Paul R. Jaschke

The paper evaluates how engineered initiator tRNA anticodon mutants function across different Escherichia coli strains, finding strain-dependent variations in translation initiation efficiency and fitness effects.

This study develops an orthogonal translation initiation system using an i-tRNA-AAC mutant and evaluates its physiological impact through fluorescence assays, proteomics, and tRNA sequencing.

This paper introduces nine oligonucleotides and a Python tool for in silico and in vitro typing of E. coli LPS outer core structures, revealing hybrid types and associations with pathogenicity and phylogeny.

The paper designs a biocontained phage system using amber stop codon suppression to control phage replication and prevent escape.

This study identifies and characterizes six new phages targeting uropathogenic Escherichia coli, showing host range correlation with tail fiber proteins and improved efficacy in mixed infections.

The paper describes a workflow to create synthetic gene overlaps using CAMEOS to protect non-essential genes from mutations.

This paper introduces CORPSE and iCORPSE methods to eliminate and create bacterial promoters within coding sequences using codon constraints.

This study creates an initiator tRNA with an AAC anticodon to initiate translation from GUU start codons, showing altered protein stability and potential for orthogonal translation.

This study shows that removing gene overlaps in a bacteriophage genome reduces viral replication efficiency, highlighting the importance of gene overlap for viral function.

This study provides a high-resolution transcriptome map of bacteriophage ΦX174 by sequencing RNA from infected E. coli, confirming existing models and revealing new transcriptional features.

The paper demonstrates genome annotation completeness for bacteriophage oX174 by synthesizing mutant genomes and showing no new genes are encoded beyond known essential and cryptic ORFs.

The paper measures the orthogonality of an engineered amber initiator tRNA in a genomically recoded E. coli strain and finds it increases reporter expression without off-target translation.

The paper quantifies translation initiation in E. coli from all 64 codons, finding that 46 codons can initiate translation at levels up to 2% relative to AUG.