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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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Water Microorganisms Associated with Human Health, 2nd Edition

edited by

Ana Machado

submission deadline 31 Dec 2025 | 6 articles | Viewed by 5631 | Submission Open

Keywords: drinking water; recreational water; microorganisms; biomarkers; emerging contaminants; risk assessment; waterborne diseases; One Health

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

Probiotics, Prebiotics, and Gut Microbes—Second Edition

edited by

Oleg Paliy

submission deadline 31 Dec 2025 | 3 articles | Viewed by 5566 | Submission Open

Keywords: probiotics; prebiotics; gut microbes; host health

(This special issue belongs to the Section Gut Microbiota)

State-of-the-Art Environmental Microbiology in China 2025

edited by

Zhiyong Li

submission deadline 31 Dec 2025 | 4 articles | Viewed by 5543 | Submission Open

Keywords: structure and function of microbial communities; microbial community genetics; transcriptomics; proteomics and metabolomics; microbial interaction; microbial communication; microbial ecology; microbial population biology; biogeochemical processes (C; N; P; S cycles); microbial life in extreme environments; evolutionary processes of microbial communities; biofilm formation and the surfaces of microbes; metabolic flux analysis and stable isotope probing (DNA; RNA and protein); microbiome biology of environmental habitats (e.g.; soil; rhizosphere or aquifer); microbial treatment: microbial biodegradation; microbial bioremediation; microbial and waste recycling; microbial pesticide; microbial fertilizer; and others; microbial pollution: pathogenic microorganisms in the environment (water/soil/air/food); microbial metabolism; environmental pollution (e.g.; microbial toxin); and others; microbiological monitoring: testing method and monitoring technique development

(This special issue belongs to the Section Environmental Microbiology)

Research on Mosquito-Borne Pathogens

edited by

Diego Peres Alonso

and Paulo Eduardo Martins Ribolla

submission deadline 31 Dec 2025 | 6 articles | Viewed by 4865 | Submission Open

Keywords: mosquito vector; mosquito pathogens; genetics; developmental biology; mosquito– pathogen interactions

(This special issue belongs to the Section Medical Microbiology)

Microbes in Aquaculture

edited by

Jiasong Zhang

submission deadline 31 Dec 2025 | 6 articles | Viewed by 4554 | Submission Open

Keywords: aquaculture microbiomes; probiotics in aquaculture; gut microbiota; disease management; pathogen and host interaction; water quality

(This special issue belongs to the Section Environmental Microbiology)

Advances in Toxoplasma gondii and Toxoplasmosis

edited by

Maria Luz Galván-Ramírez

and Jorge Enrique Gómez Marín

submission deadline 31 Dec 2025 | 3 articles | Viewed by 4543 | Submission Open

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

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

Fungus: Diversity, Genomics and Genetics

edited by

Isabel Antonieta Iturrieta-González

and Patrício Christian Godoy-Martínez

submission deadline 31 Dec 2025 | 3 articles | Viewed by 4533 | Submission Open

Keywords: fungal diversity; fungal genomics; phylogenetics; fungal taxonomy; Ascomycota; Basidiomycota; phylogeny; cryptic species; taxonomy; phytopathogenic fungi

(This special issue belongs to the Section Environmental Microbiology)

The Vaginal Microbiome in Health and Disease

edited by

Zohar Nachum

and

Enav Yefet

submission deadline 31 Dec 2025 | 3 articles | Viewed by 3747 | Submission Open

Keywords: vaginal flora; pathogenesis; therapeutic approaches; health

(This special issue belongs to the Section Medical Microbiology)

Advances in Plant–Soil–Microbe Interactions

edited by

Zelaya Molina Lily Xochilt

and

Sergio de los Santos Villalobos

submission deadline 31 Dec 2025 | 3 articles | Viewed by 3740 | Submission Open

Keywords: plant– soil– microbe interactions; rhizosphere microbiome; sustainable agriculture; environmental stressors; microbial inoculants

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

Phytoplasmas and Phytoplasma Diseases

edited by

Carmine Marcone

and

Assunta Bertaccini

submission deadline 31 Dec 2025 | 3 articles | Viewed by 3430 | Submission Open

Keywords: yellows and decline diseases; ‘ Candidatus Phytoplasma’ species; 16Sr group/subgroups; Phytoplasma taxonomy; symptomatology; epidemiology; fruit trees; forest trees; shrubs; herbaceous crops; flower crops; weeds

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

Feature Paper in Plant–Microbe Interactions in Asia

edited by

Congyan Wang

submission deadline 31 Dec 2025 | 4 articles | Viewed by 3410 | Submission Open

Keywords: plant; microbe; interactions; community structure; growth performance; metabolic activity

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

Viral Infection on Swine: Pathogenesis, Diagnosis and Control

edited by Liwei Li

submission deadline 31 Dec 2025 | 4 articles | Viewed by 3394 | Submission Open

Keywords: swine virus infection; variability; virulence; monoclonal antibody; diagnosis; surveillance; epidemiology; therapy; vaccine

(This special issue belongs to the Section Veterinary Microbiology)

Pathogenic Microbes in the Environment and Infectious Disease Control

edited by

Panagiotis Karanis

submission deadline 31 Dec 2025 | 2 articles | Viewed by 3182 | Submission Open

Keywords: pathogens; bacteria; viruses; fungi; parasites; environment; epidemiology; control

(This special issue belongs to the Section Environmental Microbiology)

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

edited by

Nikolay Vassilev

and

Stefan Shilev

submission deadline 31 Dec 2025 | 1 articles | Viewed by 2984 | 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)

Selected Papers from the 3rd International Electronic Conference on Microbiology (ECM 2025)

edited by

Nico Jehmlich

Theodoros Varzakas

and

Ute Römling

submission deadline 31 Dec 2025 | 3 articles | Viewed by 2862 | Submission Open

Keywords: gut microbiota; foodborne pathogens and food safety; antimicrobial agents and resistance; emerging infectious diseases; microbiome and soil science; microbial characterization and bioprocess; microbe-plant interactions

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

edited by Giovanni Antonio Lutzu

submission deadline 31 Dec 2025 | 2 articles | Viewed by 2705 | Submission Open

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

(This special issue belongs to the Section Environmental Microbiology)

Microbial Fermentation in Food Processing

edited by

Wenchao Cai

and Qin Zhang

submission deadline 31 Dec 2025 | 3 articles | Viewed by 2676 | Submission Open

Keywords: microbial fermentation; food processing; flavor development; fermentation kinetics; microbial communities; metabolic pathways; food safety; sensory attributes; nutritional enhancement; food science and technology

(This special issue belongs to the Section Microbial Biotechnology)

Marine Microbes, Biocontamination and Bioremediation

edited by

Hideyuki Kanematsu

submission deadline 31 Dec 2025 | 2 articles | Viewed by 2548 | Submission Open

Keywords: biofouling; biofilm; marine bacteria; marine structures

(This special issue belongs to the Section Environmental Microbiology)

Insights into Microbial Infections, Co-Infections, and Comorbidities

edited by

Zilungile Mkhize-Kwitshana

and

Veron Ramsuran

submission deadline 31 Dec 2025 | 2 articles | Viewed by 2530 | Submission Open

Keywords: antimicrobial resistance; cancer; cardiovascular diseases; co-infections; comorbidities; complex disease profiles; diabetes; infection pathogenesis; immune modulation; microbiome and co-infections; noncommunicable diseases; pathogen interactions; pneumonia; pulmonary infections; sepsis; stress tolerance; therapeutics; vaccine development

(This special issue belongs to the Section Medical Microbiology)

The Microbial Pathogenesis

edited by

Tingting Wang

and Canfeng Hua

submission deadline 31 Dec 2025 | 3 articles | Viewed by 2521 | Submission Open

Keywords: microbial pathogenesis; virulence factors; host– pathogen interactions; antibiotic resistance; immune evasion; bacterial genomics; fungal infections; viral pathogenesis; molecular microbiology; host immune response

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

Plant Microbiome: Pioneering Microbiome-Driven Strategies for Climate-Resilient Agriculture

edited by

Dilfuza Egamberdieva

submission deadline 31 Dec 2025 | 2 articles | Viewed by 2466 | Submission Open

Keywords: plant– microbe interactions; climate change mitigation; carbon sequestration; soil health; greenhouse gas reduction; microbial inoculants; sustainable agriculture

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

Microorganisms: Climate Change and Terrestrial Ecosystems

edited by

Tengxiang Lian

and Xin Sui

submission deadline 31 Dec 2025 | 3 articles | Viewed by 2444 | Submission Open

Keywords: global change biology; nitrogen depostion; soil microbial divesity

(This special issue belongs to the Section Environmental Microbiology)

Accelerated Topics in Public Health Microbiology and Microbial Food Safety

edited by

Aliyar Fouladkhah

submission deadline 31 Dec 2025 | 2 articles | Viewed by 2334 | Submission Open

Keywords: public health microbiology; microbial food safety; water safety; infectious disease; climate change

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

Epidemiology, Prevention and Control of Foodborne Microbial Pathogens, Second Edition

edited by

Gabriel Augusto Marques Rossi

Marcia Nitschke

and

Juliano Gonçalves Pereira

submission deadline 31 Dec 2025 | 2 articles | Viewed by 2153 | 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)

Applied Gut Molecular Microbiology Technology

edited by

Donglei Sun

and

Yi-Zhou Gao

submission deadline 31 Dec 2025 | 1 articles | Viewed by 2052 | Submission Open

Keywords: gut microorganisms; applied microbiology; probiotics

(This special issue belongs to the Section Microbial Biotechnology)

Transcriptional Regulation in Bacteria, 2nd Edition

edited by

Tomohiro Shimada

submission deadline 31 Dec 2025 | 3 articles | Viewed by 2019 | Submission Open

Keywords: transcription; gene regulation; genome regulation; regulatory network; RNA polymerase; sigma factor; transcription factor; nucleoid

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

Plant-Microbe Interactome: The Green Dialogue Within the Plant Holobiont

edited by

Annamaria Bevivino

Alessia Fiore

and

Silvia Tabacchioni

submission deadline 31 Dec 2025 | 3 articles | Viewed by 1864 | Submission Open

Keywords: soil microbiome; plant holobiont; one health; sustainable agriculture

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

New Trends in Medical Bacteriology: Diagnosis, Treatment and Prevention—Second Edition

edited by

Norma Velazquez-Guadarrama

and Ma. Guadalupe Aguilera-Arreola

submission deadline 31 Dec 2025 | 2 articles | Viewed by 1729 | Submission Open

Keywords: medical bacteria; diagnosis; treatment; prevention

(This special issue belongs to the Section Medical Microbiology)

Host–Microbiome Cross-Talk in Cancer Development and Progression

edited by

Subhadeep Das

submission deadline 31 Dec 2025 | 2 articles | Viewed by 1499 | 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)

Resource Utilization of Microorganisms: Fermentation and Biosynthesis

edited by Shoushuai Feng

submission deadline 31 Dec 2025 | 2 articles | Viewed by 1355 | Submission Open

Keywords: industrial microorganisms resources; microbial physiological traits; fermentation optimization; synthetic biology; sustainability application

(This special issue belongs to the Section Microbial Biotechnology)

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 1310 | 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)

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 1255 | 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)

Fungi and Health

edited by

Jialing Bao

submission deadline 31 Dec 2025 | 1 articles | Viewed by 1154 | 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 Pathogenesis, Epidemiology and Diagnosis of Infectious Diseases in Livestock Animals, 2nd Edition

edited by

Selwyn Arlington Headley

submission deadline 31 Dec 2025 | 1 articles | Viewed by 1038 | Submission Open

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

(This special issue belongs to the Section Veterinary Microbiology)

Advances in Novel Antibacterial Agents, 2nd Edition

edited by Mariateresa Vitiello

submission deadline 31 Dec 2025 | 1 articles | Viewed by 1020 | Submission Open

Keywords: bacterial infections; multidrug-resistant bacteria; antimicrobials; natural products; resistance mechanisms

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

Research on Airborne Microbial Communities

edited by

Changliang Nie

submission deadline 31 Dec 2025 | 1 articles | Viewed by 993 | Submission Open

Keywords: atmospheric microorganisms; bioaerosol; microbial community; air pollutant; climate change

(This special issue belongs to the Section Environmental Microbiology)

The Host Response to Animal Virus Infection

edited by Liwei Li

submission deadline 31 Dec 2025 | 1 articles | Viewed by 944 | 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)

HIV Infections: Diagnosis and Drug Uses

edited by

Nompumelelo Mkhwanazi

submission deadline 31 Dec 2025 | 1 articles | Viewed by 828 | 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)

Novel Sequencing Technologies for the Characterization of Multidrug-Resistant Bacteria

edited by

Costas C. Papagiannitsis

submission deadline 31 Dec 2025 | 1 articles | Viewed by 808 | 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)

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 792 | Submission Open

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

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 773 | 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)

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

edited by

Douglas D. Rhoads

submission deadline 31 Dec 2025 | 1 articles | Viewed by 770 | Submission Open

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

(This special issue belongs to the Section Microbiomes)

Microbiological Approaches to Water Pollution Control and Water Ecological Restoration

edited by

Haiya Zhang

Weigao Zhao

and

Xiaoou Wang

submission deadline 31 Dec 2025 | 1 articles | Viewed by 770 | 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

edited by

Athanasia Xirogianni

and

Georgina Tzanakaki

submission deadline 31 Dec 2025 | 1 articles | Viewed by 764 | 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)

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 735 | 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

Wen Chen

submission deadline 31 Dec 2025 | 1 articles | Viewed by 718 | Submission Open

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

Laboratory Diagnosis and Epidemiology of Clinical Microbial Infections

edited by

Vassiliki Pitiriga

submission deadline 31 Dec 2025 | 1 articles | Viewed by 663 | Submission Open

Keywords: infectious disease; laboratory diagnosis; epidemiology

(This special issue belongs to the Section Medical 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 602 | 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)

The Interactions Between Nutrients and Microbiota

edited by

Renata Barczyńska-Felusiak

and

Agnieszka Rudzka

submission deadline 31 Dec 2025 | Viewed by 541 | Submission Open

Keywords: diet; nutrients; microbiota; human health

(This special issue belongs to the Section Food Microbiology)

From Sewers to Solutions: Wastewater Surveillance in the Fight Against Antimicrobial Resistance

edited by Mohamed M. H. Abdelbary,

Guido Werner

and Kazunari Sei

submission deadline 31 Dec 2025 | Viewed by 512 | 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)

Displaying special issue 201-250 on page 5 of 11.

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