Biology subjects

Guha, T.

Publications and source records attributed to Guha, T..

3 recordsLinked to original sources

bioRxiv2025

ERF transcription factor regulons underpin growth-defence trade-off under acute heat stress in rice seedlings

O_LIRice, a staple cereal crop, faces significant threats from rising temperatures, affecting all growth stages including early seedling establishment. Despite being critical in determining overall growth and productivity, response to heat stress during the early seedling stage remains understudied. This research aimed to assess the impact of acute heat stress on rice seedlings and unravel underlying molecular mechanisms. C_LIO_LIRice seedlings were exposed to varying intensities and durations of heat stress to determine a critical threshold affecting growth. To elucidate the transcription factor (TF)-mediated regulatory mechanisms and their functional interactome in response to stress, transcriptomic analysis of shoots and roots exposed to acute heat stress was performed. C_LIO_LITranscriptome analysis unveiled a comprehensive TF-target regulatory map for shoots and roots, potentially involved in the modulation of growth-defence trade-off in response to acute heat stress. Ethylene Responsive Factors (ERFs) emerged as central regulators, with phytohormones ethylene and jasmonic acid acting as upstream modulators. Pre-treatment with these phytohormones alleviated the adverse effects of heat stress. C_LIO_LIThis study uncovers key molecular mechanisms governing rice seedling responses to acute heat stress involving ERFs-hormonal interactions. Modulating these core regulators presents a promising strategy to enhance heat resilience, addressing global food security amid rising temperatures. C_LI

plant biology↗

bioRxiv2024

Exogenous selenium supplements reduce cadmium accumulation and restores micronutrient content in rice grains

PurposeCadmium (Cd) contamination in agricultural soil and accumulation in rice poses serious threat to human health. It is reported that Selenium (Se) can mitigate the toxic effect of Cd in rice. But the underlying mechanism of Se preventing the Cd accumulation and restoring the micronutrient content in rice grains have not been studied before. Therefore, our main aim is to reduce Cd content and restore micronutrient content in rice grain and study the mechanism. MethodsTwo indigenous rice genotypes (Maharaj and Jamini) were exposed to 10 and 50 {micro}M Cd in presence and absence of Se (5{micro}M) with a control set and assessed for plant growth, biomass, Cd content, ROS and antioxidants for Cd induced toxicity and amelioration. Genes for micronutrient transporters were studied by RT-PCR. Grain Cd and micronutrient content and agronomic parameters were also studied. ResultsSe supplementation increased plant growth, biomass, and yield under Cd stress. SEM and EDX analysis revealed that Se-Cd complex formed on root surfaces restricted Cd uptake by the roots preventing root damage. Soil analysis confirmed that Se decreased Cd bioavailability, restricted root to shoot Cd translocation, ultimately reducing Cd accumulation and restoring micronutrients in grain. This was further validated by fluorescent Leadmium dye staining. In (Se+Cd) treated seedlings, up-regulation of S metabolism and nutrient transporter genes also contributed to the mitigation of Cd stress. ConclusionsSo, the Se supplementation can be considered as a cost-effective, ecofriendly and sustainable approach to produce Cd free rice cultivation in Cd polluted soil.

plant biology↗

bioRxiv2021

scatterHatch: an R/Bioconductor package for colorblind accessible visualization of single-cell data

Reduced-dimension or spatial in situ scatter plots are widely employed in bioinformatics papers analyzing single-cell data to present phenomena or cell-conditions of interest in cell groups. When displaying these cell groups, color is frequently the only graphical cue used to differentiate them. However, as the complexity of the information presented in these visualizations increases, the usefulness of color as the only visual cue declines, especially for the sizable readership with color-vision deficiencies (CVDs). In this paper, we present scatterHatch, an R package that creates easily interpretable scatter plots by redundant coding of cell groups using colors as well as patterns. We give examples to demonstrate how the scatterHatch plots are more accessible than simple scatter plots when simulated for various types of CVDs.

bioinformatics↗