Publications
Publications
Facultative cheating and hybrid vigor resolves cooperator-cheater conflict in a yeast public-goods system. bioRxiv (2025)
Effects of resource packaging on the adaptative and pleiotropic consequences of evolution. npj Systems Biology and Applications (2025)
Resource presentation dictates genetic and phenotypic adaptation in yeast. BMC Ecology & Evolution (2025)
On the metabolic basis and predictability of global epistasis. bioRxiv (2025)
Variations and predictability of epistasis on an intragenic fitness landscape. eLife (2025)
Empirical evidence of resource-dependent evolution of payoff matrices in Saccharomyces cerevisiae populations. Journal of Evolutionary Biology (2025)
Synonymous and single nucleotide changes facilitate the adaptation of a horizontally transferred gene. bioRxiv (2024)
Toward the integration of speciation research. Evolutionary Journal of the Linnean Society (2024)
Convergent genetic adaptation of Escherichia coli in minimal media leads to pleiotropic divergence. Frontiers in Molecular Biosciences (2024)
Ecological disruptive selection acting on quantitative loci can drive sympatric speciation. npj Systems Biology and Applications (2024)
Increased privatization of a public resource leads to spread of cooperation in a microbial population. Microbiology Spectrum (2024)
Rapid evolution of pre-zygotic barriers in allopatric populations. Microbiology Spectrum (2023)
Exploring the Influence of pH on the Dynamics of Acetone–Butanol–Ethanol Fermentation. Microorganisms (2023)
Public-good driven release of heterogeneous resources leads to genotypic diversification of an isogenic yeast population in melibiose. Evolution (2022)
A method to determine the mating efficiency of haploids in Saccharomyces cerevisiae. JoVE (2022)
Selection in a growing bacterial/yeast colony biases results of mutation accumulation experiments. Scientific Reports (2022)
Limited pairwise synergistic and antagonistic interactions impart stability to microbial communities. Frontiers in Ecology and Evolution (2022)
GAL regulon in the yeast S. cerevisiae is highly evolvable via acquisition in the coding regions of the regulatory elements of the network. Frontiers in Molecular Biosciences (2022)
Evolution of multicellularity and unicellularity in yeast S. cerevisiae to study reversibility of evolutionary trajectories. bioRxiv (2021)
Cell growth model with stochastic gene expression helps understand the growth advantage of metabolic exchange and auxotrophy. mSystems (2021)
Experimental evolution of anticipatory gene regulation in Escherichia coli. Frontiers in Microbiology (2021)
Phenotypic heterogeneity in tumor progression, and its possible role in the onset of cancer. Frontiers in Genetics (2020)
Distribution of fitness effects of mutations obtained from a simple genetic regulatory network model. Scientific reports (2019)
Evolution of Escherichia coli in different carbon environments for 2000 generations. Journal of Evolutionary Biology (2019)
Phenomenological models as effective tools to discover cellular design principles. Archives of Microbiology (2019)
Mathematical modeling of movement on fitness landscapes. BMC Systems Biology (2019)
Estimating optimal lysogenic propensity for viruses in stressed environments. bioRxiv (2018)
Mathematical modelling of quorum sensing in bacteria. INAE Letters (2018)
Dynamic control of arabinose and xylose utilization in E. coli. Canadian Journal of Chemical Engineering (2018)
Dynamics and control of flagella assembly in Salmonella typhimurium. Frontiers in Cellular and Infection Microbiology (2018)
Mathematical Modelling of Actin treadmill in Apicomplexans. bioRxiv (2018)
Logic of two antagonizing intra-species quorum sensing systems in bacteria. Biosystems (2018)
Current status and challenges in biobutanol production. Bioenergy and Biofuels (Book Chapter) (2018)
Cross-regulation among arabinose, xylose and rhamnose utilization in E. coli. Letters in Applied Microbiology (2017)
Robustness vs Evolvability analysis for regulatory feed-forward loops. Journal of Bioinformatics and Computational Biology (2017)
Rob And MarA Alter Susceptibility Of Escherichia coli To Antibiotics In Presence Of Salicylate. bioRxiv (2017)
Optimal parameter values for control of gene regulation. Molecular BioSystems (2017) A non-technical description of the work is at: [1]
Sugar Co-utilization in Microorganisms. Current Developments in Biotechnology and Bioengineering (Book Chapter) (2016)
Building Metabolic Models From First Principles. Current Developments in Biotechnology and Bioengineering (Book Chapter) (2016)
Analysis of a strategy for cooperating cells to survive the presence of cheaters. Molecular BioSystems (2016)
MarRA, SoxSR, and Rob encode a signal dependent regulatory network in Escherichia coli. Molecular BioSystems (2016)
Progress toward isolation of strains and genetically engineered strains of microalgae for production of biofuel and other value added chemicals: A review. Energy Conversion and Management (2016)
Analysis of optimality of the standard genetic code. Molecular BioSystems (2016)
Revisiting Demand Rules for Gene Regulation. Molecular BioSystems (2016)
Control of marRAB operon in Escherichia coli via autoactivation and autorepression. Biophysical Journal (2015)
Mathematical model of flagella gene expression dynamics in Salmonella enterica serovar typhimurium. Systems and Synthetic Biology (2015)
Elementary mode analysis reveals that Clostridium acetobutylicum modulates its metabolic strategy under external stress. Molecular BioSystems (2014)
Acetone-butanol-ethanol fermentation analysis using only high performance liquid chromatography. Analytical Methods (2014)
Characterization of Performance and Dynamics of Genetic Networks. IFAC Computer Applications in Biotechnology (2013)
Role of feedback and network architecture in controlling virulence gene expression in Bordetella. Molecular BioSystems (2013)
Role of extracellular cues to trigger the metabolic phase shifting from acidogenesis to solventogenesis in Clostridium acetobutylicum. Bioresource Technology (2013)
Academic Ethics at the Undergraduate Level: Case Study from the Formative Years of the Institute. Journal of Academic Ethics (2013)
Interplay between Fur and HNS in controlling virulence gene expression in Salmonella typhimurium. Computers in Biology and Medicine (2012)
Continuous control of flagellar gene expression by the σ28-FlgM regulatory circuit in Salmonella enterica. Molecular Microbiology (2011)
The interaction dynamics of a negative feedback loop regulates flagellar number in Salmonella enterica serovar Typhimurium. Molecular Microbiology (2010)
FliZ induces a kinetic switch in flagellar gene expression. Journal of Bacteriology (2010)
Role of cross talk in regulating the dynamic expression of the flagellar Salmonella pathogenicity island 1 and type 1 fimbrial genes. Journal of Bacteriology (2010)
The role of coupled positive feedback in the expression of the SPI1 type three secretion system in Salmonella. PLoS Pathogens (2010)
SprB is the molecular link between Salmonella pathogenicity island 1 (SPI1) and SPI4. Journal of Bacteriology (2010)
Role of FimW, FimY, and FimZ in regulating the expression of type i fimbriae in Salmonella enterica serovar Typhimurium. Journal of Bacteriology (2009)
Role of feedback loops in dictating flagellar gene regulation dynamics in Salmonella typhimurium. FOSBE Proceedings IET Systems Biology (2009)
The rate of protein secretion dictates the temporal dynamics of flagellar gene expression. Molecular Microbiology (2008)
FliZ Is a posttranslational activator of FlhD4C2-dependent flagellar gene expression. Journal of Bacteriology (2008)
Pressure drop and heat transfer study in tube-in-tube helical heat exchanger. Chemical Engineering Science (2006)