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References from Population Structure and Antimicrobial Resistance Gene Transfer of Respiratory Escherichia coli Isolated from Swine in China. Local targets link to admitted publications; unresolved targets remain external evidence.
Review on the methodology to assess respiratory tract lesions in pigs and their production impact
10.1186/s13567-023-01136-2 · 2023 · External reference
Health-Economic Impact Attributable to Occurrence of Pleurisy and Pneumonia Lesions in Finishing Pigs
10.3390/vetsci11120668 · 2024 · External reference
10.1128/9781555817947
10.1128/9781555817947 · External reference
Polymicrobial respiratory disease in pigs
10.1017/s1466252311000120 · 2011 · External reference
High-throughput screening for respiratory pathogens within pigs in Denmark; analysis of circulating porcine respiratory coronaviruses and their association with other pathogens
10.1016/j.virusres.2024.199501 · 2024 · External reference
Whole genome sequencing of an ExPEC that caused fatal pneumonia at a pig farm in Changchun, China
10.1186/s12917-017-1093-5 · 2017 · External reference
Characterization and virulence clustering analysis of extraintestinal pathogenic Escherichia coli isolated from swine in China
10.1186/s12917-017-0975-x · 2017 · External reference
Population structure and antibiotic resistance of swine extraintestinal pathogenic Escherichia coli from China
10.1038/s41467-024-50268-2 · 2024 · External reference
Swine enteric colibacillosis: Current treatment avenues and future directions
10.3389/fvets.2022.981207 · 2022 · External reference
Combatting antimicrobial resistance globally
10.1038/nmicrobiol.2016.187 · 2016 · External reference
Genomic islands and plasmid borne antimicrobial resistance genes drive the evolution of high-risk, ST-131 uropathogenic E. coli NS30
10.1186/s12864-025-12308-z · 2025 · External reference
Whole genome sequencing reveals virulence-mobile element linkages and phylogenetic diversity in multidrug-resistant Escherichia coli from Nigeria
10.3389/fmicb.2025.1579175 · 2025 · External reference
Variation and spread of resistomes in swine manure, manure slurries, and long-term manure-fertilized soils
10.3389/fmicb.2025.1683394 · 2025 · External reference
High prevalence and widespread distribution of multi-resistant Escherichia coli isolates in pigs and poultry in China
10.1016/j.tvjl.2009.10.017 · 2011 · External reference
Layer chicken manure as a hotspot for the dissemination of microbial communities and antimicrobial resistance genes: metagenomic insights
10.1186/s44149-025-00204-8 · 2025 · External reference
Mobile genetic elements: the agents of open source evolution
10.1038/nrmicro1235 · 2005 · External reference
The Dynamics of the Antimicrobial Resistance Mobilome of Salmonella enterica and Related Enteric Bacteria
10.3389/fmicb.2022.859854 · 2022 · External reference
Metagenomic Insights into Transferable Antibiotic Resistance in Oral Bacteria
10.1177/0022034516648944 · 2016 · External reference
Update on the antibiotic resistance crisis
10.1016/j.coph.2014.09.006 · 2014 · External reference
Reservoirs of antimicrobial resistance in the context of One Health
10.1016/j.mib.2023.102291 · 2023 · External reference
Climate change and antimicrobial resistance in foodborne bacteria: a one health perspective for low- and middle-income countries
10.1186/s44149-025-00210-w · 2025 · External reference
Antibiotic Application and Resistance in Swine Production in China: Current Situation and Future Perspectives
10.3389/fvets.2019.00136 · 2019 · External reference
Clonal analysis and virulent traits of pathogenic extraintestinal Escherichia coli isolates from swine in China
10.1186/1746-6148-8-140 · 2012 · External reference
Current Uses and Future Perspectives of Genomic Technologies in Clinical Microbiology
10.3390/antibiotics12111580 · 2023 · External reference
Antimicrobial resistance and population genomics of multidrug-resistant Escherichia coli in pig farms in mainland China
10.1038/s41467-022-28750-6 · 2022 · External reference
Trimmomatic: a flexible trimmer for Illumina sequence data
10.1093/bioinformatics/btu170 · 2014 · External reference
SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing
10.1089/cmb.2012.0021 · 2012 · External reference
CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes
10.1101/gr.186072.114 · 2015 · External reference
Bakta: rapid and standardized annotation of bacterial genomes via alignment-free sequence identification
10.1099/mgen.0.000685 · 2021 · External reference
Mobile Genetic Elements Associated with Antimicrobial Resistance
10.1128/cmr.00088-17 · 2018 · External reference
ResFinder 4.0 for predictions of phenotypes from genotypes
10.1093/jac/dkaa345 · 2020 · External reference
INTEGRALL: a database and search engine for integrons, integrases and gene cassettes
10.1093/bioinformatics/btp105 · 2009 · External reference
The Transposon Registry
10.1186/s13100-019-0182-3 · 2019 · External reference
ISfinder: the reference centre for bacterial insertion sequences
10.1093/nar/gkj014 · 2006 · External reference
ICEberg 3.0: functional categorization and analysis of the integrative and conjugative elements in bacteria
10.1093/nar/gkad935 · 2024 · External reference
Platon: identification and characterization of bacterial plasmid contigs in short-read draft assemblies exploiting protein sequence-based replicon distribution scores
10.1099/mgen.0.000398 · 2020 · External reference
PhiSpy: a novel algorithm for finding prophages in bacterial genomes that combines similarity- and composition-based strategies
10.1093/nar/gks406 · 2012 · External reference
In silico detection and typing of plasmids using PlasmidFinder and plasmid multilocus sequence typing
10.1128/aac.02412-14 · 2014 · External reference
Rapid and Easy In Silico Serotyping of Escherichia coli Isolates by Use of Whole-Genome Sequencing Data
10.1128/jcm.00008-15 · 2015 · External reference
ClermonTyping: an easy-to-use and accurate in silico method for Escherichia genus strain phylotyping
10.1099/mgen.0.000192 · 2018 · External reference
Open-access bacterial population genomics: BIGSdb software, the PubMLST.org website and their applications
10.12688/wellcomeopenres.14826.1 · 2018 · External reference
FastTree 2–approximately maximum-likelihood trees for large alignments
10.1371/journal.pone.0009490 · 2010 · External reference
Unresolved reference
2015 · External reference
Roary: rapid large-scale prokaryote pan genome analysis
10.1093/bioinformatics/btv421 · 2015 · External reference
Extended Phylogeny and Extraintestinal Virulence Potential of Commensal Escherichia coli from Piglets and Sows
10.3390/ijerph17010366 · 2020 · External reference
Prevalence and genomic characterization of pathogenic bla(NDM)-positive Escherichia coli from retail meats: The first large-scale study in 22 cities of China
10.1016/j.fm.2025.104948 · 2026 · External reference
Phylogenetic diversity and virulence gene characteristics of Escherichia coli from pork and patients with urinary tract infections in Thailand
10.1371/journal.pone.0307544 · 2024 · External reference
Antibiotic use in pig farming and its associated factors in L County in Yunnan, China
10.1002/vms3.390 · 2021 · External reference
Brief antibiotic use drives human gut bacteria towards low-cost resistance
10.1038/s41586-025-08781-x · 2025 · External reference
Plasmid-encoded tet(X) genes that confer high-level tigecycline resistance in Escherichia coli
10.1038/s41564-019-0496-4 · 2019 · External reference
Various Sequence Types of Escherichia coli Isolates Coharboring bla(NDM-5) and mcr-1 Genes from a Commercial Swine Farm in China
10.1128/aac.02167-16 · 2017 · External reference
Molecular characterization of IncFII plasmid carrying bla(NDM-5) in a Salmonella enterica serovar Typhimurium ST34 clinical isolate in China
10.1128/msphere.00480-23 · 2023 · External reference
Plasmid-mediated resistance in Enterobacteriaceae: changing landscape and implications for therapy
10.2165/11597960-000000000-00000 · 2012 · External reference
Contemporary IncI1 plasmids involved in the transmission and spread of antimicrobial resistance in Enterobacteriaceae
10.1016/j.plasmid.2018.12.001 · 2021 · External reference
Genomic analysis of qnr-harbouring IncX plasmids and their transferability within different hosts under induced stress
10.1186/s12866-022-02546-6 · 2022 · External reference
Inter-plasmid transfer of antibiotic resistance genes accelerates antibiotic resistance in bacterial pathogens
10.1093/ismejo/wrad032 · 2024 · External reference
Conjugative plasmids interact with insertion sequences to shape the horizontal transfer of antimicrobial resistance genes
10.1073/pnas.2008731118 · 2021 · External reference
Gene sharing among plasmids and chromosomes reveals barriers for antibiotic resistance gene transfer
10.1098/rstb.2020.0467 · 2022 · External reference
Mobile genetic elements mediate the cross-media transmission of antibiotic resistance genes from pig farms and their risks
10.1016/j.scitotenv.2024.172115 · 2024 · External reference
Climate change and AMR in animal diseases: a one health perspective on emerging global risks
10.1186/s44149-026-00255-5 · 2026 · External reference
Horizontal gene transfer facilitates the dissemination of blaCTX-M and blaNDM in Escherichia coli isolates from humans and pigs in Sichuan Province, China
10.1186/s44149-026-00250-w · 2026 · External reference
The pivotal role of IncFIB(Mar) plasmid in the emergence and spread of hypervirulent carbapenem-resistant Klebsiella pneumoniae
10.1126/sciadv.ado9097 · 2025 · External reference
IncHI1 plasmids mediated the tet(X4) gene spread in Enterobacteriaceae in porcine
10.3389/fmicb.2023.1128905 · 2023 · External reference