High throughput variant libraries and machine learning yield design rules for retron gene editors

Nucleic Acids Research, Journal Year: 2024, Volume and Issue: unknown

Published: Dec. 10, 2024

The bacterial retron reverse transcriptase system has served as an intracellular factory for single-stranded DNA in many biotechnological applications. In these technologies, a natural non-coding RNA (ncRNA) is modified to encode template the production of custom sequences by transcription. efficiency transcription major limiting step but we lack systematic knowledge how improve or maintain while changing sequence production. Here, test thousands different modifications Retron-Eco1 ncRNA and measure pooled variant library experiments, identifying regions that are tolerant intolerant modification. We apply this new information specific application: use produce precise genome editing donor combination with CRISPR-Cas9 RNA-guided nuclease (an editron). high-throughput libraries Saccharomyces cerevisiae additionally define design rules editrons. extend our editron human achieve highest editrons date.

Language: Английский

Multi-conflict islands are a widespread trend within Serratia spp.

Cell Reports, Journal Year: 2024, Volume and Issue: 43(12), P. 115055 - 115055

Published: Dec. 1, 2024

Language: Английский

A widespread family of viral sponge proteins reveals specific inhibition of nucleotide signals in anti-phage defense

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2024, Volume and Issue: unknown

Published: Dec. 31, 2024

Cyclic oligonucleotide-based antiviral signaling systems (CBASS) are bacterial anti-phage defense operons that use nucleotide signals to control immune activation. Here we biochemically screen 57 diverse

Language: Английский