The evolution of raw data archiving and the growth of its importance in crystallography.

The hardware for data archiving has expanded capacities for digital storage enormously in the past decade or more. The IUCr evaluated the costs and benefits of this within an official working group which advised that raw data archiving would allow ground truth reproducibility in published studies. Consultations of the IUCr's Commissions ensued via a newly constituted standing advisory committee, the Committee on Data. At all stages, the IUCr financed workshops to facilitate community discussions and possible methods of raw data archiving implementation. The recent launch of the IUCrData journal's Raw Data Letters is a milestone in the implementation of raw data archiving beyond the currently published studies: it includes diffraction patterns that have not been fully interpreted, if at all. The IUCr 75th Congress in Melbourne included a workshop on raw data reuse, discussing the successes and ongoing challenges of raw data reuse. This article charts the efforts of the IUCr to facilitate discussions and plans relating to raw data archiving and reuse within the various communities of crystallography, diffraction and scattering.

Cuprate Oxyfluorides La2Cu0.8Ni0.2O3F2 and La2CuO3F2 with "Channel-like" Anion Ordering.

Highly fluorinated cuprate Ruddlesden-Popper oxyfluorides La2Cu0.8Ni0.2O3F2 and La2CuO3F2 were obtained by topochemical reaction between poly(vinylidene fluoride) (PVDF) and the corresponding oxides La2Cu0.8Ni0.2O4 and La2CuO4 prepared by citrate-based soft chemistry synthesis. The crystal structures of both oxyfluorides were investigated by powder diffraction techniques. The structure of La2Cu0.8Ni0.2O3F2 was solved based on combined neutron and X-ray powder diffraction. It crystallizes in a new monoclinic distorted version [C2/c a = 13.1880(3) Å, b = 5.7244(1) Å, c = 5.6007(1) Å, and ß = 90.85(1)°] of the anionic ordered structure lately reported for La2NiO3F2. For La2CuO3F2, an even less symmetrical triclinic structure was derived from X-ray powder diffraction data [P1̅ a = 5.6180(5) Å, b = 5.7316(6) Å, c = 7.1978(9) Å, α = 113.32(1)°, ß = 90.89(9)°, and γ = 90.16(11)°]. For both compounds, an additional tilt component of the partially Jahn-Teller elongated (Cu,Ni)O4F2 octahedra was found as the origin for the lowered symmetry. The formation reaction of La2CuO3F2 was studied by in situ XRD measurements. In these investigations, two new reaction intermediates were identified. The magnetic properties of both oxyfluorides La2Cu0.8Ni0.2O3F2 and La2CuO3F2 were characterized by field- and temperature-dependent measurements. An antiferromagnetic ordering with TN = 240 K was found for La2Cu0.8Ni0.2O3F2. In La2CuO3F2, additional weak ferrimagnetism was observed, resulting in a pronounced hysteresis but a weak saturation moment, which was attributed to result from a canted antiferromagnetic spin arrangement.

Simultaneous Reduction of Proton Conductivity and Enhancement of Oxide-Ion Conductivity by Aliovalent Doping in Ba7Nb4MoO20.

Hexagonal perovskite-related oxides have garnered a great deal of research interest because of their high oxide-ion conductivity at intermediate temperatures, with Ba7Nb4MoO20 being a notable example. However, concomitant proton conduction in Ba7Nb4MoO20 may cause a decrease in power efficiency when used as the electrolyte in conventional solid oxide fuel cells. Here, through investigations of the transport and structural properties of Ba7Nb4-xWxMoO20+x/2 (x = 0-0.25), we show that the aliovalent substitution of Nb5+ by W6+ not only increases the oxide-ion conductivity but also dramatically lowers proton conductivity. The highest conductivity is achieved for x = 0.15 composition, with 2.2 × 10-2 S cm-1 at 600 °C, 2.2 times higher than that of pristine Ba7Nb4MoO20. The proton transport number of Ba7Nb3.85W0.15MoO20.075 is smaller compared with Ba7Nb4MoO20, Ba7Nb3.9Mo1.1O20.05, and Ba7Ta3.7Mo1.3O20.15. The structure analyses of neutron diffraction data of Ba7Nb3.85W0.15MoO20.075 at 25 and 800 °C reveal that the aliovalent W6+ doping introduces interstitial oxide ions in the intrinsically oxygen-deficient c' layers, thereby simultaneously increasing the carrier concentration for oxide-ion conduction and decreasing oxygen vacancies responsible for dissociative absorption of water. Neutron scattering length density distribution was examined using the maximum-entropy method and neutron diffraction data at 800 °C, which indicates the interstitialcy oxide-ion diffusion in the c' layers of Ba7Nb3.85W0.15MoO20.075. Ba7Nb3.85W0.15MoO20.075 exhibits extremely high chemical and electrical stability in the wide oxygen partial pressure P(O2) region [ex. 10-23 ≤ P(O2) ≤ 1 atm at 903 °C]. The present results offer a strategy for developing pure oxide-ion conducting hexagonal perovskite-related oxides for possible industrial applications.

Advanced age increases frequencies of de novo mitochondrial mutations in macaque oocytes and somatic tissues.

Mutations in mitochondrial DNA (mtDNA) contribute to multiple diseases. However, how new mtDNA mutations arise and accumulate with age remains understudied because of the high error rates of current sequencing technologies. Duplex sequencing reduces error rates by several orders of magnitude via independently tagging and analyzing each of the two template DNA strands. Here, using duplex sequencing, we obtained high-quality mtDNA sequences for somatic tissues (liver and skeletal muscle) and single oocytes of 30 unrelated rhesus macaques, from 1 to 23 y of age. Sequencing single oocytes minimized effects of natural selection on germline mutations. In total, we identified 17,637 tissue-specific de novo mutations. Their frequency increased ∼3.5-fold in liver and ∼2.8-fold in muscle over the ∼20 y assessed. Mutation frequency in oocytes increased ∼2.5-fold until the age of 9 y, but did not increase after that, suggesting that oocytes of older animals maintain the quality of their mtDNA. We found the light-strand origin of replication (OriL) to be a hotspot for mutation accumulation with aging in liver. Indeed, the 33-nucleotide-long OriL harbored 12 variant hotspots, 10 of which likely disrupt its hairpin structure and affect replication efficiency. Moreover, in somatic tissues, protein-coding variants were subject to positive selection (potentially mitigating toxic effects of mitochondrial activity), the strength of which increased with the number of macaques harboring variants. Our work illuminates the origins and accumulation of somatic and germline mtDNA mutations with aging in primates and has implications for delayed reproduction in modern human societies.

High Oxide-Ion Conductivity in a Hexagonal Perovskite-Related Oxide Ba7 Ta3.7 Mo1.3 O20.15 with Cation Site Preference and Interstitial Oxide Ions.

Solid oxide-ion conductors are crucial for enabling clean and efficient energy devices such as solid oxide fuel cells. Hexagonal perovskite-related oxides have been placed at the forefront of high-performance oxide-ion conductors, with Ba7 Nb4- x Mo1+ x O20+ x /2 (x = 0-0.1) being an archetypal example. Herein, high oxide-ion conductivity and stability under reducing conditions in Ba7 Ta3.7 Mo1.3 O20.15 are reported by investigating the solid solutions Ba7 Ta4- x Mo1+ x O20+ x /2 (x = 0.2-0.7). Neutron diffraction indicates a large number of interstitial oxide ions in Ba7 Ta3.7 Mo1.3 O20.15 , leading to a high level of oxide-ion conductivity (e.g., 1.08 × 10-3 S cm-1 at 377 °C). The conductivity of Ba7 Ta3.7 Mo1.3 O20.15 is higher than that of Ba7 Nb4 MoO20 and conventional yttria-stabilized zirconia. In contrast to Ba7 Nb4- x Mo1+ x O20+ x /2 (x = 0-0.1), the oxide-ion conduction in Ba7 Ta3.7 Mo1.3 O20.15 is dominant even in highly reducing atmospheres (e.g., oxygen partial pressure of 1.6 × 10-24 atm at 909 °C). From structural analyses of the synchrotron X-ray diffraction data for Ba7 Ta3.7 Mo1.3 O20.15 , contrasting X-ray scattering powers of Ta5+ and Mo6+ allow identification of the preferential occupation of Mo6+ adjacent to the intrinsically oxygen-deficient layers, as supported by DFT calculations. The high conductivity and chemical and electrical stability in Ba7 Ta3.7 Mo1.3 O20.15 provide a strategy for the development of solid electrolytes based on hexagonal perovskite-related oxides.

Role of zinc in female reproduction.

Zinc is a critical component in a number of conserved processes that regulate female germ cell growth, fertility, and pregnancy. During follicle development, a sufficient intracellular concentration of zinc in the oocyte maintains meiotic arrest at prophase I until the germ cell is ready to undergo maturation. An adequate supply of zinc is necessary for the oocyte to form a fertilization-competent egg as dietary zinc deficiency or chelation of zinc disrupts maturation and reduces the oocyte quality. Following sperm fusion to the egg to initiate the acrosomal reaction, a quick release of zinc, known as the zinc spark, induces egg activation in addition to facilitating zona pellucida hardening and reducing sperm motility to prevent polyspermy. Symmetric division, proliferation, and differentiation of the preimplantation embryo rely on zinc availability, both during the oocyte development and post-fertilization. Further, the fetal contribution to the placenta, fetal limb growth, and neural tube development are hindered in females challenged with zinc deficiency during pregnancy. In this review, we discuss the role of zinc in germ cell development, fertilization, and pregnancy with a focus on recent studies in mammalian females. We further detail the fundamental zinc-mediated reproductive processes that have only been explored in non-mammalian species and speculate on the role of zinc in similar mechanisms of female mammals. The evidence collected over the last decade highlights the necessity of zinc for normal fertility and healthy pregnancy outcomes, which suggests zinc supplementation should be considered for reproductive age women at risk of zinc deficiency.

Ionic conduction mechanism in Ca-doped lanthanum oxychloride.

The mechanism of ionic conduction in Ca-doped lanthanum oxychloride (LaOCl) was investigated using first-principles calculations based on density functional theory. The calculations of the point defect formation energies suggest that Cl- ion vacancies and substituted Ca2+ ions at La sites were dominant point defects. Although the migration energy of an O2- ion is 0.95 eV, the migration energy of a Cl- ion was calculated to be 0.44 eV, which is consistent with the reported experimental value. These results imply that the main carrier in Ca-doped LaOCl is Cl- ions and ionic conduction occurs by a Cl- ion vacancy mechanism.

Re-examining the crystal structure behaviour of nitrogen and methane.

In the light of NASA's New Horizons mission, the solid-phase behaviour of methane and nitrogen has been re-examined and the thermal expansion coefficients of both materials have been determined over their whole solid temperature range for the first time. Neutron diffraction results indicate that the symmetric Pa 3 space group is the best description for the α-nitrogen structure, rather than the long-accepted P213. Furthermore, it is also observed that ß-nitrogen and methane phase I show changes in texture on warming, indicating grain growth.

High accuracy determination of photoelectric cross sections, X-ray absorption fine structure and nanostructure analysis of zinc selenide using the X-ray extended range technique.

Measurements of mass attenuation coefficients and X-ray absorption fine structure (XAFS) of zinc selenide (ZnSe) are reported to accuracies typically better than 0.13%. The high accuracy of the results presented here is due to our successful implementation of the X-ray extended range technique, a relatively new methodology, which can be set up on most synchrotron X-ray beamlines. 561 attenuation coefficients were recorded in the energy range 6.8-15 keV with measurements concentrated at the zinc and selenium pre-edge, near-edge and fine-structure absorption edge regions. This accuracy yielded detailed nanostructural analysis of room-temperature ZnSe with full uncertainty propagation. Bond lengths, accurate to 0.003 Što 0.009 Å, or 0.1% to 0.3%, are plausible and physical. Small variation from a crystalline structure suggests local dynamic motion beyond that of a standard crystal lattice, noting that XAFS is sensitive to dynamic correlated motion. The results obtained in this work are the most accurate to date with comparisons with theoretically determined values of the attenuation showing discrepancies from literature theory of up to 4%, motivating further investigation into the origin of such discrepancies.

Age-related accumulation of de novo mitochondrial mutations in mammalian oocytes and somatic tissues.

Mutations create genetic variation for other evolutionary forces to operate on and cause numerous genetic diseases. Nevertheless, how de novo mutations arise remains poorly understood. Progress in the area is hindered by the fact that error rates of conventional sequencing technologies (1 in 100 or 1,000 base pairs) are several orders of magnitude higher than de novo mutation rates (1 in 10,000,000 or 100,000,000 base pairs per generation). Moreover, previous analyses of germline de novo mutations examined pedigrees (and not germ cells) and thus were likely affected by selection. Here, we applied highly accurate duplex sequencing to detect low-frequency, de novo mutations in mitochondrial DNA (mtDNA) directly from oocytes and from somatic tissues (brain and muscle) of 36 mice from two independent pedigrees. We found mtDNA mutation frequencies 2- to 3-fold higher in 10-month-old than in 1-month-old mice, demonstrating mutation accumulation during the period of only 9 mo. Mutation frequencies and patterns differed between germline and somatic tissues and among mtDNA regions, suggestive of distinct mutagenesis mechanisms. Additionally, we discovered a more pronounced genetic drift of mitochondrial genetic variants in the germline of older versus younger mice, arguing for mtDNA turnover during oocyte meiotic arrest. Our study deciphered for the first time the intricacies of germline de novo mutagenesis using duplex sequencing directly in oocytes, which provided unprecedented resolution and minimized selection effects present in pedigree studies. Moreover, our work provides important information about the origins and accumulation of mutations with aging/maturation and has implications for delayed reproduction in modern human societies. Furthermore, the duplex sequencing method we optimized for single cells opens avenues for investigating low-frequency mutations in other studies.

High Proton Conductivity in Ba5Er2Al2ZrO13, a Hexagonal Perovskite-Related Oxide with Intrinsically Oxygen-Deficient Layers.

For the development of proton-based electrolytes, high proton conductivity at intermediate temperatures (300-600 °C) is crucial, but the available materials have been confined to a limited number of the structure families, such as cubic perovskites. Herein, we report Ba5Er2Al2ZrO13, a hexagonal perovskite-related oxide, as a new class of proton conductors exhibiting higher conductivities than 10-3 S cm-1 between 300 and 1200 °C. The protons as charge carriers are found to exist in the inherently oxygen-deficient h' layer of Ba5Er2Al2ZrO13, which are supported by Rietveld analysis of neutron-diffraction data, bond-valence-based energy calculations, and thermogravimetric analysis. Our discovery of a new structure family of proton conductors with the inherently oxygen-deficient h' layer offers a strategy in designing superior proton conductors based on hexagonal perovskite-related oxides.

Sex, Gender, and Sex Hormones in Pulmonary Hypertension and Right Ventricular Failure.

Pulmonary hypertension (PH) encompasses a syndrome of diseases that are characterized by elevated pulmonary artery pressure and pulmonary vascular remodeling and that frequently lead to right ventricular (RV) failure and death. Several types of PH exhibit sexually dimorphic features in disease penetrance, presentation, and progression. Most sexually dimorphic features in PH have been described in pulmonary arterial hypertension (PAH), a devastating and progressive pulmonary vasculopathy with a 3-year survival rate <60%. While patient registries show that women are more susceptible to development of PAH, female PAH patients display better RV function and increased survival compared to their male counterparts, a phenomenon referred to as the "estrogen paradox" or "estrogen puzzle" of PAH. Recent advances in the field have demonstrated that multiple sex hormones, receptors, and metabolites play a role in the estrogen puzzle and that the effects of hormone signaling may be time and compartment specific. While the underlying physiological mechanisms are complex, unraveling the estrogen puzzle may reveal novel therapeutic strategies to treat and reverse the effects of PAH/PH. In this article, we (i) review PH classification and pathophysiology; (ii) discuss sex/gender differences observed in patients and animal models; (iii) review sex hormone synthesis and metabolism; (iv) review in detail the scientific literature of sex hormone signaling in PAH/PH, particularly estrogen-, testosterone-, progesterone-, and dehydroepiandrosterone (DHEA)-mediated effects in the pulmonary vasculature and RV; (v) discuss hormone-independent variables contributing to sexually dimorphic disease presentation; and (vi) identify knowledge gaps and pathways forward. © 2020 American Physiological Society. Compr Physiol 10:125-170, 2020.

Large easy-plane anisotropy induced spin reorientation in magnetoelectric materials (Co4-x Mn x )Nb2O9.

Neutron powder diffraction experiments were carried out on the magnetoelectric compound series (Co4-x Mn x )Nb2O9 (x = 0, 1, 2, 3, 3.5, 3.9, 3.95 and 4) from base temperature to above their Néel temperatures. Their magnetic structures were analysed by using the irreducible representation analysis and Rietveld refinement method. Similar to Co4Nb2O9, the compounds with x ⩽ 3.9 have noncollinear in-plane magnetic structures (Γ6) with magnetic moments lying purely in the ab plane with certain canting angles. Mn4Nb2O9 has a collinear antiferromagnetic structure (Γ2) with magnetic moments aligning along the c axis. The compound of x = 3.95 shows two magnetic phases in the magnetization, which was confirmed to have the Γ2 magnetic structure above 60 K and develop a second Γ6 local phase in addition to the main Γ2 phase due to doping. This study indicates 2.5 at% Co2+ doping is sufficient to alter the collinear easy-axis magnetic structure of Mn4Nb2O9 into the noncollinear easy-plane magnetic structure, which is attributed to the large easy-plane anisotropy of Co2+ and relative small Ising-like anisotropy of Mn2+. The doping effects on the Néel temperature and occupancy are also discussed.

A Balanced Portfolio Model For Improving Health: Concept And Vermont's Experience.

A successful strategy for improving population health requires acting in several sectors by implementing a portfolio of interventions. The mix of interventions should be both tailored to meet the community's needs and balanced in several dimensions-for example, time frame, level of risk, and target population. One obstacle is finding sustainable financing for both the interventions and the community infrastructure needed. This article first summarizes Vermont's experience as a laboratory for health reform. It then presents a conceptual model for a community-based population health strategy, using a balanced portfolio and diversified funding approaches. The article then reviews Vermont's population health initiative, including an example of a balanced portfolio and lessons learned from the state's experience.

Comparing results of X-ray diffraction, µ-Raman spectroscopy and neutron diffraction when identifying chemical phases in seized nuclear material, during a comparative nuclear forensics exercise.

This work presents the results for identification of chemical phases obtained by several laboratories as a part of an international nuclear forensic round-robin exercise. In this work powder X-ray diffraction (p-XRD) is regarded as the reference technique. Neutron diffraction produced a superior high-angle diffraction pattern relative to p-XRD. Requiring only small amounts of sample, µ-Raman spectroscopy was used for the first time in this context as a potentially complementary technique to p-XRD. The chemical phases were identified as pure UO2 in two materials, and as a mixture of UO2, U3O8 and an intermediate species U3O7 in the third material.

Promoted Hydride/Oxide Exchange in SrTiO3 by Introduction of Anion Vacancy via Aliovalent Cation Substitution.

We investigated topochemical anion exchange reactions for a ScIII-substituted SrTiIVO3 perovskite, Sr(Ti1-yScy)O3-y/2□y/2 (y ≤ 0.1), using CaH2. It was found that the initial introduction of a small amount of anion vacancies (y/2) is crucial to enhance the anion (H-/O2-) exchangeability. For example, hydride reduction of Sr(Ti0.95Sc0.05)O2.975 yielded the oxyhydride SrTi0.95Sc0.05O2.56H0.41 in which the hydride concentration is increased by 33% with respect to pristine SrTiO3 (leading to SrTiO2.76H0.24). This observation highlights the importance of anion vacancies to improve anion (H-/O2-) diffusion, which is a well-known strategy for improving oxide anion conductivity, and suggests that such a vacancy-assisted reaction could be applied to other anion exchange reactions (e.g., F-/O2- and N3-/O2-) to extend the solubility range.

Dynamic microbial populations along the Cuyahoga River.

The study of the microbial communities has gained traction in recent years with the advent of next-generation sequencing with, or without, PCR-based amplification of the 16S ribosomal RNA region. Such studies have been applied to topics as diverse as human health and environmental ecology. Fewer studies have investigated taxa outside of bacteria, however. We present here data demonstrating the utility of studying taxa outside of bacteria including algae, diatoms, archaea and fungi. Here, we show how location along the Cuyahoga River as well as a transient rainfall event heavily influence the microbial composition. Our data reveal how individual OTUs vary between samples and how the patterns of OTU abundance can accurately predict sampling location. The clustering of samples reveals that these taxa are all sensitive to water conditions in unique ways and demonstrate that, for our dataset, algae was most distinctive between sample groups, surpassing bacteria. Diversity between sampling sites could allow studies investigating pollution or water quality to identify marker OTUs or patterns of OTU abundance as indicators to assess environmental conditions or the impact of human activity. We also directly compare data derived from primers amplifying distinct taxa and show that taxa besides bacteria are excellent indicators of water condition.

Tailoring phase transition temperatures in perovskites via A-site vacancy generation.

The structures across the Sr0.8Ti0.6-xZrxNb0.4O3, 0 ≤ x ≤ 0.6, defect perovskite series were investigated using complementary synchrotron X-ray and neutron powder diffraction data. The locations of second order compositional and temperature dependent phase transitions between the high symmetry cubic Pm3[combining macron]m phase and the lower symmetry tetragonal I4/mcm phase were determined. Deviation of the oxygen x coordinate from the high symmetry value and the B-O-B bond angle from 180° as well as the tetragonal strain squared were each found to be suitable order parameters to monitor the transitions. Tolerance factor calculations confirmed that these A-site deficient perovskites retain a higher symmetry to a lower value than their fully occupied counterparts. Therefore, adjusting vacancy concentrations can be employed as a general strategy to design compounds with specifically tailored phase transition temperatures.

Zinc deficiency reduces fertility in C. elegans hermaphrodites and disrupts oogenesis and meiotic progression.

Zinc is necessary for successful gametogenesis in mammals; however the role of zinc in the gonad function of non-mammalian species has not been investigated. The genetic tractability, short generation time, and hermaphroditic reproduction of the nematode C. elegans offer distinct advantages for the study of impaired gametogenesis as a result of zinc deficiency. However the phenotypic reproductive effects arising from zinc restriction have not been established in this model. We therefore examined the effect of zinc deficiency on C. elegans reproduction by exposing worms to the zinc chelator N,N,N',N'-tetrakis (2-pyridylmethyl)ethane-1,2-diamine (TPEN). Treatment began at the early larval stage and continued until reproductive senescence. TPEN treatment reduced the total number of progeny produced by C. elegans hermaphrodites compared with control subjects, with the largest difference in output observed 48h after larval stage 4. At this time-point, zinc deficient worms displayed fewer embryos in the uterus and disorganized oocyte development when observed under DIC microscopy. DAPI staining revealed impaired oogenesis and chromosome dynamics with an expanded region of pachytene stage oocytes extending into the proximal arm of the gonad. This phenotype was not seen in control or zinc-rescue subjects. This study demonstrates that reproduction in C. elegans is sensitive to environmental perturbations in zinc, indicating that this is a good model for future studies in zinc-mediated subfertility. Aberrant oocyte development and disruption of the pachytene-diplotene transition indicate that oogenesis in particular is affected by zinc deficiency in this model.