prepared by Ayaz Ali Khan

Join us for the next #EMBARK2022 with Nichole Broderick, on 18th of May!

AMR terminology

Consensus on β-Lactamase Nomenclature – Patricia A. Bradford – Antimicrobial Chemotherapy

Human health

Neonatal sepsis and mortality in low-income and middle-income countries from a facility-based birth cohort: an international multisite prospective observational study – Rebecca Milton et al. Rabaab Zahra, et al. BARNARDS Group, Grace J Chan – The Lancet Global Health

Exploring the economic impact of inappropriate antibiotic use: the case of upper respiratory tract infections in Ghana – Jip Janssen – Antimicrobial Resistance & Infection Control

High prevalence of multidrug-resistant Gram-negative bacteria carriage in children screened prospectively for multidrug resistant organisms at admission to a paediatric hospital, Hamburg, Germany, September 2018 to May 2019 – Safiullah Najem – Euro Surveillance

Genomic insights into the mechanism of carbapenem resistance dissemination in Enterobacterales from a tertiary public heath setting in South Asia – Refath Farzana – Clinical Infectious Diseases

Carbapenem-resistant Gram-negative pathogens associated with septic shock: a review of 120 cases – Ugur Onal – Journal of Chemotherapy

Human gut microbiome

Gut colonisation by extended-spectrum fl-lactamase-producing Escherichia coli and its association with the gut microbiome and metabolome in Dutch adults: a matched case-control study – Quinten R Ducarmon – The Lancet Microbe

Catestatin selects for colonization of antimicrobial-resistant gut bacterial communities – Pamela González-Dávila – The ISME Journal

Enterobacteriaceae and Bacteroidaceae provide resistance to travel-associated intestinal colonization by multi-drug resistant Escherichia coli – Matthew Daviesa – Gut Microbes

Drinking water chlorination has minor effects on the intestinal flora and resistomes of Bangladeshi children – Maya L. Nadimpalli – Nature Microbiology


Extensive metagenomic analysis of the porcine gut resistome to identify indicators reflecting antimicrobial resistance – Yunyan Zhou – Microbiome
*The diversity and distribution of antimicrobial resistance genes (ARGs) were studied using metagenomic sequencing data of gut microbiome samples from pigs. The AMR level was significantly higher in pigs at commercial farms. The ARGs diversity and 41 drug resistance classes were significantly different between cecum, lumen, and feces in pigs at commercial farms.

Genotyping, antibiotic resistance and prevalence of Arcobacter species in milk and dairy products – Abazar Lameei – Veterinary Medicine and Science

Modelling the impact of antimicrobial use and external introductions on commensal E. coli colistin resistance in small-scale chicken farms of the Mekong delta of Vietnam – Jonathan Bastard – Transboundry and Emerging Diseases

Genome and virulome characterization of Escherichia coli encoding multiple antimicrobial resistance genes isolated from commercial dairy operations – Seon Woo Kim – Journal of Global Antimicrobial Resistance

Presence and antimicrobial resistance profiles of Escherichia coli, Enterococcus spp. and Salmonella sp. in 12 species of Australian shorebirds and terns – Hannah G Smith – Zoonoses and Public Health

Antimicrobial resistance in Escherichia coli isolated from on-farm and conventional hatching broiler farms in Ireland – Noelle Byrne – Irish Veterinary Journal

Antimicrobial resistance genes aph(3′)-III, erm(B), sul2 and tet(W) abundance in animal faeces, meat, production environments and human faeces in Europe – Dongsheng Yang – The Journal of Antimicrobial Chemotherapy
*Antimicrobial resistance genes (ARGs) can be quantified using real-time quantitative PCR (qPCR), allowing comparisons across animal production chains. The authors have examined the abundance of ARGs in various animal species, production environments, and humans in Europe in this study. The sources of AMR variation have been identified. Data from qPCR and previously published metagenomic studies were compared to determine the strength of the correlation between the ARGs abundances.

Animal experiments

An engineered live biotherapeutic for the prevention of antibiotic-induced dysbiosis – Andrés Cubillos-Ruiz – Nature Biomedical Engineering

Synergistic efficacy of colistin and silver nanoparticles impregnated human amniotic membrane in a burn wound infected rat model – Nadia Wali – Scientific Reports


Identifying the spatiotemporal vulnerability of soils to antimicrobial contamination through land application of animal manure in Minnesota, United States – Irene Bueno – The Science of the Total Environment

Carbendazim shapes microbiome and enhances resistome in the earthworm gut – Jiajin Song – Microbiome

Review: An Overview of Antibiotic Resistance and Abiotic Stresses Affecting Antimicrobial Resistance in Agricultural Soils – Abdullah Kaviani Rad – International Journal of Environmental Research and Public Health

Water environment

Multiwalled Carbon Nanotubes Promote Bacterial Conjugative Plasmid Transfer – Katrin Weise, Lena Winter, Emily Fischer, David Kneis, Magali de la Cruz Barron, Steffen Kunze, Thomas U. Berendonk, Dirk Jungmann, Uli Klümper – Microbiology Spectrum
*In this paper, the authors have highlighted the importance of multi-walled carbon nanotubes (MWCNTs) used in various products related to bacterial plasmid transfer in aquatic environments. MWCNTs form bigger agglomerates and provide novel surfaces for bacterial interactions, promoting the spread of antimicrobial resistance genes in microbial communities.

Tidal flat aquaculture pollution governs sedimentary antibiotic resistance gene profiles but not bacterial community based on metagenomic data – Linqiong Wang – The Science of the Total Environment

Impact of surface-applied liquid manure on the drainage resistance profile of an agricultural tile-drained clay till field – Tina B Bech – Journal of Environmental Quality

Antibiotic Resistance Genes in River Biofilms: A Metagenomic Approach toward the Identification of Sources and Candidate Hosts – David Kneis, Thomas U. Berendonk, Sofia K. Forslund, and Stefanie Hess – Environmental Science & Technology


Minireview: Elucidating the Mechanisms of Action of Antimicrobial Agents – M. Ashley Hudson, Steve W. Lockless – Antimicrobial Chemotherapy

Mutational background influences P. aeruginosa ciprofloxacin resistance evolution but preserves collateral sensitivity robustness – Sara Hernando-Amado – Proceedings of the National Academy of Sciences

Decreased thermal niche breadth as a trade-off of antibiotic resistance – Cristina M. Herren – The ISME Journal


Phage-mediated horizontal gene transfer and its implications for the human gut microbiome – Tatiana Borodovich – Gastroenterology Report


Targeted Elimination of bla NDM-5 Gene in Escherichia coli by Conjugative CRISPR-Cas9 System – Peisi Li – Infection and Drug Resistance

A high-efficiency scar-free genome editing toolkit for Acinetobacter baumannii – Rubén de Dios – bioRxiv

The AMR-ARRAY: A modular bead array detecting fl-lactam, (fluoro) quinolone, colistin, aminoglycoside and macrolide resistance determinants in Gram-negative bacteria – Michaël Timmermans – Journal of Microbiological Methods


Review: Bioinformatics tools used for whole-genome sequencing analysis of Neisseria gonorrhoeae: a literature review – Reema Singh – Briefings in Functional Genomics

Enhancing predictions of antimicrobial resistance of pathogens by expanding the potential resistance gene repertoire using a pan-genome-based feature selection approach – Ming-Ren Yang & Yu-Wei Wu – BMC Bioinformatics


The HOH Helsinki One Health Monthly Research Seminar Series “Current Research in One Health”: Marko Virta – Antimicrobial resistance and human activities – April 6 (Recordings will be available)

Workshop on Development Considerations of Antimicrobial Drugs for the Treatment of Uncomplicated Urinary Tract Infections (UTI) (Virtual) – June 3


ASM podcast, Editors in Conversation: Consensus on B-lactamases – Patricia Bradford, Karen Bush, Robert Bonomo.

The AMR Studio podcast, Ep 37: Celia Souque & evolution + outreach. Colistin and silver. Qualitative research on AMS.