Greigite formation in aqueous solutions: critical constraints into the role of iron and sulphur ratios, pH and Eh, and temperature using reaction pathway modelling

Greigite forms as an intermediate phase along the pyrite reaction pathway. Despite being considered metastable, it is observed in numerous shallow natural systems, suggesting it could be a unique proxy for diagenetic and environmental conditions. We use thermodynamic reaction pathway modelling in PHREEQC software, to understand the role of iron and sulphur ratios, pH and Eh, and temperature on the formation and retention of greigite in aqueous solutions. With newly available experimental thermodynamic properties, this work identifies the chemical boundary conditions for greigite formation in aqueous solutions. Greigite precipitation is likely favourable in anoxic and alkaline aqueous solutions at or below 25 °C. Our numerical experiments show that greigite is closer to saturation in iron-rich solutions with minor sulphur input. Greigite precipitation in strongly alkaline solutions suggest polysulfides and ferric iron-bearing minerals may be favourable reactants for its formation. Greigite precipitates at iron and sulphur concentrations that are over two orders of magnitude greater than iron sulphide-hosted natural porewaters. This disparity between model and field observations suggest microenvironments within bulk solutions may be important for greigite formation and retention. These constraints suggest greigite is more likely to form alongside pyrite in shallow, non-steady state aqueous solutions

Thromopoietin signaling to chromatin elicits rapid and pervasive epigenome remodeling within poised chromatin architectures.

Thrombopoietin (TPO) is a critical cytokine regulating hematopoietic stem cell maintenance and differentiation into the megakaryocytic lineage. However, the transcriptional and chromatin dynamics elicited by TPO signaling are poorly understood. Here, we study the immediate early transcriptional and cis-regulatory responses to TPO in hematopoietic stem/progenitor cells (HSPCs) and use this paradigm of cytokine signaling to chromatin to dissect the relation between cis- regulatory activity and chromatin architecture. We show that TPO profoundly alters the transcriptome of HSPCs, with key hematopoietic regulators being transcriptionally repressed within 30 minutes of TPO. By examining cis-regulatory dynamics and chromatin architectures, we demonstrate that these changes are accompanied by rapid and extensive epigenome remodeling of cis-regulatory landscapes that is spatially coordinated within topologically associating domains (TADs). Moreover, TPO-responsive enhancers are spatially clustered and engage in preferential homotypic intra- and inter-TAD interactions that are largely refractory to TPO signaling. By further examining the link between cis-regulatory dynamics and chromatin looping, we show that rapid modulation of cis-regulatory activity is largely independent of chromatin looping dynamics. Finally, we show that, although activated and repressed cis-regulatory elements share remarkably similar DNA sequence compositions, transcription factor binding patterns accurately predict rapid cis-regulatory responses to TPO

A frequentist framework of inductive reasoning

Reacting against the limitation of statistics to decision procedures, R. A. Fisher proposed for inductive reasoning the use of the fiducial distribution, a parameter-space distribution of epistemological probability transferred directly from limiting relative frequencies rather than computed according to the Bayes update rule. The proposal is developed as follows using the confidence measure of a scalar parameter of interest. (With the restriction to one-dimensional parameter space, a confidence measure is essentially a fiducial probability distribution free of complications involving ancillary statistics.) A betting game establishes a sense in which confidence measures are the only reliable inferential probability distributions. The equality between the probabilities encoded in a confidence measure and the coverage rates of the corresponding confidence intervals ensures that the measure's rule for assigning confidence levels to hypotheses is uniquely minimax in the game. Although a confidence measure can be computed without any prior distribution, previous knowledge can be incorporated into confidence-based reasoning. To adjust a p-value or confidence interval for prior information, the confidence measure from the observed data can be combined with one or more independent confidence measures representing previous agent opinion. (The former confidence measure may correspond to a posterior distribution with frequentist matching of coverage probabilities.) The representation of subjective knowledge in terms of confidence measures rather than prior probability distributions preserves approximate frequentist validity.Comment: major revisio