Professor Achillefs Kapanidis: Publications

Aberrant topologies of bacterial membrane proteins revealed by high sensitivity fluorescence labelling

Journal of Molecular Biology Elsevier 436:2 (2023) 168368

Authors:

Helen Miller, Alfredas Bukys, Achillefs Kapanidis, Benjamin Berks

Deep learning and single-cell phenotyping for rapid antimicrobial susceptibility detection in Escherichia coli

Communications Biology Springer Nature 6:1 (2023) 1164

Authors:

Alexander Zagajewski, Piers Turner, Conor Feehily, Hafez El Sayyed, Monique Andersson, Lucinda Barrett, Sarah Oakley, Mathew Stracy, Derrick Crook, Christoffer Nellåker, Nicole Stoesser, Achillefs N Kapanidis

A new twist on PIFE: photoisomerisation-related fluorescence enhancement.

4:03-02 (2023)

Authors:

Evelyn Ploetz, Benjamin Ambrose, Anders Barth, Richard Börner, Felix Erichson, Achillefs N Kapanidis, Harold D Kim, Marcia Levitus, Timothy M Lohman, Abhishek Mazumder, David S Rueda, Fabio D Steffen, Thorben Cordes, Steven W Magennis, Eitan Lerner

High-throughput super-resolution analysis of influenza virus pleomorphism reveals insights into viral spatial organization

PLOS Pathogens Public Library of Science (PLoS) 19:6 (2023) e1011484

Authors:

Andrew McMahon, Rebecca Andrews, Danielle Groves, Sohail V Ghani, Thorben Cordes, Achillefs N Kapanidis, Nicole C Robb

RNA polymerase redistribution 91̽��s growth in E. coli strains with a minimal number of rRNA operons

Nucleic Acids Research 91̽�� University Press 51:15 (2023) 8085-8101

Authors:

Jun Fan, Hafez El Sayyed, Oliver J Pambos, Mathew Stracy, Jingwen Kyropoulos, Achillefs N Kapanidis

Abstract:

Bacterial transcription by RNA polymerase (RNAP) is spatially organized. RNAPs transcribing highly expressed genes locate in the nucleoid periphery, and form clusters in rich medium, with several studies linking RNAP clustering and transcription of rRNA (rrn). However, the nature of RNAP clusters and their association with rrn transcription remains unclear. Here we address these questions by using single-molecule tracking to monitor the subcellular distribution of mobile and immobile RNAP in strains with a heavily reduced number of chromosomal rrn operons (Δrrn strains). Strikingly, we find that the fraction of chromosome-associated RNAP (which is mainly engaged in transcription) is robust to deleting five or six of the seven chromosomal rrn operons. Spatial analysis in Δrrn strains showed substantial RNAP redistribution during moderate growth, with clustering increasing at cell endcaps, where the remaining rrn operons reside. These results 91̽�� a model where RNAPs in Δrrn strains relocate to copies of the remaining rrn operons. In rich medium, Δrrn strains redistribute RNAP to minimize growth defects due to rrn deletions, with very high RNAP densities on rrn genes leading to genomic instability. Our study links RNAP clusters and rrn transcription, and offers insight into how bacteria maintain growth in the presence of only 1–2 rrn operons.

91̽��