S. Raman

A parametrized two-domain thermodynamic model explains diverse mutational effects on protein allostery

This study develops a two-domain thermodynamic model to explain mutational effects on protein allostery in TetR, revealing intra- and inter-domain interactions and epistasis.

Rhythm generating mechanisms in rat sino-atrial node and ventricle

This study investigates rhythm-generating mechanisms in rat heart tissue, identifying key ion currents involved in sinoatrial and idioventricular rhythms.

Lectin-Seq: a method to profile lectin-microbe interactions in native communities

Lectin-Seq profiles lectin-microbe interactions in human fecal microbiota, revealing distinct binding preferences for MBL and hItln1.

Rugged fitness landscapes minimize promiscuity in the evolution of transcriptional repressors

The paper characterizes the rugged fitness landscape of transcriptional repressors, showing rapid specificity switching and the role of regulatory crosstalk in shaping evolutionary paths.

Cell envelope remodeling requires high concentrations of biotin during Mycobacterium abscessus model lung infection

This study identifies biotin-dependent fatty acid remodeling as essential for Mycobacterium abscessus survival in the lung, suggesting biotin synthesis and fatty acid metabolism as therapeutic targets.

Deep mutational scanning and machine learning reveal structural and molecular rules governing allosteric hotspots in homologous proteins

The paper identifies allosteric hotspots in bacterial transcription factors using deep mutational scanning and machine learning, finding that structural and dynamic properties are key predictors.

CXCR2 inhibition enables NASH-HCC immunotherapy

This study shows that combining CXCR2 inhibition with anti-PD1 therapy enhances immunotherapy response in NASH-HCC by reprogramming tumor-associated neutrophils.

Antimicrobial resistance in dairy slurry tanks: a critical point for measurement and control

This study identifies dairy slurry tanks as critical for antimicrobial resistance (AMR) prevalence and control, showing that 60 days of storage can reduce ARB spread by >99%.

Virus-associated organosulfur metabolism in human and environmental systems

This study identifies 39 viral gene families involved in organosulfur metabolism across diverse ecosystems, showing their role in sulfide production and viral fitness.

Epistasis shapes the fitness landscape of an allosteric specificity switch

The paper investigates how epistasis influences the emergence of new inducer specificity in an allosteric transcription factor, revealing nonlinear relationships between local interactions and global function.

Heterologous production of 1-tuberculosinyladenosine in Mycobacterium kansasii models pathoevolution towards the transcellular lifestyle of Mycobacterium tuberculosis.

This study introduces the M. tuberculosis-specific gene pair into M. kansasii to model pathoevolution, finding that 1-TbAd production enhances early infection but impairs long-term survival.

Functional Plasticity and Evolutionary Adaptation of Allosteric Regulation

This study uses deep mutational scanning to show that allosteric signaling has high functional plasticity and redundancy, with structural residues more conserved than functional ones.