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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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Plant–Microbe Interactions Along Value Chains for Sustainable Horticulture

edited by Beatrix Alsanius

submission deadline 30 Jun 2026 | Viewed by 30 | Submission Open

Keywords: plant– microbe interactions; horticultural value chains; microbiome dynamics; growing media microbiology; post-harvest microbiome; fresh produce safety; food-borne pathogens related to fruit and vegetables; microbial succession; sustainable horticulture; microbiome-based interventions and strategies

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

Bacterial Infection in Soft Tissue and Diabetic Foot

edited by

Lorenzo Drago

submission deadline 30 Jun 2026 | Viewed by 29 | Submission Open

Keywords: bacterial infections; soft and bone tissues; diabetic foot; anti-biofilm; antibiotic; antimicrobial therapy

(This special issue belongs to the Section Medical Microbiology)

Accelerated Topics in Public Health Microbiology and Microbial Food Safety

edited by

Aliyar Fouladkhah

submission deadline 15 Jul 2026 | 3 articles | Viewed by 3657 | 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)

Diagnosis and Pathogenesis of Infectious Diseases in Livestock

edited by Rachel J. Derscheid

submission deadline 15 Jul 2026 | 2 articles | Viewed by 2499 | Submission Open

Keywords: diseases of cattle; diseases of swine; diseases of small ruminants; diseases of camelids; pathology of livestock diseases; molecular diagnostics; serology; bacterial disease of livestock; viral diseases of livestock; parasitic disease of livestock

(This special issue belongs to the Section Veterinary Microbiology)

Diversity and Evolution of Plant and Fungal Viruses

edited by Nina J Aboughanem and

Sead Sabanadzovic

submission deadline 15 Jul 2026 | 1 articles | Viewed by 1943 | Submission Open

Keywords: viral diversity; viral evolution; plant viruses; fungal viruses; host– pathogen interactions; agricultural impact; ecological significance

(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 15 Jul 2026 | 1 articles | Viewed by 1361 | 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)

Research on Foodborne Pathogens and Disease, 2nd Edition

edited by

Martina Srajer Gajdosik

and

Djuro Josic

submission deadline 15 Jul 2026 | Viewed by 73 | Submission Open

Keywords: foodborne pathogens; foodborne illness; food safety; mechanisms of bacterial resistance; bacterial toxins; biofilm formation; detection and identification of foodborne pathogens

(This special issue belongs to the Section Food Microbiology)

Molecular Mechanisms of Resistance to Antifungals

edited by Felipe Queiroga Sarmento Guerra and

Raquel Cordeiro Theodoro

submission deadline 15 Jul 2026 | Viewed by 47 | Submission Open

Keywords: antifungal therapeutic; invasive fungal infections; molecular mechanisms; antifungal resistance

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

Chromatin Structure and Function in Bacteria and Archaea

edited by

Remus Dame

and

Ilaria Baglivo

submission deadline 20 Jul 2026 | Viewed by 130 | Submission Open

Keywords: bacterial chromatin; archaeal chromatin; genome organization; nucleoid; histone; global gene regulation; 3D chromosome

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

Engineered Microbial Systems for Innovative Bioprocessing Solutions

edited by

M. Ahsanul Islam

submission deadline 20 Jul 2026 | Viewed by 8 | Submission Open

Keywords: engineered microbes; microbial systems; bioprocessing; metabolic engineering; synthetic biology; microbial consortia; electro-fermentation; bioelectrochemical systems; circular bioeconomy; waste valorization

(This special issue belongs to the Section Microbial Biotechnology)

Interactions Between Microorganisms and Environments in Extreme Ecosystems

edited by

D'Arcy Meyer-Dombard

submission deadline 30 Jul 2026 | Viewed by 16 | Submission Open

Keywords: extremophiles; co-evolution of life and earth; geomicrobiology; extreme environments; early earth

(This special issue belongs to the Section Environmental Microbiology)

Contemporary Perspectives on Bacterial Virulence Factors

edited by Matthew Jackson and Kevin Theis

submission deadline 31 Jul 2026 | 3 articles | Viewed by 14760 | Submission Open

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

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

Microorganisms in Functional Foods: 2nd Edition

edited by

Jadranka Frece

submission deadline 31 Jul 2026 | 3 articles | Viewed by 10831 | Submission Open

Keywords: functional food; probiotics; prebiotics; fermentation; food microbiology; health promotion; gut diversity

(This special issue belongs to the Section Food Microbiology)

Diet, Supplements, Lifestyle and Human Microbiota: Impacts on Health and Disease

edited by

Valerio Pazienza

and

Concetta Finocchiaro

submission deadline 31 Jul 2026 | 3 articles | Viewed by 10289 | Submission Open

Keywords: human microbiome; dysbiosis; cancer; vaginal microbiota; sport; nutrition; lifestyle; pathological condition; infertility; IVF

(This special issue belongs to the Section Microbiomes)

Fungal Infections and Antifungal Agents

edited by

Stefanie Bressan Waller

submission deadline 31 Jul 2026 | 4 articles | Viewed by 5088 | Submission Open

Keywords: fungal infections; antifungal agents; antifungal drug discovery

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

Microbial Fermentation in Food Processing

edited by

Wenchao Cai

and Qin Zhang

submission deadline 31 Jul 2026 | 3 articles | Viewed by 5062 | 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)

Microorganisms: Climate Change and Terrestrial Ecosystems

edited by

Tengxiang Lian

and Xin Sui

submission deadline 31 Jul 2026 | 4 articles | Viewed by 4537 | Submission Open

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

(This special issue belongs to the Section Environmental Microbiology)

Microbiological Approaches to Water Pollution Control and Water Ecological Restoration

edited by

Haiya Zhang

Weigao Zhao

and

Xiaoou Wang

submission deadline 31 Jul 2026 | 4 articles | Viewed by 2748 | 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)

Insights into the Microbial Ecology of Extreme Freshwater Systems

edited by

Angelina Lo Giudice

Carmen Rizzo

and Maria Papale

submission deadline 31 Jul 2026 | Viewed by 1868 | Submission Open

Keywords: biodiversity; extreme environments; extremophiles; ecological roles; microbes

(This special issue belongs to the Section Environmental Microbiology)

Emerging Pathogen Infections and Host Immune

edited by

Barbara Camilloni

submission deadline 31 Jul 2026 | 2 articles | Viewed by 1606 | Submission Open

Keywords: emerging pathogens; pathogen-associated molecular patterns; virulence factors; innate immunity; cellular response; humoral response; immunocompromised host

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

Coral Microbiome and Microbial Ecology

edited by

Esti Kramarsky-Winter

submission deadline 31 Jul 2026 | 1 articles | Viewed by 1585 | Submission Open

Keywords: coral; holobiont; microbiota; polyp; protist; skeleton; microbiome

(This special issue belongs to the Section Environmental Microbiology)

Current Updates on Multidrug-Resistant Gram-Negative Bacterial Infections

edited by

Maria Balasoiu

and Andreea-Loredana Golli

submission deadline 31 Jul 2026 | 1 articles | Viewed by 1236 | 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)

The Interactions Between Nutrients and Microbiota

edited by

Renata Barczyńska-Felusiak

and

Agnieszka Rudzka

submission deadline 31 Jul 2026 | 1 articles | Viewed by 1231 | Submission Open

Keywords: diet; nutrients; microbiota; human health

(This special issue belongs to the Section Food 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 Jul 2026 | 1 articles | Viewed by 1096 | Submission Open

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

Microbial Synthesis of Natural Products and Their Potential Applications

edited by Jingyu Zhang

submission deadline 31 Jul 2026 | 2 articles | Viewed by 944 | Submission Open

Keywords: bacteria; fungi; cryptic biosynthetic gene clusters; genome mining; natural products; secondary metabolites; drugs; bioactivity; biosynthesis; heterologous expression

(This special issue belongs to the Section Microbial Biotechnology)

Breaking Barriers: The Breakdown of Epithelial Defenses by Pathogens

edited by

Karen Bohmwald

submission deadline 31 Jul 2026 | 1 articles | Viewed by 623 | Submission Open

Keywords: epithelial barrier; blood– brain barrier; barrier breakdown; pathogen invasion; tight junctions; endothelial cells; mucosal immunity; host– pathogen interaction; epithelial remodeling; neuroinvasion; respiratory tract

(This special issue belongs to the Section Medical Microbiology)

Emerging Infectious Diseases of Aquatic Organisms-Special Issue Dedicated to Dr. Rocco Cipriano

edited by Mohamed Faisal and

Thomas Loch

submission deadline 31 Jul 2026 | 1 articles | Viewed by 401 | Submission Open

Keywords: antimicrobial resistance; emerging pathogens of aquatic organisms; epidemiology; pathogenesis; immunology; disease ecology; role of climatic change in pathogen emergence; prevention and control; vaccine; metagenomic and metatranscriptomic analyses

(This special issue belongs to the Section Veterinary Microbiology)

Advances in Bacterial Genetics and Evolution

edited by

Renato Fani

and

Anna Maria Puglia

submission deadline 31 Jul 2026 | Viewed by 366 | Submission Open

Keywords: bacterial genetics; environmental adaptation; gene and genome evolution; regulatory networks; host microbiome; bacterial interactions; biotechnology; bioinformatics

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

State of the Art of Gut Microbiota in Italy (2025, 2026)

edited by

Maddalena Rossi

and Francesco Candeliere

submission deadline 31 Jul 2026 | Viewed by 219 | Submission Open

Keywords: metagenomics; genomics; gut microbiota; probiotics; microbial ecology; microbial biotechnology

(This special issue belongs to the Section Gut Microbiota)

Bacterial Resistance and Adaptation in the Post-Antibiotic Ban Era

edited by

Abdelaziz Ed-Dra

and

Min Yue

submission deadline 31 Jul 2026 | Viewed by 212 | Submission Open

Keywords: impact of antibiotic bans; antibiotic use; antimicrobial resistance; antibiotic restrictions

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

Paramecium as Modern Model System, 2nd Edition

edited by

Masahiro Fujishima

submission deadline 31 Jul 2026 | Viewed by 124 | Submission Open

Keywords: mating type; lifespan; parasitism and endosymbiosis; nuclear differentiation; evolution of species and syngen; genome rearrangement; signal transduction; intracellular trafficking; ciliary movement; contractile vacuole; sexual reproduction; surface antigen; environmental adaptation; water purification; use as food

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

State-of-the-Art Environmental Microbiology in China 2026

edited by

Zhiyong Li

submission deadline 31 Jul 2026 | Viewed by 96 | 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; etc.; microbial pollution: pathogenic microorganisms in the environment (water/soil/air/food); microbial metabolism and environmental pollution (e.g.; microbial toxin); etc.; microbiological monitoring: testing method and monitoring technique development

(This special issue belongs to the Section Environmental Microbiology)

Microorganisms in Plastics and Bioplastics: Biodegradation, Biosynthesis, and Environmental Impacts

edited by

Alane Beatriz Vermelho

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

Keywords: plastic pollution; bioplastics; biodegradation; biosynthesis; synthetic polymers; sustainable development

(This special issue belongs to the Section Environmental Microbiology)

Microbial Biotechnology in Biofuels and Bioproducts

edited by Silvia González-Rojo

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

Keywords: microbial biotechnology; agro industrial residues; biorefineries; biofuels; biogas; bioplastics; polyhydroxyalkanoates (PHAs); bio-based products; waste valorization; circular bioeconomy

(This special issue belongs to the Section Microbial Biotechnology)

Microbial Interactions and Community Assembly Mechanisms

edited by

Yulin Wang

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

Keywords: microbial ecology; microbial interactions; microbial adaptation; community reassembly; symbiotic interactions; phage– bacteria interactions; multiomics; microbial network; microbial stability; inter-species communication

(This special issue belongs to the Section Microbiomes)

Non-Tuberculous Mycobacteria: Emerging Diseases and Health Impacts, 2nd Edition

edited by

Roger Pickup

and

Gaurav Agrawal

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

Keywords: Nontuberculous mycobacteria (NTM); Mycobacterium avium (M. avium); Mycobacterium abscessus (M. abscessus); Mycobacterium ulcerans; Mycobacterium chelonae; Mycobacterium chimaera

(This special issue belongs to the Section Medical Microbiology)

Advances in Gut Microbiota–Host Interactions: Microbial Mechanisms, Modulators, and Translational Perspectives

edited by

Maria Rosaria Matera

and

Lorenzo Drago

submission deadline 31 Jul 2026 | Viewed by 25 | Submission Open

Keywords: gut microbiota; host– microbe interactions; microbiota resilience; antibiotic– microbiota interactions; microbial metabolism; microbial functional traits; microbiota– gut– brain axis; precision microbiota modulation; translational microbiome research; functional microbiomics

(This special issue belongs to the Section Gut Microbiota)

Epidemiology of Foodborne and Waterborne Diseases

edited by

Apostolos Vantarakis

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

Keywords: foodborne diseases; waterborne diseases; epidemiology; outbreak investigation; surveillance; pathogens; risk factors analysis; water safety; food safety; one health; public health; risk assessment

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

Human Pathogen Infection and Pathogenesis Mechanisms

edited by

Panagiotis Karanis

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

Keywords: viruses; bacteria; fungi; parasites; pathogenicity; control

(This special issue belongs to the Section Medical Microbiology)

Advances in Mycoplasma Research, 2nd Edition

edited by Li Xiao

submission deadline 31 Jul 2026 | Viewed by 2 | Submission Open

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

(This special issue belongs to the Section Medical Microbiology)

Implementing Global Research on Sexually Transmitted Infections: A WHO Call to Action

edited by

Luca Roncati

submission deadline 31 Jul 2026 | Viewed by 2 | Submission Open

Keywords: sexually transmitted infections (STIs); Human Papilloma Virus (HPV); cervical cancer; Herpes Simplex Virus (HSV); Hepatitis B Virus (HBV); Hepatitis C Virus (HCV); hepatocellular carcinoma; liver cirrhosis; Human Immunodeficiency Virus (HIV); acquired immunodeficiency syndrome (AIDS); Chlamydia trachomatis; lymphogranuloma venereum; Klebsiella granulomatis; granuloma venereum; Neisseria gonorrhoeae; gonorrhea; Treponema pallidum; syphilis; Haemophilus ducreyi; chancroid; Mycoplasma genitalium; Trichomonas vaginalis

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

Biofilm: Formation, Control, and Applications, Second Edition

edited by Huan Gu

submission deadline 31 Jul 2026 | Submission Open

Keywords: biofilm formation; material properties; cell-to-cell interactions; prevention; removal; control

(This special issue belongs to the Section Biofilm)

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

edited by

Norma Velazquez-Guadarrama

and Ma. Guadalupe Aguilera-Arreola

submission deadline 31 Aug 2026 | 3 articles | Viewed by 4563 | Submission Open

Keywords: medical bacteria; diagnosis; treatment; prevention

(This special issue belongs to the Section Medical Microbiology)

Bacterial Infections and Antimicrobial Resistance in Animal Populations

edited by

Kwang Won Seo

submission deadline 31 Aug 2026 | 2 articles | Viewed by 4268 | Submission Open

Keywords: zoonotic foodborne bacteria; salmonellosis; antimicrobial resistance; virulence gene; multiple drug resistance; ESBL; beta-lactamases; PMQR; carbapenemases; MRSA

(This special issue belongs to the Section Veterinary Microbiology)

Rumen Microorganisms

edited by

Lizhuang Hao

and Jianbo Zhang

submission deadline 31 Aug 2026 | 5 articles | Viewed by 2876 | Submission Open

Keywords: rumen microbiota; rumen microbial ecology; rumen microbial interactions; rumen microbial metabolism; absorption; and function; bioinformatics and omics; feed conversion efficiency (FCE); methane emission

(This special issue belongs to the Section Veterinary Microbiology)

Microbiome- and Host-Mediated Effects of Prebiotics in Foods and Feeds

edited by

Ian Connerton

and Adam Lee

submission deadline 31 Aug 2026 | 1 articles | Viewed by 2541 | 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)

Microbe-Plant-Environment Interactions over Time

edited by

Phatu Mashela

submission deadline 31 Aug 2026 | Viewed by 386 | Submission Open

Keywords: microbe– plant– environment interaction; crops; plant pathogen

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

Molecular Mechanisms of Mammalian Intra-Amniotic Infection

edited by Matthew Jackson and Kevin Theis

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

Keywords: intra-amniotic infections; microbes; pathogenic mechanisms

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

Interactions Between Gut Microbiota and Its Host in Health and Diseases

edited by Anthony M. Buckley, Ioan-Tiberiu Tofolean, Luana Alexandrescu and

Andreea Nelson-Twakor

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

Keywords: gut microbiota; host– microbe interactions; dysbiosis; microbial metabolism; immune modulation; microbiome– host signaling; chronic inflammatory diseases; metabolic disorders; microbiota-targeted therapies; multi-omics approaches

(This special issue belongs to the Section Gut Microbiota)

Advances in Veterinary Microbiology—2nd Edition

edited by

Simone Peletto

submission deadline 31 Aug 2026 | Viewed by 90 | Submission Open

Keywords: African swine fever virus; bluetongue virus; arboviruses; microbiota; metagenomics; brucellosis

(This special issue belongs to the Section Veterinary Microbiology)

Displaying special issue 451-500 on page 10 of 11.

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