Proline hydration at low temperatures: its role in the protection of cell from freeze-induced stress

Fedotova, M. V.; Dmitrieva, O.

doi:10.1007/s00726-016-2232-1

Cited by 33 publications

(16 citation statements)

References 61 publications

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“…Plant cells have a protective system that includes enzymatic antioxidants that combat oxidative stress; three examples, superoxide dismutase (SOD), peroxidase (POD), catalase (CAT) are widely distributed in plants and enable the adaption and regulation of ROS in response to abiotic stresses, especially chilling (Li et al, 2015 ). Cryoprotective soluble sugars are also found in leaf tissues that enhance tolerance to freezing (Strimbeck et al, 2008 ; Xu et al, 2015 ), while the natural amino acid L-α-proline (Pro) stored in cell cytoplasm functions as an osmolyte to resist cold and to protect the structure and function of numerous proteins and enzymes (Fedotova and Dmitrieva, 2016 ). Plant genomes are also known to contain numerous transcription factors which play important roles in a number of processes including responses to abiotic and biotic stress (Udvardi et al, 2007 ).…”

Section: Introductionmentioning

confidence: 99%

Organic Molecules from Biochar Leacheates Have a Positive Effect on Rice Seedling Cold Tolerance

et al. 2017

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Biochar is known to have a number of positive effects on plant ecophysiology. However, limited research has been carried out to date on the effects and mechanisms of biochar on plant ecophysiology under abiotic stresses, especially responses to cold. In this study, we report on a series of experiments on rice seedlings treated with different concentrations of biochar leacheates (between 0 and 10% by weight) under cold stress (10°C). Quantitative real-time PCR (qRT-PCR) and cold-resistant physiological indicator analysis at low temperatures revealed that the cold tolerance of rice seedlings increased after treatment with high concentrations of biochar leacheates (between 3 and 10% by weight). Results also show that the organic molecules in biochar leacheates enhance the cold resistance of plants when other interference factors are excluded. We suggest that the positive influence of biochar on plant cold tolerance is because of surface organic molecules which likely function by entering a plant and interacting with stress-related proteins. Thus, to verify these mechanisms, this study used gas chromatography-mass spectrometry (GC-MS) techniques, identifying 20 organic molecules in biochar extracts using the National Institute of Standards and Technology (NIST) library. Further, to illustrate how these organic molecules work, we utilized the molecular docking software Autodock to show that the organic molecule 6-(Methylthio)hexa-1,5-dien-3-ol from biochar extracts can dock with the stress-related protein zinc-dependent activator protein (ZAP1). 6-(Methylthio)hexa-1,5-dien-3-ol has a similar binding mode with the ligand succinic acid of ZAP1. It can be inferred that the organic molecule identified in this study performs the same function as the ZAP1 ligand, stimulating ZAP1 driving cold-resistant functions, and enhancing plant cold tolerance. We conclude that biochar treatment enhances cold tolerance in rice seedlings via interactions between organic molecules and stress related proteins.

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Section: Introductionmentioning

confidence: 99%

Organic Molecules from Biochar Leacheates Have a Positive Effect on Rice Seedling Cold Tolerance

et al. 2017

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“…The 3D-RISM method [24][25] with the 3D-Kovalenko-Hirata closure was used to describe hydration of CoV-2/hACE2 and CoV/hACE2 complexes. These calculations describe hydration on a molecular-atom level and has proven their power in many successful studies of ion / molecule hydration, including various biocompounds [26][27][28][29][30][31][32][33][34][35][36]. In the framework of 3D-RISM theory molecule-atom spatial distribution functions are obtained.…”

Section: D Rism Calculationsmentioning

confidence: 99%

Prefusion conformation of SARS-CoV-2 receptor-binding domain favours interactions with human receptor ACE2

Tučs

Bera

et al. 2021

Preprint

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A new coronavirus epidemic COVID-19 caused by Severe Acute Respiratory Syndrome coronavirus (SARS-CoV-2) poses serious threat across continents, leading to the World Health Organization declaration of a Public Health Emergence of International Concern. In order to stop the entry of the virus into human host cell, major therapeutic and vaccine design efforts are now targeting interactions between the SARS-CoV-2 spike (S) glycoprotein and the human cellular membrane receptor angiotensin-converting enzyme, hACE2. By analysing cryo-EM structures of SARS-CoV-2 and SARS-CoV-1, we report here that the homotrimer SARS-CoV-2 S receptor-binding domain (RBD) that bind with hACE2 has expanded in size with a large conformational change of its AA residues relative to SARS-CoV-1 S protein. Protomer with the up-conformational form RBD that only can bind with hACE2 showed higher intermolecular interactions at the interface, with differential distributions and the inclusion of two specific H-bonds in the CoV-2 complex. However, these interactions are resulted in significant reductions in structural rigidity, favouring proteolytic processing of S protein for the fusion of the viral and cellular membrane. Further conformational dynamics analysis of the RBD motions of SARS-CoV-2 and SARS-CoV-1 point to the role in modification in the RBD conformational dynamics and their likely impact on infectivity.

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“…Further, using relations (20) and (44), we obtain the following new analytical expression for the screening function for the solution of soft-core dipolar particles…”

Section: General Theory Of Soft Dipolar Particlesmentioning

confidence: 99%

Statistical theory of fluids with a complex electric structure: Application to solutions of soft-core dipolar particles

Budkov

2019

Fluid Phase Equilibria

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Based on the thermodynamic perturbation theory (TPT) and the Random phase approximation (RPA), we present a statistical theory of solutions of electrically neutral soft molecules, every of which is modelled as a set of sites that interact with each other through the potentials, presented as the sum of the Coulomb potential and arbitrary soft-core potential. As an application of our formalism, we formulate a general statistical theory of solution of the soft-core dipolar particles. For the latter, we obtain a new analytical relation for the screening function. As a special case, we apply this theory to describing the phase behavior of a solution of the dipolar particles interacting with each other in addition to the electrostatic potential through the repulsive Gaussian potential -Gaussian core dipolar model (GCDM).Using the obtained analytic expression for the total free energy of the GCDM, we obtain the liquid-liquid phase separation with an upper critical point. The developed formalism could be used as a general framework for the coarse-grained description of thermodynamic properties of solutions of macromolecules, such as proteins, betaines, polypeptides, etc. a) ybudkov@hse.ru arXiv:1903.04004v1 [cond-mat.soft]

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Proline hydration at low temperatures: its role in the protection of cell from freeze-induced stress

Cited by 33 publications

References 61 publications

Organic Molecules from Biochar Leacheates Have a Positive Effect on Rice Seedling Cold Tolerance

Organic Molecules from Biochar Leacheates Have a Positive Effect on Rice Seedling Cold Tolerance

Prefusion conformation of SARS-CoV-2 receptor-binding domain favours interactions with human receptor ACE2

Statistical theory of fluids with a complex electric structure: Application to solutions of soft-core dipolar particles

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