Sougata Roy

ORCID: 0000-0003-0168-5737
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About
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Research Areas
  • Protist diversity and phylogeny
  • Microbial Community Ecology and Physiology
  • Photosynthetic Processes and Mechanisms
  • Photoreceptor and optogenetics research
  • Algal biology and biofuel production
  • Immunotherapy and Immune Responses
  • Light effects on plants
  • Circadian rhythm and melatonin
  • Prostate Cancer Treatment and Research
  • bioluminescence and chemiluminescence research
  • Immune Response and Inflammation
  • Cholesterol and Lipid Metabolism
  • Growth Hormone and Insulin-like Growth Factors
  • Genomics and Phylogenetic Studies
  • Estrogen and related hormone effects
  • Polyamine Metabolism and Applications
  • Peroxisome Proliferator-Activated Receptors
  • Genomics, phytochemicals, and oxidative stress
  • Reproductive Biology and Fertility
  • Advanced biosensing and bioanalysis techniques
  • Endoplasmic Reticulum Stress and Disease
  • Mass Spectrometry Techniques and Applications
  • Marine and coastal ecosystems
  • RNA and protein synthesis mechanisms
  • Birth, Development, and Health

Ashoka University
2019-2025

European Bioinformatics Institute
2019-2021

Wellcome Sanger Institute
2019-2021

Université de Montréal
2012-2018

Dinoflagellates are an important component of the marine biota, but a large genome with high–copy number (up to 5,000) tandem gene arrays has made genomic sequencing problematic. More importantly, little is known about expression and conservation these unusual arrays. We assembled de novo catalog 74,655 contigs for dinoflagellate Lingulodinium polyedrum from RNA-Seq (Illumina) reads. The contains 93% EST dataset deposited in GenBank 94% enzymes 16 primary metabolic KEGG (Kyoto Encyclopedia...

10.1073/pnas.1206683109 article EN Proceedings of the National Academy of Sciences 2012-09-10

Background Dinoflagellates typically lack histones and nucleosomes are not observed in DNA spreads. However, recent studies have shown the presence of core histone mRNA sequences scattered among different dinoflagellate species. To date, all components required for manufacturing modifying a single species has been confirmed. Methodology Results Analysis Lingulodinium transcriptome obtained by Illumina sequencing shows several copies each four as well suite enzymes chaperone proteins....

10.1371/journal.pone.0034340 article EN cc-by PLoS ONE 2012-04-04

Abstract Dinoflagellates are microscopic, eukaryotic, and primarily marine plankton. Temporary cyst formation is a well-known physiological response of dinoflagellate cells to environmental stresses. However, the molecular underpinnings cold-induced physiology have never been described. Cultures photosynthetic Lingulodinium polyedrum readily form temporary cysts when placed at low (8°C ± 1°C) temperature excyst normal motile following return (18°C 1°C). The circadian bioluminescence rhythm...

10.1104/pp.113.229856 article EN PLANT PHYSIOLOGY 2013-12-13

Almost all cells display circadian rhythms, approximately 24-hour period changes in their biochemistry, physiology or behavior. These rhythms are orchestrated by an endogenous clock whose mechanism is based on transcription-translation feedback loops (TTFL) where the translated products of genes act to inhibit own transcription. We have used RNA-Seq measure abundance transcripts RNA-Seq-derived de novo gene catalog two different experiments. One compared midday and midnight a light–dark...

10.1186/s12915-014-0107-z article EN cc-by BMC Biology 2014-12-01

ABSTRACT Circadian clocks execute temporal regulation of metabolism by modulating the timely expression genes. Clock mRNA synthesis was envisioned as primary driver these daily rhythms. oscillations often do not concur with downstream protein oscillations, revealing importance to study oscillations. Chlamydomonas reinhardtii is a well‐studied miniature plant model. We quantitatively probed proteome for two subsequent circadian cycles using high throughput SWATH‐DIA mass spectrometry....

10.1111/pce.15354 article EN Plant Cell & Environment 2025-01-08

Roughly two-thirds of the proteins annotated as transcription factors in dinoflagellate transcriptomes are cold shock domain-containing (CSPs), an uncommon condition eukaryotic organisms. However, no functional analysis has ever been reported for a CSP, and so it is not known if they do fact act factors. We describe here some properties two CSPs from Lingulodinium polyedrum, LpCSP1 LpCSP2, which contain glycine-rich C-terminal domain N-terminal phylogenetically related to those bacteria....

10.1128/msphere.00034-15 article EN cc-by mSphere 2016-01-11

Pregnenolone (P5) promotes prostate cancer cell growth, and de novo synthesis of intratumoural P5 is a potential cause development castration resistance. Immune cells can also synthesize novo. Despite its biological importance, little known about P5's mode actions, which appears to be context dependent pleiotropic. A comprehensive proteome-wide spectrum P5-binding proteins that are involved in trafficking functionality remains unknown. Here, we describe an approach integrates chemical...

10.1016/j.isci.2021.102485 article EN cc-by-nc-nd iScience 2021-04-28

Pregnenolone (P5) is synthesized as the first bioactive steroid in mitochondria from cholesterol. Clusters of differentiation 4 (CD4+) and 8 (CD8+) immune cells synthesize P5 de novo; P5, turn, play important role homeostasis regulation. However, P5's biochemical mode action still emerging. We envisage that revealing complete spectrum target proteins would have multifold applications, not only basic understanding steroids biochemistry but also developing new therapeutic applications....

10.3389/fimmu.2023.1229703 article EN cc-by Frontiers in Immunology 2023-10-31

Abstract Pregnenolone (P5) promotes prostate cancer cell growth, and de novo synthesis of intratumoural P5 is a potential cause development castration-resistance. Immune cells can also synthesize . Despite its biological importance, little known about P5’s mode actions, which appears to be context-dependent pleiotropic. A comprehensive proteome-wide spectrum P5-binding proteins that are involved in trafficking functionality remains unknown. Here, we describe an approach integrates chemical...

10.1101/800649 preprint EN cc-by-nc-nd bioRxiv (Cold Spring Harbor Laboratory) 2019-10-16

Abstract Pregnenolone (P5) is synthesized as the first bioactive steroid in mitochondria from cholesterol. CD4+ and CD8+ immune cells synthesize P5 de novo , turn play important role homeostasis regulation. However, P5’s biochemical mode of action still emerging. We envisage that revealing complete spectrum P5-target proteins would have multifold applications, not only basic understanding steroids biochemistry but also developing new therapeutic applications. employed a CLICK-enabled probe...

10.1101/2023.05.23.541892 preprint EN bioRxiv (Cold Spring Harbor Laboratory) 2023-05-24

Abstract Timing of biological processes enable organisms to sustain the diurnal fluctuations resulting from earth’s rotation. Circadian clocks execute this temporal regulation by modulating expression genes. Clock mRNAs was envisioned as primary driver daily rhythms. However, mRNA oscillations often don’t concur with downstream protein oscillations. To assess contribution post-transcriptional processes, we quantitatively probed Chlamydomonas proteome for two circadian cycles. Our study...

10.1101/2023.07.28.550970 preprint EN bioRxiv (Cold Spring Harbor Laboratory) 2023-07-29

HUMAN JURKAT T LYMPHOCYTES. K. Gohil, S. Roy. Khanna L. Packer and C.K. Sen Department of Molecular Cell Biologq, Universi3 California. Berkele?, CA. USA a-Lipolc acid (LA) is a thiol antioxidant which influences cellular redox ststus. We have demonstrated an inhibitory role LA in agonist induced NFKB activation. To obtain comprehensive understanding the effect on gene expression profile we applied technique dlfi’erential di\pla! iDD) mRNAs. RNA from human Jurkat cell treated Lvith either (...

10.1016/s0928-4680(98)80578-6 article EN Pathophysiology 1998-06-01
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