A5048158398- Microbial Community Ecology and Physiology
- Evolution and Genetic Dynamics
- Methane Hydrates and Related Phenomena
- Mathematical Biology Tumor Growth
- Mosquito-borne diseases and control
- Gene Regulatory Network Analysis
- Ion channel regulation and function
- Acute Myeloid Leukemia Research
- SARS-CoV-2 and COVID-19 Research
- Marine and coastal ecosystems
- Myeloproliferative Neoplasms: Diagnosis and Treatment
- Viral Infections and Vectors
- Ecosystem dynamics and resilience
- Photoreceptor and optogenetics research
- Geology and Paleoclimatology Research
- Chromium effects and bioremediation
- Lipid Membrane Structure and Behavior
- Gut microbiota and health
- Insect symbiosis and bacterial influences
- Hydrocarbon exploration and reservoir analysis
- Bacteriophages and microbial interactions
- Protein Kinase Regulation and GTPase Signaling
- Metal Extraction and Bioleaching
- Trace Elements in Health
- Bacterial Genetics and Biotechnology
Indiana University – Purdue University Indianapolis
2019-2022
Indiana University School of Medicine
2019-2022
Bristol-Myers Squibb (United States)
2022
Bose Institute
2018-2021
ARC Centre of Excellence for Mathematical and Statistical Frontiers
2017-2020
Queensland University of Technology
2017-2020
Australian Research Council
2018-2020
Indian Institute of Engineering Science and Technology, Shibpur
2016-2020
Abstract The 2019 novel coronavirus, SARS-CoV-2, is a pathogen of critical significance to international public health. Knowledge the interplay between molecular-scale virus-receptor interactions, single-cell viral replication, intracellular-scale transport, and emergent tissue-scale propagation limited. Moreover, little known about immune system-virus-tissue interactions how these can result in low-level (asymptomatic) infections some cases acute respiratory distress syndrome (ARDS) others,...
Little is known about life in the boron-rich hot springs of Trans-Himalayas. Here, we explore geomicrobiology a 4438-m-high spring which emanates ~70 °C-water from boratic microbialite called Shivlinga. Due to low atmospheric pressure, vent-water close boiling point so can entropically destabilize biomacromolecular systems. Starting vent, Shivlinga's was revealed along thermal gradients an outflow-channel and progressively-drying mineral matrix that has no running water; ecosystem...
Biogeochemistry of oxygen minimum zone (OMZ) sediments, which are characterized by high input labile organic matter, have crucial bearings on the benthic biota, gas and metal fluxes across sediment-water interface, carbon-sulfur cycling. Here we couple pore-fluid chemistry comprehensive microbial diversity data to reveal sedimentary cycle a water-depth transect covering entire thickness eastern Arabian Sea OMZ, off west coast India. Geochemical show remarkable increase in average total...
To understand SARS-CoV-2 microevolution, this study explored the genome-wide frequency, gene-wise distribution, and molecular nature of all point-mutations detected across its 71,703 RNA-genomes deposited in GISAID till 21 August 2020. Globally, nsp1/nsp2 orf7a/orf3a were most mutation-ridden non-structural structural genes respectively. Phylogeny 4618 spatiotemporally-representative genomes revealed that entities belonging to early lineages are mostly spread over Asian countries, including...
ABSTRACT The ecology of aerobic microorganisms is never explored in marine oxygen minimum zone (OMZ) sediments. Here we reveal bacterial communities along ∼3 m sediment-horizons the eastern Arabian Sea OMZ. Sulfide-containing sediment-cores retrieved from 530 mbsl (meters beneath sea-level) and 580 were at 15–30 cm intervals, using metagenomics, pure-culture-isolation, genomics metatranscriptomics. Genes for respiration, oxidation...
We extend our established agent-based multiscale computational model of infection lung tissue by SARS-CoV-2 to include pharmacokinetic and pharmacodynamic models remdesivir. remdesivir treatment for COVID-19; however, methods are general other viral infections antiviral therapies. investigate the effects drug potency, dosing frequency, initiation delay, half-life, variability in cellular uptake metabolism its active metabolite on outcomes a simulated patch infected epithelial tissue....
The unique hydrographic setting of the Bay Bengal (BoB) makes it an ideal tropical marine system to study influence regional and global forcings on productivity [CO
Abstract. To explore the potential role of tetrathionate in sedimentary sulfur cycle, population ecology microorganisms capable metabolizing this polythionate was revealed at 15–30 cm resolution along two, ∼3 m long, cores collected from 530 and 580 below sea level, off India's west coast, within oxygen minimum zone (OMZ) Arabian Sea. Metagenome analysis widespread occurrence genes involved formation, oxidation, reduction tetrathionate; high diversity relative abundance were also detected...
The titre of virus in a dengue patient and the duration this viraemia has profound effect on whether or not mosquito will become infected when it feeds this, turn, is key driver magnitude outbreak. assessment heterogeneity viral dynamics dengue-infected patients its precise treatment are still uncertain. Infection onset, physiology immune response thought to play major roles development load. Research explored interference spontaneous generation defective particles, but have examined both...
Abstract. Marine sedimentation rate and bottom-water O2 concentration control organic carbon remineralization sequestration across continental margins, but whether how they shape microbiome architecture (the ultimate effector of all biogeochemical phenomena) shelf slope sediments is still unclear. Here we reveal distinct structures functions, amidst comparable pore fluid chemistries, along 300 cm sediment horizons underlying the seasonal (shallow coastal; water depth: 31 m) perennial (deep...
Abstract Metabolically-active obligate aerobes are unheard-of in tightly-anoxic environments. Present culture-independent and culture-dependent investigations revealed aerobic microbial communities along two, ~3-meter-long sediment-cores underlying the eastern Arabian Sea oxygen minimum zone, where high H 2 S disallows O influx from water-column. While genes for respiration by aa 3 -/ cbb -type cytochrome- c oxidases bd ubiquinol oxidase, oxidation of...
Pharmacokinetics and pharmacodynamics (PKPD) are key considerations in any study of molecular therapies. It is thus imperative to factor their effects into silico model biological tissue involving such Furthermore, creating a standardized flexible framework will benefit the community by increasing access modules enhancing communicability. PhysiCell an open-source physics-based cell simulator, i.e., platform for modeling tissue, that quickly being adopted utilized mathematical biology...
Abstract Acute myeloid leukaemia (AML) is a blood cancer affecting haematopoietic stem cells. AML routinely treated with chemotherapy, and so it of great interest to develop optimal chemotherapy treatment strategies. In this work, we incorporate an immune response into cell model AML, since find that previous models lacking are inappropriate for deriving control Using theory, produce continuous controls bang-bang controls, corresponding range objectives parameter choices. Through example...
To understand the switching of different phenotypic phases Bordetella pertussis, we propose an optimized mathematical framework for signal transduction through BvgAS two-component system. The response network output to sensory input has been demonstrated in steady state. An analysis terms local sensitivity amplification characterizes nature molecular switch. model parameters within various correlation coefficients helps decipher contribution modular structure propagation. Once classified,...
Abstract Bacteria invest in a slow-growing subpopulation, called persisters, to ensure survival the face of uncertainty. This hedging strategy is remarkably similar financial hedging, where diversifying an investment portfolio protects against economic We provide new theoretical foundation for understanding cellular by unifying study biological population dynamics and mathematics risk management through optimal control theory. Motivated widely accepted role volatility emergence persistence,...
The host-vector shuttle and the bottleneck in dengue transmission is a significant aspect with regard to study of outbreaks. As mosquitoes require 100–1000 times more virus become infected than human, from human mosquito vulnerability that can be targeted improve disease control. In order capture heterogeneity infectiousness an patient population towards population, we calibrate host-to-vector models based on experimentally quantified fraction population. Once well-calibrated, deploy...
It is well known that α-helices of protein, possessing equal and opposite charged ends, behaves like a macrodipole, but the relative importance such macrodipoles to aggregation pair helix in voltage sensor domain (VSD) K+ ion channel, has not been assessed. In VSD, given primarily helically arranged Arginine residues helix, role S3b less focused.Applying electrostatic theory, we have studied interaction between charges S3b-S4 α-helix KvAP through virtual mutagenesis.We shown terminal arising...
Abstract Pharmacokinetics and pharmacodynamics are key considerations in any study of molecular therapies. It is thus imperative to factor their effects silico model biological tissue involving such Furthermore, creation a standardized flexible framework will benefit the community by increasing access modules enhancing communicability. PhysiCell an open source physics-based cell simulator, i.e. platform for modeling tissue, that quickly being adopted utilized mathematical biology community....