New publication: detecting minor populations important for predicting fluoroquinolone resistance Philip Fowler, 5th April 20238th December 2023 When predicting if an infection is resistant or susceptible to a specific antibiotic, it is all too easy to think that the infection is homogeneous and, in fact, many bioinformatic variant callers encourage that point of view. Or, at best, you can subvert the format of, say, a variant call file (VCF) by using the functionality designed to report diploidy for reporting (up to) two mixed populations. (What plant geneticists do I have no idea). Reality is likely messier, especially in a slow-growing persistent infection like tuberculosis and there have been previous studies suggesting that minor populations that are resistant to an antibiotic can come to dominate and should lead to a prediction of resistant. In this free-to-read paper, Dr Alice Brankin shows how allowing just two or more reads that support one of the two most common resistance-conferring mutations to levofloxacin and moxifloxacin, leads to a significant improvement in the sensitivity of genetics-based resistance prediction with no significant drop in specificity. This is important because the fluoroquinolones are present in several different drug regimes used to treat tuberculosis and brings their performance into line with other antibiotics (such as rifampicin and isoniazid) for which we believe we have a similar level of understanding of the mechanisms of resistance. Share this: Click to share on X (Opens in new window) X Click to share on Bluesky (Opens in new window) Bluesky Click to email a link to a friend (Opens in new window) Email Click to share on LinkedIn (Opens in new window) LinkedIn Click to share on Mastodon (Opens in new window) Mastodon Related antimicrobial resistance clinical microbiology tuberculosis
meetings ESM Annual Congress 2025 25th June 20251st July 2025 Several of us attended the 45th Annual Congress of the European Society of Mycobacteriology in… Share this: Click to share on X (Opens in new window) X Click to share on Bluesky (Opens in new window) Bluesky Click to email a link to a friend (Opens in new window) Email Click to share on LinkedIn (Opens in new window) LinkedIn Click to share on Mastodon (Opens in new window) Mastodon Read More
antimicrobial resistance New preprint: Infection Inspection 12th December 202312th December 2023 Some great work by Conor Feehily, Nicole Stoesser and others, including collaborators from the Department… Share this: Click to share on X (Opens in new window) X Click to share on Bluesky (Opens in new window) Bluesky Click to email a link to a friend (Opens in new window) Email Click to share on LinkedIn (Opens in new window) LinkedIn Click to share on Mastodon (Opens in new window) Mastodon Read More
antimicrobial resistance New publication: Reconciling the potentially irreconcilable? Genotypic and phenotypic amoxicillin-clavulanate resistance in Escherichia coli. 30th March 202022nd August 2020 Clinical microbiology often assumes a sample is resistant or susceptible. Making such a classification relies… Share this: Click to share on X (Opens in new window) X Click to share on Bluesky (Opens in new window) Bluesky Click to email a link to a friend (Opens in new window) Email Click to share on LinkedIn (Opens in new window) LinkedIn Click to share on Mastodon (Opens in new window) Mastodon Read More