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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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Bioinformatics and Omic Data Analysis in Microbial Research

edited by

Douglas D. Rhoads

submission deadline 15 May 2025 | 8 articles | Viewed by 11504 | Submission Open

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

(This special issue belongs to the Section Microbiomes)

Research on Biology of Dinoflagellates

edited by

Marco Villanueva

, Tania Islas-Flores and Estefanía Morales-Ruiz

submission deadline 15 May 2025 | 6 articles | Viewed by 10174 | Submission Open

Keywords: dinoflagellate; molecular biology; genomics; transcriptomics; proteomics; metabolomic

(This special issue belongs to the Section Environmental Microbiology)

Ecology of Influenza A Viruses: 2nd Edition

edited by

Maria Alessandra De Marco

and

Claudia Cotti

submission deadline 15 May 2025 | 2 articles | Viewed by 10095 | Submission Open

Keywords: Influenza A Virus; ecology; ecological interfaces; virus– host– environment interactions; wild aquatic birds; reservoir hosts; spillover hosts; migratory birds; LPAIV; HPAIV

(This special issue belongs to the Section Virology)

The Role of Gut Microbiota in Inflammatory Bowel Disease: Mechanisms and Novel Therapeutic Approaches

edited by

Jailane De Souza Aquino

and

Omar Guzman-Quevedo

submission deadline 15 May 2025 | 4 articles | Viewed by 9522 | Submission Open

Keywords: Crohn’ s disease; ulcerative colitis; diets; dysbiosis; faecal microbiota transplantation; immunomodulation; metagenomics; herbal medicines; probiotics; prebiotics

(This special issue belongs to the Section Gut Microbiota)

Epidemiology, Prevention and Control of Foodborne Microbial Pathogens

edited by

Marcia Nitschke

Gabriel Augusto Marques Rossi

and

Juliano Gonçalves Pereira

submission deadline 15 May 2025 | 6 articles | Viewed by 9121 | Submission Open

Keywords: biofilms; Clostridium spp.; Escherichia coli; foodborne; Listeria monocytogenes; outbreaks; parasites; prions; Salmonella spp.; Staphylococcus aureus; Vibrio spp.; viruses

(This special issue belongs to the Section Food Microbiology)

The Pathogenesis, Epidemiology and Diagnosis of Infectious Diseases in Livestock Animals

edited by

Selwyn Arlington Headley

and Fabiano José Ferreira De Sant'Ana

submission deadline 15 May 2025 | 7 articles | Viewed by 8876 | Submission Open

Keywords: pathogenesis; epidemiology; diagnosis; livestock animals; infectious diseases

(This special issue belongs to the Section Veterinary Microbiology)

Oral Microbiota and Candidiasis

edited by

Maria Contaldo

submission deadline 15 May 2025 | 4 articles | Viewed by 7838 | Submission Open

Keywords: oral candidiasis; Candida spp.; oral microbiota; antifungal resistance; recurrent infections

(This special issue belongs to the Section Medical Microbiology)

Contemporary Perspectives on Bacterial Virulence Factors

edited by Matthew Jackson and Kevin Theis

submission deadline 15 May 2025 | 3 articles | Viewed by 7594 | Submission Open

Keywords: bacterial pathogens; virulence factors; immune response; staphylococcus aureus; pseudomonas aeruginosa

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

Genomics and Epidemiology of Clinical Microorganisms

edited by

Addy Cecilia Helguera-Repetto

and

Moises Leon-Juarez

submission deadline 15 May 2025 | 5 articles | Viewed by 6070 | Submission Open

Keywords: infectious disease epidemiology; pathogen genomics; molecular characterization of microorganisms; clinical outcomes of infectious diseases; virulence determinants; antibiotic resistance; pathogen gene expression

(This special issue belongs to the Section Medical Microbiology)

Plant Growth—Promoting Bacteria and Plant—Soil Interactions in Harsh Environments, 2nd Edition

edited by

Blanca R. López

and

Luz De-Bashan

submission deadline 15 May 2025 | 3 articles | Viewed by 4354 | Submission Open

Keywords: plant growth-promoting bacteria; endophytes; environmental stress; nitrogen fixing bacteria; P and K solubilizing bacteria; mechanisms of plant growth; PGPB-plant interaction soil microbial communities; soil rehabilitation; bacterial inoculants and biosafety

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

Gut Microbiota of Food Animal

edited by

Benoit St Pierre

submission deadline 15 May 2025 | 3 articles | Viewed by 3343 | Submission Open

Keywords: food animals; gut health; microbiota; microbial ecology; metagenomics; bioinformatics; metabolomics; culturomics

(This special issue belongs to the Section Veterinary Microbiology)

Novel Antimicrobial Strategies

edited by

Evandro Watanabe

, Denise De Andrade and

Cláudia Helena Silva-Lovato

submission deadline 15 May 2025 | 2 articles | Viewed by 2833 | Submission Open

Keywords: anti-infective agents; bacteriophages; biocompatible materials; biofilms; biological products; multidrug resistance; environmental health; equipment contamination; infections; materials testing; volatile oils; probiotics; technology

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

Chemical Communication in Plant–Microbe Beneficial Interactions Between Plants and Rhizosphere Microorganisms

edited by Haichao Feng and Yunpeng Liu

submission deadline 15 May 2025 | 1 articles | Viewed by 2343 | Submission Open

Keywords: plant growth-promoting rhizobacteria (PGPR); root exudates; colonization; chemotaxis; attachment; biofilm; rhizomicrobiome; plant health; recruitment; biocontrol

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

Gut Microbiota and Foreign Substances: Drugs, Mycotoxins and Heavy Metals in Foods

edited by

Ravi Gooneratne

and

Zhijia Fang

submission deadline 15 May 2025 | 1 articles | Viewed by 1595 | Submission Open

Keywords: gut microbiota; foreign substances in food; xenobiotics; food mycotoxins; heavy metals; probiotics; pathogenic microorganisms; intestinal inflammation

(This special issue belongs to the Section Gut Microbiota)

Microbial Nitrogen Cycling in Estuarine and Coastal Ecosystems

edited by Pengfei Sun

submission deadline 15 May 2025 | 1 articles | Viewed by 1348 | Submission Open

Keywords: nitrogen cycling; processes; nitrous oxide; pollutions; functional genes; microbial ecology; estuarine and coastal ecosystems; greenhouse effect; eutrophication

(This special issue belongs to the Section Environmental Microbiology)

The Notion of Microorganisms-Based Bio-Refinery: Transitioning from Wastewater Treatment to By-Products Recovery

edited by Giovanni Antonio Lutzu

submission deadline 15 May 2025 | 1 articles | Viewed by 1124 | Submission Open

Keywords: microalgae; mixotrophy; heterotrophy; bio-products; wastewater treatment; nutraceuticals; pharmaceuticals; biostimulants; bioplastics; biodiesel

(This special issue belongs to the Section Environmental Microbiology)

Systems Involved in Antimicrobial Resistance and Virulence of Clinically Important Pathogens, 2nd Edition

edited by

Costas C. Papagiannitsis

and

Ibrahim Bitar

submission deadline 15 May 2025 | Viewed by 473 | Submission Open

Keywords: antimicrobial resistance; mobile elements; plasmids; biofilm formation; virulence; enterobacterales; acinetobacter baumannii; pseudomonas aeruginosa; quorum-sensing; CRISPR/Cas system

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

Lactic Acid Bacteria in Food Fermentation and Biotechnology

edited by

Spiros Paramithiotis

submission deadline 15 May 2025 | Viewed by 438 | Submission Open

Keywords: genomics; transcriptomics; metabolomics; cell factories; bioactive compounds

(This special issue belongs to the Section Food Microbiology)

Development of New Drugs to Treat Infectious Diseases

edited by

Valnês da Silva Rodrigues-Junior

submission deadline 20 May 2025 | 1 articles | Viewed by 1020 | Submission Open

Keywords: antimicrobial agents; natural products; tropical diseases; therapeutic strategies; viral infections

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

Microbiome Research for Animal, Plant and Environmental Health

edited by

Alex Galanis

and

Aglaia Pappa

submission deadline 31 May 2025 | 16 articles | Viewed by 25315 | Submission Open

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

(This special issue belongs to the Section Microbiomes)

Epidemiology and Control Strategies for Brucellosis

edited by

Fabrizio De Massis

and Giuliano Garofolo

submission deadline 31 May 2025 | 7 articles | Viewed by 20347 | Submission Open

Keywords: brucellosis; surveillance; control; eradication; vaccination

(This special issue belongs to the Section Veterinary Microbiology)

Pathogens and Aquaculture

edited by

Godoy Marcos

and Juan Pablo Pontigo

submission deadline 31 May 2025 | 9 articles | Viewed by 18623 | Submission Open

Keywords: fish; salmon; diseases; pathology; histopathology; virology; molecular epidemiology

(This special issue belongs to the Section Veterinary Microbiology)

Antimicrobial Resistance: Challenges and Innovative Solutions

edited by

Dimitris C. Chatzopoulos

submission deadline 31 May 2025 | 8 articles | Viewed by 17832 | Submission Open

Keywords: antimicrobial resistance; mechanisms of resistance; therapeutic approaches; antimicrobial stewardship; infection control; public health

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

Viral Diseases: Current Research and Future Directions

edited by

Sherif T.S. Hassan

submission deadline 31 May 2025 | 5 articles | Viewed by 17441 | Submission Open

Keywords: RNA viruses; DNA viruses; virus– host interactions; immune evasion strategies; host immune response; viral epidemiology; biology and pathogenesis; virus diagnosis; viral diseases; prevention; management and treatment strategies; antiviral therapeutics; vaccine development

(This special issue belongs to the Section Virology)

Aquatic Microorganisms and Their Application in Aquaculture

edited by

Wujie Xu

submission deadline 31 May 2025 | 16 articles | Viewed by 16625 | Submission Open

Keywords: aquatic microorganisms; aquaculture; aquafeed

(This special issue belongs to the Section Environmental Microbiology)

Advances in Viral Metagenomics

edited by

Antonio Charlys Da Costa

submission deadline 31 May 2025 | 7 articles | Viewed by 14073 | Submission Open

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

(This special issue belongs to the Section Virology)

Progress and Challenges in Antimicrobial Resistance

edited by

Manuela Oliveira

and

Diana Dias Da Silva

submission deadline 31 May 2025 | 1 articles | Viewed by 12222 | Submission Open

Keywords: antibiotic resistance; novel therapeutics; resistance mechanisms; molecular epidemiology; one health approach

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

Genomics Approaches in Microbial Ecology

edited by Hugo César Ramírez-Saad and César Hernández-Rodríguez

submission deadline 31 May 2025 | 6 articles | Viewed by 11243 | Submission Open

Keywords: soil microorganisms; microbes associated with plants; microbes associated with animals; microbial ecology; omics approaches; microbiomes; microbial communities; microbial symbioses; bacteria; archaea; fungi; algae; protists; viruses

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

Microorganisms: A Way Forward for Sustainable Development?

edited by Akhilesh Kumar Chaurasia

submission deadline 31 May 2025 | 6 articles | Viewed by 10763 | Submission Open

Keywords: microorganisms; microbial biotechnology; sustainability; genetically engineered microbes

(This special issue belongs to the Section Microbial Biotechnology)

Advances in Metabolic Engineering of Industrial Microorganisms

edited by Shuwen Liu and Shuobo Shi

submission deadline 31 May 2025 | 5 articles | Viewed by 9838 | Submission Open

Keywords: metabolic engineering; microbial metabolism; industrial microorganisms

(This special issue belongs to the Section Microbial Biotechnology)

Microbial Communities in Aquatic Environments

edited by

Bing-Mu Hsu

submission deadline 31 May 2025 | 8 articles | Viewed by 9295 | Submission Open

Keywords: microbial communities; aquatic environments; diversity; ecological roles; biogeochemical processes; anthropogenic influences; ecosystem resilience; nutrient cycling; climate variations; conservation strategies

(This special issue belongs to the Section Environmental Microbiology)

Advances in Combating Bacterial Infections: Resistance, Treatment, and Prevention

edited by Victoria Birlutiu

submission deadline 31 May 2025 | 6 articles | Viewed by 8670 | Submission Open

Keywords: epidemiology; infectious diseases; prevention strategies; bacterial infections; biofilm; antibiotic resistance

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

Recent Advances in Antivirals for Emerging Viruses (3rd Edition)

edited by

James J. Kohler

submission deadline 31 May 2025 | 3 articles | Viewed by 8476 | Submission Open

Keywords: antiviral agents; broad-spectrum antivirals; antiviral response; emerging and re-emerging viral diseases; antiviral strategies; druggable antiviral targets; direct acting antivirals; host-directed antivirals; drug-resistant viruses

(This special issue belongs to the Section Virology)

Advances in Human Infections and Public Health

edited by Katrin Gaardbo Kuhn

submission deadline 31 May 2025 | 5 articles | Viewed by 8393 | Submission Open

Keywords: human infections; public health; advances; preparedness; control; prevention

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

The Evolution of SARS-CoV-2: Molecular Properties, Virulence and Epidemiology

edited by

Barbara Camilloni

submission deadline 31 May 2025 | 4 articles | Viewed by 8352 | Submission Open

Keywords: SARS-CoV-2; molecular epidemiology; epidemiology infection; transmission; monitoring; diagnosis

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

Bacteria Control by Phages

edited by Lanying Zeng and

Junjie Zhang

submission deadline 31 May 2025 | 2 articles | Viewed by 7636 | Submission Open

Keywords: phage therapy; host specificity; phage entry; phage biology; phage engineering; phage lysis; phage lysis-lysogeny switch; anti-phage defense; infection cycle

(This special issue belongs to the Section Medical Microbiology)

Advances in Mycoplasma Research

edited by Li Xiao

submission deadline 31 May 2025 | 5 articles | Viewed by 7113 | Submission Open

Keywords: mycoplasmas; physiological mechanisms; pathogenicity; host interactions; antimicrobial strategies; biotechnological applications

(This special issue belongs to the Section Medical Microbiology)

Intestine as a Hub for Host-Microbe Interactions and Its Impact on Local and Systemic Health

edited by

Helioswilton Sales-Campos

and

José Luiz de Brito Alves

submission deadline 31 May 2025 | 3 articles | Viewed by 6573 | Submission Open

Keywords: microbiota; gut pathogens; immune response; inflammation; dysbiosis; infection; nutritional status

(This special issue belongs to the Section Gut Microbiota)

Detection and Analysis of Clinical Microbial Infections, Second Edition

edited by

Stefano Ravaioli

submission deadline 31 May 2025 | 6 articles | Viewed by 5021 | Submission Open

Keywords: microorganisms’ detection and analysis; clinical microbiology; identification technologies; new identification methods; heterogeneous dissemination; unculturable pathogens; mixed microbial populations; new emerging pathogens; genomics; transcriptomics; proteomics; metabolomics; standardization of testing; sample data centralization

(This special issue belongs to the Section Medical Microbiology)

Soil Microbiome and Ecological Biogeochemical Cycles

edited by Giorgia Santini and

Lucia Santorufo

submission deadline 31 May 2025 | 4 articles | Viewed by 4648 | Submission Open

Keywords: soil ecology; soil ecosystem; microorganisms functional role; microorganisms functional group; key species; biogeochemical cycles; microbiome; soil community

(This special issue belongs to the Section Environmental Microbiology)

Editorial Board Members’ Collection Series: Hepatitis Viruses: Who They Are and Consequences

edited by

Isabelle Chemin

and

Flor Helene Pujol

submission deadline 31 May 2025 | 2 articles | Viewed by 4367 | Submission Open

Keywords: viral hepatitis; liver; pathogenesis; cancer; fibrosis; natural history; treatments; epidemiology; vaccine; genotypes

(This special issue belongs to the Section Virology)

Advances in Viral Disease Epidemiology and Molecular Pathogenesis

edited by

José Arellano-Galindo

submission deadline 31 May 2025 | 4 articles | Viewed by 4010 | Submission Open

Keywords: epidemiology; molecular pathogenesis; host– virus interactions; genetic variation; viral transmission; vaccines and antivirals; zoonotic viruses; environmental reservoirs.

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

The Central Role of Microbiota in Eye Health

edited by

Francesco Petrillo

and

Elisa Zanotto

submission deadline 31 May 2025 | 3 articles | Viewed by 3994 | Submission Open

Keywords: eye health; microbiota; next-generation sequencing; immune system

(This special issue belongs to the Section Medical Microbiology)

Antimicrobial Stewardship: Strategies for Optimizing Antimicrobial Use and Combating Resistance

edited by

Viorica Railean

submission deadline 31 May 2025 | 3 articles | Viewed by 3978 | Submission Open

Keywords: antimicrobial stewardship; antimicrobial agent; antimicrobial therapy; dosing optimization; healthcare; antimicrobial surveillance and monitoring; human medicine; veterinary medicine; multidisciplinary; stewardship programs

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

Benefits of Antimicrobial Phytoextracts in the Fight to Foodborne Pathogens

edited by

Caterina Pagliarulo

and

Daniela Sateriale

submission deadline 31 May 2025 | 2 articles | Viewed by 3934 | Submission Open

Keywords: antimicrobial botanical agents; phytoextracts; foodborne pathogens; phytotherapeutic medicine; botanical food preservatives; food safety; natural antimicrobial agents; safe food preservation approach; bio-based food antimicrobials

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

Advancing Microbial Taxonomy and Genomics: Bridging Diversity and Functionality

edited by

Sathiyaraj Srinivasan

submission deadline 31 May 2025 | 2 articles | Viewed by 3578 | Submission Open

Keywords: microbial taxonomy; genomics; extremophiles; unculturable microorganisms; hybrid sequencing; microbial communities; functional genomics; culture-independent methods; comparative genomics; prokaryotic and eukaryotic microbes

(This special issue belongs to the Section Microbiomes)

Potential Antimicrobial Synergistic Interactions of Natural Products

edited by

Antonio Rosato

and Alexia Barbarossa

submission deadline 31 May 2025 | 2 articles | Viewed by 3005 | Submission Open

Keywords: antimicrobial resistance; synergistic effect; natural substances

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

Advances in Toxoplasma gondii and Toxoplasmosis

edited by

Maria Luz Galván-Ramírez

and Jorge Enrique Gómez Marín

submission deadline 31 May 2025 | 2 articles | Viewed by 2516 | Submission Open

Keywords: Toxoplasma gondii; toxoplasmosis; immune response; diagnosis; treatment; epidemiology

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

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

edited by Yingchao Li and

Laura L. Machuca

submission deadline 31 May 2025 | 2 articles | Viewed by 2415 | 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)

Advances in Cutaneous Mycosis

edited by

Vivian Tullio

submission deadline 31 May 2025 | 2 articles | Viewed by 2384 | Submission Open

(This special issue belongs to the Section Medical Microbiology)

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