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  • Article
  • Open Access
Microorganisms2026, 14(2), 400;https://doi.org/10.3390/microorganisms14020400 
(registering DOI)

7 February 2026

To scientifically assess the effects of environmentally friendly fumigants on soil microbial communities, soils from a 7-year continuous cropping tomato greenhouse were studied, with unfumigated soil used as the control (CK). Rhizosphere soil samples...

  • Article
  • Open Access
Microorganisms2026, 14(2), 399;https://doi.org/10.3390/microorganisms14020399 
(registering DOI)

7 February 2026

The objective of this study was to evaluate the individual and synergistic antimicrobial efficacy of Juniperus excelsa berry essential oil (JEO) and the cell-free supernatant (CFS) from Streptococcus thermophilus against Escherichia coli (ATCC 43888)...

  • Review
  • Open Access

Perioperative Management of Biologic and Targeted Synthetic DMARDs in Orthopedic Surgery: Balancing Infection Risk and Disease Control

  • Francesco Mancuso,
  • Jacopo Angelini,
  • Alen Zabotti,
  • Francesco Russiani,
  • Massimo Baraldo,
  • Luca Quartuccio,
  • Hemant Pandit,
  • Paolo Di Benedetto and
  • Araldo Causero
Microorganisms2026, 14(2), 398;https://doi.org/10.3390/microorganisms14020398 
(registering DOI)

7 February 2026

The perioperative management of biologic and immunomodulatory therapies in patients undergoing orthopedic surgery poses a clinical challenge, primarily due to the increased risk of postoperative infections. Biologic agents, particularly TNF inhibitor...

  • Article
  • Open Access

While intensive aquaculture has developed rapidly, the consequent buildup of nitrogenous compounds, poses a critical threat to aquatic organisms. Microbial degradation offers an environmentally sustainable solution. We investigated the metabolic regu...

  • Article
  • Open Access

Molecular Evolution of the Fusion (F) Genes in Human Metapneumovirus Genotype B

  • Tatsuya Shirai,
  • Fuminori Mizukoshi,
  • Mitsuru Sada,
  • Kazuya Shirato,
  • Takeshi Saraya,
  • Haruyuki Ishii,
  • Ryusuke Kimura,
  • Toshiyuki Sugai,
  • Akihide Ryo and
  • Hirokazu Kimura

Human metapneumovirus genotype B (HMPV-B) is an important respiratory pathogen, requiring detailed elucidation of the evolutionary and antigenic features of its fusion (F) gene. Using 500 sequences collected between 1982 and 2024, we investigated the...

  • Article
  • Open Access

Early-Stage Growth Restriction of Hymenoscyphus fraxineus on Tolerant Fraxinus excelsior Is Associated with Constitutive Chemical Defenses

  • Akira Hattori,
  • Shunsuke Masuo,
  • Yasuhiro Ishiga,
  • Yutaka Tamai,
  • Yuichi Yamaoka and
  • Izumi Okane

Hymenoscyphus fraxineus is the causal agent of ash dieback, a devastating disease of European ash (Fraxinus excelsior). Although the pathogen is believed to have originated in East Asia and has been confirmed in Japan, European ash trees cultivated i...

  • Review
  • Open Access

Artificial Intelligence as a Catalyst for Antimicrobial Discovery: From Predictive Models to De Novo Design

  • Romaisaa Boudza,
  • Salim Bounou,
  • Jaume Segura-Garcia,
  • Ismail Moukadiri and
  • Sergi Maicas
Microorganisms2026, 14(2), 394;https://doi.org/10.3390/microorganisms14020394 
(registering DOI)

6 February 2026

Antimicrobial resistance represents one of the most critical global health challenges of the 21st century, urgently demanding innovative strategies for antimicrobial discovery. Traditional antibiotic development pipelines are slow, costly, and increa...

  • Article
  • Open Access

Management of heavily treatment-experienced people living with HIV (HTE-PWH) remains challenging due to long antiretroviral therapy (ART) exposure and limited treatment options. We conducted an observational, real-world-data study on HTE-PWH in activ...

  • Review
  • Open Access

Revealing Microbial Siderophores: From Genes to Applications

  • Jionglin Cai,
  • Yuting Fang,
  • Xia Liu,
  • Mark Owusu Adjei and
  • Ben Fan

Iron is an essential micronutrient for nearly all microorganisms, yet its bioavailability is severely limited in most environments. To overcome this restriction, microorganisms produce siderophores, high-affinity iron-chelating molecules that play pi...

  • Article
  • Open Access

This study focused on the links between soil physicochemical properties and the gut microbiota of goitered gazelles (Gazella subgutturosa) in the hyper-arid Qaidam Basin. By integrating 16S rRNA gene sequencing, soil physicochemical analysis (11 soil...

  • Communication
  • Open Access

Preliminary Screening for Ophidiomyces ophidiicola in Pet Snakes from Italy and Exploratory Evaluation of Droplet Digital PCR Assay

  • Matteo Riccardo Di Nicola,
  • Simona Sciuto,
  • Daniele Marini,
  • Luca Colla,
  • Giacomo Vanzo,
  • Gabriele Carsana,
  • Emanuele Scanarini,
  • Luana Dell’Atti,
  • Giulia Milanese and
  • Pier Luigi Acutis
  • + 5 authors

Ophidiomyces ophidiicola, the agent of ophidiomycosis, has recently been reported in wild snakes in Italy, but the status of captive populations remains unknown. We carried out an opportunistic survey of pet snakes from private collections and,...

  • Article
  • Open Access

The diagnosis and treatment of Helicobacter pylori infection in children represent a major public health problem worldwide, and although prevalence in developed countries has declined, concern about antibiotic resistance continues to grow. This retro...

  • Article
  • Open Access

Establishing mixed conifer–broadleaf forests enhances soil multi-nutrient cycling (SMC), yet the underlying mechanisms, particularly the role of rhizosphere microbial communities, remain poorly understood. This study investigated how bacterial...

  • Review
  • Open Access

Basic Microbiome Analysis: Analytical Steps from Sampling to Sequencing

  • Gülfem Ece,
  • Ahmet Aktaş,
  • Özlem Koyuncu Özyurt,
  • Hadiye Demirbakan,
  • Hikmet Eda Alışkan,
  • İmran Sağlık,
  • Orçun Zorbozan,
  • Alev Çetin Duran,
  • Ayşe Rüveyda Uğur and
  • Tuba Kula Atik
  • + 8 authors

The human microbiome is increasingly recognized as a key determinant of health and disease, yet methodological variability continues to limit reproducibility and clinical translation of findings. This review synthesizes current approaches in microbio...

  • Review
  • Open Access

Chronic rhinosinusitis (CRS) is a heterogeneous inflammatory disease of the nasal and paranasal sinus mucosa with substantial impact on quality of life. Although atopy and/or allergic rhinitis frequently coexist with CRS, often alongside type 2-skewe...

  • Article
  • Open Access

Novel Skin- and Oral-Derived Probiotic Candidates: Functional Evaluation and Application Perspectives

  • Ivana Repić,
  • Nina Čuljak,
  • Matea Hrupački,
  • Iva Čanak,
  • Ksenija Markov and
  • Jadranka Frece

The skin and oral environment represent complex microbial ecosystems that host diverse bacterial communities with potential health-promoting properties beyond the gastrointestinal tract (GIT). In this study, four bacterial and three yeast isolates we...

  • Article
  • Open Access

Hyperuricemia is a metabolic disorder characterized by elevated serum uric acid levels and is increasingly linked to alterations in intestinal mucosal condition and gut microbiota composition. Probiotics have been proposed as safe, non-pharmacologica...

  • Review
  • Open Access

Exploring the Diversity and Applications of Lactic Acid Bacteria from Tunisian Traditional Fermented Foods

  • Sabrine Alebidi,
  • Hana Mallek,
  • Mariagiovanna Fragasso,
  • Vittorio Capozzi,
  • Ferid Abidi,
  • Ines Essid,
  • Giuseppe Spano and
  • Hiba Selmi

Tunisian traditional fermented foods represent a valuable cultural heritage transmitted across generations and are highly appreciated by consumers for their distinctive flavours, textures, and nutraceutical value. This review provides the first compr...

  • Article
  • Open Access
7 Views
19 Pages

Genomic Characterization, Safety Assessment, and Probiotic Potential of a Novel Human-Derived Enterococcus lactis IOBRA9746

  • Dongxiong Hu,
  • Jiao Yan,
  • Yuxin Li,
  • Jun Wu,
  • Yifan Xie,
  • Lirong Peng,
  • Erhong Zhang,
  • Hao Jiang,
  • Qinmiao Sun and
  • Xiao Chu

Probiotic strains exhibiting bile salt hydrolase (BSH) activity represent a promising therapeutic strategy for ameliorating metabolic disorders via targeting the gut–liver axis. Herein, we characterized a newly isolated human-derived Enterococc...

  • Article
  • Open Access
31 Views
19 Pages

Siderophore-Producing Bacteria from the Santiago River: A Quantitative Study and Biocomposite Applications

  • Mariana R. Corona-Ramírez,
  • Nidia N. García-Valdez,
  • Luis A. Romero-Cano,
  • Camila S. Gómez-Navarro,
  • Ma Isidora Bautista-Toledo,
  • Francisco Carrasco-Marín,
  • Fabiola Padilla-Arizmendi,
  • Karina Sandoval-García and
  • Marco A. Zárate-Navarro

The Santiago River near the Guadalajara Metropolitan Area is one of the most contaminated water bodies in Mexico, where heavy metals pose a major threat to aquatic ecosystems. Chronic metal pollution has promoted the adaptation of native microbial co...

  • Review
  • Open Access
41 Views
17 Pages

Understanding the intimate interactions between plants and their microbiota at the cellular level is essential for unlocking the full potential of plant holobionts in agricultural systems. Traditional bulk and microbial community-level sequencing app...

  • Article
  • Open Access
44 Views
15 Pages

Assessment of Helicobacter pylori Prevalence in Fresh Raw Meat: Species and Source-Based Analysis

  • Dhary A. Almashhadany,
  • Sara M. Mayas,
  • Abdulwahed A. Hassan and
  • Izhar U. H. Khan

Helicobacter pylori is a major causative agent of chronic gastritis, gastric and duodenal ulcers, gastric cancer, and mucosa-associated lymphoid tissue lymphoma. Transmission to humans may occur through the consumption of contaminated food. This stud...

  • Article
  • Open Access
32 Views
14 Pages

A Novel Bicistronic Adenovirus Vaccine Elicits Superior and Comprehensive Protection Against BVDV

  • Mingguo Xu,
  • Chuangfu Chen,
  • Hengyun Gao,
  • Hao Guo,
  • Xueyu Tao,
  • Huan Zhang,
  • Yong Wang,
  • Zhongchen Ma,
  • Zhen Wang and
  • Hui Zhang
  • + 1 author

Bovine viral diarrhea virus (BVDV) is a major pathogen inflicting substantial economic losses on the global cattle industry. To develop a more effective vaccine, we constructed two novel bicistronic recombinant adenoviruses, rAdV-I E0+I E2 and rAdV-I...

  • Article
  • Open Access
61 Views
11 Pages

Pseudomonas aeruginosa is a clinically important opportunistic pathogen in dogs and cats, frequently associated with chronic infections and increasing antimicrobial resistance. In 2024, 111 P. aeruginosa isolates from 77 dogs and 34 cats were analyze...

  • Article
  • Open Access
39 Views
14 Pages

Low Nitrogen Concentration and Acidic pH Enhance the Antifungal Activity Against Botrytis cinerea of an Endophytic Alternaria sp. Isolated from Opuntia ficus-indica

  • Leonora Mendoza,
  • Camilo Aguirre,
  • Rodolfo Parada,
  • Hristo Parada,
  • Paulo Castro,
  • Freddy Navarro,
  • Araceli Vidal and
  • Milena Cotoras

Endophytic fungi from the Cactaceae family are an underexplored source of bioactive secondary metabolites with potential applications in sustainable agriculture. This study investigated an endophytic fungus obtained from healthy cladodes of Opuntia f...

  • Article
  • Open Access
52 Views
13 Pages

Composite integrative and conjugative elements (ICEs) frequently mediate the co-transfer of multiple antibiotic resistance genes during horizontal gene transfer, but their formation mechanisms remain unclear. This study investigated the site-specific...

  • Article
  • Open Access
120 Views
13 Pages

Development and Validation of a Population Assay for the Seroprevalence of Lumpy Skin Disease

  • Manjunatha Reddy Gundallahalli Bayyappa,
  • Sudeep Nagaraj,
  • Shraddha Bijalwan,
  • Chethan Kumar Harlipura Basavarajappa,
  • Sathish Bhadravati Shivachandra and
  • Baldev Raj Gulati

Lumpy Skin Disease (LSD) is a transboundary bovine viral disease. It has a significant economic impact and is caused by the Lumpy Skin Disease Virus (LSDV). Effective surveillance tools are essential for the early detection of infection, outbreak con...

  • Article
  • Open Access
108 Views
14 Pages

Microbiological Efficacy and Cost-Effectiveness of Poultry Carcass Excision Sampling Methods in Brazil

  • Pricila Borges,
  • Luciana Mena,
  • Sandra Heidtmann,
  • José Queluz,
  • Natalia Lopes,
  • Jaqueline Cruvinel,
  • Michele Nesi,
  • Juliana Schmitz,
  • Anabile Lisboa and
  • Eduardo Tondo
  • + 3 authors

Brazil is among the world’s leading exporters of chicken meat, and microbiological evaluation of carcasses is essential to verify process hygiene and safety. This study assessed the microbiological effectiveness and economic impact of two sampl...

  • Article
  • Open Access
172 Views
15 Pages

Biocontrol Potential of Three Bacterial Strains, Isolated from Vermicompost, Against Pre-Emergence Damping-Off of Tomato Caused by Rhizoctonia solani, Under Laboratory and Greenhouse Conditions

  • Mohamed Baha Saeed,
  • Abdulaziz M. Alnasser,
  • Nasser I. Alaruk,
  • Abdulrahmn A. Algrwai,
  • Salman A. Aloudah,
  • Sultan M. Al-Eid and
  • Mark D. Laing

Synthetic chemicals, such as fertilizers and pesticides, are widely used in agriculture to improve soil fertility and to control weeds, pests and diseases. Numerous studies have highlighted the negative effects of these chemicals on the soil environm...

  • Article
  • Open Access
168 Views
24 Pages

This study evaluated the effects of dietary supplementation with N-Carbamylglutamate (NCG) on growth performance, immune function, intestinal metabolites, and microbiota in Danzhou chickens. In a 35-day feeding trial, a total of 480 one-day-old femal...

  • Article
  • Open Access
148 Views
15 Pages

Unlocking the Diagnostic Challenge of Tuberculosis and Sarcoidosis Intrathoracic Lymphadenopathy: Potential Role of HMGB1 and miRNA-221 as Diagnostic Tools

  • Fatma Z. Kamel,
  • Nagwan Adel Ismail,
  • Asmaa Z. Khater,
  • Alia A. El Shahawy,
  • Noura Almadani,
  • Chandrakala Sankarapandian and
  • Noha M. Hammad

Tuberculosis and sarcoidosis can present with similar clinical and radiological features, especially intrathoracic lymphadenopathy, complicating differential diagnosis. This study explored the potential utility of QuantiFERON-TB Gold (QFT), serum Hig...

  • Article
  • Open Access
147 Views
23 Pages

A Biofilm-State Bacillus thuringiensis Formulation Drives Midgut Structural Disruption and Transcriptomic Reprogramming in Ectropis grisescens

  • Yimeng Zhang,
  • Hongzheng Hu,
  • Wenhui Pan,
  • Zixuan Wang,
  • Yanqin Chen,
  • Mengqi Qiu,
  • Xueqin Luo,
  • Qiuting Xu,
  • Hongxin Su and
  • Tianpei Huang
  • + 1 author

Bacillus thuringiensis (Bt) is one of the most extensively used microbial insecticides, attributed to the action of insecticidal crystal proteins (ICPs), primarily Cry toxins, which mediate damage to the insect midgut epithelium. Recent evidence sugg...

  • Systematic Review
  • Open Access
99 Views
20 Pages

Emergent Candida Species on Healthcare Surfaces: Abiotic Reservoirs as a Source of Invasive Candidiasis

  • Iker De-la-Pinta,
  • Cristina Marcos-Arias,
  • Elena Sevillano,
  • Elena Eraso and
  • Guillermo Quindós

The aetiology of invasive candidiasis is undergoing substantial changes; traditionally, these mycoses have been considered to originate from endogenous reservoirs; however, the increasing prevalence of non-Candida albicans species, such as Candida pa...

  • Article
  • Open Access
190 Views
12 Pages

Evaluation of the Bacterial Diversity in the World’s Deepest Cave—Veryovkina, Arabika Massif, Western Caucasus

  • Yordan Hodzhev,
  • Violeta Zhelyazkova,
  • Nia Toshkova,
  • Anna S. Barashkova,
  • Borislava Tsafarova,
  • Stefan Panaiotov and
  • Pavel Stoev

Veryovkina Cave is the world’s deepest known cave (2212 m deep). It is located in the Arabika Massif of Gagra Mountain in the Western Caucasus. Its microbiome remains unknown because of difficulties in access. Ten sediment samples were collecte...

  • Review
  • Open Access
207 Views
18 Pages

The global poultry industry continues to face significant challenges due to Salmonella infections, which pose severe public health concerns and economic losses. Recently, the reemergence of antimicrobial resistance has led to the restriction of antib...

  • Case Report
  • Open Access
127 Views
14 Pages

Reactive Infectious Mucocutaneous Eruption (RIME) Associated with Mycoplasma pneumoniae: Clinical and Immunological Insights from Pediatric Cases

  • David M. Matea,
  • Raluca Isac,
  • Estera Boeriu,
  • Patricia Urtila,
  • Gabriela Doros,
  • Mihaela Bataneant,
  • Andrada L. Oprisoni and
  • Smaranda T. Arghirescu

Reactive infectious mucocutaneous eruption (RIME) is a rare pediatric condition characterized by severe mucositis, minimal cutaneous involvement, and an infectious rather than drug-induced etiology. Mycoplasma pneumoniae (M. Pneumoniae) represents th...

  • Article
  • Open Access
174 Views
18 Pages

Desert Plant Seed Endophytes: A Reservoir of Stress-Adapted Bacillus Strains for Enhancing Wheat Salinity Tolerance

  • Kerong Wang,
  • James F. White,
  • Zhaohua Zhu,
  • Wenqiang Zhang,
  • Xinrong Li and
  • Shanjia Li

Land desertification poses a major ecological challenge and threatens agricultural productivity. This study investigated the seed endophytic microbiomes of desert plants as a potential resource for mitigating salt stress in crops. Using high-throughp...

  • Article
  • Open Access
127 Views
19 Pages

A Pseudotumorous Syndrome Associated with an As-Yet-Unidentified Eukaryotic Parasite Causing Functional Gonadal Arrest in Largefin Longbarbel Catfish (Hemibagrus macropterus)

  • Yang Feng,
  • Senyue Liu,
  • Hongyu Ke,
  • Huadong Li,
  • Han Zhao,
  • Xinyan Dang,
  • Chengyan Mou,
  • Jian Zhou,
  • Zhipeng Huang and
  • Qiang Li
  • + 1 author

This study presents the first documented case of a disease syndrome in cultured largefin longbarbel catfish (Hemibagrus macropterus). The condition is characterized by massive abdominal pseudotumor formation, severe cachexia, and functional gonadal a...

  • Article
  • Open Access
98 Views
19 Pages

Prevalence and Tetracycline Susceptibility of Chlamydia suis in Different Intestinal Sections of Pigs from Commercial Farms

  • Margaux Verhaeghe,
  • Charlotte De Bruyne,
  • Anne De Meyst,
  • Toon Rombouts,
  • Jeroen Degroote,
  • Bert Devriendt and
  • Daisy Vanrompay

Chlamydia suis, a close relative of the human pathogen C. trachomatis, can be detected in the porcine gut, yet its prevalence and viability across intestinal segments remain poorly defined. This study aimed to assess the segment-specific prevalence,...

  • Article
  • Open Access
104 Views
34 Pages

In this study, we address the criteria for the identification of species and subspecific categories (ribosomal lineages) within the genus Entamoeba using an evolutionary species concept and an integrative taxonomic framework, in which genetic evidenc...

  • Article
  • Open Access
131 Views
14 Pages

Effect of By-Products from Pistachio Skin on Gastrointestinal Microbiota of Healthy Lambs as Sustainable Feeding Ingredient

  • Georgiana Bosco,
  • Amanda Vaccalluzzo,
  • Nunziatina Russo,
  • Alessandra Pino,
  • Cinzia Caggia and
  • Cinzia Lucia Randazzo

Pistachio skin is a by-product that is considered a promising novel feed ingredient for ruminants; however, its role in shaping the lamb gastrointestinal tract microbiota is poorly studied. The present study aimed to investigate, through a metagenomi...

  • Article
  • Open Access
132 Views
14 Pages

Background: Coronary heart disease (CHD) is the leading cause of death and disability worldwide. The human microbiota, particularly gut bacteria, plays a role in the development of CHD. However, determining the contribution of gut bacteria translocat...

  • Review
  • Open Access
159 Views
27 Pages

Group A Streptococcal Virulence Factors and Vaccine Development—An Update

  • Shunyi Fan,
  • Catherine Jia-Yun Tsai,
  • Jacelyn Mei San Loh and
  • Thomas Proft

A Group A Streptococcus (GAS, Streptococcus pyogenes) is an exclusively human pathogen whose virulence is driven by a diverse array of surface structures, secreted toxins, and immune evasion mechanisms. Central to its pathogenicity is the M protein,...

  • Article
  • Open Access
186 Views
19 Pages

Invasive meningococcal disease (IMD) is classically associated with meningitis and septic shock, but an increasing proportion of cases present with atypical, extra-meningeal manifestations. Following the COVID-19 pandemic, major epidemiological shift...

  • Article
  • Open Access
173 Views
15 Pages

Maladaptive Trained Immunity Drives Persistent IL-6 Production and Enhanced TLR Responsiveness in Monocyte-Derived Macrophages from People Living with HIV

  • Larisa Dubrovsky,
  • Tatiana Pushkarsky,
  • Beda Brichacek,
  • Ashley Bastin,
  • Afsoon Roberts,
  • Jose Lucar,
  • Maria Elena Ruiz,
  • Oleksandr Semeniuk,
  • Marc Siegel and
  • Michael I. Bukrinsky
  • + 1 author

Trained immunity (TRIM) enhances innate immune responses through epigenetic and metabolic reprogramming but may become maladaptive, contributing to chronic inflammation. In people living with HIV (PLWH), maladaptive TRIM has been proposed but remains...

  • Article
  • Open Access
144 Views
15 Pages

Plant Growth-Promoting Rhizobacteria as a Strategy to Enhance Enzymatic and Metabolic Tolerance of Cucumis sativus L. Under Salinity Stress

  • Laura-Andrea Pérez-García,
  • Jorge Sáenz-Mata,
  • Manuel Fortis-Hernandez and
  • Pablo Preciado-Rangel

Cucumis sativus L., a salt-sensitive horticultural crop, is severely affected by soil salinity, which disrupts photosynthetic efficiency and metabolic homeostasis. This study quantified the effects of Plant Growth-Promoting Rhizobacteria (PGPR)&mdash...

  • Article
  • Open Access
97 Views
22 Pages

Anti-Inflammatory Effect of Excretion-Secretion Products of Clinostomum marginatum (Digenea: Clinostomidae) and Its Effect over the Viability and Antioxidative Activity of a Mix of Lactobacillus and/or Bifidobacterium

  • María Angélica Gutiérrez-Nava,
  • Raquel González-Vázquez,
  • Miguel Ángel Mosqueda-Cabrera,
  • Daniela Reyna-González,
  • Felipe Mendoza-Pérez,
  • Eduardo Zúñiga-León,
  • Leovigildo Mateos-Sánchez,
  • Pedro A. Reyes-Castillo,
  • Rosa González-Vázquez and
  • Ana Laura Esquivel-Campos
  • + 4 authors

The trematode Clinostomum marginatum, secretes excretory-secretory products (ESPs) which have the potential to increase the viability and antioxidant activity of probiotic strains. The aim of this study was to identify the ESP profile of C. marginatu...

  • Article
  • Open Access
210 Views
21 Pages

Plant Growth-Promoting Rhizobacteria (PGPR), represent a promising tool for the development of sustainable agriculture practices. Although numerous strains have been described in the literature, their characterisation often overlooks the ability to s...

  • Article
  • Open Access
150 Views
16 Pages

Lactic acid bacteria (LAB) are widely used in food systems; among them, bacteriocin-producing strains have attracted attention for their potential in the biopreservation of dairy products. This study started from the detection of bacteriocin-encoding...

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Microorganisms - ISSN 2076-2607