Discovery of integrons in Archaea: Platforms for cross-domain gene transfer

TM Ghaly, SG Tetu, A Penesyan, Q Qi, V Rajabal… - Science …, 2022 - science.org
Horizontal gene transfer between different domains of life is increasingly being recognized
as an important evolutionary driver, with the potential to increase the pace of biochemical …

Predicting the taxonomic and environmental sources of integron gene cassettes using structural and sequence homology of attC sites

TM Ghaly, SG Tetu, MR Gillings - Communications biology, 2021 - nature.com
Integrons are bacterial genetic elements that can capture mobile gene cassettes. They are
mostly known for their role in the spread of antibiotic resistance cassettes, contributing …

Methods for the targeted sequencing and analysis of integrons and their gene cassettes from complex microbial communities

TM Ghaly, A Penesyan, A Pritchard, Q Qi… - Microbial …, 2022 - microbiologyresearch.org
Integrons are microbial genetic elements that can integrate mobile gene cassettes. They are
mostly known for spreading antibiotic resistance cassettes among human pathogens …

The recombination efficiency of the bacterial integron depends on the mechanical stability of the synaptic complex

E Vorobevskaia, C Loot, D Mazel, M Schlierf - Science Advances, 2024 - science.org
Multiple antibiotic resistances are a major global health threat. The predominant tool for
adaptation in Gram-negative bacteria is the integron. Under stress, it rearranges gene …

[HTML][HTML] Functional enrichment of integrons: Facilitators of antimicrobial resistance and niche adaptation

TM Ghaly, V Rajabal, A Penesyan, NV Coleman… - Iscience, 2023 - cell.com
Integrons are genetic elements, found among diverse bacteria and archaea, that capture
and rearrange gene cassettes to rapidly generate genetic diversity and drive adaptation …

Structural and molecular basis for Cardiovirus 2A protein as a viral gene expression switch

CH Hill, L Pekarek, S Napthine, A Kibe, AE Firth… - Nature …, 2021 - nature.com
Abstract Programmed–1 ribosomal frameshifting (PRF) in cardioviruses is activated by the
2A protein, a multi-functional virulence factor that also inhibits cap-dependent translational …

Structure-specific DNA recombination sites: Design, validation, and machine learning–based refinement

A Nivina, MS Grieb, C Loot, D Bikard, J Cury… - Science …, 2020 - science.org
Recombination systems are widely used as bioengineering tools, but their sites have to be
highly similar to a consensus sequence or to each other. To develop a recombination …

Simultaneous sensing and imaging of individual biomolecular complexes enabled by modular DNA–protein coupling

MJ Avellaneda, EJ Koers, DP Minde… - Communications …, 2020 - nature.com
Many proteins form dynamic complexes with DNA, RNA, and other proteins, which often
involves protein conformational changes that are key to function. Yet, methods to probe …

High-yield fabrication of DNA and RNA constructs for single molecule force and torque spectroscopy experiments

FS Papini, M Seifert, D Dulin - Nucleic acids research, 2019 - academic.oup.com
Single molecule biophysics experiments have enabled the observation of biomolecules with
a great deal of precision in space and time, eg nucleic acids mechanical properties and …

POTATO: Automated pipeline for batch analysis of optical tweezers data

S Buck, L Pekarek, N Caliskan - Biophysical Journal, 2022 - cell.com
Optical tweezers are a single-molecule technique that allows probing of intra-and
intermolecular interactions that govern complex biological processes involving molecular …