Dataset Information

DNA Bending Force Facilitates Z-DNA Formation under Physiological Salt Conditions.

ABSTRACT: Z-DNA, a noncanonical helical structure of double-stranded DNA (dsDNA), plays pivotal roles in various biological processes, including transcription regulation. Mechanical stresses on dsDNA, such as twisting and stretching, help to form Z-DNA. However, the effect of DNA bending, one of the most common dsDNA deformations, on Z-DNA formation is utterly unknown. Here, we show that DNA bending induces the formation of Z-DNA, that is, more Z-DNA is formed as the bending force becomes stronger. We regulated the bending force on dsDNA by using D-shaped DNA nanostructures. The B-Z transition was observed by single-molecule fluorescence resonance energy transfer. We found that as the bending force became stronger, Z-DNA was formed at lower Mg²⁺ concentrations. When dsDNA contained cytosine methylations, the B-Z transition occurred at 78 mM Mg²⁺ (midpoint) in the absence of the bending force. However, the B-Z transition occurred at a 28-fold lower Mg²⁺ concentration (2.8 mM) in the presence of the bending force. Monte Carlo simulation suggested that the B-Z transition stabilizes the bent form via the formation of the B-Z junction with base extrusion, which effectively releases the bending stress on DNA. Our results clearly show that the bending force facilitates the B-Z transition under physiological salt conditions.

SUBMITTER: Yi J

PROVIDER: S-EPMC9335521 | biostudies-literature | 2022 Jul

REPOSITORIES: biostudies-literature

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DNA Bending Force Facilitates Z-DNA Formation under Physiological Salt Conditions.

Yi Jaehun J Yeou Sanghun S Lee Nam Ki NK

Journal of the American Chemical Society 20220715 29

Z-DNA, a noncanonical helical structure of double-stranded DNA (dsDNA), plays pivotal roles in various biological processes, including transcription regulation. Mechanical stresses on dsDNA, such as twisting and stretching, help to form Z-DNA. However, the effect of DNA bending, one of the most common dsDNA deformations, on Z-DNA formation is utterly unknown. Here, we show that DNA bending induces the formation of Z-DNA, that is, more Z-DNA is formed as the bending force becomes stronger. We reg ...[more]

PMID: 35839423

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Project description:BackgroundSustainable crop production along with best nutrient use efficiency is the key indicator of smart agriculture. Foliar application of plant nutrients can complement soil fertilization with improved nutrient uptake, translocation and utilization. Recent developments in slow releasing, nano-fertilizers in agriculture, begins a new era for sustainable use and management of natural resources. This study aims to explore the effectiveness of nano-nitrogen usage on plant growth, yield attributes and sustaining rice production while optimizing fertilizer N application through conventional (prilled urea) and nano-N source under salt stress conditions.ResultsThe strategic substitutions of traditional urea by nano-nitrogen was distributed from partial to complete with 33, 50, 66 and 100% applications. Further, the strategic substitutions were compared in saline (ECe ∼ 6.0 dSm- 1) and sodic stress (pH ∼ 9.1) conditions along with normal soils to dissect the beneficial response of nano-N in two rice varieties (CSR 30 and PB 1121). Salt stress affected the plant performance by decreasing leaf relative water content upto 10%, total chlorophyll content by 1.3-1.5%, leaf area upto 29.9%, gas exchange attributes by 10-39%, with concomitant yield reductions upto ∼ 4%. Collateral improvement in leaf greenness (SPAD index) crop growth rate and net assimilation rate was observed with foliar application of Nano-N. 0.2-1.64% enhancement in growth traits, 0.93-1.85% in physiological traits, and comparable yield gains with 100% recommended dose of prilled were comparative with nano-substitutions. Salt tolerant rice variety, CSR-30 performed better than PB 1121 with better expression of morphological, physiological and yield traits under stress conditions and nitrogen substitutions.ConclusionsOverall, our experimental findings revealed agricultural use of nano-N in improving the plant physiological efficiency and optimizing rice yields with partial N substitution through nano fertilizers under salt stress conditions. These studies are further open for futuristic aspects of long term effects of nano-fertilizers on soil nutrient depletion in correlation to yield enhancement in salt affected soils.

Dataset Information

DNA Bending Force Facilitates Z-DNA Formation under Physiological Salt Conditions.

Publications

DNA Bending Force Facilitates Z-DNA Formation under Physiological Salt Conditions.

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