Novel Generic Models for Differentiating Stem Cells Reveal Oscillatory Mechanisms

Understanding cell fate selection remains a central challenge in developmental biology. We present a class of simple yet biologically-motivated mathematical models for cell differentiation that generically generate oscillations and hence suggest alternatives to the standard framework based on Waddington's epigenetic landscape. The models allow us to suggest two generic dynamical scenarios that describe the differentiation process. In the first scenario gradual variation of a single control parameter is responsible for both entering and exiting the oscillatory regime. In the second scenario two control parameters vary: one responsible for entering, and the other for exiting the oscillatory regime. We analyse the standard repressilator and four variants of it and show the dynamical behaviours associated with each scenario. We present a thorough analysis of the associated bifurcations and argue that gene regulatory networks with these repressilator-like characteristics are promising candidates to describe cell fate selection through an oscillatory process

Numerical simulation of Ekman theory in five layers oceanic basin

Wind is a major factor which induces oceanic currents and many theories including the Ekman theory have considered the wind induces currents. In this paper a numerical process has been used for forecasting of oceanic currents based on this theory. The survey has been done in an artificial five layer oceanic basin with smooth bottom of 120 meters, considering the geographic position of Persian Gulf. Primitive equations were solved on earth’s spherical coordinates system with sigma as vertical coordinate by finite element method. Vertical profile of predicted current vectors showed the complete formation of Ekman Spiral in the basin. This experimental simulation is a new approach for confirmation of Ekman Theory

From fidelity to entanglement of entropy of the one-dimensional transverse-field quantum compass model

We study fidelity and fidelity susceptibility by addition of entanglement of entropy in the one-dimensional quantum compass model in a transverse magnetic field numerically. The whole four recognized gapped regions in the ground state phase diagram are in the range of our investigation. Power-law divergence at criticality accompanied by finite size scaling indicates the field induced quantum phase transitions are of second order as well as from the scaling behavior of the extremum of fidelity susceptibility is shown the quantum critical exponents are different in the various regions of phase diagram. We further calculate a recently proposed quantum information theoretic measure, von-Neumann entropy, and show that this measure provide appropriate signatures of the quantum phase transitions (QPT)s occurring at the critical fields. Von-Neumann entropy indicates a measure of entanglement between some-particle block and the rest of the system. We show the value of entanglement between a two-particle block with the rest of the system is more dependent on the power of exchange couplings connecting the block with the rest of the system than the power of exchange coupling between two particles in the block

Sense of coherence and coping strategies: How they influence quality of life in Iranian women with breast cancer

Aim: To investigate the mediation/moderation effect between Coping Behaviors (CBs) and Sense of Coherence (SOC) in the prediction of health-related quality of life (HRQoL) in breast cancer patients. Design: Cross-sectional. Methods: A total of 221 patients were included in this study. The 13-item Orientation to Life Questionnaire, Brief COPE and Functional Assessment of Cancer Therapy�Breast were investigated. Pearson's correlation coefficient and mediation/moderation analysis were performed. Results: Significant correlations were observed for SOC, active coping, acceptance, positive reframing (PR), planning, use of emotional support (UES), use of instrumental support, behaviour disengagement and self-blame with HRQoL. Except for planning and acceptance, SOC partially mediated the CBs' effect on HRQoL. The UES and PR's effects on HRQoL were significant at lower SOC levels and diminished at higher SOC levels. Conclusion: Practitioners can incorporate SOC and adaptive CBs, including PR and UES, into the rehabilitation programmes to improve HRQoL in patients. © 2021 The Authors. Nursing Open published by John Wiley & Sons Ltd

Biophysical and electrochemical studies of protein-nucleic acid interactions

This review is devoted to biophysical and electrochemical methods used for studying protein-nucleic acid (NA) interactions. The importance of NA structure and protein-NA recognition for essential cellular processes, such as replication or transcription, is discussed to provide background for description of a range of biophysical chemistry methods that are applied to study a wide scope of protein-DNA and protein-RNA complexes. These techniques employ different detection principles with specific advantages and limitations and are often combined as mutually complementary approaches to provide a complete description of the interactions. Electrochemical methods have proven to be of great utility in such studies because they provide sensitive measurements and can be combined with other approaches that facilitate the protein-NA interactions. Recent applications of electrochemical methods in studies of protein-NA interactions are discussed in detail

Synthetic biology to access and expand nature's chemical diversity

Bacterial genomes encode the biosynthetic potential to produce hundreds of thousands of complex molecules with diverse applications, from medicine to agriculture and materials. Accessing these natural products promises to reinvigorate drug discovery pipelines and provide novel routes to synthesize complex chemicals. The pathways leading to the production of these molecules often comprise dozens of genes spanning large areas of the genome and are controlled by complex regulatory networks with some of the most interesting molecules being produced by non-model organisms. In this Review, we discuss how advances in synthetic biology — including novel DNA construction technologies, the use of genetic parts for the precise control of expression and for synthetic regulatory circuits — and multiplexed genome engineering can be used to optimize the design and synthesis of pathways that produce natural products

Novel Generic Models for Differentiating Stem Cells Reveal Oscillatory Mechanisms

Understanding cell fate selection remains a central challenge in developmental biology. We present a class of simple yet biologically-motivated mathematical models for cell differentiation that generically generate oscillations and hence suggest alternatives to the standard framework based on Waddington’s epigenetic landscape. The models allow us to suggest two generic dynamical scenarios that describe the differentiation process. In the first scenario gradual variation of a single control parameter is responsible for both entering and exiting the oscillatory regime. In the second scenario two control parameters vary: one responsible for entering, and the other for exiting the oscillatory regime. We analyse the standard repressilator and four variants of it and show the dynamical behaviours associated with each scenario. We present a thorough analysis of the associated bifurcations and argue that gene regulatory networks with these repressilator-like characteristics are promising candidates to describecell fate selection through an oscillatory process