Using foraminifera in STEMSEAS Site 1 to understand the recent paleoceanographic and paleoclimatic history of Tanner Basin, California Borderland

In May of 2016, the STEMSEAS Educational Transit cruise OC1605-tranA collected the STEMSEAS Site 1 core from the Tanner Basin in the California Borderland. This research serves as the first formal survey of the foraminifera preserved within that core. The purpose of this research is to use foraminifera preserved within that core to understand the recent depositional and paleoenvironmental conditions at Site 1, and to place that information into a regional paleoceanographic and paleoclimatic context. In pursuing this purpose, this research aims to answer three questions: 1) Can biostratigraphic markers in the foraminiferal assemblages in STEMSEAS Site 1 core be used to test the hypothesis that a shift in elemental ratio concentrations at 120 cmbsf marks the Pleistocene/Holocene boundary? 2) Is there evidence of turbidity flow deposition at STEMSEAS Site 1? 3) Can the foraminiferal assemblages within STEMSEAS Site 1 core be used to study paleoenvironmental changes in the California Borderland through time? Thirty-four samples of the \u3e63 mm size sediment fraction from the core were analyzed throughout this study, and the data from those samples was compared with lithologic and elemental data collected by the STEMSEAS cruise shipboard party and with regional data. Additionally, radiocarbon dates were obtained to develop an age model for the core, which allowed cored data to be interpreted in a temporal context. In answering the proposed questions, the study found that: 1) The shift in elemental data at 120 cmbsf occurs very close to (~1 kyr following) the Pleistocene/Holocene boundary, and the Pleistocene/Holocene transition represents a period of low dissolved oxygen supply within the Tanner Basin and low surface productivity. 2) A small percentage of benthic foraminifera present at Site 1 were displaced to Site 1 from a shallower depth, suggesting that turbidity flows did impact sedimentation at this location, but were not the dominant sediment transport process. 3) The core records a paleoenvironmental history of semi-regular millennial scale variation in sea surface temperature, upwelling strength, and nutrient influx that may be driven by oscillating and increasing frequency of El Niño/Southern Oscillation events

Nuclear localization of the mitochondrial factor HIGD1A during metabolic stress.

Cellular stress responses are frequently governed by the subcellular localization of critical effector proteins. Apoptosis-inducing Factor (AIF) or Glyceraldehyde 3-Phosphate Dehydrogenase (GAPDH), for example, can translocate from mitochondria to the nucleus, where they modulate apoptotic death pathways. Hypoxia-inducible gene domain 1A (HIGD1A) is a mitochondrial protein regulated by Hypoxia-inducible Factor-1α (HIF1α). Here we show that while HIGD1A resides in mitochondria during physiological hypoxia, severe metabolic stress, such as glucose starvation coupled with hypoxia, in addition to DNA damage induced by etoposide, triggers its nuclear accumulation. We show that nuclear localization of HIGD1A overlaps with that of AIF, and is dependent on the presence of BAX and BAK. Furthermore, we show that AIF and HIGD1A physically interact. Additionally, we demonstrate that nuclear HIGD1A is a potential marker of metabolic stress in vivo, frequently observed in diverse pathological states such as myocardial infarction, hypoxic-ischemic encephalopathy (HIE), and different types of cancer. In summary, we demonstrate a novel nuclear localization of HIGD1A that is commonly observed in human disease processes in vivo

Zermelo Navigation in the Quantum Brachistochrone

We analyse the optimal times for implementing unitary quantum gates in a constrained finite dimensional controlled quantum system. The family of constraints studied is that the permitted set of (time dependent) Hamiltonians is the unit ball of a norm induced by an inner product on su(n). We also consider a generalisation of this to arbitrary norms. We construct a Randers metric, by applying a theorem of Shen on Zermelo navigation, the geodesics of which are the time optimal trajectories compatible with the prescribed constraint. We determine all geodesics and the corresponding time optimal Hamiltonian for a specific constraint on the control i.e. k (Tr(Hc(t)^2) = 1 for any given value of k > 0. Some of the results of Carlini et. al. are re-derived using alternative methods. A first order system of differential equations for the optimal Hamiltonian is obtained and shown to be of the form of the Euler Poincare equations. We illustrate that this method can form a methodology for determining which physical substrates are effective at supporting the implementation of fast quantum computation

EUROfusion-theory and advanced simulation coordination (E-TASC) : programme and the role of high performance computing

This paper is a written summary of an overview oral presentation given at the 1st Spanish Fusion High Performance Computer (HPC) Workshop that took place on the 27 November 2020 as an online event. Given that over the next few years ITER24 will move to its operation phase and the European-DEMO design will be significantly advanced, the EUROfusion consortium has initiated a coordination effort in theory and advanced simulation to address some of the challenges of the fusion research in Horizon EUROPE (2021-2027), i.e. the next EU Framework Programme for Research and Technological Development. This initiative has been called E-TASC, which stands for EUROfusion-Theory and Advanced Simulation Coordination. The general and guiding principles of E-TASC are summarized in this paper. In addition, an overview of the scientific results obtained in the pilot phase (2019-2020) of E-TASC are provided while highlighting the importance of the required progress in computational methods and HPC techniques. In the initial phase, five pilot theory and simulation tasks were initiated: towards a validated predictive capability of the low to high transition and pedestal physics; runaway electrons in tokamak disruptions in the presence of massive material injection; fast code for the calculation of neoclassical toroidal viscosity in stellarators and tokamaks; development of a neutral gas kinetics modular code; European edge and boundary code for reactor-relevant devices. In this paper, we report on recent progress made by each of these projects.Peer reviewe

S-Glutathionylation at Cys328 and Cys542 Impairs STAT3 Phosphorylation.

STAT3 is a latent transcription factor that promotes cell survival and proliferation and is often constitutively active in cancers. Although many reports provide evidence that STAT3 is a direct target of oxidative stress, its redox regulation is poorly understood. Under oxidative conditions STAT3 activity can be modulated by S-glutathionylation, a reversible redox modification of cysteine residues. This suggests the possible cross-talk between phosphorylation and glutathionylation and points out that STAT3 is susceptible to redox regulation. Recently, we reported that decreasing the GSH content in different cell lines induces inhibition of STAT3 activity through the reversible oxidation of thiol groups. In the present work, we demonstrate that GSH/diamide treatment induces S-glutathionylation of STAT3 in the recombinant purified form. This effect was completely reversed by treatment with the reducing agent dithiothreitol, indicating that S-glutathionylation of STAT3 was related to formation of protein-mixed disulfides. Moreover, addition of the bulky negatively charged GSH moiety impairs JAK2-mediated STAT3 phosphorylation, very likely interfering with tyrosine accessibility and thus affecting protein structure and function. Mass mapping analysis identifies two glutathionylated cysteine residues, Cys328 and Cys542, within the DNA-binding domain and the linker domain, respectively. Site direct mutagenesis and in vitro kinase assay confirm the importance of both cysteine residues in the complex redox regulatory mechanism of STAT3. Cells expressing mutant were resistant in this regard. The data presented herein confirmed the occurrence of a redox-dependent regulation of STAT3, identified the more redox-sensitive cysteines within STAT3 structure, and may have important implications for development of new drugs

Identification and relative quantification of tyrosine nitration in a model peptide using two-dimensional infrared spectroscopy

Nitration of tyrosine in proteins and peptides is a post-translational modification that occurs under conditions of oxidative stress. It is implicated in a variety of medical conditions, including neurodegenerative and cardiovascular diseases. However, monitoring tyrosine nitration and understanding its role in modifying biological function remains a major challenge. In this work, we investigate the use of electron-vibration-vibration (EVV) two-dimensional infrared (2DIR) spectroscopy for the study of tyrosine nitration in model peptides. We demonstrate the ability of EVV 2DIR spectroscopy to differentiate between the neutral and deprotonated states of 3-nitrotyrosine, and we characterize their spectral signatures using information obtained from quantum chemistry calculations and simulated EVV 2DIR spectra. To test the sensitivity of the technique, we use mixed-peptide samples containing various levels of tyrosine nitration, and we use mass spectrometry to independently verify the level of nitration. We conclude that EVV 2DIR spectroscopy is able to provide detailed spectroscopic information on peptide side-chain modifications and to detect nitration levels down to 1%. We further propose that lower nitration levels could be detected by introducing a resonant Raman probe step to increase the detection sensitivity of EVV 2DIR spectroscopy. (Graph Presented)