Antibiotic Resistance in Bacteria

This study identifies the emergence of the ST309 Pseudomonas aeruginosa lineage in South America and characterizes its genomic features, antimicrobial resistance, and potential for global spread.

The paper analyzes antimicrobial resistance gene diversity in kefir and yoghurt using metagenomic approaches, identifying various ARGs and their potential mobility.

The paper introduces Kleborate, a tool for analyzing K. pneumoniae genomes, demonstrating its use in genomic surveillance and metagenomic analysis of gut samples.

The paper characterizes nine novel multidrug-resistant hypervirulent Klebsiella pneumoniae isolates in India, which harbor mosaic plasmids containing both antimicrobial resistance and virulence genes.

This study uses whole genome sequencing to analyze the prevalence and spread of antimicrobial resistance genes in E. coli isolates from Malawi, showing increased prevalence of ST131 and blaCTX-M-15.

This study develops ARDaP, a tool for comprehensive antimicrobial resistance detection in Burkholderia pseudomallei, outperforming existing tools by identifying SNPs, indels, CNVs, and gene loss determinants, including previously undescribed ones.

The paper examines the AMR gene diversity in ST131 E. coli using a preterm infant resistome, showing that plasmids drive AMR gene composition through conjugation and recombination.

This study investigates the rapid emergence and spread of a Neisseria gonorrhoeae strain with reduced susceptibility to extended-spectrum cephalosporins in Norway.

The paper identifies a novel NDM-5-harboring plasmid in a carbapenem-resistant E. coli isolate from China, highlighting its genetic complexity and potential zoonotic transmission risk.

The paper identifies thousands of new DNA transfer substrates, revealing higher plasmid mobility and host range than previously known, linking environmental resistance to human pathogens.

This study characterizes ESBL resistance in Enterobacteriaceae from pediatric bacteremia patients in Nigeria, identifying high prevalence of resistance genes and antibiotic susceptibility patterns.

This study shows that machine learning can predict antimicrobial resistance using conserved non-AMR genes from incomplete genomes, achieving F1 scores of 0.80-0.89 with 100 genes.

This study identifies non-carbapenemase-producing CRE mechanisms in recurrent Enterobacterales infections driven by porin loss and β-lactamase gene amplification.

The paper investigates how Escherichia coli BL21(DE3) develops tolerance to chlorpyrifos through efflux pump overexpression and related resistance mechanisms.

GeneMates identifies horizontal gene co-transfer in bacteria using WGS data and controls for population structure to avoid spurious associations.

The paper uses bacterial Hi-C to study horizontal gene transfer of mobile antibiotic resistance genes in gut microbiomes, finding distinct HGT networks between individuals and increased dispersal in neutropenic patients.

The paper uses Nanopore sequencing to track antibiotic resistance plasmid evolution and transfer between bacterial species in a hospital setting, identifying plasmid fusion and gene rearrangements.

This study characterizes the genome of a multidrug-resistant Pseudomonas aeruginosa strain, identifying genomic features and resistance mechanisms.

The paper analyzes IncF plasmid diversity across environmental and livestock settings using network community analysis, revealing niche-driven partitioning and core gene-defined communities.

The paper models the structure of MefA/E protein in Streptococcus pneumoniae using in silico methods and finds it resembles MFS proteins with 13 transmembrane helices in a V-shaped conformation.

The paper detects the frequency of the bla OXA-48 gene in Pseudomonas aeruginosa clinical isolates from Sudan, finding a higher prevalence in carbapenem-resistant strains.

This study analyzes the whole-genome sequence of a pan-drug resistant Acinetobacter baumannii isolate from Uganda to identify chromosomal and mobile genetic element-mediated antibiotic resistance mechanisms.

The paper characterizes a large antibiotic-resistant plasmid in ST131 E. coli using long-read hybrid assembly, identifying the blaCTX-M-27 gene and associated genetic elements.

The paper evaluates targeted sampling strategies for detecting novel antibiotic resistance variants in Neisseria gonorrhoeae, finding that pathogen-based approaches are more efficient than patient-based ones.

The paper characterizes ESBL-producing E. coli and K. pneumoniae isolates from animal samples in Assam, India, reporting prevalence, resistance patterns, and resistance gene profiles.

The paper develops an online platform to search and analyze antibiotic resistance gene distribution in metagenomic and bacterial genome databases.

Reads2Resistome is a high-throughput whole-genome sequencing pipeline that assembles and annotates bacterial genomes to characterize the resistome using long or short reads.

The paper reports the first detection of the tigecycline resistance gene tet(X6) on a plasmid in a livestock-associated Acinetobacter towneri isolate.

This study characterizes the genomic context of blaNDM-1 in E. coli ST101 isolates using long-read sequencing, revealing two clades with distinct resistance profiles and plasmid-mediated blaNDM-1 carriage mechanisms.