Biology subjects

Rawal, R.

Publications and source records attributed to Rawal, R..

5 recordsLinked to original sources

bioRxiv2025

Epigenome-wide association study meta-analysis of wellbeing

Wellbeing is associated with both behavioral phenotypes as well as several key life outcomes, such as health, employment, and coping with stressful events. These phenotypes associated with wellbeing could be potential indicators of differential epigenetic patterns between individuals that differ in their levels of wellbeing. We performed the largest epigenome-wide (EWAS) meta-analysis of wellbeing to date by combining whole blood DNA methylation data (Illumina 450k array) from 13 cohorts from Europe, Australia, and the USA (N = 10,757 participants). After correcting for smoking and BMI, no epigenome-wide significant methylation sites were identified. We tested whether a weighted methylation score (MS) based on leave-one-cohort-out EWAS meta-analysis summary statistics predicted wellbeing in an independent cohort, and whether prediction was significant over and above the polygenic score (PGS) for wellbeing. The MS was associated with wellbeing (variance explained=0.22%, p=0.03) and was no longer significant after adding the polygenic score (PGS; variance explained=0.43%, p=0.0046, MS; variance explained=0.07%, p=0.2842). We further compared DNA methylation levels in 16 pairs of monozygotic twins discordant for wellbeing. These analyses revealed no significant within-pair DNA methylation differences at the top-sites from the meta-analysis or in MS. Our results suggest that larger EWAS meta-analyses with uniform phenotype assessment are required to identify methylation sites associated with wellbeing.

genomics↗

bioRxiv2025

Metabolic role of the LutACB operon in Neisseria gonorrhoeae resistance to neutrophil-mediated clearance

Neisseria gonorrhoeae, an obligate human pathogen, causes the sexually transmitted disease gonorrhoea and primarily colonizes the human genitourinary tract. An infection triggers a strong neutrophil-driven inflammatory response; however, viable gonococci are frequently recovered from neutrophil-rich patient exudates, indicating that these pathogens can survive neutrophil-mediated killing in vivo. To identify bacterial factors involved in this interaction, we screened a N. gonorrhoeae transposon library for mutants with reduced survival in polymorphonuclear leukocytes (PMNs). Among the identified candidates was NGFG_RS05085 (lutB), encoding an L-lactate oxidation FeS protein within the LutACB operon, which includes lutA (NGFG_RS05075), an FeS-binding protein, and lutC, the lactate utilisation protein C, (NGFG_RS05080). Deletion of lutA, lutB, or lutC did not significantly impair growth in standard culture medium or in minimal medium complemented with glucose, L-Lactate, or pyruvate. lutB and lutC, but not lutA, knockout significantly reduced bacterial survival within neutrophils compared to the wild-type strain. Polar effects of the mutations were ruled out by monitoring gene expression in deletion mutants. Metabolic profiling revealed disruption in nucleotide and glutathione synthesis, connecting the LutACB operon with sulfur metabolism, which could be required for a defence against neutrophil-derived reactive oxygen species (ROS). These findings highlight the important novel role of the LutACB operon, which connects lactate utilization and sulfur metabolism, and enables N. gonorrhoeae to withstand neutrophil-mediated oxidative stress during infection.

microbiology↗

bioRxiv2023

Exosome derived multi-gene biomarker panel identifies the risk of liver metastasis in lung cancer patients

BackgroundThe lack of non-invasive methods for detection of early metastasis is a crucial reason for the poor prognosis of lung cancer (LC) liver metastasis (LM) patients. In this study, the goal was to identify circulating biomarkers based on a biomarker model for the early diagnosis and monitoring of patients with LCLM. MethodsAn 8-gene panel identified in our previous study was validated in CTC, cfRNA and exosomes isolated from primary lung cancer with & without metastasis. Further multivariate analysis including PCA & ROC was performed to determine the sensitivity and specificity of the biomarker panel. Model validation cohort (n = 79) was used to verify the stability of the constructed predictive model. Further, clinic-pathological factors, survival analysis and immune infiltration correlations were also performed. ResultsIn comparison to our previous tissue data, exosomes demonstrated a good discriminative value with an AUC of 0.7247, specificity (72.48 %) and sensitivity (96.87%) for the 8-gene panel. Further individual gene patterns led us to a 5-gene panel that showed an AUC of 0.9488 (p = <0.001) and 0.9924 (p = <0.001) respectively for tissue and exosomes. Additionally, on validating the model in a larger cohort a risk score was obtained (RS >0.2) for prediction of liver metastasis with an accuracy of 95%. Survival analysis and immune filtration markers suggested that four exosomal markers were independently associated with poor overall survival. ConclusionWe report a novel blood-based exosomal biomarker panel for early diagnosis, monitoring of therapeutic response, and prognostic evaluation of patients with LCLM.

cancer biology↗

bioRxiv2023

Dopamine functionalized, red carbon quantum dots for in vivo bioimaging, cancer therapeutics, and neuronal differentiation

One of the crucial requirements of quantum dots for biological applications is their surface modifications for very specific and enhanced biological recognition and uptake. Toward this, we present the green synthesis of bright, red-emitting carbon quantum dots derived from mango leaf extract (mQDs). These mQDs are conjugated electrostatically with dopamine to form mQDs-dopamine (mQDs: DOPA) bioconjugates. Bright red fluorescence of mQDs was used for bioimaging and uptake in multiple cell lines, tissues, and in vivo models like zebrafish. mQDs exhibited the highest uptake in brain tissue as compared to others. mQD:DOPA conjugate induced cellular toxicity only in cancer cells while showing increased uptake in epithelial cells and zebrafish. Additionally, the mQDs: DOPA promoted neuronal differentiation of SH-SY5Y cells to complete neurons. Both mQDs and mQDs: DOPA exhibited potential for higher collective cell migrations implicating their future potential as next-generation tools for advanced biological and biomedical applications. TOCmQDs were electrostatically conjugated with dopamine (DOPA) to form the mQDs: DOPA bioconjugate. mQDs are used to image cells, tissues, and zebrafish embryos. mQDs: DOPA kills cancer cells, differentiates neuronal cells, and increases the uptake of mQDs in zebrafish embryos. O_FIG O_LINKSMALLFIG WIDTH=200 HEIGHT=116 SRC="FIGDIR/small/545347v1_ufig1.gif" ALT="Figure 1"> View larger version (25K): org.highwire.dtl.DTLVardef@f521a4org.highwire.dtl.DTLVardef@173a8f0org.highwire.dtl.DTLVardef@585271org.highwire.dtl.DTLVardef@8c959d_HPS_FORMAT_FIGEXP M_FIG C_FIG

bioengineering↗

bioRxiv2022

Green emitting carbon quantum dots (GCQDs) to probe endocytic pathways in cells; for tissue and in vivo bioimaging

Small sized, carbon-based organic nanoparticles have recently gained attention due their advantage of biocompatibility, photostability and biological non-toxicity as compared to their inorganic counterparts. Herein, a new class of small (5-8 nm), green emitting fluorescent carbon quantum dots (GCQDs) were synthesized using organic substrates like citric acid and ascorbic acid in aqueous solvent containing water and ethanol. The very small size and bright green photoluminescence prompted their use for both in vitro and in vivo bioimaging. GCQDs were uptaken via clathrin mediated pathways in mouse kidney and liver primary cells. Similarly, they showed active uptake and distribution in the zebrafish embryo model system. The optical tunability and surface modification properties of these GCQDs provide a platform to be explored for them to emerge as a new class of targeted bioimaging entities, as well as tools for biomedical applications.

bioengineering↗