J. T. Wade

Promoter selectivity of the RhlR quorum-sensing transcription factor receptor in Pseudomonas aeruginosa is coordinated by distinct and overlapping dependencies on C4-homoserine lactone and PqsE

This study identifies three distinct modes of RhlR activation in Pseudomonas aeruginosa by analyzing how C4-homoserine lactone and PqsE influence RhlR binding and transcription.

Genome-wide mapping of the Escherichia coli PhoB regulon reveals many transcriptionally inert, intragenic binding sites

This study maps the PhoB regulon in E. coli and finds that most binding sites are intragenic and not associated with transcription regulation or conservation.

Identification of novel translated small ORFs in Escherichia coli using complementary ribosome profiling approaches

The paper identifies 365 novel small ORFs in E. coli using ribosome profiling with antibiotics to stall ribosomes at start and stop codons, showing many encode unstable proteins not under purifying selection.

Fluorescence Imaging-Based Discovery of Membrane Domain-Associated Proteins in Mycobacterium smegmatis

The paper uses fluorescence imaging to verify and discover new proteins associated with the intracellular membrane domain in Mycobacterium smegmatis.

Transcription Termination and Antitermination of Bacterial CRISPR Arrays

The paper investigates how Rho-dependent transcription termination affects CRISPR array length and identifies an antitermination mechanism that enables full transcription of CRISPR arrays.

Regulatory crosstalk between motility and interbacterial communication in Salmonella Typhimurium

The paper shows that FliA in Salmonella Typhimurium transcribes non-coding RNAs and the sdiA gene, linking flagellar motility to interbacterial communication.

Regulatory roles of 5' UTR and ORF-internal RNAs detected by 3' end mapping

The paper identifies regulatory RNA elements in bacterial 5' UTRs and ORFs using 3' end mapping, revealing new sRNA sponges and premature termination sites.

Leaderless short ORFs in mycobacteria comprise a translational regulon

The paper identifies leaderless short ORFs in mycobacteria as functional translational regulators that control operon expression in response to cysteine availability.

The genome-wide transcriptional response to varying RpoS levels in Escherichia coli K-12

This study examines how varying RpoS levels affect the transcriptome of E. coli during stationary phase, identifying gene regulation patterns and promoter sensitivity mechanisms.