Publications – Center for Communicable Disease Dynamics

Rapid inference of antibiotic susceptibility phenotype of uropathogens using metagenomic sequencing with neighbor typing.

Author(s): Carroll AC, Mortimer L, Ghosh H, Reuter S, Grundmann H, Břinda K, Hanage WP, Li A, Paterson A, Purssell A, Rooney A, Yee NR, Coburn B, Able-Thomas S, Antonio M, McGeer A, MacFadden DRJournal: Microbiol SpectrPMID: 39611823 November 2024

Timely diagnostic tools are needed to improve antibiotic treatment. Pairing metagenomic sequencing with genomic neighbor typing algorithms may support rapid…

Evaluating the contributions of strategies to prevent SARS-CoV-2 transmission in the healthcare setting: a modelling study.

Author(s): Qiu X, Miller JC, MacFadden DR, Hanage WPJournal: BMJ OpenPMID: 33653758 March 2021

Since its onset, the COVID-19 pandemic has caused significant morbidity and mortality worldwide, with particularly severe outcomes in healthcare institutions…

Rates of increase of antibiotic resistance and ambient temperature in Europe: a cross-national analysis of 28 countries between 2000 and 2016.

Author(s): McGough SF, MacFadden DR, Hattab MW, Mølbak K, Santillana MJournal: Euro SurveillPMID: 33183408 November 2020

BackgroundThe rapid increase of bacterial antibiotic resistance could soon render our most effective method to address infections obsolete. Factors influencing…

Using Genetic Distance from Archived Samples for the Prediction of Antibiotic Resistance in Escherichia coli.

Author(s): MacFadden DR, Coburn B, Břinda K, Corbeil A, Daneman N, Fisman D, Lee RS, Lipsitch M, McGeer A, Melano RG, Mubareka S, Hanage WPJournal: Antimicrob Agents ChemotherPMID: 32152083 March 2020

Rising antibiotic resistance increasingly compromises empiric treatment. Knowing the antibiotic susceptibility of a pathogen's close genetic relative(s) may improve empiric…

Rapid inference of antibiotic resistance and susceptibility by genomic neighbour typing.

Author(s): Břinda K, Callendrello A, Ma KC, MacFadden DR, Charalampous T, Lee RS, Cowley L, Wadsworth CB, Grad YH, Kucherov G, O'Grady J, Baym M, Hanage WPJournal: Nat MicrobiolPMID: 32042129 February 2020

Surveillance of drug-resistant bacteria is essential for healthcare providers to deliver effective empirical antibiotic therapy. However, traditional molecular epidemiology does…

Antimicrobial resistance prevalence, rates of hospitalization with septicemia and rates of mortality with sepsis in adults in different US states.

Author(s): Goldstein E, MacFadden DR, Karaca Z, Steiner CA, Viboud C, Lipsitch MJournal: Int J Antimicrob AgentsPMID: 30851403 May 2019

Rates of hospitalization with sepsis/septicemia and associated mortality in the US have risen significantly during the last two decades. Antibiotic…

Comparing Patient Risk Factors, Sequence Type, and Resistance Loci Identification Approaches for Predicting Antibiotic Resistance in Escherichia coli Bloodstream Infections.

Author(s): MacFadden DR, Melano RG, Coburn B, Tijet N, Hanage WP, Daneman NJournal: J Clin MicrobiolPMID: 30894438 May 2019

Rapid diagnostic tests of antibiotic resistance are increasingly being developed that identify the presence or absence of antibiotic resistance genes/loci.…

Potential for Erosion of Efficacy in Non-Inferiority Trials of Decreasing Duration of Antibiotic Therapy.

Author(s): MacFadden DR, Hanage WPJournal: Clin Infect DisPMID: 30726884 February 2019

The distribution of antibiotic use and its association with antibiotic resistance.

Author(s): Olesen SW, Barnett ML, MacFadden DR, Brownstein JS, Hernández-Díaz S, Lipsitch M, Grad YHJournal: ElifePMID: 30560781 December 2018

Antibiotic use is a primary driver of antibiotic resistance. However, antibiotic use can be distributed in different ways in a…

The Relative Impact of Community and Hospital Antibiotic Use on the Selection of Extended-Spectrum Beta-lactamase-Producing Escherichia coli.

Author(s): MacFadden DR, Fisman DN, Hanage WP, Lipsitch MJournal: Clin Infect DisPMID: 30462185 November 2018

Antibiotic stewardship programs have traditionally focused on reducing antibiotic use in hospital. However, reducing community antibiotic prescribing could have substantial…