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antimicrobial resistance group publication tuberculosis

Updated preprint: predicting pyrazinamide resistance

This study was performed by Josh Carter back in 2019 and we uploaded a preprint to bioRxiv and submitted the manuscript for review. Unfortunately the reviews came back just as the UK was going into lockdown in March 2020 and my memory was that the manuscript was rejected. The editor, however, had asked for major […]

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antimicrobial resistance research tuberculosis

Desirable features for any antibiotic resistance catalogue

In the past few years a growing number of catalogues containing mutations associated with resistance (and susceptibility) to different anti-TB drugs have been published. Some are supplements to papers, some can be found in a version controlled repository and others are a mixture. The publication by the World Health Organisation of their first Catalogue of […]

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antimicrobial resistance group publication research tuberculosis

New preprint: compensatory mutations are associated with increased growth in resistant samples of M. tuberculosis.

In this preprint, Viki Brunner shows how, using the large CRyPTIC dataset, she can recapitulate the result that susceptible M. tuberculosis samples grow faster than samples that are resistant to rifampicin (and do not have any mutation that could compensate for that effect). Using the Fisher’s exact test, she is able to confidently identify 51 […]

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antimicrobial resistance clinical microbiology publication research tuberculosis

New publication: determining novel mechanisms of bedaquiline resistance

A new paper with Lindsay Sonnenkalb as first-author has just been published in The Lancet Microbe. It is a collaboration between a ┬ánumber of groups, led by Stefan Niemann and in it we evolved resistance to bedaquiline in vitro. Sequencing revealed 265 genetic variants with 250 affecting Rv0678, which is the transcription regulator of mmpL5, […]

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antimicrobial resistance group meetings tuberculosis

Viki Brunner wins poster prize

The whole group attended the first INEOS Oxford Institute meeting on Multidisciplinary Approaches to AMR on Tuesday 22 November 2022. Great to hear how different research groups around Oxford (and elsewhere) are helping to tackle AMR. Best of all though, Viki Brunner won one of the poster prizes for her poster on Compensatory mutations in […]

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antimicrobial resistance clinical microbiology publication research tuberculosis

New preprint: Including minor alleles improves fluoroquinolone resistance prediction

Fluoroquinolones are used to treat both normal and drug resistant tuberculosis and therefore being able to work out if an infection is resistant or not to fluoroquinolones is very important. Sequencing the genome of an infection is increasingly used to rapidly return which antibiotics could be used to treat a patient with tuberculosis. Genetics-based approaches […]