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2025
Genome mining for deciphering potential biocontrol action modes of Bacillus licheniformis TRQ32 against wheat (Triticum turgidum subsp. durum) phytopathogenic fungi
Discover Sustainability
2025
Deletion of pcnB affects antibiotic susceptibility in resistant Escherichia coli by reducing copy number of ColE1-family plasmids
Scientific Reports
2025
Antimicrobial Activity of a Synthetic Brevibacillin Analog Against Multidrug-Resistant Campylobacter spp.
International Journal of Molecular Sciences
2025
Universal rules govern plasmid copy number
Nature Communications
2025
The pivotal role of IncFIB(Mar) plasmid in the emergence and spread of hypervirulent carbapenem-resistant Klebsiella pneumoniae
Science Advances
2025
Integrating whole-genome sequencing into antimicrobial resistance surveillance: methodologies, challenges, and perspectives
Clinical Microbiology Reviews
2025
Identification of genetic determinants of antibiotic resistance in Helicobacter pylori isolates in Vietnam by high-throughput sequencing
BMC Microbiology
2025
Rapid, reference-free identification of bacterial pathogen transmission using optimized split k-mer analysis
Microbial Genomics
2025
Impact of standard precautions and unrestricted movements of carbapenemase-producing Enterobacterales (CPE) carriers on CPE transmission in a nursing home in Singapore: a prospective cohort study
Antimicrobial Resistance & Infection Control
2025
Mycobacterium servetii sp. nov., a novel rapid-growing nontuberculous mycobacterial species recovered from a human patient in Zaragoza, Spain
International Journal of Systematic and Evolutionary Microbiology
2024
Hybrid-genome sequence analysis of Enterobacter cloacae FACU and morphological characterization: insights into a highly arsenic-resistant strain
Functional & Integrative Genomics
2024
Encyclopedia of Food Safety
2024
Genomic Diversity and Virulence Factors of Clostridium perfringens Isolated from Healthy and Necrotic Enteritis-Affected Broiler Chicken Farms in Quebec Province
Microorganisms
2024
MOBFinder: a tool for mobilization typing of plasmid metagenomic fragments based on a language model
GigaScience
2024
Mobile genetic elements define the non-random structure of the Salmonella enterica serovar Typhi pangenome
mSystems
2023
Metagenomic analysis reveals gut plasmids as diagnosis markers for colorectal cancer
Frontiers in Microbiology
2023
Innovations in genomic antimicrobial resistance surveillance
The Lancet Microbe
2023
Methylococcus mesophilus sp. nov., the first non-thermotolerant methanotroph of the genus Methylococcus, from a rice field
International Journal of Systematic and Evolutionary Microbiology
2023
Plasmer: an Accurate and Sensitive Bacterial Plasmid Prediction Tool Based on Machine Learning of Shared k-mers and Genomic Features
Microbiology Spectrum
2023
Prevalence and genetic basis of tetracycline resistance in Vibrio parahaemolyticus isolates recovered from food products in Shenzhen, China during 2013 to 2021
Science of The Total Environment
2023
Analysis of antibiotic resistance from a rural community and wastewater contaminated environment linked to human and animal activities
Journal of Hazardous Materials Advances
2023
Genomic reconstruction and directed interventions in a multidrug-resistant Shigellosis outbreak in Seattle, WA, USA: a genomic surveillance study
The Lancet Infectious Diseases
2023
Extensively drug-resistant Acinetobacter baumannii: role of conjugative plasmids in transferring resistance
PeerJ
2022
Whole genome sequencing reveals hidden transmission of carbapenemase-producing Enterobacterales
Nature Communications
2022
The Dynamics of the Antimicrobial Resistance Mobilome of Salmonella enterica and Related Enteric Bacteria
Frontiers in Microbiology
2022
Dissemination of metaldehyde catabolic pathways is driven by mobile genetic elements in Proteobacteria
Microbial Genomics
2022
Deeplasmid: deep learning accurately separates plasmids from bacterial chromosomes
Nucleic Acids Research
2022
Phylogenetic Comparison and Characterization of an mcr-1-Harboring Complete Plasmid Genome Isolated from Enterobacteriaceae
Microbial Drug Resistance
2022
Genomic Characterization of Colistin-Resistant Isolates from the King Fahad Medical City, Kingdom of Saudi Arabia
Antibiotics
2022
Genome sequence of a multidrug-resistant Campylobacter coli strain isolated from a newborn with severe diarrhea in Lebanon
Folia Microbiologica
2022
Escherichia coli as an antibody expression host for the production of diagnostic proteins: significance and expression
Critical Reviews in Biotechnology
2022
Multiple Mechanisms Confer Resistance to Azithromycin in Shigella in Bangladesh: a Comprehensive Whole Genome-Based Approach
Microbiology Spectrum
2022
Precise genotyping of circular mobile elements from metagenomic data uncovers human-associated plasmids with recent common ancestors
Genome Research
2021
Genomic analysis of the diversity, antimicrobial resistance and virulence potential of clinical Campylobacter jejuni and Campylobacter coli strains from Chile
PLOS Neglected Tropical Diseases
2021
Comprehensive Foodomics
2021
Genome evolution and the emergence of pathogenicity in avian Escherichia coli
Nature Communications
2021
Whole-Genome Sequences of Mycobacterium abscessus subsp. massiliense Isolates from Brazil
Microbiology Resource Announcements
2021
Genomic characterization of carbapenem-non-susceptible Pseudomonas aeruginosa in Singapore
Emerging Microbes & Infections
2021
Whole-Genome Sequencing of Alcaligenes faecalis HZ01, with Potential to Inhibit Nontuberculous Mycobacterial Growth
Microbiology Resource Announcements
2021
PlasForest: a homology-based random forest classifier for plasmid detection in genomic datasets
BMC Bioinformatics
2021
Reconstruction of plasmids by shotgun sequencing from environmental DNA: which bioinformatic workflow?
Briefings in Bioinformatics
2021
Emergence and Expansion of a Carbapenem-Resistant Pseudomonas aeruginosa Clone Are Associated with Plasmid-Borne bla KPC-2 and Virulence-Related Genes
mSystems
2021
Higher genome variability within metabolism genes associates with recurrent Clostridium difficile infection
BMC Microbiology
2021
Molecular Characterization of Enterococcus Isolates From Different Sources in Estonia Reveals Potential Transmission of Resistance Genes Among Different Reservoirs
Frontiers in Microbiology
2021
Assessment of Erythrobacter Species Diversity through Pan-Genome Analysis with Newly Isolated Erythrobacter sp. 3-20A1M
Journal of Microbiology and Biotechnology
2020
Whole Genome Sequencing Reveals Virulence Potentials of Helicobacter pylori Strain KE21 Isolated from a Kenyan Patient with Gastric Signet Ring Cell Carcinoma
Toxins
2020
Methylococcus geothermalis sp. nov., a methanotroph isolated from a geothermal field in the Republic of Korea
International Journal of Systematic and Evolutionary Microbiology
2020
Next-Generation Sequencing of the Whole Bacterial Genome for Tracking Molecular Insight into the Broad-Spectrum Antimicrobial Resistance of Helicobacter pylori Clinical Isolates from the Democratic Republic of Congo
Microorganisms
2020
Genomic Prediction of Antimicrobial Resistance: Ready or Not, Here It Comes!
Clinical Chemistry
2020
EspFu-Mediated Actin Assembly Enhances Enteropathogenic Escherichia coli Adherence and Activates Host Cell Inflammatory Signaling Pathways
mBio
2020
Platon: identification and characterization of bacterial plasmid contigs in short-read draft assemblies exploiting protein sequence-based replicon distribution scores
Microbial Genomics
2020
Tracking short-term changes in the genetic diversity and antimicrobial resistance of OXA-232-producing Klebsiella pneumoniae ST14 in clinical settings
Clinical Microbiology and Infection
2020
Comparative genomic analysis of Erwinia amylovora reveals novel insights in phylogenetic arrangement, plasmid diversity, and streptomycin resistance
Genomics
2020
Yersinia artesiana sp. nov., Yersinia proxima sp. nov., Yersinia alsatica sp. nov., Yersina vastinensis sp. nov., Yersinia thracica sp. nov. and Yersinia occitanica sp. nov., isolated from humans and animals
International Journal of Systematic and Evolutionary Microbiology
2019
A Next-Generation Sequencing-Based Approach to Identify Genetic Determinants of Antibiotic Resistance in Cambodian Helicobacter pylori Clinical Isolates
Journal of Clinical Medicine
2019
Phylogenomic analysis of gastroenteritis-associated Clostridium perfringens in England and Wales over a 7-year period indicates distribution of clonal toxigenic strains in multiple outbreaks and extensive involvement of enterotoxin-encoding (CPE) plasmids
Microbial Genomics
2019
Reconsidering plasmid maintenance factors for computational plasmid design
Computational and Structural Biotechnology Journal
2019
Genetic Features of Antarctic Acinetobacter radioresistens Strain A154 Harboring Multiple Antibiotic-Resistance Genes
Frontiers in Cellular and Infection Microbiology
2019
Diversity and Population Overlap between Avian and Human Escherichia coli Belonging to Sequence Type 95
mSphere
2019
PPR-Meta: a tool for identifying phages and plasmids from metagenomic fragments using deep learning
GigaScience
2019
Sequencing-based methods and resources to study antimicrobial resistance
Nature Reviews Genetics
2019
Persistence and Microevolution of Pseudomonas aeruginosa in the Cystic Fibrosis Lung: A Single-Patient Longitudinal Genomic Study
Frontiers in Microbiology
2019
Successful treatment and digestive decolonisation of a patient with osteitis caused by a carbapenemase-producing Klebsiella pneumoniae isolate harbouring both NDM-1 and OXA-48 enzymes
Journal of Global Antimicrobial Resistance
2019
WITHDRAWN: Antibiotic resistance in Pseudomonas aeruginosa – mechanisms, epidemiology and evolution
Drug Resistance Updates
2019
Plasmid evolution in carbapenemase‐producing Enterobacteriaceae: a review
Annals of the New York Academy of Sciences
2019
Genetic analysis of the first mcr-1 positive Escherichia coli isolate collected from an outpatient in Chile
The Brazilian Journal of Infectious Diseases
2019
Antibiotic resistance in Pseudomonas aeruginosa – Mechanisms, epidemiology and evolution
Drug Resistance Updates
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