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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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AI-Driven Insights into Microbial Research: From Data Analysis to Predictive Modeling

edited by

Chien-Sen Liao

submission deadline 31 May 2026 | Viewed by 208 | Submission Open

Keywords: microbiology; artificial intelligence; deep learning; machine learning; microbial genomics; microbiome analysis; data-driven research; predictive modeling; automated image recognition; AI applications in life sciences

Advances in Legionella pneumophila: Climate Change, Water Safety and Public Health

edited by

Antonios Papadakis

and

Dimosthenis Chochlakis

submission deadline 31 May 2026 | Viewed by 206 | Submission Open

Keywords: Legionella pneumophila; Legionnaires’ disease; climate change; Water Safety Plans; risk assessment and management; environmental and wastewater surveillance; rapid detection methods

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

Respiratory Diseases and Microbiome Dysbiosis

edited by

Heleni Loutrari

and Paraskevi Katsaounou

submission deadline 31 May 2026 | Viewed by 202 | Submission Open

Keywords: upper and lower airway disorders; microbiome; inflammation; immune response; infections; allergies; dysbiosis; gut– lung axis; metagenomics; multi-omics

(This special issue belongs to the Section Microbiomes)

Microbial Cell Factories for Sustainable Biomass Protein Production

edited by

Haitao Yu

and

Weiwei Wang

submission deadline 31 May 2026 | Viewed by 189 | Submission Open

Keywords: feed protein; animal science and biotechnology; agricultural synthetic biology; synthetic microbiomes; microbial cell factories; solid-state fermentation; industrial and agricultural waste; microbial genetics and breeding

(This special issue belongs to the Section Microbial Biotechnology)

Microbial Gene Editing Technology

edited by Yeshi Yin and Aihua Deng

submission deadline 31 May 2026 | Viewed by 186 | Submission Open

Keywords: gene editing; CRISPR/Cas; genome engineering; microbial cell factory

(This special issue belongs to the Section Microbial Biotechnology)

Rhizosphere Effectors in Plant–Microbe Interactions

edited by

Dongfei Han

submission deadline 31 May 2026 | Viewed by 168 | Submission Open

Keywords: plant– microbe interaction; innovative effector; rhizosphere effector

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

Microbial Diversity and Ecology in Different Environments

edited by

Diogo Neves Proença

and

Maria Carolina Quecine

submission deadline 31 May 2026 | Viewed by 143 | Submission Open

Keywords: microbial diversity; environmental microbiology; microbiomes; metagenomics; microbial ecology; biotechnological applications; functional genomics; extremophiles; plant-microbe interactions; soil microbiology; marine microbiology; biodegradation; bioactive compounds

(This special issue belongs to the Section Environmental Microbiology)

Innovations in Stem Cell-Enhanced Oncolytic Virotherapy

edited by

Boris R. Minev

submission deadline 31 May 2026 | Viewed by 107 | Submission Open

Keywords: stem cells; oncolytic virotherapy; cancer treatment; tumor targeting; immunotherapy; viral vectors; clinical trials; therapeutic synergy

(This special issue belongs to the Section Virology)

Gut Microbiota and Human Health: From Mechanisms to Therapeutic Frontiers

edited by

Jun-Hyung Cho

submission deadline 31 May 2026 | Viewed by 94 | Submission Open

Keywords: gut microbiota; host– microbe interaction; Helicobacter pylori; microbiome metabolites; gut– brain axis; probiotics and prebiotics; fecal microbiota transplantation

(This special issue belongs to the Section Gut Microbiota)

Human Airway Microbiome and Immunity

edited by

Zhang Wang

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

Keywords: respiratory microbiome; immune response; microbiome-host interaction; metagenomics; multi-omics; gut-lung axis; chronic respiratory diseases

(This special issue belongs to the Section Microbiomes)

Antimicrobial Efficacy of Medicinal and Wild Edible Fruits

edited by

Nkoana Ishmael Mongalo

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

Keywords: antibiotic resistance; plant-based compounds; fractionation; characterized compounds; metabolites; NMR; GC-MS; LC-MS

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

Surveillance and Detection of the Antimicrobial Resistance

edited by

Eduardo Torres

and

Reynoso Eduardo Canek

submission deadline 31 May 2026 | Viewed by 70 | Submission Open

Keywords: antimicrobial resistance; genomic surveillance; rapid diagnostics; metagenomics; environmental monitoring; resistance gene detection; one health surveillance; whole genome sequencing; biosensors; bioinformatics

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

Antimicrobial Resistance and Virulence of Foodborne Pathogens Resistance

edited by

Adriana Morar

and

Alexandra Ban-Cucerzan

submission deadline 31 May 2026 | Viewed by 61 | Submission Open

Keywords: antimicrobial resistance; foodborne pathogens; one health; virulence factors; biofilm formation

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

Phages: From Biology to Application in Medicine and Biotechnology

edited by

Novella Cesta

and Antonia Scobie

submission deadline 31 May 2026 | Viewed by 55 | Submission Open

Keywords: bacteriophages; phage therapy; phage technology; bacteriophages and biocontrol; lysins; phage-derived proteins

(This special issue belongs to the Section Microbial Biotechnology)

HIV-Associated Neurocognitive Disorders: Mechanisms, Models, and Emerging Therapeutic Frontiers

edited by Hina Singh

submission deadline 31 May 2026 | Viewed by 50 | Submission Open

Keywords: neuroinflammation; HIV-associated neurocognitive disorders (HANDs); host– virus interactions; astrocyte– microglia crosstalk; viral reservoirs; neurodegeneration

(This special issue belongs to the Section Medical Microbiology)

Phytoplankton Faced with Emergent Pollutants

edited by

Katia Comte

and Stéphanie Fayolle

submission deadline 31 May 2026 | Viewed by 47 | Submission Open

Keywords: freshwater and marine ecosystems; photosynthetic protists; microalgae; diatoms; cyanobacteria; dinoflagellates; emergent pollutions; PFAS; PPCPs (pharmaceuticals & personal care products); nanoplastics; radionuclides; “ OMICS” approaches; ecophysiology; stress responses; bioaccumulation; biotransformation

(This special issue belongs to the Section Environmental Microbiology)

Advances in Microbial Adaptation and Evolution

edited by

Misty D. Thomas

and

Joseph L. Graves Jr.

submission deadline 31 May 2026 | Viewed by 47 | Submission Open

Keywords: microbial adaptation; experimental evolution; regulatory networks; two-component systems; stress response; pleiotropy; epistasis; antimicrobial resistance; genomic evolution; phenotype-environment interactions

(This special issue belongs to the Section Environmental Microbiology)

Halophiles

edited by

Cristina Sánchez-Porro

submission deadline 31 May 2026 | Viewed by 45 | Submission Open

Keywords: obligate halophiles; bacteria; archaea; taxonomy and biodiversity; biotechnology; genomics; metagenomics; physiology and metabolism; hypersaline habitats

(This special issue belongs to the Section Environmental Microbiology)

Infections in Solid Organ Transplant Recipients: Epidemiology, Pathogenesis, and Clinical Management

edited by

Biagio Pinchera

submission deadline 31 May 2026 | Viewed by 44 | Submission Open

Keywords: solid organ transplant; transplant-associated infections; bacterial infections; viral infection; fungal infections; antimicrobial resistance; infection management; epidemiology

(This special issue belongs to the Section Medical Microbiology)

Microbiome in Fish and Their Living Environment, Second Edition

edited by

Yongjun Chen

and

Gang Yang

submission deadline 31 May 2026 | Viewed by 39 | Submission Open

Keywords: fish species; gut microbiome; dietary modification; water environment; immunity

(This special issue belongs to the Section Veterinary Microbiology)

Interactions Between Gut Microbiota and Its Host in Health and Disease

edited by

Yunhe Fu

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

Keywords: gut-host crosstalk; microbiota dysbiosis; immune regulation; metabolic symbiosis; disease pathogenesis

(This special issue belongs to the Section Gut Microbiota)

Mycolata (Corynebacteria, Rhodococci and Mycobacteria): Good Servants but Bad Masters

edited by

Miroslav Pátek

and

Maria S. Kuyukina

submission deadline 31 May 2026 | Viewed by 32 | Submission Open

Keywords: Rhodococcus; Corynebacterium; Mycobacterium; biosynthesis; biodegradation; biotechnological applications; pathogen

(This special issue belongs to the Section Microbial Biotechnology)

Arboviral and Emerging Infectious Diseases in the Tropics: Challenges in Molecular Evolution, Pathogenesis, and Surveillance

edited by Marcos Lázaro Moreli

submission deadline 31 May 2026 | Viewed by 32 | Submission Open

Keywords: arboviruses; emerging pathogens; tropical diseases; molecular epidemiology; One Health; genomic surveillance; climate change

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

Role of the Gut Microbiota in Children’s Health

edited by Maurizio Mennini

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

Keywords: microbiota; pediatrics; probiotics; prebiotics; postbiotics; human milk oligosaccharides; fecal microbiota transplantation; gut health; nutrition; immune development

(This special issue belongs to the Section Gut Microbiota)

Probiotics and Gut Microbiome Dynamics in Health and Disease

edited by

Anastasios Nikolaou

Margaritis Tsifintaris

and

Ilias Tsochantaridis

submission deadline 31 May 2026 | Viewed by 27 | Submission Open

Keywords: gut microbiota; probiotics; functional foods; fermented foods; maternal– infant microbiome; diet– microbiome interactions; microbial colonization; microbial metabolites; microbiome biomarker; dysbiosis; precision nutrition; host– microbe interactions

(This special issue belongs to the Section Gut Microbiota)

Bacterial Infections in Clinical Settings, 2nd Edition

edited by Viera Lovayová

submission deadline 31 May 2026 | Viewed by 26 | Submission Open

Keywords: bacterial pathogens; antibiotic resistance; nosocomial infections; sepsis; bacteremia; clinical diagnosis; infection control; microbiological culture; antibiotic therapy; pathogen identification; biofilms; gram-positive bacteria; gram-negative bacteria; hospital-acquired infection (HAI); multidrug-resistant organisms (MDROs); empirical therapy; clinical microbiology; prophylactic antibiotics; infectious disease epidemiology; antimicrobial stewardship

(This special issue belongs to the Section Medical Microbiology)

Non-Fungal Plant Pathogens: Diversity, Ecology, and Control Strategies

edited by

Miłosz Tkaczyk

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

Keywords: plant diseases; non-fungal pathogens; oomycetes; phytoplasmas; plant bacteria; plant viruses; nematodes; host–pathogen interaction; plant microbiome; disease diagnostics; biological control; plant immunity; integrated pest management

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

Bacterial Infection and Antimicrobial Resistance

edited by

Luiza Pinheiro-Hubinger-Stauffer

and

Maria de Lourdes Ribeiro de Souza da Cunha

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

Keywords: bacterial infections; Staphylococcus; Streptococcus; Escherichia coli; Klebsiella pneumoniae; Pseudomonas aeruginosa; antimicrobial resistance; mutations

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

Advancing Microbial Biotechnology

edited by

Seraphim Papanikolaou

and

Dimitris Karayannis

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

Keywords: bioproducts; microbial metabolism; bioeconomy; waste and by-product valorisation; bioprocesses; life cycle assessment; recycling; metabolic modeling

(This special issue belongs to the Section Microbial Biotechnology)

Antimicrobial Resistance in Italy: Current Situation and New Effective Solutions

edited by

Caterina Pagliarulo

Daniela Sateriale

and

Giuseppina Forgione

submission deadline 31 May 2026 | Viewed by 21 | Submission Open

Keywords: antimicrobial resistance; Italian MDR pathogens; new antimicrobial therapies

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

Fungal and Oomycete Diseases of Oil Palm

edited by

R. Russell M. Paterson

submission deadline 31 May 2026 | Viewed by 20 | Submission Open

Keywords: Elaeis guineensis ; Ganoderma ; Phytophthora; Fusarium ; Malaysia; Colombia

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

Advances in Airborne Microbial Communities

edited by Daisuke Tanaka

submission deadline 31 May 2026 | Viewed by 20 | Submission Open

Keywords: microbial community; diversity; air; atmosphere; built environments; monitoring; bacteria; fungi; microorganisms; bioaerosols; health; metagenomics; bioinformatics; infectious diseases; allergies; indoor air quality

(This special issue belongs to the Section Environmental Microbiology)

Bacterial Degradation of Pollutants: Can We Still Save Nature

edited by

Miroslav Pátek

submission deadline 31 May 2026 | Viewed by 19 | Submission Open

Keywords: bacterial degradation; pollution; bacteria-mediated biodegradation; bioremediation; biotransformation; toxic compounds

(This special issue belongs to the Section Microbial Biotechnology)

Life Course Microbiomics: How Early Microbial, Nutritional, and Psychosocial Environments Shape Mental and Cognitive Development

edited by

Harsharn Gill

and

Katie Louise Barfoot

submission deadline 31 May 2026 | Viewed by 19 | Submission Open

Keywords: maternal– infant microbiome; gut– brain axis; microbiome– metabolome– neurodevelopment interactions life course

(This special issue belongs to the Section Microbiomes)

Advances in Research on Cyanobacteria and Cyanotoxins

edited by

Xi Li

submission deadline 31 May 2026 | Viewed by 18 | Submission Open

Keywords: cyanobacteria; cyanotoxins; water safety

(This special issue belongs to the Section Environmental Microbiology)

Insect–Plant–Microbe Interactions and Sustainable Agriculture

edited by

Spiridon Mantzoukas

and

Panagiotis A. Eliopoulos

submission deadline 31 May 2026 | Viewed by 16 | Submission Open

Keywords: insect– plant– microbe interactions; biological control; sustainable agriculture; plant health and defence; microbial biocontrol agents

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

Advancements and Perspectives in Molecular Detection and Analysis of Leptospira spp. in Animals

edited by Nenad Turk

submission deadline 31 May 2026 | Viewed by 15 | Submission Open

Keywords: Leptospira spp.; leptospirosis; molecular detection; molecular analysis; PCR; real-time PCR; LAMP; NGS; One Health

(This special issue belongs to the Section Veterinary Microbiology)

Interactions Between Intestinal Microbiota and Host

edited by

Kaline Arnauts

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

Keywords: host– microbiome interactions; dysbiosis; metagenomics; microbiome therapeutics; metabolites; multi-omics

(This special issue belongs to the Section Gut Microbiota)

Combating Antimicrobial Resistance at the Interface of Food, the Environment and Innovative Materials

edited by

Immacolata Anacarso

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

Keywords: antimicrobial resistance (AMR); One Health; food– environment interface; active packaging and coatings; bacteriocins and probiotics; essential oils and plant extracts; biofilm disruption; environmental surveillance; resistant bacteria in food and water; innovative materials

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

Immune Response to Pathogen Infection

edited by

Juan Francisco Gutiérrez-Bautista

and Antonio Sampedro

submission deadline 31 May 2026 | Viewed by 11 | Submission Open

Keywords: immunogenetics; pathogen infection; cytokine profiles; T and B lymphocytes; genetic polymorphisms; host– microbiome interactions; vaccine response; immune regulation; adaptive immunity; innate immunity

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

Bacterial Biofilms in the Health and Disease

edited by

Bindu Subhadra

submission deadline 31 May 2026 | Viewed by 10 | Submission Open

Keywords: biofilm-related human infections; antimicrobial resistance; microbial pathogens; medical devices; anti-biofilm compounds; antimicrobial surfaces; anti-biofilm therapies

(This special issue belongs to the Section Biofilm)

Global Perspectives and Contributions to the Understanding of Human Papillomavirus and Associated Diseases

edited by

Anna Beltrame

submission deadline 1 Jun 2026 | Viewed by 205 | Submission Open

Keywords: human papillomavirus (HPV); genotypes; infection; HPV-related cancers; HPV vaccines; epidemiology; prevention

(This special issue belongs to the Section Medical Microbiology)

The Diagnosis, Treatment, Prevention, and Epidemiology of Infectious Diseases in Livestock: A One Health Approach

edited by

Ricardo Barbosa Lucena

submission deadline 2 Jun 2026 | Viewed by 228 | Submission Open

Keywords: infectious agents; pathogenesis; molecular diagnostics; proteomics; antimicrobial resistance; epidemiological surveillance; vaccines; therapeutic strategies; zoonoses

(This special issue belongs to the Section Veterinary Microbiology)

Gut Microbiota in Health and Diseases: The Role of Pro-/Pre-/Syn-/Post-Biotics in the Gut–Liver–Brain Axis

edited by Mohamad Khalil and

Piero Portincasa

submission deadline 15 Jun 2026 | 2 articles | Viewed by 17629 | Submission Open

Keywords: gut microbiome; gut– liver– brain axis; gastrointestinal tract; digestion; metabolism; immune function

(This special issue belongs to the Section Gut Microbiota)

Development of Antiviral Agents: Natural and Synthetic Approaches in Drug Discovery

edited by

Alessandra Montalbano

Roberta Bivacqua

and

Paolo Malune

submission deadline 15 Jun 2026 | Viewed by 18 | Submission Open

Keywords: antiviral drug discovery; medicinal chemistry; virology; molecular modelling; antiviral agents; natural products; small-molecule inhibitors; structure-based drug design; structure– activity relationship (SAR); biological evaluation

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

Recent Advances in Clostridioides difficile Infection

edited by

Melina K. Kachrimanidou

submission deadline 30 Jun 2026 | 2 articles | Viewed by 13726 | Submission Open

Keywords: Clostridioides difficile infection; healthcare-associated infection; CDI treatment; virulence factors; pathogenesis; host interactions; antibiotic resistance

(This special issue belongs to the Section Medical Microbiology)

Soil Health and Plant Microbiome–Bioeffectors Relationship in Sustainable Agriculture, 2nd Edition

edited by

Nikolay Vassilev

and

Stefan Shilev

submission deadline 30 Jun 2026 | 2 articles | Viewed by 5329 | Submission Open

Keywords: plant-associated microbiome; plant– microbiome bioeffectors; microbial diversity; soil health; sustainable agriculture; circular bioeconomy

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

Harnessing Microbes for Crop Protection and Fertilization

edited by

Humayun Javed

submission deadline 30 Jun 2026 | 2 articles | Viewed by 4061 | Submission Open

Keywords: microbial biocontrol; plant– microbe interactions; biofertilizers; sustainable agriculture; soil microbiome; entomopathogenic fungi; plant growth-promoting rhizobacteria (PGPR); nitrogen fixation; mycorrhizal fungi; biopesticides; microbial formulations; eco-friendly pest management; microbial secondary metabolites; soil fertility enhancement; climate-resilient farming; microbial inoculants; biological pest control; sustainable fertilization; microbial diversity; crop protection

(This special issue belongs to the Section Microbial Biotechnology)

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

edited by

Maria Pia Di Palo