Efficient genome-editing tools to engineer the recalcitrant non-model industrial microorganism Zymomonas mobilis

G Binan, W Yalun, W **nyan, Y Yongfu, Z Peng… - Trends in …, 2024 - cell.com
Current biotechnology relies on a few well-studied model organisms, such as Escherichia
coli and Saccharomyces cerevisiae, for which abundant information and efficient toolkits are …

[HTML][HTML] Phage-assisted evolution and protein engineering yield compact, efficient prime editors

JL Doman, S Pandey, ME Neugebauer, M An, JR Davis… - Cell, 2023 - cell.com
Prime editing enables a wide variety of precise genome edits in living cells. Here we use
protein evolution and engineering to generate prime editors with reduced size and improved …

Engineering bacteriophages for enhanced host range and efficacy: Insights from bacteriophage-bacteria interactions

HJ Jia, PP Jia, S Yin, LK Bu, G Yang… - Frontiers in Microbiology, 2023 - frontiersin.org
Bacteriophages, the most abundant organisms on earth, have the potential to address the
rise of multidrug-resistant bacteria resulting from the overuse of antibiotics. However, their …

Retron-mediated multiplex genome editing and continuous evolution in Escherichia coli

W Liu, S Zuo, Y Shao, K Bi, J Zhao… - Nucleic Acids …, 2023 - academic.oup.com
While there are several genome editing techniques available, few are suitable for dynamic
and simultaneous mutagenesis of arbitrary targeted sequences in prokaryotes. Here, to …

An experimental census of retrons for DNA production and genome editing

AG Khan, M Rojas-Montero, A González-Delgado… - Nature …, 2024 - nature.com
Retrons are bacterial immune systems that use reverse-transcribed DNA (RT-DNA) to detect
phage infection. They are also deployed for genome editing, where they are modified so that …

DNA end sensing and cleavage by the Shedu anti-phage defense system

L Loeff, A Walter, GT Rosalen, M **ek - Cell, 2023 - cell.com
The detection of molecular patterns associated with invading pathogens is a hallmark of
innate immune systems. Prokaryotes deploy sophisticated host defense mechanisms in …

Generation of DNAzyme in Bacterial Cells by a Bacterial Retron System

J Liu, L Cui, X Shi, J Yan, Y Wang, Y Ni, J He… - ACS Synthetic …, 2024 - ACS Publications
DNAzymes are catalytically active single-stranded DNAs in which DNAzyme 10–23 (Dz 10–
23) consists of a catalytic core and a substrate-binding arm that reduces gene expression …

Landscape of new nuclease-containing antiphage systems in Escherichia coli and the counterdefense roles of bacteriophage T4 genome modifications

S Wang, E Sun, Y Liu, B Yin, X Zhang, M Li… - Journal of …, 2023 - Am Soc Microbiol
Many phages, such as T4, protect their genomes against the nucleases of bacterial
restriction-modification (RM) and CRISPR-Cas systems through covalent modification of …

Retron-Eco1 assembles NAD+-hydrolyzing filaments that provide immunity against bacteriophages

A Carabias, S Camara-Wilpert, MR Mestre… - Molecular Cell, 2024 - cell.com
Retrons are toxin-antitoxin systems protecting bacteria against bacteriophages via abortive
infection. The Retron-Eco1 antitoxin is formed by a reverse transcriptase (RT) and a non …

Enhancing Cellular and Enzymatic Properties Through In Vivo Continuous Evolution

W Chu, Y Guo, Y Wu, X Lv, J Li, L Liu, G Du… - …, 2024 - Wiley Online Library
Directed evolution seeks to evolve target genes at a rate far exceeding the natural mutation
rate, thereby endowing cellular and enzymatic properties with desired traits. In vivo …