar 2026 | Viewed by 108 | Submission Open

Keywords: endophytic fungus; natural products ; terpenes ; alkaloids ; flavonoids ; peptides ; nuclear magnetic resonance ; bioactivity

(This special issue belongs to the Section Environmental Microbiology)

Pathogen Surveillance in Wastewater

edited by

Afsatou Ndama Traore

and

Natasha Potgieter

submission deadline 31 Mar 2026 | Viewed by 104 | Submission Open

Keywords: microorganisms; wastewater; public safety

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

Microbial Diversity in Different Environments

edited by Silvena B. Boteva

submission deadline 31 Mar 2026 | Viewed by 104 | Submission Open

Keywords: microbial diversity; species identification; metagenomics; metabolomics; metaproteomics; culture methods; ecosystem function; ecosystem structure

(This special issue belongs to the Section Environmental Microbiology)

Antibiotic Resistance and Alternatives

edited by Emil Tîrziu and

Iulia Maria Bucur

submission deadline 31 Mar 2026 | Viewed by 104 | Submission Open

Keywords: antimicrobial resistance; MDR; XDR; resistance genes; alternative therapy; new antimicrobials

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

Diet, Microbiome, and Immune Function

edited by

Kurtis Budden

submission deadline 31 Mar 2026 | Viewed by 103 | Submission Open

Keywords: diet; nutrition; microbiome; immunity; inflammation; immunometabolism; infection; chronic disease

(This special issue belongs to the Section Microbiomes)

Research on Bacterial Pathogens in Fish

edited by

Guilherme Tavares

and

Peter Charrie Janampa-Sarmiento

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

Keywords: bacterial pathogens; aquaculture; immune; antimicrobial resistance

(This special issue belongs to the Section Veterinary Microbiology)

Advanced Antimicrobial Susceptibility Testing and Detection

edited by Jeannette Wadula, Khine Swe Han and Prathna Bhola

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

Keywords: multidrug-resistant; gram-positive bacteria; gram-negative bacteria; pathogens

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

Antibiotic Resistance in the Aquatic Environment: One Health and Environmental Health Perspectives

edited by

Mariana Erasmus

and

Robert Bragg

submission deadline 31 Mar 2026 | Viewed by 93 | Submission Open

Keywords: aquatic ecosystems; environmental health; antibiotic resistance; resistance genes; microbial ecology; waterborne pathogens; biofilms; wastewater; One Health; ecotoxicology

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

Structural Studies of RNA Virus Replication

edited by Ming Luo

submission deadline 31 Mar 2026 | Viewed by 92 | Submission Open

Keywords: crystal; cryoEM; cryoET; genome; polymerase; replication; transcription; RNA synthesis; assembly; entry

(This special issue belongs to the Section Virology)

The Unseen Link: Climate Change and Parasite Dynamics

edited by Isaia Symeonidou

submission deadline 31 Mar 2026 | Viewed by 91 | Submission Open

Keywords: animal parasites; climate change; parasitic diseases; vector-borne diseases; One Health

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

Advances in Arenaviruses Research

edited by Cheng Huang

submission deadline 31 Mar 2026 | Viewed by 89 | Submission Open

Keywords: virus infection; virus replication; tropism; pathogenesis; immune response; animal models; therapeutics; vaccines; diagnostics; reservoir; epidemiology; phylogenetics; transmissions

(This special issue belongs to the Section Virology)

Tackling Gut Parasites: A One Health Perspective

edited by Rosa Maria Bermúdez-Cruz

submission deadline 31 Mar 2026 | Viewed by 88 | Submission Open

Keywords: gut parasites; detection methods; immune system evasion; genetic variation

(This special issue belongs to the Section Gut Microbiota)

Environmental Microorganisms in Sediments

edited by Henrik Sass

submission deadline 31 Mar 2026 | Viewed by 85 | Submission Open

Keywords: community; gradients; ; adaptation; ecophysiology; deep biosphere; glacial deposits

(This special issue belongs to the Section Environmental Microbiology)

Advances in Viral Metagenomics, 2nd Edition

edited by

Antonio Charlys Da Costa

, Tania Regina Tozetto Mendoza and Maria Cássia Mendes-Correa

submission deadline 31 Mar 2026 | Viewed by 83 | Submission Open

Keywords: virus; metagenomics; virosphere; virome; viral diversity; viral evolution

(This special issue belongs to the Section Virology)

Microbiota and Animal Diseases

edited by

Monika Łukasiewicz-Mierzejewska

Paweł Solarczyk

and Wojciech Wójcik

submission deadline 31 Mar 2026 | Viewed by 80 | Submission Open

Keywords: animal microbiota; immune modulation; animal health; microbial therapeutics; microbiota transplantation; microbiome-based diagnostics; host– microbiome interactions

(This special issue belongs to the Section Veterinary Microbiology)

Advances in Human Respiratory Viruses: Epidemiology, Pathogenesis, and the Interplay with Host Immunity

edited by Federica Novazzi

submission deadline 31 Mar 2026 | Viewed by 78 | Submission Open

Keywords: human respiratory viruses; epidemiology; pathogenesis; host immunity

(This special issue belongs to the Section Medical Microbiology)

Microbial Life: Ecology, Health, and Sustainability

edited by

Christopher E. Mason

submission deadline 31 Mar 2026 | Viewed by 78 | Submission Open

Keywords: microbial diversity and ecology; secondary metabolism and natural products; microbe– environment interactions; microbe– host interactions; technological and computational advances; planetary and translational microbiology

(This special issue belongs to the Section Environmental Microbiology)

Gut Microbiota and Patient Outcomes: Emerging Implications Across Surgical Specialties

edited by Theodoros Mariolis-Sapsakos

submission deadline 31 Mar 2026 | Viewed by 67 | Submission Open

Keywords: gut microbiota; host– microbiome interactions; surgical complications; surgical pathologies; perioperative outcomes; microbiome modulation

(This special issue belongs to the Section Gut Microbiota)

Bacterial Cell Biology and Development: Ionic Homeostasis, Nutritional Immunity, and Pathogenesis

edited by

Jeong Min Chung

submission deadline 31 Mar 2026 | Viewed by 63 | Submission Open

Keywords: ion homeostasis; nutritional immunity; ion transporters; virulence regulation; host– pathogen interaction

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

Bacterial Extracellular Vesicles in Host Pathophysiology: Characteristics, Functions and Stress Tolerance

edited by

Junhua Xie

, Dingkang Wang and

Xiayu Liu

submission deadline 31 Mar 2026 | Viewed by 57 | Submission Open

Keywords: microbial extracellular vesicles; interaction; immunity; stress tolerance; pathophysiology; therapy; diagnosis

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

Functional Foods from Microbes

edited by Xiaofan Wang and Xiaoyuan Wei

submission deadline 31 Mar 2026 | Viewed by 30 | Submission Open

Keywords: microbe; health; nutrients; metabolites; multi-omics; animals; functional food; molecular biology

(This special issue belongs to the Section Food Microbiology)

Microbiota and Gastrointestinal Diseases

edited by

Lorena Elena Melit

submission deadline 20 Apr 2026 | 3 articles | Viewed by 13730 | Submission Open

Keywords: gut microbiota; gastrointestinal diseases; gastrointestinal microbiome; dysbiosis

(This special issue belongs to the Section Gut Microbiota)

One Health Research on Zoonotic Tick-Borne Pathogens

edited by

Chien-Ming Shih

submission deadline 30 Apr 2026 | 6 articles | Viewed by 10731 | Submission Open

Keywords: tick-borne pathogens; zoonotic infections; epidemiology; diagnostics; surveillance; prevention

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

Oral Microbiota: Diseases, Health, and Beyond

edited by

Federica Di Spirito

and

Maria Pia Di Palo

submission deadline 30 Apr 2026 | 3 articles | Viewed by 7327 | Submission Open

Keywords: oral microbiota; oral bacteria; oral viruses; oral fungi; oral protozoa; oral health; oral disease

(This special issue belongs to the Section Medical Microbiology)

Advances in Microbiologically Influenced Corrosion: Mechanisms, Microbial Communities, Early Detection and Control Strategies

edited by Yingchao Li and

Laura L. Machuca

submission deadline 30 Apr 2026 | 5 articles | Viewed by 6758 | Submission Open

Keywords: biofilms; corrosion; microbial communities; microbiologically influenced corrosion (MIC); biofilm inhibition and control; early detection

(This special issue belongs to the Section Environmental Microbiology)

Immunity and Viral Immune Evasion Strategies: Recent Insights

edited by

Carolina Scagnolari

and Federica Frasca

submission deadline 30 Apr 2026 | 2 articles | Viewed by 6015 | Submission Open

Keywords: virus– host interactions; viral immunopathogenesis; innate immunity; cellular immunity; viral genetic variability; inflammation; viral immune evasion strategies; antiviral responses; biomarker discovery; virulence determinants; immune signalling pathways; viral persistence

(This special issue belongs to the Section Virology)

Gut Microbiota: Metagenomics to Study Ecology, 2nd Edition

edited by

Lifeng Zhu

submission deadline 30 Apr 2026 | 4 articles | Viewed by 5532 | Submission Open

Keywords: metagenomics; ecology; multi-omics; metagenomic assembled genomes; function; host– microbe interactions; behavior; local adaptation; biodiversity conservation

(This special issue belongs to the Section Gut Microbiota)

Exploring Microbial Evolution: From Cellular Dynamics to Phylogenetic Branching

edited by

Nobuyuki Haga

submission deadline 30 Apr 2026 | 1 articles | Viewed by 4397 | Submission Open

Keywords: taxonomy; evolution; phylogeny; molecular systematics; microbial genomics; symbiosis; ciliates; protists; cellular evolution

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

Microbial Communities in Soil: Drivers of Terrestrial Ecosystem Processes

edited by Xiawei Peng

submission deadline 30 Apr 2026 | 3 articles | Viewed by 4338 | Submission Open

Keywords: soil microbiome assembly; microbial functional traits; ecological networks; metagenomics; plant– soil feedback; climate change adaptation; microbiome engineering; ecosystem services; sustainable land management; soil biodiversity conservation

(This special issue belongs to the Section Environmental Microbiology)

One Health Perspectives on the Detection and Control of Foodborne Pathogens

edited by Cristiana Maurella

submission deadline 30 Apr 2026 | 2 articles | Viewed by 4287 | Submission Open

Keywords: foodborne pathogens; epidemiology; food safety; One Health; pathogen detection; diagnostic technologies; WGS; genome sequencing; bioinformatic

(This special issue belongs to the Section Food Microbiology)

Sustainable Approaches to Mitigate Antimicrobial Resistance in the Environment

edited by

Emma Murphy

and

Gustavo Fehrenbach

submission deadline 30 Apr 2026 | 2 articles | Viewed by 3820 | Submission Open

Keywords: antimicrobial resistance; environment; probiotics; antibiotic; bioremediation

(This special issue belongs to the Section Environmental Microbiology)

Effect of Microbial Communities for Environmental Protection and Development of Agriculture, Second Edition

edited by Alejandro Rodriguez-Sanchez

submission deadline 30 Apr 2026 | 3 articles | Viewed by 3739 | Submission Open

Keywords: environmental microbial communities; environmental protection; agriculture potentiation; bioremediation; ecosystem functioning; biotic and abiotic stresses

(This special issue belongs to the Section Environmental Microbiology)

New Advances in Microalgae Biotechnology—Increasing Productivity Towards Achieving a More Profitable Production Chain

edited by

Carlos Yure B. Oliveira

submission deadline 30 Apr 2026 | 2 articles | Viewed by 2652 | Submission Open

Keywords: biomass; food; nutraceuticals; biorefinery; bioeconomy

(This special issue belongs to the Section Microbial Biotechnology)

Bacterial Motility

edited by

Rama Bansil

submission deadline 30 Apr 2026 | 1 articles | Viewed by 2485 | Submission Open

Keywords: bacterial movement; bacterial motility; technological and biomedical applications; bacteria motors; chemotaxis; swarming motility; hydrodynamics of bacteria swimming mechanisms; biomimetic swimmers

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

Probiotics, Gut Microbiota, and Health

edited by

Massimiliano Marazzato

and Claudio de Simone

submission deadline 30 Apr 2026 | 1 articles | Viewed by 2207 | Submission Open

Keywords: probiotic; gut microbiota; intestinal microbiome; host health

(This special issue belongs to the Section Gut Microbiota)

AI in Developing Diagnostics, Antiviral Therapies, Antimicrobial Resistance, and Vaccines for Viral Diseases in Humans, Animals, and Birds

edited by

Maged Gomaa Hemida

submission deadline 30 Apr 2026 | 1 articles | Viewed by 2020 | Submission Open

Keywords: artificial intelligence; viral diagnostics; antiviral drug discovery; vaccine development; genomic surveillance; machine learning; computational virology; predictive modeling; immune response prediction; One Health

(This special issue belongs to the Section Virology)

The Molecular Mechanisms Regulating Stress-Adaptive Responses in Bacteria

edited by

Ewa Laskowska

and