bluuebunny/crossref_metadata_2025_split huggingface dataset:
Number of Chamber Measurement Locations for Accurate Quantification of Landscape‐Scale Greenhouse Gas Fluxes: Importance of Land Use, Seasonality, and Greenhouse Gas Type
Authors: Wangari E. G. , Mwanake R. M. , Kraus D. , Werner C. , Gettel G. M. , Kiese R. , Breuer L. , Butterbach‐Bahl K. , Houska T. 
Published: September 2022

AbstractAccurate quantification of landscape soil greenhouse gas (GHG) exchange from chamber measurements is challenging due to the high spatial‐temporal variability of fluxes, which results in large uncertainties in upscaled regional and global flux estimates. We quantified landscape‐scale (6 km2 in central Germany) soil/ecosystem respiration (SR/ER‐CO2), methane (CH4), and nitrous oxide (N2O) fluxes at stratified sites with contrasting landscape characteristics using the fast‐box chamber technique. We assessed the influence of land use (forest, arable, and grassland), seasonality (spring, summer, and autumn), soil types, and slope on the fluxes. We also evaluated the number of chamber measurement locations required to estimate landscape fluxes within globally significant uncertainty thresholds. The GHG fluxes were strongly influenced by seasonality and land use rather than soil type and slope. The number of chamber measurement locations required for robust landscape‐scale flux estimates depended on the magnitude of fluxes, which varied with season, land use, and GHG type. Significant N2O‐N flux uncertainties greater than the global mean flux (0.67 kg ha−1 yr−1) occurred if landscape measurements were done at <4 and <22 chamber locations (per km2) in forest and arable ecosystems, respectively, in summer. For CO2 and CH4 fluxes, uncertainties greater than the global median CO2‐C flux (7,500 kg ha−1 yr−1) and the global mean forest CH4‐C uptake rate (2.81 kg ha−1 yr−1) occurred at <2 forest and <6 arable chamber locations. This finding suggests that more chamber measurement locations are required to assess landscape‐scale N2O fluxes than CO2 and CH4, based on these GHG‐specific uncertainty thresholds.
Selection, drift and community interactions shape microbial biogeographic patterns in the Pacific Ocean
Authors: Milke Felix , Wagner-Doebler Irene , Wienhausen Gerrit , Simon Meinhard 
Published: September 2022

Abstract
Despite accumulating data on microbial biogeographic patterns in terrestrial and aquatic environments, we still lack a comprehensive understanding of how these patterns establish, in particular in ocean basins. Here we show the relative significance of the ecological mechanisms selection, dispersal and drift for shaping the composition of microbial communities in the Pacific Ocean over a transect of 12,400 km between subantarctic and subarctic regions. In the epipelagic, homogeneous selection contributes 50–60% and drift least to the three mechanism for the assembly of prokaryotic communities whereas in the upper mesopelagic, drift is relatively most important for the particle-associated subcommunities. Temperature is important for the relative significance of homogeneous selection and dispersal limitation for community assembly. The relative significance of both mechanisms was inverted with increasing temperature difference along the transect. For eukaryotes &gt;8 µm, homogeneous selection is also the most important mechanisms at two epipelagic depths whereas at all other depths drift is predominant. As species interactions are essential for structuring microbial communities we further analyzed co-occurrence-based community metrics to assess biogeographic patterns over the transect. These interaction-adjusted indices explained much better variations in microbial community composition as a function of abiotic and biotic variables than compositional or phylogenetic distance measures like Bray–Curtis or UniFrac. Our analyses are important to better understand assembly processes of microbial communities in the upper layers of the largest ocean and how they adapt to effectively perform in global biogeochemical processes. Similar principles presumably act upon microbial community assembly in other ocean basins.
Prediction of remission among patients with a major depressive disorder based on the resting-state functional connectivity of emotion regulation networks
Authors: Wu Hang , Liu Rui , Zhou Jingjing , Feng Lei , Wang Yun , Chen Xiongying , Zhang Zhifang , Cui Jian , Zhou Yuan , Wang Gang 
Published: September 2022

AbstractThe prediction of antidepressant response is critical for psychiatrists to select the initial antidepressant drug for patients with major depressive disorders (MDD). The implicated brain networks supporting emotion regulation (ER) are critical in the pathophysiology of MDD and the prediction of antidepressant response. Therefore, the primary aim of the current study was to identify the neuroimaging biomarkers for the prediction of remission in patients with MDD based on the resting-state functional connectivity (rsFC) of the ER networks. A total of 81 unmedicated adult MDD patients were investigated and they underwent resting-state functional magnetic resonance imagining (fMRI) scans. The patients were treated with escitalopram for 12 weeks. The 17-item Hamilton depression rating scale was used for assessing remission. The 36 seed regions from predefined ER networks were selected and the rsFC matrix was caculated for each participant. The support vector machine algorithm was employed to construct prediction model, which separated the patients with remission from those with non-remission. And leave-one-out cross-validation and the area under the curve (AUC) of the receiver operating characteristic were used for evaluating the performance of the model. The accuracy of the prediction model was 82.08% (sensitivity = 71.43%, specificity = 89.74%, AUC = 0.86). The rsFC between the left medial superior frontal gyrus and the right inferior frontal gyrus as well as the precuneus were the features with the highest discrimination ability in predicting remission from escitalopram among the MDD patients. Results from our study demonstrated that rsFC of the ER brain networks are potential predictors for the response of antidepressant drugs. The trial name: appropriate technology study of MDD diagnosis and treatment based on objective indicators and measurement. URL: http://www.chictr.org.cn/showproj.aspx?proj=21377. Registration number: ChiCTR-OOC-17012566.
Evaluation of brain structure and metabolism in currently depressed adults with a history of childhood trauma
Authors: Jones Joshua S. , Goldstein Samantha J. , Wang Junying , Gardus John , Yang Jie , Parsey Ramin V. , DeLorenzo Christine 
Published: September 2022

AbstractStructural differences in the dorsolateral prefrontal cortex (DLPFC), anterior cingulate cortex (ACC), hippocampus, and amygdala were reported in adults who experienced childhood trauma; however, it is unknown whether metabolic differences accompany these structural differences. This multimodal imaging study examined structural and metabolic correlates of childhood trauma in adults with major depressive disorder (MDD). Participants with MDD completed the Childhood Trauma Questionnaire (CTQ, n = 83, n = 54 female (65.1%), age: 30.4 ± 14.1) and simultaneous positron emission tomography (PET)/magnetic resonance imaging (MRI). Structure (volume, n = 80, and cortical thickness, n = 81) was quantified from MRI using Freesurfer. Metabolism (metabolic rate of glucose uptake) was quantified from dynamic 18F-fluorodeoxyglucose (FDG)-PET images (n = 70) using Patlak graphical analysis. A linear mixed model was utilized to examine the association between structural/metabolic variables and continuous childhood trauma measures while controlling for confounding factors. Bonferroni correction was applied. Amygdala volumes were significantly inversely correlated with continuous CTQ scores. Specifically, volumes were lower by 7.44 mm3 (95% confidence interval [CI]: –12.19, –2.68) per point increase in CTQ. No significant relationship was found between thickness/metabolism and CTQ score. While longitudinal studies are required to establish causation, this study provides insight into potential consequences of, and therefore potential therapeutic targets for, childhood trauma in the prevention of MDD. This work aims to reduce heterogeneity in MDD studies by quantifying neurobiological correlates of trauma within MDD. It further provides biological targets for future interventions aimed at preventing MDD following trauma. To our knowledge, this is the first simultaneous positron emission tomography (PET) and magnetic resonance imaging (MRI) study to assess both structure and metabolism associated with childhood trauma in adults with MDD.
Pedigree-based study to identify GOLGB1 as a risk gene for bipolar disorder
Authors: Liu Fa-rong , Zhou Yunqiang , Wang Yong , Huang Ling-ling , Zhang Xian , Luo Hong , Wu Su-ying , Lyu Hai-yan , Huang Li-huan , Xu Huaxi , Zhang Yun-wu 
Published: September 2022

AbstractBipolar disorder (BD) is a complex psychiatric disorder with strong heritability. Identification of new BD risk genes will help determine the mechanism underlying disease pathogenesis. In the present study, we carried out whole genome sequencing for a Chinese BD family with three affected members and three unaffected members, and identified multiple candidate causal variations, including a frameshift mutation in the GOLGB1 gene. Since a GOLGB1 missense mutation was also found in another BD pedigree, we carried out functional studies by downregulating Golgb1 expression in the brain of neonatal mice. Golgb1 deficiency had no effect on anxiety, memory, and social behaviors in young adult mice. However, we found that young adult mice with Golgb1 deficiency exhibited elevated locomotor activity and decreased depressive behaviors in the tail suspension test and the sucrose preference test, but increased depressive behaviors in the forced swim test, resembling the dual character of BD patients with both mania and depression. Moreover, Golgb1 downregulation reduced PSD93 levels and Akt phosphorylation in the brain. Together, our results indicate that GOLGB1 is a strong BD risk gene candidate whose deficiency may result in BD phenotypes possibly through affecting PSD93 and PI3K/Akt signaling.
Mutations within the cGMP-binding domain of CNGA1 causing autosomal recessive retinitis pigmentosa in human and animal model
Authors: Kandaswamy Surabhi , Zobel Lena , John Bina , Santhiya Sathiyavedu Thyagarajan , Bogedein Jacqueline , Przemeck Gerhard K. H. , Gailus-Durner Valérie , Fuchs Helmut , Biel Martin , de Angelis Martin Hrabĕ , Graw Jochen , Michalakis Stylianos , Amarie Oana Veronica 
Published: September 2022

AbstractRetinitis pigmentosa is a group of progressive inherited retinal dystrophies that may present clinically as part of a syndromic entity or as an isolated (nonsyndromic) manifestation. In an Indian family suffering from retinitis pigmentosa, we identified a missense variation in CNGA1 affecting the cyclic nucleotide binding domain (CNBD) and characterized a mouse model developed with mutated CNBD. A gene panel analysis comprising 105 known RP genes was used to analyze a family with autosomal-recessive retinitis pigmentosa (arRP) and revealed that CNGA1 was affected. From sperm samples of ENU mutagenesis derived F1 mice, we re-derived a mutant with a Cnga1 mutation. Homozygous mutant mice, developing retinal degeneration, were examined for morphological and functional consequences of the mutation. In the family, we identified a rare CNGA1 variant (NM_001379270.1) c.1525 G > A; (p.Gly509Arg), which co-segregated among the affected family members. Homozygous Cnga1 mice harboring a (ENSMUST00000087213.12) c.1526 A > G (p.Tyr509Cys) mutation showed progressive degeneration in the retinal photoreceptors from 8 weeks on. This study supports a role for CNGA1 as a disease gene for arRP and provides new insights on the pathobiology of cGMP-binding domain mutations in CNGA1-RP.
Pt1 enhanced C-H activation synergistic with Ptn catalysis for glycerol cascade oxidation to glyceric acid
Authors: An Zhe , Zhang Zilong , Huang Zeyu , Han Hongbo , Song Binbin , Zhang Jian , Ping Qi , Zhu Yanru , Song Hongyan , Wang Bin , Zheng Lirong , He Jing 
Published: September 2022

AbstractThe selective oxidation of glycerol to glyceric acid, an important value-added reaction from polyols, is a typical cascade catalytic process. It is still of great challenge to simultaneously achieve high glycerol activity and glyceric acid selectivity, suffering from either deep oxidation and C-C cleavage or poor oxidation efficiency from glyceraldehyde to glyceric acid. Herein, this work, inspired by nature, proposes a cascade synergistic catalysis strategy by atomic and low-coordinated cluster Pt on well-defined Cu-CuZrOx, which involves enhanced C-H activation on atomic Pt1 and O-H activation on cluster Ptn in the oxidation of glycerol to glyceraldehyde, and cluster Ptn for C=O activation followed by O-H insertion and atomic Pt1 for C-H activation in the tandem oxidation of glyceraldehyde to glyceric acid. The enhanced C-H activation in the cascade process by atomic Pt1 is revealed to be essential for the high glycerol activity (90.0±0.1%) and the glyceric acid selectivity (80.2±0.2%).
Spatio-temporal analysis of prostate tumors in situ suggests pre-existence of treatment-resistant clones
Authors: Marklund Maja , Schultz Niklas , Friedrich Stefanie , Berglund Emelie , Tarish Firas , Tanoglidi Anna , Liu Yao , Bergenstråhle Ludvig , Erickson Andrew , Helleday Thomas , Lamb Alastair D. , Sonnhammer Erik , Lundeberg Joakim 
Published: September 2022

AbstractThe molecular mechanisms underlying lethal castration-resistant prostate cancer remain poorly understood, with intratumoral heterogeneity a likely contributing factor. To examine the temporal aspects of resistance, we analyze tumor heterogeneity in needle biopsies collected before and after treatment with androgen deprivation therapy. By doing so, we are able to couple clinical responsiveness and morphological information such as Gleason score to transcriptome-wide data. Our data-driven analysis of transcriptomes identifies several distinct intratumoral cell populations, characterized by their unique gene expression profiles. Certain cell populations present before treatment exhibit gene expression profiles that match those of resistant tumor cell clusters, present after treatment. We confirm that these clusters are resistant by the localization of active androgen receptors to the nuclei in cancer cells post-treatment. Our data also demonstrates that most stromal cells adjacent to resistant clusters do not express the androgen receptor, and we identify differentially expressed genes for these cells. Altogether, this study shows the potential to increase the power in predicting resistant tumors.
Three learning stages and accuracy–efficiency tradeoff of restricted Boltzmann machines
Authors: Dabelow Lennart , Ueda Masahito 
Published: September 2022

AbstractRestricted Boltzmann Machines (RBMs) offer a versatile architecture for unsupervised machine learning that can in principle approximate any target probability distribution with arbitrary accuracy. However, the RBM model is usually not directly accessible due to its computational complexity, and Markov-chain sampling is invoked to analyze the learned probability distribution. For training and eventual applications, it is thus desirable to have a sampler that is both accurate and efficient. We highlight that these two goals generally compete with each other and cannot be achieved simultaneously. More specifically, we identify and quantitatively characterize three regimes of RBM learning: independent learning, where the accuracy improves without losing efficiency; correlation learning, where higher accuracy entails lower efficiency; and degradation, where both accuracy and efficiency no longer improve or even deteriorate. These findings are based on numerical experiments and heuristic arguments.
Infralimbic medial prefrontal cortex signalling to calbindin 1 positive neurons in posterior basolateral amygdala suppresses anxiety- and depression-like behaviours
Authors: Yu Huiling , Chen Liping , Lei Huiyang , Pi Guilin , Xiong Rui , Jiang Tao , Wu Dongqin , Sun Fei , Gao Yang , Li Yuanhao , Peng Wenju , Huang Bingyu , Song Guoda , Wang Xin , Lv Jingru , Jin Zetao , Ke Dan , Yang Ying , Wang Jian-Zhi 
Published: September 2022

AbstractGeneralization is a fundamental cognitive ability of organisms to deal with the uncertainty in real-world situations. Excessive fear generalization and impaired reward generalization are closely related to many psychiatric disorders. However, the neural circuit mechanism for reward generalization and its role in anxiety-like behaviours remain elusive. Here, we found a robust activation of calbindin 1-neurons (Calb 1) in the posterior basolateral amygdala (pBLA), simultaneous with reward generalization to an ambiguous cue after reward conditioning in mice. We identify the infralimbic medial prefrontal cortex (IL) to the pBLACalb1 (Calb 1 neurons in the pBLA) pathway as being involved in reward generalization for the ambiguity. Activating IL–pBLA inputs strengthens reward generalization and reduces chronic unpredictable mild stress-induced anxiety- and depression-like behaviours in a manner dependent on pBLACalb1 neuron activation. These findings suggest that the IL–pBLACalb1 circuit could be a target to promote stress resilience via reward generalization and consequently ameliorate anxiety- and depression-like behaviours.
Oncogenic RAS commandeers amino acid sensing machinery to aberrantly activate mTORC1 in multiple myeloma
Authors: Yang Yandan , Bolomsky Arnold , Oellerich Thomas , Chen Ping , Ceribelli Michele , Häupl Björn , Wright George W. , Phelan James D. , Huang Da Wei , Lord James W. , Van Winkle Callie K. , Yu Xin , Wisniewski Jan , Wang James Q. , Tosto Frances A. , Beck Erin , Wilson Kelli , McKnight Crystal , Travers Jameson , Klumpp-Thomas Carleen , Smith Grace A. , Pittaluga Stefania , Maric Irina , Kazandjian Dickran , Thomas Craig J. , Young Ryan M. 
Published: September 2022

AbstractOncogenic RAS mutations are common in multiple myeloma (MM), an incurable malignancy of plasma cells. However, the mechanisms of pathogenic RAS signaling in this disease remain enigmatic and difficult to inhibit therapeutically. We employ an unbiased proteogenomic approach to dissect RAS signaling in MM. We discover that mutant isoforms of RAS organize a signaling complex with the amino acid transporter, SLC3A2, and MTOR on endolysosomes, which directly activates mTORC1 by co-opting amino acid sensing pathways. MM tumors with high expression of mTORC1-dependent genes are more aggressive and enriched in RAS mutations, and we detect interactions between RAS and MTOR in MM patient tumors harboring mutant RAS isoforms. Inhibition of RAS-dependent mTORC1 activity synergizes with MEK and ERK inhibitors to quench pathogenic RAS signaling in MM cells. This study redefines the RAS pathway in MM and provides a mechanistic and rational basis to target this mode of RAS signaling.
Insight into the transient inactivation effect on Au/TiO2 catalyst by in-situ DRIFT and UV–vis spectroscopy
Authors: Wang Xianwei , Rosspeintner Arnulf , Ziarati Abolfazl , Zhao Jiangtao , Bürgi Thomas 
Published: September 2022

AbstractAu catalysts have drawn broad attention for catalytic CO oxidation. However, a molecular-level understanding of the reaction mechanism on a fast time-resolved scale is still lacking. Herein, we apply in situ DRIFTS and UV-Vis spectroscopy to monitor the rapid dynamic changes during CO oxidation over Au/TiO2. A pronounced transient inactivation effect likely due to a structural change of Au/TiO2 induced by the reactants (CO and O2) is observed at the beginning of the reaction. The transient inactivation effect is affected by the ratio of CO and O2 concentrations. More importantly, during the unstable state, the electronic properties of the Au particles change, as indicated by the shift of the CO stretching vibration. UV-Vis spectroscopy corroborates the structure change of Au/TiO2 surface induced by the reactants, which leads to a weakening of the Au catalyst’s ability to be oxidized (less O2 adsorption), resulting in the transient inactivation effect.
Main-chain engineering of polymer photocatalysts with hydrophilic non-conjugated segments for visible-light-driven hydrogen evolution
Authors: Chang Chih-Li , Lin Wei-Cheng , Ting Li-Yu , Shih Chin-Hsuan , Chen Shih-Yuan , Huang Tse-Fu , Tateno Hiroyuki , Jayakumar Jayachandran , Jao Wen-Yang , Tai Chen-Wei , Chu Che-Yi , Chen Chin-Wen , Yu Chi-Hua , Lu Yu-Jung , Hu Chi-Chang , Elewa Ahmed M. , Mochizuki Takehisa , Chou Ho-Hsiu 
Published: September 2022

AbstractPhotocatalytic water splitting is attracting considerable interest because it enables the conversion of solar energy into hydrogen for use as a zero-emission fuel or chemical feedstock. Herein, we present a universal approach for inserting hydrophilic non-conjugated segments into the main-chain of conjugated polymers to produce a series of discontinuously conjugated polymer photocatalysts. Water can effectively be brought into the interior through these hydrophilic non-conjugated segments, resulting in effective water/polymer interfaces inside the bulk discontinuously conjugated polymers in both thin-film and solution. Discontinuously conjugated polymer with 10 mol% hexaethylene glycol-based hydrophilic segments achieves an apparent quantum yield of 17.82% under 460 nm monochromatic light irradiation in solution and a hydrogen evolution rate of 16.8 mmol m−2 h−1 in thin-film. Molecular dynamics simulations show a trend similar to that in experiments, corroborating that main-chain engineering increases the possibility of a water/polymer interaction. By introducing non-conjugated hydrophilic segments, the effective conjugation length is not altered, allowing discontinuously conjugated polymers to remain efficient photocatalysis.
Dislocation exhaustion and ultra-hardening of nanograined metals by phase transformation at grain boundaries
Authors: Wu Shangshu , Kou Zongde , Lai Qingquan , Lan Si , Katnagallu Shyam Swaroop , Hahn Horst , Taheriniya Shabnam , Wilde Gerhard , Gleiter Herbert , Feng Tao 
Published: September 2022

AbstractThe development of high-strength metals has driven the endeavor of pushing the limit of grain size (d) reduction according to the Hall-Petch law. But the continuous grain refinement is particularly challenging, raising also the problem of inverse Hall-Petch effect. Here, we show that the nanograined metals (NMs) with d of tens of nanometers could be strengthened to the level comparable to or even beyond that of the extremely-fine NMs (d ~ 5 nm) attributing to the dislocation exhaustion. We design the Fe-Ni NM with intergranular Ni enrichment. The results show triggering of structural transformation at grain boundaries (GBs) at low temperature, which consumes lattice dislocations significantly. Therefore, the plasticity in the dislocation-exhausted NMs is suggested to be dominated by the activation of GB dislocation sources, leading to the ultra-hardening effect. This approach demonstrates a new pathway to explore NMs with desired properties by tailoring phase transformations via GB physico-chemical engineering.
World carbon pricing database: sources and methods
Authors: Dolphin Geoffroy , Xiahou Qinrui 
Published: September 2022

AbstractThis note describes the sources and methods used to construct the World Carbon Pricing Database (WCPD). This database contains a harmonized record of the sectoral coverage and prices associated with carbon pricing mechanisms implemented worldwide at the national and subnational levels over the period 1990–2020. The dataset follows IPCC 2006 sectoral disaggregation, which allows for a straightforward integration with other datasets following the same structure.