bluuebunny/crossref_metadata_2025 huggingface dataset:
The Colorado Twin Registry: 2019 Update
Authors: Corley Robin P. , Reynolds Chandra A. , Wadsworth Sally J. , Rhea Sally-Ann , Hewitt John K.
Published: November 2019

The Colorado Twin Registry (CTR) is a population-based registry formed from birth and school records including twins born between 1968 and the present. Two previous reports on the CTR [Rhea et al., (2006). Twin Research and Human Genetics, 9, 941–949; Rhea et al., (2013).Twin Research and Human Genetics, 16, 351–357] covered developments in the CTR through 2012. This report briefly summarizes previously presented material on ascertainment and recruitment and the relationships between samples and studies, discusses developments since 2012 for four previously described twin samples, describes two new samples and their complementary studies and expands on two subjects briefly mentioned in the last report: a history of genotyping efforts involving CTR samples, and a survey of collaborations and consortia in which CTR twins have been included. The CTR remains an active resource for both ongoing, longitudinal research and the recruitment of new twin samples for newly identified research opportunities.
TwinssCan — Gene-Environment Interaction in Psychotic and Depressive Intermediate Phenotypes: Risk and Protective Factors in a General Population Twin Sample
Authors: Pries Lotta-Katrin , Snijders Clara , Menne-Lothmann Claudia , Decoster Jeroen , van Winkel Ruud , Collip Dina , Delespaul Philippe , De Hert Marc , Derom Catherine , Thiery Evert , Jacobs Nele , Wichers Marieke , Guloksuz Sinan , van Os Jim , Rutten Bart P. F.
Published: November 2019

Meta-analyses suggest that clinical psychopathology is preceded by dimensional behavioral and cognitive phenotypes such as psychotic experiences, executive functioning, working memory and affective dysregulation that are determined by the interplay between genetic and nongenetic factors contributing to the severity of psychopathology. The liability to mental ill health can be psychometrically measured using experimental paradigms that assess neurocognitive processes such as salience attribution, sensitivity to social defeat and reward sensitivity. Here, we describe the TwinssCan, a longitudinal general population twin cohort, which comprises 1202 individuals (796 adolescent/young adult twins, 43 siblings and 363 parents) at baseline. The TwinssCan is part of the European Network of National Networks studying Gene-Environment Interactions in Schizophrenia project and recruited from the East Flanders Prospective Twin Survey. The main objective of this project is to understand psychopathology by evaluating the contribution of genetic and nongenetic factors on subclinical expressions of dimensional phenotypes at a young age before the onset of disorder and their association with neurocognitive processes, such as salience attribution, sensitivity to social defeat and reward sensitivity.
A Road Map for Improving the Treatment of Uncertainties in High‐Resolution Regional Carbon Flux Inverse Estimates
Authors: Feng Sha , Lauvaux Thomas , Keller Klaus , Davis Kenneth J. , Rayner Peter , Oda Tomohiro , Gurney Kevin R.
Published: November 2019

Atmospheric inversions allow us to estimate the terrestrial carbon sink by combining atmospheric observations with atmospheric transport models. However, these inverse estimates remain highly uncertain. Here we quantify uncertainties in simulations of North American atmospheric CO2 concentrations using a probabilistic approach. We demonstrate that uncertainty in fossil fuel emissions is a key factor in the uncertainty surrounding biospheric flux estimates. We show that atmospheric transport uncertainties in state‐of‐the‐art numerical weather models diminish when averaged over time, while uncertainties in large‐scale CO2 boundary inflow considerably impair our ability to quantify regional fluxes. Current estimates of the North America land sink that neglect the uncertainties in CO2 boundary inflow and fossil fuel emissions are likely overconfident. Our findings suggest that targeted use of new atmospheric observations and improved quantification of uncertainty components are a promising avenue to improve atmospheric inversions with the goal to refine estimates of biospheric CO2 fluxes on regional and continental scales.
Variability of Sediment Accumulation Rates in an Antarctic Fjord
Authors: Eidam E. F. , Nittrouer C. A. , Lundesgaard Ø. , Homolka K. K. , Smith C. R.
Published: November 2019

Fjords on the West Antarctic Peninsula (WAP) serve as sediment traps, preserving histories of glacial sediment supply. Regional warming trends are expected to change sediment supplies, altering water quality, depositional history, and ecosystem drivers. Our ability to assess magnitudes of these changes is limited by sparse data on modern sediment accumulation. Twelve new cores and four existing cores from Andvord Bay were used to characterize variability in sediment accumulation rates. These range from 1.5 to 7.9 mm/year (0.12 to 0.56 g·cm−2·year−1). Spatial differences and a weak down‐fjord gradient in rates suggest diverse sediment sources, including from outside the fjord. This data set provides a comprehensive assessment of sedimentation during the past century, indicating little change in rates due to recent WAP warming, and sets a benchmark for assessing climate‐related changes in sediment delivery and ecosystem drivers (e.g., burial disturbance) in the fjord over coming decades.
Quantifying the Timescale and Strength of Southern Hemisphere Intraseasonal Stratosphere‐troposphere Coupling
Authors: Saggioro Elena , Shepherd Theodore G.
Published: November 2019

The Southern Hemisphere zonal circulation manifests a downward influence of the stratosphere on the troposphere from late spring to early summer. However, the strength and timescale of the connection, given the stratospheric state, have not been explicitly quantified. Here, SH zonal wind reanalysis time series are analyzed with a methodology designed to detect the minimal set of statistical predictors of multiple interacting variables via conditional independence tests. Our results confirm from data that the variability of the stratospheric polar vortex is a predictor of the tropospheric eddy‐driven jet between September and January. The vortex variability explains about 40% of monthly mean jet variability at a lead time of 1 month and can entirely account for the observed jet persistence. Our statistical model can quantitatively connect the multidecadal trends observed in the vortex and jet during the satellite era. This shows how short‐term variability can help understand statistical links in long‐term changes.
The Importance of Greenland in Setting the Northern Preferred Position of the North Atlantic Eddy‐Driven Jet
Authors: White Rachel H. , Hilgenbrink Casey , Sheshadri Aditi
Published: November 2019

The North Atlantic atmospheric eddy‐driven jet exhibits three “preferred positions,” latitudes where the maximum jet speed occurs more frequently than others. Using an atmospheric general circulation model, Whole Atmospheric Community Climate Model, we explore the extent to which different mountain ranges affect the northern preferred position. The latitude of this preferred position changes only when the latitude of Greenland is changed, and the preferred position disappears when Greenland orography is flattened. We propose that “Greenland tip jet events” create the appearance of a northern “preferred position” in the eddy‐driven jet; tip jets are localized zonal jets east of the southern tip of Greenland, created by flow interacting with Greenland orography. In reanalysis data the northern preferred position is strongly associated with tip jet days. A case study with the CAM4 model suggests that biases in the northern preferred position may stem from biases in the position or strength of the climatological eddy‐driven jet.
MMS Observations of Plasma Heating Associated With FTE Growth
Authors: Akhavan‐Tafti M. , Slavin J. A. , Sun W. J. , Le G. , Gershman D. J.
Published: November 2019

Upon formation, flux transfer events (FTEs) in the subsolar magnetosheath have been observed to grow in diameter, λ, while convecting along the magnetopause. Plasma pressure has also been found to decrease sub‐adiabatically with increasing λ, indicating the presence of internal plasma acceleration and heating processes. Here, the Magnetospheric Multiscale (MMS) fields and plasma measurements are used to determine the relative roles of parallel electric fields, betatron, and Fermi processes in plasma heating inside an ensemble of 55 subsolar FTEs. Plasma heating is shown asymmetric inside FTEs. Parallel electric fields dominate (>75%) ion and electron heating at the leading edge of FTEs. At the trailing edge, betatron and Fermi processes overtake (>50%), resulting in ion cooling and electron heating, respectively. The observed strong net heatings inside FTEs are proportional to λ−1/2. It is concluded that reconnection‐driven heating continues inside FTEs far from the subsolar electron and ion diffusion regions.
Size of the Atmospheric Blocking Events: Scaling Law and Response to Climate Change
Authors: Nabizadeh Ebrahim , Hassanzadeh Pedram , Yang Da , Barnes Elizabeth A.
Published: November 2019

Understanding the response of atmospheric blocking events to climate change has been of great interest in recent years. However, potential changes in the blocking area (size), which can affect the spatiotemporal characteristics of the resulting extreme events, have not received much attention. Using two large‐ensemble, fully coupled general circulation model (GCM) simulations, we show that the size of blocking events increases with climate change, particularly in the Northern Hemisphere (by as much as 17%). Using a two‐layer quasi‐geostrophic model and a dimensional analysis technique, we derive a scaling law for the size of blocking events, which shows that area mostly scales with width of the jet times the Kuo scale (i.e., the length of stationary Rossby waves). The scaling law is validated in a range of idealized GCM simulations. Predictions of this scaling law agree well with changes in blocking events' size under climate change in fully coupled GCMs in winters but not in summers.
Reassessing the Value of Regional Climate Modeling Using Paleoclimate Simulations
Authors: Armstrong Edward , Hopcroft Peter O. , Valdes Paul J.
Published: November 2019

Regional climate models (RCMs) are often assumed to be more skillful compared to lower‐resolution general circulation models (GCM). However, RCMs are driven by input from coarser resolution GCMs, which may introduce biases. This study employs versions of the HadAMB3 GCM at three resolutions (>50 km) to investigate the added value of higher resolution using identically configured simulations of the preindustrial (PI), mid‐Holocene, and Last Glacial Maximum. The RCM shows improved PI climatology compared to the coarse‐resolution GCM and enhanced paleoanomalies in the jet stream and storm tracks. However, there is no apparent improvement when compared to proxy reconstructions. In the high‐resolution GCM, accuracy in PI climate and atmospheric anomalies are enhanced despite its intermediate resolution. This indicates that synoptic and mesoscale features in a RCM are influenced by its low‐resolution input, which impacts the simulated climatology. This challenges the paradigm that RCMs improve the representation of climate conditions and change.
Prediction of Dansgaard‐Oeschger Events From Greenland Dust Records
Authors: Lohmann Johannes
Published: November 2019

The Dansgaard‐Oeschger cycles of the last glacial period are attributed to changes in the Atlantic overturning circulation. An outstanding problem is whether these are driven by a self‐sustained oscillation of the Earth system, by stochastic perturbations in terms of freshwater discharges into the ocean or extremes in atmospheric dynamics, or by another driver. Their complex temporal pattern suggests that the transitions in between cold (stadial) and warm (interstadial) phases are noise induced and thus unpredictable. Here, evidence is presented that this is unlikely because the transitions can be predicted to a certain degree within a few hundred years after stadial onset from consistent trends in Greenland dust proxies. These trends could be a manifestation of the climate system reorganizing at a specific timescale. What physically determines these highly variable timescales remains unexplained. Nevertheless, constraining the dynamics underlying these abrupt climate changes is an important step to uncover their causes.
The Impact of a Very Weak and Thin Upper Asthenosphere on Subduction Motions
Authors: Carluccio R. , Kaus B. , Capitanio F. A. , Moresi L. N.
Published: November 2019

Recent geophysical observations report the presence of a very weak and thin upper asthenosphere underneath subducting oceanic plates at convergent margins. Along these margins, trench migrations are significantly slower than plate convergence rates. We use numerical models to assess the role of a weak upper asthenospheric layer on plate and trench motions. We show that the presence of this layer alone can enhance an advancing trend for the motion of the plate and hamper trench retreat. This mechanism provides a novel and alternative explanation for the slow rates of trench migration and fast‐moving plates observed globally at natural subduction zones.
Mesoscale and Submesoscale Contributions to High Sea Surface Chlorophyll in Subtropical Gyres
Authors: Guo Mingxian , Xiu Peng , Chai Fei , Xue Huijie
Published: November 2019

Mesoscale eddies in the oceans are known to modify the nutrient supply, stimulate phytoplankton growth, and significantly affect carbon fixation. Submesoscale processes associated with mesoscale eddies have been suggested to induce even stronger variability in phytoplankton dynamics; however, their large‐scale impact has not been quantitatively evaluated in the global ocean. By combining multiple satellite products to resolve both mesoscale and submesoscale dynamic regimes, we evaluated their contributions to high sea surface chlorophyll. Our results reveal that the dominant dynamics associated with high chlorophyll in different gyres are not the same and can vary from the mesoscale to the submesoscale. In subtropical gyres worldwide, the contribution of submesoscale structures around mesoscale eddies to high chlorophyll is comparable to that of mesoscale eddies (34.1% versus 30.8%). These results extend our current understanding of the impacts of eddies on biogeochemical processes and may have important implications for the global carbon cycle.
Ion‐Beam‐Driven Intense Electrostatic Solitary Waves in Reconnection Jet
Authors: Liu C. M. , Vaivads A. , Graham D. B. , Khotyaintsev Yu V. , Fu H. S. , Johlander A. , André M. , Giles B. L.
Published: November 2019

Electrostatic solitary waves (ESWs) have been reported inside reconnection jets, but their source and role remain unclear hitherto. Here we present the first observational evidence of ESWs generation by cold ion beams inside the jet, by using high‐cadence measurements from the Magnetospheric Multiscale spacecraft in the Earth's magnetotail. Inside the jet, intense ESWs with amplitude up to 30 mV m−1 and potential up to ~7% of the electron temperature are observed in association with accelerated cold ion beams. Instability analysis shows that the ion beams are unstable, providing free energy for the ESWs. The waves are observed to thermalize the beams, thus providing a new channel for ion heating inside the jet. Our study suggests that electrostatic turbulence can play an important role in the jet dynamics.
Passive Adjoint Tomography of the Crustal and Upper Mantle Beneath Eastern Tibet With a W2‐Norm Misfit Function
Authors: Dong Xingpeng , Yang Dinghui , Niu Fenglin
Published: November 2019

Full waveform tomography is an effective method to obtain high‐resolution subsurface velocity structures. It is, however, difficult for the conventional L2‐norm‐based inversion to reach the global minimum because of cycle‐skipping problem. In this study, we investigated the feasibility of using the quadratic Wasserstein metric distance (W2 norm) as the misfit function for passive adjoint tomography. We first derived equations of the Fréchet gradient and adjoint source under W2‐norm misfit function. We then conducted numerical experiments to illustrate the effectiveness of the proposed method in avoiding cycle skipping. We finally applied the adjoint tomography to eastern Tibet and obtained a 3‐D velocity model of the lithosphere. The adjoint tomography revealed two low‐velocity channels beneath the NE and SE margins of the Tibetan plateau, which were also observed by previous studies. Our results are consistent with the lower crust flow model that was proposed to explain the deformation occurring at the two margins.
Parallel Acceleration of Suprathermal Electrons Caused by Whistler‐Mode Hiss Waves
Authors: Li Jinxing , Ma Qianli , Bortnik Jacob , Li Wen , An Xin , Reeves Geoffrey D. , Funsten Herbert O. , Spence Harlan , Baker Daniel N. , Kurth William S. , Hospodarsky George B. , Hartley David P.
Published: November 2019

Suprathermal electrons (~0.1–10 keV) in the inner magnetosphere are usually observed in a 90°‐peaked pitch angle distribution, formed due to the conservation of the first and second adiabatic invariants as they are transported from the plasma sheet. We report a peculiar field‐aligned suprathermal electron (FASE) distribution measured by Van Allen Probes, where parallel fluxes are 1 order of magnitude higher than perpendicular fluxes. Those FASEs are found to be closely correlated with large‐amplitude hiss waves and are observed around the Landau resonant energies. We demonstrate, using quasilinear diffusion simulations, that hiss waves can rapidly accelerate suprathermal electrons through Landau resonance and create the observed FASE population. The proposed mechanism potentially has broad implications for suprathermal electron dynamics as well as whistler mode waves in the Earth's magnetosphere and has been demonstrated in the Jovian magnetosphere.
Tectonic Regionalization of the Southern California Crust From Tomographic Cluster Analysis
Authors: Eymold William K. , Jordan Thomas H.
Published: November 2019

We map crustal regions in Southern California that have similar depth variations in seismic velocities by applying cluster analysis to 1.5 million P and S velocity profiles from the three‐dimensional tomographic model CVM‐S4.26. We use a K‐means algorithm to partition the profiles into K sets that minimize the inter‐cluster variance. The regionalizations for K ≤ 10 generate a coherent sequence of structural refinements: each increment of K introduces a new region typically by partitioning a larger region into two smaller regions or by occupying a transition zone between two regions. The results for K ≤ 7 are insensitive to initialization and trimming of the model periphery; nearly identical results are obtained if the P and S velocity profiles are treated separately or jointly. The regions for K = 7 can be associated with major physiographic provinces and geologic areas with recognized tectonic affinities, including the Continental Borderland, Great Valley, Salton Trough, and Mojave Desert. The regionalization splits the Sierra Nevada and Peninsular Range batholiths into the western and eastern zones consistent with geological, geochemical, and potential‐field mapping. Three of the regions define a geographic domain comprising almost all of the upper crust derived from continental lithosphere. Well‐resolved regional boundaries coincide with major faults, topographic fronts, and/or geochemical transitions mapped at the surface. The consistent alignment of these surface features with deeper transitions in the crustal velocity profiles indicates that regional boundaries are typically narrow, high‐angle structures separating regions with characteristic crustal columns that reflect different compositions and tectonic histories.
Depth‐ and Time‐Resolved Distributions of Snowmelt‐Driven Hillslope Subsurface Flow and Transport and Their Contributions to Surface Waters
Authors: Tokunaga Tetsu K. , Wan Jiamin , Williams Kenneth H. , Brown Wendy , Henderson Amanda , Kim Yongman , Tran Anh Phuong , Conrad Mark E. , Bill Markus , Carroll Rosemary W.H. , Dong Wenming , Xu Zexuan , Lavy Adi , Gilbert Ben , Carrero Sergio , Christensen John N. , Faybishenko Boris , Arora Bhavna , Siirila‐Woodburn Erica R. , Versteeg Roelof , Raberg Jonathan H. , Peterson John E. , Hubbard Susan S.
Published: November 2019

Major components of hydrologic and elemental cycles reside underground, where their complex dynamics and linkages to surface waters are obscure. We delineated seasonal subsurface flow and transport dynamics along a hillslope in the Rocky Mountains (USA), where precipitation occurs primarily as winter snow and drainage discharges into the East River, a tributary of the Gunnison River. Hydraulic and geochemical measurements down to 10 m below ground surface supported application of transmissivity feedback of snowmelt to describe subsurface flow and transport through three zones: soil, weathering shale, and saturated fractured shale. Groundwater flow is predicted to depths of at least 176 m, although a shallower limit exists if hillslope‐scale hydraulic conductivities are higher than our local measurements. Snowmelt during the high snowpack water year 2017 sustained flow along the weathering zone and downslope within the soil, while negligible downslope flow occurred along the soil during the low snowpack water year 2018. We introduce subsurface concentration‐discharge (C‐Q) relations for explaining hillslope contributions to C‐Q observed in rivers and demonstrate their calculations based on transmissivity fluxes and measured pore water specific conductance and dissolved organic carbon. The specific conductance data show that major ions in the hillslope pore waters, primarily from the weathering and fractured shale, are about six times more concentrated than in the river, indicating hillslope solute loads are disproportionately high, while flow from this site and similar regions are relatively smaller. This methodology is applicable in different representative environments within snow‐dominated watersheds for linking their subsurface exports to surface waters.
A Precipitation Recycling Network to Assess Freshwater Vulnerability: Challenging the Watershed Convention
Authors: Keune J. , Miralles D. G.
Published: November 2019

Water resources and water scarcity are usually regarded as local aspects for which a watershed‐based management appears adequate. However, precipitation, as a main source of freshwater, may depend on moisture supplied through land evaporation from outside the watershed. This notion of evaporation as a local “green water” supply to precipitation is typically not considered in hydrological water assessments. Here we propose the concept of a watershed precipitation recycling network, which establishes atmospheric pathways and links land surface evaporation as a moisture supply to precipitation, hence contributing to local but also remote freshwater resources. Our results show that up to 74% of summer precipitation over European watersheds depends on moisture supplied from other watersheds, which contradicts the conventional consideration of autarkic watersheds. The proposed network approach illustrates atmospheric pathways and enables the objective assessment of freshwater vulnerability and water scarcity risks under global change. The illustrated watershed interdependence emphasizes the need for global water governance to secure freshwater availability.
Prediction of Relative Air Permeability of Porous Media With Weibull Pore Size Distribution
Authors: Yang Zhenlei , Mohanty Binayak P. , Efendiev Yalchin , Sheng Zhuping
Published: November 2019

Modeling convective air movement in unsaturated porous media requires appropriate characterization of the relative air permeability (RAP). Adopting Assouline et al. (1998, https://doi.org/10.1029/97WR03039) water retention function that is based on the Weibull pore size distribution, this study was conducted to derive seven new predictive RAP models. These 7 new models, together with another 3 models developed by Assouline et al. (2016, https://doi.org/10.1002/2015WR018286), were then compared with data from 30 disturbed soil samples to investigate their predictive RAP performances. The model and data comparison results showed that the modified Burdine, modified Mualem, and modified Alexander and Skaggs relative permeability models proposed by Yang and Mohanty (2015, https://doi.org/10.1002/2014WR016190) had the highest accuracy for the RAP prediction among the 10 investigated models, which indicated that the tortuosity and connectivity exponent of water phase should be smaller than that of air phase for the disturbed soil samples. The modified Burdine, modified Mualem, and modified Alexander and Skaggs models were then the suggested RAP parameterizations for the subsurface multiphase flow numerical simulation.
The relationship between childhood trauma, dopamine release and dexamphetamine-induced positive psychotic symptoms: a [11C]-(+)-PHNO PET study
Authors: Dahoun Tarik , Nour Matthew M. , McCutcheon Robert A. , Adams Rick A. , Bloomfield Michael A. P. , Howes Oliver D.
Published: November 2019

Childhood trauma is a risk factor for psychosis. Amphetamine increases synaptic striatal dopamine levels and can induce positive psychotic symptoms in healthy individuals and patients with schizophrenia. Socio-developmental hypotheses of psychosis propose that childhood trauma and other environmental risk factors sensitize the dopamine system to increase the risk of psychotic symptoms, but this remains to be tested in humans. We used [11C]-(+)-PHNO positron emission tomography to measure striatal dopamine-2/3 receptor (D2/3R) availability and ventral striatal dexamphetamine-induced dopamine release in healthy participants (n = 24). The relationships between dexamphetamine-induced dopamine release, dexamphetamine-induced positive psychotic symptoms using the Positive and Negative Syndrome Scale (PANSS), and childhood trauma using the Childhood Trauma Questionnaire (CTQ) were assessed using linear regression and mediation analyses, with childhood trauma as the independent variable, dexamphetamine-induced dopamine release as the mediator variable, and dexamphetamine-induced symptoms as the dependent variable. There was a significant interaction between childhood trauma and ventral striatal dopamine release in predicting dexamphetamine-induced positive psychotic symptoms (standardized β = 1.83, p = 0.003), but a mediation analysis was not significant (standardized β = −0.18, p = 0.158). There were no significant effects of dopamine release and childhood trauma on change in negative (p = 0.280) or general PANSS symptoms (p = 0.061), and there was no relationship between ventral striatal baseline D2/3R availability and positive symptoms (p = 0.368). This indicates childhood trauma and dopamine release interact to influence the induction of positive psychotic symptoms. This is not consistent with a simple sensitization hypothesis, but suggests that childhood trauma moderates the cognitive response to dopamine release to make psychotic experiences more likely.
RUNX1 maintains the identity of the fetal ovary through an interplay with FOXL2
Authors: Nicol Barbara , Grimm Sara A. , Chalmel Frédéric , Lecluze Estelle , Pannetier Maëlle , Pailhoux Eric , Dupin-De-Beyssat Elodie , Guiguen Yann , Capel Blanche , Yao Humphrey H.-C.
Published: November 2019

Sex determination of the gonads begins with fate specification of gonadal supporting cells into either ovarian pre-granulosa cells or testicular Sertoli cells. This fate specification hinges on a balance of transcriptional control. Here we report that expression of the transcription factor RUNX1 is enriched in the fetal ovary in rainbow trout, turtle, mouse, goat, and human. In the mouse, RUNX1 marks the supporting cell lineage and becomes pre-granulosa cell-specific as the gonads differentiate. RUNX1 plays complementary/redundant roles with FOXL2 to maintain fetal granulosa cell identity and combined loss of RUNX1 and FOXL2 results in masculinization of fetal ovaries. At the chromatin level, RUNX1 occupancy overlaps partially with FOXL2 occupancy in the fetal ovary, suggesting that RUNX1 and FOXL2 target common sets of genes. These findings identify RUNX1, with an ovary-biased expression pattern conserved across species, as a regulator in securing the identity of ovarian-supporting cells and the ovary.
A gene regulatory network to control EMT programs in development and disease
Authors: Fazilaty Hassan , Rago Luciano , Kass Youssef Khalil , Ocaña Oscar H. , Garcia-Asencio Francisco , Arcas Aida , Galceran Juan , Nieto M. Angela
Published: November 2019

The Epithelial to Mesenchymal Transition (EMT) regulates cell plasticity during embryonic development and in disease. It is dynamically orchestrated by transcription factors (EMT-TFs), including Snail, Zeb, Twist and Prrx, all activated by TGF-β among other signals. Here we find that Snail1 and Prrx1, which respectively associate with gain or loss of stem-like properties and with bad or good prognosis in cancer patients, are expressed in complementary patterns during vertebrate development and in cancer. We show that this complementarity is established through a feedback loop in which Snail1 directly represses Prrx1, and Prrx1, through direct activation of the miR-15 family, attenuates the expression of Snail1. We also describe how this gene regulatory network can establish a hierarchical temporal expression of Snail1 and Prrx1 during EMT and validate its existence in vitro and in vivo, providing a mechanism to switch and select different EMT programs with important implications in development and disease.
KRAS regulation by small non-coding RNAs and SNARE proteins
Authors: Che Yonglu , Siprashvili Zurab , Kovalski Joanna R. , Jiang Tiffany , Wozniak Glenn , Elcavage Lara , Khavari Paul A.
Published: November 2019

KRAS receives and relays signals at the plasma membrane (PM) where it transmits extracellular growth factor signals to downstream effectors. SNORD50A/B were recently found to bind KRAS and inhibit its tumorigenic action by unknown mechanisms. KRAS proximity protein labeling was therefore undertaken in SNORD50A/B wild-type and knockout cells, revealing that SNORD50A/B RNAs shape the composition of proteins proximal to KRAS, notably by inhibiting KRAS proximity to the SNARE vesicular transport proteins SNAP23, SNAP29, and VAMP3. To remain enriched on the PM, KRAS undergoes cycles of endocytosis, solubilization, and vesicular transport to the PM. Here we report that SNAREs are essential for the final step of this process, with KRAS localization to the PM facilitated by SNAREs but antagonized by SNORD50A/B. Antagonism between SNORD50A/B RNAs and specific SNARE proteins thus controls KRAS localization, signaling, and tumorigenesis, and disrupting SNARE-enabled KRAS function represents a potential therapeutic opportunity in KRAS-driven cancer.
Comparison of sodium chloride hopper cubes grown under microgravity and terrestrial conditions
Authors: Pettit Donald , Fontana Pietro
Published: November 2019

Sodium chloride (NaCl) grown in terrestrial conditions form hopper cubes under diffusion controlled mass transport (Péclet number: ≪ 1), high supersaturations (S > 1.45), and fast growth rates (10–110 µm/s) over periods only maintainable for seconds to minutes yielding hopper cubes typically <250 µm. Here we report on NaCl hopper cubes grown in microgravity on the International Space Station (ISS) by evaporation of brine. They grew under diffusion limited mass transport (Péclet number: ~4 × 10−4 − 4) at low supersaturation (S < 1.002) and slow growth rates (0.34–1 µm/min) over periods of days to weeks. Due to the lack of sedimentation, symmetrical hopper cubes, 2–8 mm were produced. The most striking differences between microgravity and terrestrial gravity hopper growth conditions are low supersaturation and slow growth rates over long periods of time. Large, 1–20 cm naturally occurring symmetrical NaCl hopper cubes are found suspended in brine soaked mud, hypothesized to be produced in a slow growth, diffusion dominated environment. We speculate these geologic conditions allow for hopper growth similar to that of microgravity.
Carbon and Calcium Carbonate Export Driven by Appendicularian Faecal Pellets in the Humboldt Current System off Chile
Authors: Eduardo Menschel A. , González Humberto E.
Published: November 2019

The role of appendicularian faecal pellet (FPa) size fractions on coccolithophore-derived particulate organic carbon (POC) and calcium carbonate (CaCO3) export to the deep sea was assessed from sediment traps within a period of ten years (1995–2004) off Coquimbo (CQ, 30°S) and five years (2005–2009) off Concepción (CC, 36°S) in the Humboldt Current System (HCS) off Chile. The composition and size distribution of 1,135 FPa samples from sediment traps deployed at 2,300 and 1,000 m depths showed non-linear, inverse relationships between the FPa size-fractions and their volume-specific POC and CaCO3 contents, which were up to ten times higher for small (<100 µm in diameter) than large (>100 µm) FPa. On average, 13 and 2% of the total POC and CaCO3 fluxes, respectively, were contributed mainly by small FPa (90%), with maxima during the autumn and summer. Thus, a non-linear, exponential model of volume-specific POC and CaCO3 contents of FPa substantially improved vertical flux rate estimates. In the HCS, annual carbon flux based on a non-linear FPa carbon load was double the estimate assuming a linear-volume to carbon load for FPa (345 and 172 kton C y−1). We recommend a widespread consideration of this non-linear model in global carbon estimates.
Interference between the glass, gel, and gas-liquid transitions
Authors: Olais-Govea José Manuel , López-Flores Leticia , Zepeda-López Jesús Benigno , Medina-Noyola Magdaleno
Published: November 2019

Recent experiments and computer simulations have revealed intriguing phenomenological fingerprints of the interference between the ordinary equilibrium gas-liquid phase transition and the non-equilibrium glass and gel transitions. We thus now know, for example, that the liquid-gas spinodal line and the glass transition loci intersect at a finite temperature and density, that when the gel and the glass transitions meet, mechanisms for multistep relaxation emerge, and that the formation of gels exhibits puzzling latency effects. In this work we demonstrate that the kinetic perspective of the non-equilibrium self-consistent generalized Langevin equation (NE-SCGLE) theory of irreversible processes in liquids provides a unifying first-principles microscopic theoretical framework to describe these and other phenomena associated with spinodal decomposition, gelation, glass transition, and their combinations. The resulting scenario is in reality the competition between two kinetically limiting behaviors, associated with the two distinct dynamic arrest transitions in which the liquid-glass line is predicted to bifurcate at low densities, below its intersection with the spinodal line.
Postmenopausal Osteoporosis reference genes for qPCR expression assays
Authors: de Lima Camilla Albertina Dantas , de Lima Suelen Cristina , Barbosa Alexandre Domingues , Sandrin-Garcia Paula , de Barros Pita Will , de Azevêdo Silva Jaqueline , Crovella Sergio
Published: November 2019

Osteoporosis (OP) is a multifactorial disease influenced by genetic factors in more than half of the cases. In spite of the efforts to clarify the relationship among genetic factors and susceptibility to develop OP, many genetic associations need to be further functionally validated. Besides, some limitations as the choice of stably expressed reference genes (RG) should be overcome to ensure the quality and reproducibility of gene expression assays. To our knowledge, a validation study for RG in OP is still missing. We compared the expression levels, using polymerase chain reaction quantitative real time (qPCR) of 10 RG (G6PD, B2M, GUSB, HSP90, EF1A, RPLP0, GAPDH, ACTB, 18 S and HPRT1) to assess their suitability in OP analysis by using GeNorm, Normfinder, BestKeeper and RefFinder programs. A minimal number of two RG was recommended by GeNorm to obtain a reliable normalization. RPLP0 and B2M were identified as the most stable genes in OP studies while ACTB, 18 S and HPRT1 were inadequate for normalization in our data set. Moreover, we showed the dramatic effects of suboptimal RG choice on the quantification of a target gene, highlighting the importance in the identification of the most appropriate reference gene to specific diseases. We suggest the use of RPLP0 and B2M as the most stable reference genes while we do not recommend the use of the least stable reference genes HPRT1, 18 S and ACTB in OP expression assays using PBMC as biological source. Additionally, we emphasize the importance of individualized and careful choice in software and reference genes selection.
Early stimulation of the left posterior parietal cortex promotes representation change in problem solving
Authors: Debarnot Ursula , Schlatter Sophie , Monteil Julien , Guillot Aymeric
Published: November 2019

When you suddenly understand how to solve a problem through an original and efficient strategy, you experience the so-called “Eureka” effect. The appearance of insight usually occurs after setting the problem aside for a brief period of time (i.e. incubation), thereby promoting unconscious and novel associations on problem-related representations leading to a new and efficient solving strategy. The left posterior parietal cortex (lPPC) has been showed to support insight in problem solving, when this region is activated during the initial representations of the task. The PPC is further activated during the next incubation period when the mind starts to wander. The aim of this study was to investigate whether stimulating the lPPC, either during the initial training on the problem or the incubation period, might enhance representation change in problem solving. To address this question, participants performed the Number Reduction Task (NRT, convergent problem-solving), while excitatory or sham (placebo) transcranial direct current stimulation (tDCS) was applied over the lPPC. The stimulation was delivered either during the initial problem representation or during the subsequent incubation period. Impressively, almost all participants (94%) with excitatory tDCS during the initial training gained representational change in problem solving, compared to only 39% in the incubation period and 33% in the sham groups. We conclude that the lPPC plays a role during the initial problem representation, which may be considerably strengthened by means of short brain stimulation.
The potential for using smartphones as portable soil nutrient analyzers on suburban farms in central East China
Authors: Golicz Karolina , Hallett Stephen H. , Sakrabani Ruben , Pan Genxing
Published: November 2019

Soil testing is frequently conducted to specify nutrient supply recommendations. By adjusting fertilizer type and application rates, farmers can achieve desired crop yields with lower production costs and are thereby less likely to contribute to eutrophication of nearby waterbodies. However, traditional methods of soil testing can be costly, time-consuming and are often impractical in rural and resource-poor regions in China, where rapid population growth and consequent food demand must be balanced against potential environment risks. Smartphones are nearly ubiquitous and offer a ready capability for providing additional support for existing extension advice. In this study, we used an Android-based smartphone application, in conjunction with commercially-available Quantofix test strips, to analyze soil samples with a goal of providing specific fertilizer recommendations. The app transforms the smartphone into a portable reflectometer, relating the reaction color of the test strips to the concentration of soil nutrients available. A 6-month long field study involving two growing seasons of vegetables was conducted in a suburban area of Nanjing, Jiangsu Province of China to evaluate the accuracy and precision of smartphone-mediated soil analysis. Results obtained via the smartphone correlated well with the yield response of the common green vegetable Ipomoea aquatica (water spinach) and could be applied in calculations of necessary off-farm inputs throughout the open-field vegetable growing season. Together, the smartphone and test strip in combination were shown to offer an acceptable screening tool for soil nutrient concentration assessment with the potential to result in substantial monetary savings and reduction of nutrient loss to the environment.
Autonomic adaptations mediate the effect of hydration on brain functioning and mood: Evidence from two randomized controlled trials
Authors: Young Hayley A. , Cousins Alecia , Johnston Stephen , Fletcher John M. , Benton David
Published: November 2019

Dehydration (water loss >2.0% of body weight) has significant negative effects on physical and mental performance. In two studies the effects of minor hypo-hydration (water loss <1.0% of body weight) on CNS function, mood and cardiovascular functioning were measured. Study 1: On two mornings twelve male participants were exposed to a temperature of 30 °C for four hours and either did or did not drink two 150 ml glasses of water during that time. Study 2: Fifty-six (25 M) individuals were exposed to the same 30 °C environment and randomly allocated to either drink (2 × 150 ml) or not drink. When not given water 0.59% (Study 1) and 0.55% (Study 2) bodyweight was lost. Participant’s heart rate variability (HRV) was measured, and they rated their thirst and mood. In study 1, participants participated in an fMRI protocol during which they completed a modified version of the Paced Auditory Serial Addition Test (PASAT), at the end of which they rated its difficulty. Decreases in fMRI BOLD activity in the orbito-frontal cortex, ventral cingulate gyrus, dorsal cingulate cortex, hypothalamus, amygdala, right striatum, post-central gyrus and superior parietal cortex were observed when participants were hypo-hydrated. These deactivations were associated with reduced HRV, greater perceived effort, and more anxiety. In study 2 declines in HRV were found to mediate the effect of hypo-hydration on ratings of anxiety. These data are discussed in relation to a model that describes how autonomic regulatory and interoceptive processes may contribute to the affective consequences of minor hypo-hydration.
Impact of bacteria motility in the encounter rates with bacteriophage in mucus
Authors: Joiner Kevin L. , Baljon Arlette , Barr Jeremy , Rohwer Forest , Luque Antoni
Published: November 2019

Bacteriophages—or phages—are viruses that infect bacteria and are present in large concentrations in the mucosa that cover the internal organs of animals. Immunoglobulin (Ig) domains on the phage surface interact with mucin molecules, and this has been attributed to an increase in the encounter rates of phage with bacteria in mucus. However, the physical mechanism behind this phenomenon remains unclear. A continuous time random walk (CTRW) model simulating the diffusion due to mucin-T4 phage interactions was developed and calibrated to empirical data. A Langevin stochastic method for Escherichia coli (E. coli) run-and-tumble motility was combined with the phage CTRW model to describe phage-bacteria encounter rates in mucus for different mucus concentrations. Contrary to previous theoretical analyses, the emergent subdiffusion of T4 in mucus did not enhance the encounter rate of T4 against bacteria. Instead, for static E. coli, the diffusive T4 mutant lacking Ig domains outperformed the subdiffusive T4 wild type. E. coli’s motility dominated the encounter rates with both phage types in mucus. It is proposed, that the local fluid-flow generated by E. coli’s motility combined with T4 interacting with mucins may be the mechanism for increasing the encounter rates between the T4 phage and E. coli bacteria.
Multifactorial motor behavior assessment for real-time evaluation of emerging therapeutics to treat neurologic impairments
Authors: Islam Riazul , Cuellar Carlos A. , Felmlee Ben , Riccelli Tori , Silvernail Jodi , Boschen Suelen Lucio , Grahn Peter , Lavrov Igor
Published: November 2019

Integrating multiple assessment parameters of motor behavior is critical for understanding neural activity dynamics during motor control in both intact and dysfunctional nervous systems. Here, we described a novel approach (termed Multifactorial Behavioral Assessment (MfBA)) to integrate, in real-time, electrophysiological and biomechanical properties of rodent spinal sensorimotor network activity with behavioral aspects of motor task performance. Specifically, the MfBA simultaneously records limb kinematics, multi-directional forces and electrophysiological metrics, such as high-fidelity chronic intramuscular electromyography synchronized in time to spinal stimulation in order to characterize spinal cord functional motor evoked potentials (fMEPs). Additionally, we designed the MfBA to incorporate a body weight support system to allow bipedal and quadrupedal stepping on a treadmill and in an open field environment to assess function in rodent models of neurologic disorders that impact motor activity. This novel approach was validated using, a neurologically intact cohort, a cohort with unilateral Parkinsonian motor deficits due to midbrain lesioning, and a cohort with complete hind limb paralysis due to T8 spinal cord transection. In the SCI cohort, lumbosacral epidural electrical stimulation (EES) was applied, with and without administration of the serotonergic agonist Quipazine, to enable hind limb motor functions following paralysis. The results presented herein demonstrate the MfBA is capable of integrating multiple metrics of motor activity in order to characterize relationships between EES inputs that modulate mono- and polysynaptic outputs from spinal circuitry which in turn, can be used to elucidate underlying electrophysiologic mechanisms of motor behavior. These results also demonstrate that proposed MfBA is an effective tool to integrate biomechanical and electrophysiology metrics, synchronized to therapeutic inputs such as EES or pharmacology, during body weight supported treadmill or open field motor activities, to target a high range of variations in motor behavior as a result of neurological deficit at the different levels of CNS.
High ellipticity reduces semi-circular canal sensitivity in squamates compared to mammals
Authors: Goyens Jana
Published: November 2019

The semi-circular canals in the inner ear sense head rotations. It is widely recognised that the anatomy of the semi-circular canals is often adapted to the species-specific agility, in order to provide the necessary sensitivity. Based on research on mammals, the ellipticity of the semi-circular canal was so far considered as a non-important factor herein. A dataset of 125 squamate species and 156 mammalian species, now shows that the posterior semi-circular canal of squamates is much more elliptical (eccentricities ranging between 0.76 and 0.94) than that of mammals (eccentricities ranging between 0 and 0.71). Fluid-Structure Interaction computer models show that the effect of the ellipticity on sensitivity is strongest in small semi-circular canals. This new insight indicates that the high ellipticity in squamates leads to a severe reduction in sensitivity of up to 45%. In mammals, on the other hand, the reduction in sensitivity is limited to 13%, which is consistent with previous literature that found a limited effect of semi-circular canal ellipticity in mammals. Further, there is a strongly negative correlation between semi-circular canal size and eccentricity in squamates, which is absent in mammals. Hence, the smallest squamates have the most elliptical semi-circular canals. In general, the smaller the semi-circular canal, the less sensitive it is. Therefore, the highly elliptical squamate canals are probably the result of fitting the largest possible canal in small and flat head. Miniaturising the canals while maintaining a circular shape would reduce the sensitivity by another 73% compared to the highly elliptical canals.