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Investigating the Distribution of Intimin and Invasin in Aeromonas hydrophila and Their Role in Host Tissue Attachment
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Advancing Dye Degradation: Integrating Microbial Metabolism, Photocatalysis, and Nanotechnology for Eco-Friendly Solutions
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Presence, Pathogenicity, Antibiotic Resistance, and Virulence Factors of Escherichia coli: A Review
Journal Description
Bacteria
Bacteria
is an international, peer-reviewed, open access journal on bacteriology published quarterly online by MDPI.
- Open Access— free for readers, with article processing charges (APC) paid by authors or their institutions.
- High Visibility: indexed within Scopus and other databases.
- Rapid Publication: manuscripts are peer-reviewed and a first decision is provided to authors approximately 27.4 days after submission; acceptance to publication is undertaken in 4.3 days (median values for papers published in this journal in the second half of 2024).
- Recognition of Reviewers: APC discount vouchers, optional signed peer review, and reviewer names published annually in the journal.
- Bacteria is a companion journal of Pathogens and Microorganisms.
Latest Articles
Deciphering the Structural and Functional Paradigms of Clostridioides difficile Toxins TcdA and TcdB
Bacteria 2025, 4(2), 21; https://doi.org/10.3390/bacteria4020021 - 3 Apr 2025
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Clostridioides difficile Infection (CDI) continues to be a major cause of antibiotic-associated diarrhea and pseudomembranous colitis, fueled in large measure by virulence factors TcdA and TcdB. These giant glucosyltransferase toxins interfere with host cytoskeletal integrity and inflammatory signaling by inhibiting Rho GTPase; however,
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Clostridioides difficile Infection (CDI) continues to be a major cause of antibiotic-associated diarrhea and pseudomembranous colitis, fueled in large measure by virulence factors TcdA and TcdB. These giant glucosyltransferase toxins interfere with host cytoskeletal integrity and inflammatory signaling by inhibiting Rho GTPase; however, the detailed structural dynamics, receptor selectivity, and subcellular trafficking mechanisms remain in part unspecified. This review integrates recent insights from cryo-electron microscopy (cryo-EM) and X-ray crystallography to describe the quaternary architecture of TcdA/B, emphasizing conformational changes key to pore formation and endosomal escape. We also examine the genomic heterogeneity of hypervirulent C. difficile strains (e.g., ribotype 027), correlating toxin gene polymorphisms (e.g., tcdC mutations) with increased toxin production and virulence. Mechanistic explanations of toxin-driven inflammasome activation and epithelial barrier dysfunction are situated within host immune evasion mechanisms, including microbiota-derived bile acid regulation of toxin stability. Subsequent innovative therapeutic strategies, encompassing the utilization of engineered neutralizing antibodies that specifically target the autoprocessing domain alongside structure-guided small-molecule inhibitors, are subjected to a rigorous evaluation. By integrating structural biology, systems-level omics, and clinical epidemiology, this review establishes a comprehensive framework for understanding C. difficile toxin pathogenesis and guiding next-generation precision antimicrobials.
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Open AccessBrief Report
Antibacterial Potential of Essential Oils Against E. coli and Salmonella spp. in Minimally Processed Foods
by
Aline Sitowski, Gladis Aver Ribeiro, Emma J. Murphy and Gustavo Waltzer Fehrenbach
Bacteria 2025, 4(2), 20; https://doi.org/10.3390/bacteria4020020 - 3 Apr 2025
Abstract
Minimally processed foods (MPFs), often considered ready-to-eat, do not undergo cooking and therefore require proper handling and preparation to ensure safety. If not handled correctly, these foods can serve as a pathway for diseases caused by pathogenic bacteria, including Escherichia coli and Salmonella
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Minimally processed foods (MPFs), often considered ready-to-eat, do not undergo cooking and therefore require proper handling and preparation to ensure safety. If not handled correctly, these foods can serve as a pathway for diseases caused by pathogenic bacteria, including Escherichia coli and Salmonella spp. The antibacterial activity of essential oils (EOs) has been increasingly studied as a tool for controlling microorganisms in the food sector. Therefore, we aimed to verify the contamination of MPF by E. coli and Salmonella and to test the sensitivity of these strains to Copaifera langsdorffii, Schinus terebinthifolius, Citrus reticulata, Eucalyptus citriodora, Elettaria cardamomum, Ocimum basilicum, and Eugenia caryophyllus EOs using the minimum inhibitory concentration (MIC) and minimum bactericidal concentration (MBC) methods. From 25 MPF samples, one E. coli strain and one Salmonella spp. were isolated. C. langsdorffii and C. reticulata EOs did not show antibacterial activity, while S. terebinthifolius and E. citriodora inhibited the growth of both strains. The E. cardamomum, O. basilicum, and E. caryophyllus EOs presented inhibitory and bactericidal responses at concentrations 0.78, 0.39, and 0.19% (v/v), respectively, compared to the two isolated strains. The present study reinforces the antibacterial potential of EOs and suggests their application in the MPF production chain.
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Open AccessArticle
Molecular Detection of Colistin-Resistant E. coli in Village Chickens from Kelantan, Malaysia
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Habiba Lawal, Shamsaldeen Ibrahim Saeed, Nor Fadhilah Kamaruzzaman, Zarizal Suhaili, Gaddafi Mohammed Sani, Mulu Lemlem, Qiya Yang and Erkihun Aklilu
Bacteria 2025, 4(2), 19; https://doi.org/10.3390/bacteria4020019 - 2 Apr 2025
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Pathogenic Escherichia coli can cause a variety of intestinal and extra-intestinal infections in humans and animals. The availability and subsequent misuse of antimicrobials, especially in poultry production systems, has contributed immensely to the emergence and spread of multidrug-resistant E. coli. This study
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Pathogenic Escherichia coli can cause a variety of intestinal and extra-intestinal infections in humans and animals. The availability and subsequent misuse of antimicrobials, especially in poultry production systems, has contributed immensely to the emergence and spread of multidrug-resistant E. coli. This study investigated the genotypic characterization of colistin-resistant E. coli and selected antimicrobial-resistance encoding genes along with their phenotypic resistant pattern and the multiple antimicrobial resistant (MAR) index from village chickens in Kelantan. Sixty E. coli isolates obtained from a previous study’s stock culture were enriched and analyzed using routine microbiological methods: Kirby–Bauer disc diffusion method, minimum inhibitory concentration (MIC), and PCR amplification of E. coli species-specific and multidrug-resistance mcr-positive E. coli. All the isolates were confirmed as E. coli and 16.6% (10/60) were positive for mcr. Five isolates were positive for mcr-1, three for mcr-4, and two for mcr-9. The mcr-positive isolates showed varying degrees of resistance to different antimicrobials. The isolates were resistant to gentamicin (100%), chloramphenicol (100%), and tetracycline (89.4%) and susceptible to ceftaxidime (2.26%) and imipenem (18%). Furthermore, 100%, 94.7%, and 89.4% of isolates from village chickens belonged to phylogroup C, B2, and E, while 21.0% and 42.1% of the isolates belonged to phylogroup A and B1, respectively. Sequence types (STs) of selected E. coli isolates were further analyzed using multi-locus sequence typing, and 10 different STs were identified. This study showed the emerging threats of multidrug-resistant mcr-positive E. coli gene in village chickens that are believed to be raised with minimal or no antibiotics.
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Open AccessArticle
Antimicrobial Resistance Patterns and Serological Diversity of Shigella Species from Patient Isolates at University Teaching Hospital in Lusaka, Zambia
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Mike Nundwe, Joseph Yamweka Chizimu, John Mwaba, Misheck Shawa, Rodrick S. Katete, Mable Mwale Mutengo, Ruth Nakazwe, Namwiinga R. Mulunda, Cephas Sialubanje, Mox Malama Kalumbi, Yamba Kaunda, Rapheal Chanda, Herman Chambaro, Harvey K. Kamboyi, Thoko Kapalamula, Steward Mudenda, Freeman W. Chabala, Bernard M. Hang’ombe, Roma Chilengi, Chie Nakajima and Yasuhiko Suzukiadd
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Bacteria 2025, 4(2), 18; https://doi.org/10.3390/bacteria4020018 - 2 Apr 2025
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Background: Shigella species are the leading cause of human shigellosis. In Zambia, more than 30% of children experiencing diarrhea are infected with Shigella species. The increasing resistance of Shigella species to the recommended therapy is of great concern. Therefore, this study investigated the
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Background: Shigella species are the leading cause of human shigellosis. In Zambia, more than 30% of children experiencing diarrhea are infected with Shigella species. The increasing resistance of Shigella species to the recommended therapy is of great concern. Therefore, this study investigated the antibiotic resistance profiles and phenotypic and genotypic characteristics of Shigella isolates at the largest referral hospital in Zambia. Methodology: Of the forty-eight archived presumptive Shigella isolates, thirty-two were serologically confirmed and subjected to antimicrobial susceptibility testing using the Kirby Bauer disk diffusion method. Thereafter, polymerase chain reaction was performed to detect the bla genes. Results: Most isolates were Shigella flexneri (16/32, 50%) and Shigella sonnei (14/32, 44%), while Shigella boydii and Shigella dysenteriae were rare. High resistance rates were noted for sulfamethoxazole/trimethoprim (78%) and tetracycline (75%), while 15.6% of the isolates showed resistance to ciprofloxacin and/or azithromycin. The blaTEM gene encoding beta-lactamase was detected in 7/32 (22%) of isolates. Conclusions: In this study, a significant number of multidrug-resistant isolates were identified. Additionally, Shigella species resistant to the World Health Organization-recommended drugs call for strengthened laboratory diagnosis and close monitoring of these pathogens to guide the clinical management of shigellosis.
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Open AccessArticle
Applied Time Series Analyses (2000–2017) of Vibrio vulnificus and Vibrio parahaemolyticus (Pathogenic and Non-Pathogenic Strains) in the Eastern Oyster, Crassostrea virginica
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Antonietta Quigg, Aurora Gaona-Hernández, Mona S. Hochman, Sammy M. Ray and John R. Schwarz
Bacteria 2025, 4(2), 17; https://doi.org/10.3390/bacteria4020017 - 1 Apr 2025
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Concerns about the health consequences of seafood-born human pathogens are ongoing given their occurrence, prevalence, and ability to cause infections, and sometimes death in humans as well as seafood-associated morbidity and mortality worldwide. An applied time-series (2000–2017) analysis of six reefs examined pathogen-specific
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Concerns about the health consequences of seafood-born human pathogens are ongoing given their occurrence, prevalence, and ability to cause infections, and sometimes death in humans as well as seafood-associated morbidity and mortality worldwide. An applied time-series (2000–2017) analysis of six reefs examined pathogen-specific annual trends and seasonal patterns in the eastern oyster, Crassostrea virginica, in Galveston Bay (Texas), a subtropical estuary in the Gulf of Mexico. Pearson correlation coefficients showed that temperature had a strong positive correlation with Vibrio vulnificus and V. parahaemolyticus (r = 0.66 and 0.51), but not the pathogenic thermostable direct hemolysin (tdh+) V. parahaemolyticus (r = 0.12). The correlations between Vibrio spp. and salinity showed the opposite trend. A cross-correlation factor analysis revealed the strongest positive correlations (r = 0.41 and r = 0.36, respectively) for high densities of V. vulnificus during high Perkinsus marinus infections with short lags (up to 1 month); this was not the case for total or tdh+ V. parahaemolyticus. These results reveal some of the complexity of interannual and long-term patterns of pathogens in oysters. Given climate change impacts and a growing aquaculture industry, examinations of oyster microbiomes in response to environmental and water quality variables are needed.
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Open AccessReview
Presence, Pathogenicity, Antibiotic Resistance, and Virulence Factors of Escherichia coli: A Review
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Natalie Naidoo and Oliver T. Zishiri
Bacteria 2025, 4(1), 16; https://doi.org/10.3390/bacteria4010016 - 11 Mar 2025
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Escherichia coli (E. coli) is a Gram-negative, commensal/pathogenic bacteria found in human intestines and the natural environment. Pathogenic E. coli is known as extra-intestinal pathogenic E. coli (ExPEC) or intestinal pathogenic E. coli (InPEC). InPEC E. coli strains are separated into
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Escherichia coli (E. coli) is a Gram-negative, commensal/pathogenic bacteria found in human intestines and the natural environment. Pathogenic E. coli is known as extra-intestinal pathogenic E. coli (ExPEC) or intestinal pathogenic E. coli (InPEC). InPEC E. coli strains are separated into six pathogenic groups, known as enteropathogenic (EPEC), enterotoxigenic (ETEC), enteroinvasive (EIEC), enteroaggregative (EAEC), enterohaemorrhagic (EHEC), and diffusely adherent (DAEC), that have various virulence factors that cause infection. Virulence factors refer to a combination of distinctive accessory traits that affect a broad range of cellular processes in pathogens. There are two important virulence factors that directly interact with cells to cause diarrhoeal diseases within the intestines: adhesion and colonization factors and exotoxins. Virulence factors are crucial for bacteria to overcome the host’s immune system and result in antibiotic resistance. Antibiotics are used to combat the symptoms and duration of infection by pathogenic E. coli. However, the misuse and overuse of antibiotics have led to the global concern of antibiotic resistance. Currently, the antibiotic colistin is the last-resort drug to fight infection caused by this bacterium. Antibiotic resistance can be achieved in two main ways: horizontal gene transfer and mutation in different genes. The genetic basis for developing antibiotic resistance in E. coli occurs through four mechanisms: limiting drug uptake, modification of the drug target, inactivation of the drug, and active efflux of the drug. These mechanisms use different processes to remove the antibiotic from the bacterial cell or prevent the antibiotic from entering the bacterial cell or binding to targets. This prevents drugs from working effectively, and bacteria can acquire antibiotic resistance. E. coli is classified into different phylogenetic groups (A, B1, B2, D1, D2, E, and clade I). It is a very versatile bacterium that can easily adapt to different environmental factors. The present review gathered information about the pathogenicity, antimicrobial resistance, and phylogenetics of E. coli. These aspects are interconnected; thus, it will provide information on tracking the spread of pathogenic strains and antibiotic resistance genes of different strains using phylogenetics and how antibiotic resistance genes evolve. Understanding genetic variation in E. coli will help in monitoring and controlling outbreaks and in developing novel antibiotics and treatment. The increasing rate of antibiotic resistance, and the ability of E. coli to evolve rapidly, suggest that in-depth research is needed in these areas.
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Open AccessFeature PaperReview
Advancing Dye Degradation: Integrating Microbial Metabolism, Photocatalysis, and Nanotechnology for Eco-Friendly Solutions
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Anjuman Ayub, Atif Khurshid Wani, Chirag Chopra, Devinder Kumar Sharma, Owais Amin, Ab Waheed Wani, Anjuvan Singh, Subaya Manzoor and Reena Singh
Bacteria 2025, 4(1), 15; https://doi.org/10.3390/bacteria4010015 - 7 Mar 2025
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Textile dyes pose a major environmental threat due to their toxicity, persistence in water bodies, and resistance to conventional wastewater treatment. To address this, researchers have explored biological and physicochemical degradation methods, focusing on microbial, photolytic, and nanoparticle-mediated approaches, among others. Microbial degradation
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Textile dyes pose a major environmental threat due to their toxicity, persistence in water bodies, and resistance to conventional wastewater treatment. To address this, researchers have explored biological and physicochemical degradation methods, focusing on microbial, photolytic, and nanoparticle-mediated approaches, among others. Microbial degradation depends on fungi, bacteria, yeasts, and algae, utilizing enzymatic pathways involving oxidoreductases like laccases, peroxidases, and azoreductases to breakdown or modify complex dye molecules. Photolytic degradation employs hydroxyl radical generation and electron-hole pair formation, while nanoparticle-mediated degradation utilizes titanium dioxide (TiO2), zinc oxide (ZnO), and silver (Ag) nanoparticles to enhance dye removal. To improve efficiency, microbial consortia have been developed to enhance decolorization and mineralization, offering a cost-effective and eco-friendly alternative to physicochemical methods. Photocatalytic degradation, particularly using TiO2, harnesses light energy for dye breakdown. Research advancements focus on shifting TiO2 activation from UV to visible light through doping and composite materials, while optimizing surface area and mesoporosity for better adsorption. Nanoparticle-mediated approaches benefit from a high surface area and rapid adsorption, with ongoing improvements in synthesis, functionalization, and reusability, particularly through magnetic nanoparticle integration. These emerging technologies provide sustainable solutions for dye degradation. The primary aim of this review is to comprehensively evaluate and synthesize current research and advancements in the degradation of azo dyes through microbial methods, photolytic processes, and nanotechnology-based approaches. The review also provides detailed information on salient mechanistic aspects of these methods, efficiencies, advantages, challenges, and potential applications in industrial and environmental contexts.
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Open AccessArticle
Effect of Xylooligosaccharides on the Metabolic Activity of Lactiplantibacillus plantarum S61: Production of Bioactive Metabolites with Antioxidant and Antimicrobial Properties
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Meryem Idrissi Yahyaoui, Nour Eddine Bentouhami, Sara Moumnassi, Amine Elbouzidi, Mohamed Taibi, Doha Berraaouan, Reda Bellaouchi, Bassem Jaouadi, Abdelkarim Abousalham, Ennouamane Saalaoui and Abdeslam Asehraou
Bacteria 2025, 4(1), 14; https://doi.org/10.3390/bacteria4010014 - 5 Mar 2025
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This study aimed to characterize the fermentation of commercial xylooligosaccharide (XOS) using Lactiplantibacillus plantarum S61. XOS was utilized as the main carbon source in a modified MRS medium (MRSm) at concentrations of 1%, 2%, 4%, and 6% (w/v). The
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This study aimed to characterize the fermentation of commercial xylooligosaccharide (XOS) using Lactiplantibacillus plantarum S61. XOS was utilized as the main carbon source in a modified MRS medium (MRSm) at concentrations of 1%, 2%, 4%, and 6% (w/v). The growth of L. plantarum S61 was tracked daily over a week and compared to a control MRS medium using glucose as the main carbon source. The pH, total free acidity, and biomass were analyzed during fermentation, and the resulting fermentation product was analyzed for its content of fatty acids, total polyphenols, and the production of antioxidant and antimicrobial metabolites. The findings revealed that L. plantarum S61 thrived in MRSm, particularly at a 6% XOS concentration, which was identified as the best condition among the four tested concentrations (1%, 2%, 4%, and 6%). The fermentation of XOS by L. plantarum S61 significantly increased the total phenolic content and antioxidant activity compared to glucose, with the highest phenolic content observed at 6% XOS (6.70 ± 0.01 mg GAE/g). The strains produced various organic acids including lactic, malic, and oxalic acids from glucose and XOS. Notably, the strains yielded a broader range of organic acids with higher contents in the presence of XOS, leading to enhanced antifungal and antibacterial activities compared to glucose. Significant antibacterial activity was observed against Gram-negative bacteria, particularly Salmonella enterica, with inhibition zones of 20.25 mm and 11.75 mm for XOS (5% and 6%) and glucose, respectively. For Gram-positive bacteria, S. aureus and M. luteus exhibited inhibition zones of 20.01 mm for XOS 6% and 10.25 mm for glucose. In terms of antifungal activity, the strongest inhibition was observed against Rhodotorula glutinis, with inhibition zones of 26.00 mm for XOS 6% and 20.04 mm for glucose. The fermentation product of XOS by L. plantarum S61 showed significant inhibitory effects against pathogenic bacteria and yeasts, suggesting its potential application in the manufacturing of preservatives with antifungal properties and pharmaceutical products targeting pathogenic and spoilage yeasts.
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Open AccessArticle
Growth Performance of French Guinea Fowl Broilers Fed the Probiotics Lactobacillus reuteri and Streptomyces coelicolor
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Sarayu Bhogoju, Thyneice Taylor-Bowden, Collins N. Khwatenge and Samuel N. Nahashon
Bacteria 2025, 4(1), 13; https://doi.org/10.3390/bacteria4010013 - 4 Mar 2025
Abstract
The continuous use of antibiotics is associated with many complications in the poultry industry. Probiotics have emerged as a viable alternative over the past few decades to counter the adverse effects of antibiotics. No candidate probiotic microorganisms have been fully evaluated in the
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The continuous use of antibiotics is associated with many complications in the poultry industry. Probiotics have emerged as a viable alternative over the past few decades to counter the adverse effects of antibiotics. No candidate probiotic microorganisms have been fully evaluated in the poultry industry for their effectiveness as potential probiotics in guinea fowls (GFs) compared to chickens. Recently, a metagenome evaluation of GFs in our laboratory revealed a predominance of Lactobacillus reuteri (L. reuteri) and actinobacteria class of bacteria in their gastrointestinal tract. The aim of this study is to evaluate a well-known lactic acid probiotic bacterium (L. reuteri) and a unique probiotic (S. coelicolor) that has not been assessed in any guinea fowl species. In the current study, L. reuteri and Streptomyces coelicolor (S. coelicolor) were selected as probiotic bacteria, encapsulated, and added into French guinea fowl (FGF) feed individually at a concentration of 108 cfu/g or both microorganisms combined each at 104 cfu/g. In an 8-week study, 216-day-old guinea keets were randomly assigned to four dietary treatments as indicated: (1) L. reuteri (108 cfu/g); (2) S. coelicolor (108 cfu/g); (3) mixture of L. reuteri (104 cfu/g) and S. coelicolor (104 cfu/g); and (4) control treatment (no probiotics included). The L. reuteri, S. coelicolor, and L. reuteri + S. coelicolor were added into the feed using wheat middlings as a carrier at a final concentration of 108 cfu/g. The FGFs that were fed diets containing L. reuteri showed improved feed consumption at 3–8 weeks of age (WOA). The guineas fed L. reuteri and S. coelicolor showed a lower feed conversion ratio (FCR), which was significant at 2 and 8 WOA, and a numerically lower 8-week average FCR when compared with other dietary treatments. Differences in body weight gain among all dietary treatments were not significant. This research suggests that L. reuteri and S. coelicolor may have the potential for use as probiotics in FGFs when used in combination or separately.
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Open AccessReview
Improving Plant Performance Through Microbiome Manipulation: The Potential Role of Current Bioengineering Approaches
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Diksha Joshi, Amit Kaushik, Reetesh Kumar, Aditi Arya, Gustavo Santoyo, Vipin Kumar Singh, Nikhil Kashyap, Manoj Kumar Solanki, Madhuree Kumari, Nikunaj Bhardwaj and Ajay Kumar
Bacteria 2025, 4(1), 12; https://doi.org/10.3390/bacteria4010012 - 3 Mar 2025
Cited by 1
Abstract
In the recent past, microbiome manipulation has emerged as a promising approach to improve plant growth performance by exploring the deep insight of plant–microbe interactions. The exploration of a plant microbiome either present on an ectosphere or endosphere can provide a far better
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In the recent past, microbiome manipulation has emerged as a promising approach to improve plant growth performance by exploring the deep insight of plant–microbe interactions. The exploration of a plant microbiome either present on an ectosphere or endosphere can provide a far better understanding about the potential application of plant-associated microbes for the improvement of plant growth, protection from pathogen invasion, and tolerance to environmental stresses of a diverse nature. In this context, next-generation sequencing methods, omics approaches, and synthetic biology have made significant progress in plant microbiome research and are being frequently used to explore the intriguing role of plant-associated microorganisms. Despite the successfulness of conventional approaches, the incorporation of CRISPR/Cas9, RNA interference technology, rhizosphere engineering, microbiome engineering, and other manipulation techniques appear to be a promising approach to enhancing plant performance, and tolerance against biotic and abiotic stress factors. The present review presents the significance of plant microbe interaction, vital functional aspects, collaborative action, potential constraints, and finally the latest developments in bioengineering approaches destined for microbiome modulation with an objective to improve the performance of a host plant challenged with environmental stressors.
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(This article belongs to the Special Issue Harnessing of Soil Microbiome for Sustainable Agriculture)
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Open AccessArticle
Comparative Analysis of Oral Prevotella intermedia, Tannerella forsythia, Streptococcus sanguinis, and Streptococcus mutans in Patients with Esophageal Squamous Cell Carcinoma and Healthy Controls in Mthatha, South Africa
by
Yolanda Yolisa Nokamatye, Gabriel Tchuente Kamsu and Eugene Jamot Ndebia
Bacteria 2025, 4(1), 11; https://doi.org/10.3390/bacteria4010011 - 1 Mar 2025
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The microbiome plays a crucial role in cancer development, influencing fundamental processes such as cell proliferation, apoptosis, immune system regulation, and host metabolism. Recent studies have highlighted a possible relationship between esophageal cancer and the oral microbiota, making oral microflora a possible risk
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The microbiome plays a crucial role in cancer development, influencing fundamental processes such as cell proliferation, apoptosis, immune system regulation, and host metabolism. Recent studies have highlighted a possible relationship between esophageal cancer and the oral microbiota, making oral microflora a possible risk factor. The bacteria Prevotella intermedia, Tannerella forsythia, Streptococcus sanguinis, and Streptococcus mutans, implicated in various oral pathologies, were of interest in this study, which was initiated to examine their potential role in the etiology of esophageal squamous cell carcinoma (ESCC). To achieve this, a case-control design was used, with whole saliva samples collected from 24 healthy controls and 24 patients with esophageal squamous cell carcinoma. DNA was then extracted, and real-time PCR was performed to quantify the presence of the targeted bacteria in both groups. The results showed that all the bacteria studied were present in the saliva of both patients with ESCC and healthy controls. However, expression levels were significantly higher in patients with ESCC. Specifically, a marked increase in the presence of P. intermedia, T. forsythia, S. sanguinis, and S. mutans was observed in the patients with cancer compared to the healthy controls. In short, this study highlights a significant imbalance in the microbial flora, with an increased abundance of selected bacteria in patients with ESCC. The monitoring of these bacteria could thus be exploited to track patients who are at risk. Their integration into diagnostic and therapeutic strategies would offer new prospects for the early diagnosis and improved prognosis of patients at risk of ESCC.
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Open AccessArticle
Rising Trends of Urinary Infections Among Pregnant Women: Insights from a Portuguese Hospital (2018–2022)
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Francisco Rodrigues, Patrícia Coelho, Sónia Mateus, Hatem Eideh, Teresa Gonçalves, Armando Caseiro and Miguel Castelo Branco
Bacteria 2025, 4(1), 10; https://doi.org/10.3390/bacteria4010010 - 9 Feb 2025
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This study explores the prevalence and antibiotic resistance of urinary tract infections (UTIs) in pregnant women in central Portugal. A retrospective observational study was conducted on 201 positive urine cultures from pregnant women at a hospital center between January 2018 and December 2022.
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This study explores the prevalence and antibiotic resistance of urinary tract infections (UTIs) in pregnant women in central Portugal. A retrospective observational study was conducted on 201 positive urine cultures from pregnant women at a hospital center between January 2018 and December 2022. The data collected included age, hospital admission source, history of antibiotic therapy, catheterization status, identity of bacterial isolates, and their antibiotic profile. The most common bacterial strains were Escherichia coli (52.4%) and Streptococcus agalactiae (16.9%). In terms of antibiotic resistance, Escherichia coli demonstrated complete sensitivity to ertapenem, while Streptococcus agalactiae showed sensitivity to four antibiotics, including trimethoprim/sulfamethoxazole. Notably, most infections occurred in the third trimester, underscoring the need for continuous monitoring throughout pregnancy. This study emphasizes the importance of tailored treatment strategies to manage UTIs in pregnancy effectively, reducing the potential maternal and fetal complications. These findings contribute to regional data on UTI management in pregnant populations and aim to support improved healthcare practices. These regional data provide a solid foundation for optimizing healthcare practices in pregnant women, suggesting targeted approaches to combat antibiotic resistance and improve maternal–fetal safety during UTI treatment.
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Open AccessPerspective
Purple-Colored Urine Induced by Cefiderocol: A Case Report and Comprehensive Literature Review
by
Elie Bou Sanayeh, Hadi Itani, Elie Moussa and Allison Glaser
Bacteria 2025, 4(1), 9; https://doi.org/10.3390/bacteria4010009 - 6 Feb 2025
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Background: Purple urine discoloration, known as purple urine bag syndrome (PUBS), has various etiologies ranging from benign to serious conditions. We present a case of cefiderocol-induced PUBS and review the literature. Methods: A 56-year-old bedridden patient developed purplish urine discoloration three days after
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Background: Purple urine discoloration, known as purple urine bag syndrome (PUBS), has various etiologies ranging from benign to serious conditions. We present a case of cefiderocol-induced PUBS and review the literature. Methods: A 56-year-old bedridden patient developed purplish urine discoloration three days after initiating cefiderocol treatment for severe sepsis caused by carbapenem-resistant Acinetobacter baumannii/nosocomialis isolated from an infected sacral pressure ulcer. A comprehensive literature review of PubMed and Google Scholar was performed, with articles screened by two independent reviewers. Results: Our patient’s urine color cleared one day after cefiderocol discontinuation. Eight additional cases of cefiderocol-induced PUBS were identified in the literature. In all reported cases, urine discoloration resolved spontaneously within 1 to 3 days of cefiderocol cessation. Conclusions: Cefiderocol-induced PUBS is being increasingly recognized. While generally benign and self-limiting, it is crucial to exclude other potentially life-threatening diagnoses before attributing PUBS to cefiderocol.
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Open AccessArticle
Genetic Diversity Among Independent Isolates of the Dolichocephalovirinae Subfamily
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Bert Ely, Quill Thomas and Tannaz Mohammadi
Bacteria 2025, 4(1), 8; https://doi.org/10.3390/bacteria4010008 - 4 Feb 2025
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Members of the Dolichocephalovirinae subfamily are giant viruses with an elongated head and a flexible tail that is used to infect Caulobacter strains. In this paper, we describe the isolation and characterization of nine newly isolated phages and present evidence that seven of
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Members of the Dolichocephalovirinae subfamily are giant viruses with an elongated head and a flexible tail that is used to infect Caulobacter strains. In this paper, we describe the isolation and characterization of nine newly isolated phages and present evidence that seven of these phages represent a new Dolichocephalovirinae genus that has significant differences from the four previously described Dolichocephalovirinae genera. In addition, since these new phages were isolated from a single sampling site over the course of three years, a comparison of their genome sequences reveals a low level of within-population diversity resulting from both single-nucleotide polymorphisms and insertions or deletions. A comparison of the host ranges of these phages suggests that differences in host susceptibility may be an important factor in maintaining this diversity.
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Open AccessArticle
Investigating the Distribution of Intimin and Invasin in Aeromonas hydrophila and Their Role in Host Tissue Attachment
by
Agradip Bhattacharyya, Goutam Banerjee and Pritam Chattopadhyay
Bacteria 2025, 4(1), 7; https://doi.org/10.3390/bacteria4010007 - 2 Feb 2025
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Background: Aeromonas hydrophila is a key pathogen affecting freshwater fish, including Labeo rohita (rohu), causing significant aquaculture losses. This study explores the role of intimin and invasin, known virulence factors, in A. hydrophila pathogenesis using in silico methods. Methods: We analyzed the
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Background: Aeromonas hydrophila is a key pathogen affecting freshwater fish, including Labeo rohita (rohu), causing significant aquaculture losses. This study explores the role of intimin and invasin, known virulence factors, in A. hydrophila pathogenesis using in silico methods. Methods: We analyzed the distribution of invasin and intimin across 53 A. hydrophila genomes and examined their physicochemical properties, secondary structures, and 3D models. Since crystal structures were unavailable, homology-based modeling was employed to study the structure of rohu β-integrins. In silico docking was performed to explore the interactions between intimin/invasin and β-integrins. Results: Our findings revealed that intimin and invasin were present in only 6 out of the 53 A. hydrophila strains examined, which were designated as hypervirulent strains. The transmembrane regions of intimin and invasin were modeled as β-barrels, a common feature of porins. The in silico docking experiments indicated the significant binding affinity of invasin and intimin with all the β-integrins of rohu fish, suggesting a critical role in host attachment and cellular internalization. Conclusions: This in silico study highlights the pivotal role of invasin and intimin in host tissue’s binding efficacy, offering valuable insights into the binding potential of A. hydrophila across various organs in rohu fish.
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Open AccessCommunication
Biofilm Inhibition: The Role of Fixed Oil from Caryocar coriaceum in Fighting Resistant Bacterial Communities
by
José Weverton Almeida-Bezerra, José Thyálisson da Costa Silva, Saulo Almeida Menezes, Gabriel Gonçalves Alencar, Daiany Alves Ribeiro, Bárbara Fernandes Melo, João Pereira da Silva-Junior, Francisca de Fátima Silva de Sousa, Severino Denicio Gonçalves de Sousa, Marcos Aurélio Figueirêdo dos Santos, Dieferson Leandro de Souza, Luiz Neldecílio Alves Vitor, Ademar Maia Filho, Murilo Felipe Felício, Jacqueline Cosmo Andrade-Pinheiro, Viviane Bezerra da Silva, José Jailson Lima Bezerra, Maria Flaviana Bezerra Morais-Braga and Henrique Douglas Melo Coutinho
Bacteria 2025, 4(1), 6; https://doi.org/10.3390/bacteria4010006 - 2 Feb 2025
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Biofilms, formed by microbial communities that increase resistance to antibiotics, are responsible for chronic infections, making their combat a therapeutic priority. Taking this into account, the fruit Caryocar coriaceum stands out for its potential in the treatment of infectious diseases. The different parts
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Biofilms, formed by microbial communities that increase resistance to antibiotics, are responsible for chronic infections, making their combat a therapeutic priority. Taking this into account, the fruit Caryocar coriaceum stands out for its potential in the treatment of infectious diseases. The different parts of this plant can be used, and the fixed oil extracted from its fruit, rich in fatty acids, is indicated as responsible for its biological activities. Thus, the objective of this study was to evaluate the chemical composition of the fixed oil extracted from the fruits of C. coriaceum (FOCC), in addition to analyzing its action in the inhibition and pre-formed biofilm disruption of bacteria. The fixed oil was extracted from the internal mesocarp through exhaustive extraction with n-hexane, resulting in a yield of 38.29%. For antibiofilm evaluation, multidrug-resistant bacterial strains were exposed to the oil, and the antibiofilm activity was verified through biofilm formation and pre-formed biofilm disruption assays. The chemical analysis of the fixed oil of C. coriaceum (FOCC) identified eight fatty acids, representing 98.2% of the total composition, with a predominance of oleic acid (60.1%) and palmitic acid (33.5%). FOCC demonstrated approximately 70% inhibition of Streptococcus mutans biofilm formation at a concentration of 10 mg/mL and approximately 60% inhibition against Staphylococcus aureus and Pseudomonas aeruginosa. In pre-formed biofilm disruption, FOCC showed low efficacy against S. mutans and P. aeruginosa but showed greater activity against Enterococcus faecalis and S. aureus. These results indicate that FOCC has the potential to prevent biofilms, but its pre-formed biofilm disruption capacity is still limited.
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Open AccessCommunication
Molecular Characterization of Phosphate Solubilizing Bacteria Klebsiella variicola PSEG-1 Associated with Aporrectodea rosea Gastrointestinal Tract
by
Vikash Kerketta, Amrita Kumari Panda, Aseem Kerketta, Surajit De Mandal and Satpal Singh Bisht
Bacteria 2025, 4(1), 5; https://doi.org/10.3390/bacteria4010005 - 7 Jan 2025
Cited by 1
Abstract
Phosphorus is a macronutrient crucially important for plant growth and development; its limited amount in soil and water poses bewildering concerns amongst agronomists. Externally applied phosphorus fertilizers can fulfil crops’ phosphorus needs throughout essential growth stages; however, the overapplication of phosphorus fertilizers leads
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Phosphorus is a macronutrient crucially important for plant growth and development; its limited amount in soil and water poses bewildering concerns amongst agronomists. Externally applied phosphorus fertilizers can fulfil crops’ phosphorus needs throughout essential growth stages; however, the overapplication of phosphorus fertilizers leads to diminished phosphorus acquisition efficiency (PAE), disrupts the delicate balance of nutrients in soil and water, leads to deficiencies in other essential elements, poses significant environmental risks, and accelerates the loss of phosphorus mineral supplies. Moreover, much of the applied phosphorus may become fixed as insoluble phosphates by combining with calcium, iron, aluminum, manganese, etc., present in soil, making it unavailable for the plants. Phosphate solubilizing bacteria (PSB) can render insoluble phosphate accessible to plants by solubilization and mineralization, hence enhancing crop yields while ensuring environmental sustainability. Earthworms are vital soil invertebrates that interact continuously with soil and soil microorganisms and play an essential role in maintaining soil fertility. The present study aims to screen and identify potential phosphate solubilizing bacteria from the intestinal tract of the earthworm Aporrectodea rosea. The experimental results indicate that the strain PSEG-1 was effective in phosphate solubilization, with a solubilization index of 1.6 in Pikovskaya (PVK)’s medium. The strain produced organic acid in the National Botanical Research Institute (NBRIP)’s medium. Phenotypic and genotypic studies of the isolate showed that the strain PSEG-1 belongs to Klebsiella variicola. Our results suggest that the vermi-bacterial strain Klebsiella variicola PSEG-1 possesses intrinsic abilities to solubilize phosphate, which could be exploited for formulating potential microbial biofertilizers to enhance crop production.
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(This article belongs to the Collection Feature Papers in Bacteria)
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Open AccessArticle
Influence of Infection Origin, Type of Sampling, and Weather Factors on the Periodicity of Some Infectious Pathogens in Marseille University Hospitals, France
by
Lanceï Kaba, Audrey Giraud-Gatineau, Philippe Colson, Pierre-Edouard Fournier and Hervé Chaudet
Bacteria 2025, 4(1), 4; https://doi.org/10.3390/bacteria4010004 - 7 Jan 2025
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This study aimed at systematically exploring the seasonalities of bacterial identifications from 1 February 2014 to 31 January 2020 in hospitalized patients, considering the infectious site and the community-acquired or hospital-associated origin. Bacterial identifications were extracted from the data warehouse of the Institut
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This study aimed at systematically exploring the seasonalities of bacterial identifications from 1 February 2014 to 31 January 2020 in hospitalized patients, considering the infectious site and the community-acquired or hospital-associated origin. Bacterial identifications were extracted from the data warehouse of the Institut Hospitalo-Universitaire Mediterranée Infection surveillance system, along with their epidemiological characteristics. Each species’ series was processed using a scientific workflow based on the TBATS time series model. Possible co-seasonalities were researched using seasonal peak clustering and series cross-correlations. In this study, only the 15 most frequent species were described in detail. The three most frequent species were Escherichia coli, Staphylococcus aureus, and Staphylococcus epidermidis, with median weekly incidences of 145, 74, and 39 cases, respectively. Samplings of S. aureus and E. coli follow the same seasonal dynamics. S. aureus hospital-associated infections exhibited a significant association with temperature, humidity, and pressure change, whereas community-acquired infections were only associated with precipitations. More seasonal peaks were observed during the winter season. Among the 15 peaks of this seasonal maximum, 6.7% came from blood (Klebsiellia oxytoca) and 13.3% from respiratory specimens (E. coli and S aureus). Our results showed significant associations of periodicity between pathogens, origin of infection, type of sampling, and weather drivers.
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Open AccessArticle
Bioactive Potential of Pogostemon benghalensis (Burm.f.) Kuntze: Antibacterial, Antioxidant, and Xanthine Oxidase Inhibitory Activities
by
Nitesh Jaishwal, Mamta Jayswal, Deep Chand Gupta, Bishnu Dhakal, Santosh Koirala, Ram Bahadur Khadka, Hari Prasad Devkota and Jitendra Pandey
Bacteria 2025, 4(1), 3; https://doi.org/10.3390/bacteria4010003 - 6 Jan 2025
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This research is focused on assessing the antibacterial properties of Pogostemon benghalensis stem bark and inflorescence extracts, as well as their inhibitory effects on xanthine oxidase, antioxidant potential, overall phenolic content, and flavonoid concentration. The cold maceration technique was used to obtain extracts
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This research is focused on assessing the antibacterial properties of Pogostemon benghalensis stem bark and inflorescence extracts, as well as their inhibitory effects on xanthine oxidase, antioxidant potential, overall phenolic content, and flavonoid concentration. The cold maceration technique was used to obtain extracts using water, methanol, and ethyl acetate solvents. The disk diffusion method demonstrated the significant antibacterial efficacy of the methanol stem bark extract against Staphylococcus epidermidis, with a zone of inhibition (ZOI) of 13 mm, and the inflorescence methanol extract against Klebsiella pneumonia (ZOI: 12.9 mm). Moreover, the methanol stem bark extract exhibited the minimum bactericidal concentration (MBC) at 1.56 mg/mL and the minimum inhibitory concentration (MIC) at 0.78 mg/mL against S. epidermidis. The ethyl acetate inflorescence extract displayed noteworthy xanthine oxidase inhibition (IC50: 29.1 µg/mL) comparable to allopurinol (IC50: 12.7 µg/mL). Furthermore, the methanol stem bark extract exhibited a remarkable DPPH free radical inhibitory effect, showing an IC50 value of 42.5 µg/mL. The total polyphenol content ranged from 29.9 μg to 161.3 µg GAE per mg of dried extract weight in the methanol inflorescence extract, while the total flavonoid content ranged from 38.4 μg to 96.8 μg QE per mg of dried extract weight within the water-derived extract. Overall, these findings demonstrate the potent antibacterial properties, xanthine oxidase inhibition, and antioxidant activity of P. benghalensis extracts.
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Open AccessPerspective
Antibiotic Stewardship in Silkworms: Navigating the Pros and Cons
by
Rittick Mondal, Dipanjan Das and Amit Kumar Mandal
Bacteria 2025, 4(1), 2; https://doi.org/10.3390/bacteria4010002 - 6 Jan 2025
Abstract
To safeguard against microbial diseases and maintain optimal silk yields, the sericulture industry relies on antibiotics to promote the health, well-being, and vitality of silkworms (Bombyx mori). Antibiotics are commonly incorporated into synthetic diets for rearing silkworms or included as key
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To safeguard against microbial diseases and maintain optimal silk yields, the sericulture industry relies on antibiotics to promote the health, well-being, and vitality of silkworms (Bombyx mori). Antibiotics are commonly incorporated into synthetic diets for rearing silkworms or included as key components in bed disinfectant formulations. The silkworm-rearing industry’s reliance on antibiotics has led to concerns about the development of antibiotic-resistant bacteria. Previous research has uncovered a dual role for antibiotics: not only do they prevent disease, but they also promote silkworm growth by reshaping the gut microbiome and enhancing nutrient absorption, highlighting the need for judicious use. Therefore, there is a critical need for prudent management and further exploration of alternative growth-promoting strategies to minimize resistance risks. This study investigates the relationship between antibiotic administration and silkworm growth, shedding light on the mechanisms underlying antibiotic-induced effects and assessing the risk of antimicrobial resistance (AMR) emergence and dissemination.
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(This article belongs to the Special Issue Harnessing of Soil Microbiome for Sustainable Agriculture)
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