bluuebunny/crossref_metadata_2025_split huggingface dataset:
How Nature Benefits Mental Health
Authors: Herchet Marilisa , Varadarajan Suchithra , Kolassa Iris-Tatjana , Hofmann Mathias 
Published: November 2022

Abstract. We present an overview of the evidence of how nature benefits mental health, popular theories used to explain the effects, and the development potential of these theories. A large body of evidence highlights the beneficial effects of nature on mental health, with observed outcomes ranging from alleviating the symptoms of psychiatric disorders to improvements in cognitive abilities. The theoretical backbone for these salutary effects of nature consists of a set of models, mainly the attention restoration theory (ART), the stress reduction theory (SRT), and the Biophilia hypothesis. However, these high-level models are only loosely related and lack a pronounced biopsychological basis. While biopsychological measurements have been used widely in recent years, these efforts have not sufficiently been reflected in theories aiming to explain the benefits of nature contact for mental health. This paper seeks to encourage interdisciplinary work and further theory development to guide both research and practice toward strategically green and healthy living conditions.
Ocean Circulation Near Cape Hatteras: Observations of Mean and Variability
Authors: Han Lu , Seim Harvey , Bane John , Savidge Dana , Andres Magdalena , Gawarkiewicz Glen , Muglia Mike 
Published: November 2022

AbstractThe convergence of different water masses on the shelf and along the shelfbreak, and cross‐isobath shelf‐open ocean exchanges contribute to the complex circulation near Cape Hatteras. We examine the mean and variability of these circulations using data from nine bottom‐mounted acoustic Doppler current profilers, deployed over the mid‐ to outer‐continental shelf north and south of Cape Hatteras as part of the Processes driving Exchange At Cape Hatteras program. The 18‐month‐mean depth‐averaged shelf flows are mostly aligned with isobaths and oriented toward Cape Hatteras. At two sites just north of Cape Hatteras, mean flows have a strong cross‐shelf component. Two dominant spatial patterns in the velocity field are obtained from an empirical orthogonal function analysis. The two leading modes contain 61% of the total variance. The spatial variation of Mode 1 exhibits an along‐shelf flow pattern, while that of Mode 2 shows a convergent flow pattern. The principal component (PC) series of Mode 1 is significantly correlated with the local wind stress, confirming that the along‐shelf flow is wind‐driven as expected. The PC of Mode 2 is highly correlated with the Gulf Stream lateral position as inferred from the current‐ and pressure‐sensor‐equipped inverted echo sounders over the slope south of Cape Hatteras, which indicates that Gulf Stream movement drives time‐varying shelf flow convergence. Conditionally averaged sea‐surface temperature and high‐frequency radar‐measured surface currents based on PC1 and PC2 confirm these relationships and further illustrate how the wind and Gulf Stream forcing work together to influence the flow regime in this region.
Manipulating PP2Acα-ASK-JNK signaling to favor apoptotic over necroptotic hepatocyte fate reduces the extent of necrosis and fibrosis upon acute liver injury
Authors: Lu Ke , Shen Si-Yu , Luo Ou-Yang , Lu Yue , Shi Tian-Shu , Wu Jing , Cheng Qi , Teng Hua-Jian , Chen Di , Lu Xiang , Li Chao-Jun , Jiang Qing , Fang Lei , Xue Bin 
Published: November 2022

AbstractIn the widely used Carbon tetrachloride (CCl4)-induced acute liver injury (ALI) mouse model, hepatocytes are known to die from programmed cell death (PCD) processes including apoptosis and necroptosis. Both in vivo and in vitro experiments showed that CCl4 treatment could induce both apoptosis and necroptosis. Treatment of mice with the apoptosis inducer SMAC mimetic reduced necroptosis, led to less pronounced liver damage, and improved overall liver function. By LC-MS/MS, we found that PP2Acα expression was increased in ALI mice liver, and we confirmed its high expression in subacute hepatitis patients. We observed that ALI severity (including aggravated fibrogenesis) was significantly alleviated in hepatocyte-specific PP2Acα conditional knockout (PP2Acα cKO) mice. Furthermore, the relative extent of apoptosis over necroptosis was increased in the PP2Acα cKO ALI mice. Pursuing the idea that biasing the type of PCD towards apoptosis may reduce liver damage, we found that treatment of PP2Acα cKO ALI mice with the apoptosis inhibitor z-Vad-fmk increased the extent of necroptosis and caused severer damage. Mechanistically, disruption of PP2Acα prevents the dephosphorylation of pASK1(Ser967), thereby preventing the sustained activation of JNK. Inhibition of PP2Acα prevents CCl4-induced liver injury and fibrogenesis by disrupting ASK/JNK pathway mediated PCD signaling, ultimately improving liver function by biasing hepatocytes towards an apoptotic rather than necroptotic cell fate. Thus, targeting PP2A and/or ASK1 to favor apoptotic over necroptotic hepatocyte fate may represent an attractive therapeutic strategy for treating ALI.
LINC00924-induced fatty acid metabolic reprogramming facilitates gastric cancer peritoneal metastasis via hnRNPC-regulated alternative splicing of Mnk2
Authors: He Qiuming , Yang Chaogang , Xiang Zhenxian , Huang Guoquan , Wu Haitao , Chen Tingna , Dou Rongzhang , Song Jialing , Han Lei , Song TianTian , Wang Shuyi , Xiong Bin 
Published: November 2022

AbstractThe molecular mechanism underlying gastric cancer (GC) peritoneal metastasis (PM) remains unclear. Here, we identified LINC00924 as a GC PM-related lncRNA through Microarray sequencing. LINC00924 was highly expressed in GC, and its high expression is associated with a broad range of PM. Via RNA sequencing, RNA pulldown assay, mass spectrometry, Seahorse, Lipidomics, spheroid formation and cell viability assays, we found that LINC00924 promoted fatty acid (FA) oxidation (FAO) and FA uptake, which was essential for matrix-detached GC cell survival and spheroid formation. Regarding the mechanism, LINC00924 regulated the alternative splicing (AS) of Mnk2 pre-mRNA by binding to hnRNPC. Specifically, LINC00924 enhanced the binding of hnRNPC to Mnk2 pre-mRNA at e14a, thus downregulating Mnk2a splicing and regulating the p38 MAPK/PPARα signaling pathway. Collectively, our results demonstrate that LINC00924 plays a role in promoting GC PM and could serve as a drug target.
Biotechnologically produced chitosans with nonrandom acetylation patterns differ from conventional chitosans in properties and activities
Authors: Sreekumar Sruthi , Wattjes Jasper , Niehues Anna , Mengoni Tamara , Mendes Ana C. , Morris Edwin R. , Goycoolea Francisco M. , Moerschbacher Bruno M. 
Published: November 2022

AbstractChitosans are versatile biopolymers with multiple biological activities and potential applications. They are linear copolymers of glucosamine and N-acetylglucosamine defined by their degree of polymerisation (DP), fraction of acetylation (FA), and pattern of acetylation (PA). Technical chitosans produced chemically from chitin possess defined DP and FA but random PA, while enzymatically produced natural chitosans probably have non-random PA. This natural process has not been replicated using biotechnology because chitin de-N-acetylases do not efficiently deacetylate crystalline chitin. Here, we show that such enzymes can partially N-acetylate fully deacetylated chitosan in the presence of excess acetate, yielding chitosans with FA up to 0.7 and an enzyme-dependent non-random PA. The biotech chitosans differ from technical chitosans both in terms of physicochemical and nanoscale solution properties and biological activities. As with synthetic block co-polymers, controlling the distribution of building blocks within the biopolymer chain will open a new dimension of chitosan research and exploitation.
The nonequilibrium cost of accurate information processing
Authors: Chiribella Giulio , Meng Fei , Renner Renato , Yung Man-Hong 
Published: November 2022

AbstractAccurate information processing is crucial both in technology and in nature. To achieve it, any information processing system needs an initial supply of resources away from thermal equilibrium. Here we establish a fundamental limit on the accuracy achievable with a given amount of nonequilibrium resources. The limit applies to arbitrary information processing tasks and arbitrary information processing systems subject to the laws of quantum mechanics. It is easily computable and is expressed in terms of an entropic quantity, which we name the reverse entropy, associated to a time reversal of the information processing task under consideration. The limit is achievable for all deterministic classical computations and for all their quantum extensions. As an application, we establish the optimal tradeoff between nonequilibrium and accuracy for the fundamental tasks of storing, transmitting, cloning, and erasing information. Our results set a target for the design of new devices approaching the ultimate efficiency limit, and provide a framework for demonstrating thermodynamical advantages of quantum devices over their classical counterparts.
Leveraging data-driven self-consistency for high-fidelity gene expression recovery
Authors: Islam Md Tauhidul , Wang Jen-Yeu , Ren Hongyi , Li Xiaomeng , Khuzani Masoud Badiei , Sang Shengtian , Yu Lequan , Shen Liyue , Zhao Wei , Xing Lei 
Published: November 2022

AbstractSingle cell RNA sequencing is a promising technique to determine the states of individual cells and classify novel cell subtypes. In current sequence data analysis, however, genes with low expressions are omitted, which leads to inaccurate gene counts and hinders downstream analysis. Recovering these omitted expression values presents a challenge because of the large size of the data. Here, we introduce a data-driven gene expression recovery framework, referred to as self-consistent expression recovery machine (SERM), to impute the missing expressions. Using a neural network, the technique first learns the underlying data distribution from a subset of the noisy data. It then recovers the overall expression data by imposing a self-consistency on the expression matrix, thus ensuring that the expression levels are similarly distributed in different parts of the matrix. We show that SERM improves the accuracy of gene imputation with orders of magnitude enhancement in computational efficiency in comparison to the state-of-the-art imputation techniques.
Activated astrocytes attenuate neocortical seizures in rodent models through driving Na+-K+-ATPase
Authors: Zhao Junli , Sun Jinyi , Zheng Yang , Zheng Yanrong , Shao Yuying , Li Yulan , Fei Fan , Xu Cenglin , Liu Xiuxiu , Wang Shuang , Ruan Yeping , Liu Jinggen , Duan Shumin , Chen Zhong , Wang Yi 
Published: November 2022

AbstractEpileptic seizures are widely regarded to occur as a result of the excitation-inhibition imbalance from a neuro-centric view. Although astrocyte-neuron interactions are increasingly recognized in seizure, elementary questions about the causal role of astrocytes in seizure remain unanswered. Here we show that optogenetic activation of channelrhodopsin-2-expressing astrocytes effectively attenuates neocortical seizures in rodent models. This anti-seizure effect is independent from classical calcium signaling, and instead related to astrocytic Na+-K+-ATPase-mediated buffering K+, which activity-dependently inhibits firing in highly active pyramidal neurons during seizure. Compared with inhibition of pyramidal neurons, astrocyte stimulation exhibits anti-seizure effects with several advantages, including a wider therapeutic window, large-space efficacy, and minimal side effects. Finally, optogenetic-driven astrocytic Na+-K+-ATPase shows promising therapeutic effects in a chronic focal cortical dysplasia epilepsy model. Together, we uncover a promising anti-seizure strategy with optogenetic control of astrocytic Na+-K+-ATPase activity, providing alternative ideas and a potential target for the treatment of intractable epilepsy.
Thrombosis and thrombocytopenia after vaccination against and infection with SARS-CoV-2 in the United Kingdom
Authors: Burn Edward , Li Xintong , Delmestri Antonella , Jones Nathan , Duarte-Salles Talita , Reyes Carlen , Martinez-Hernandez Eugenia , Marti Edelmira , Verhamme Katia M. C. , Rijnbeek Peter R. , Strauss Victoria Y. , Prieto-Alhambra Daniel 
Published: November 2022

AbstractPopulation-based studies can provide important evidence on the safety of COVID-19 vaccines. Using data from the United Kingdom, here we compare observed rates of thrombosis and thrombocytopenia following vaccination against SARS-CoV-2 and infection with SARS-CoV-2 with background (expected) rates in the general population. First and second dose cohorts for ChAdOx1 or BNT162b2 between 8 December 2020 and 2 May 2021 in the United Kingdom were identified. A further cohort consisted of people with no prior COVID-19 vaccination who were infected with SARS-Cov-2 identified by a first positive PCR test between 1 September 2020 and 2 May 2021. The fourth general population cohort for background rates included those people in the database as of 1 January 2017. In total, we included 3,768,517 ChAdOx1 and 1,832,841 BNT162b2 vaccinees, 401,691 people infected with SARS-CoV-2, and 9,414,403 people from the general population. An increased risk of venous thromboembolism was seen after first dose of ChAdOx1 (standardized incidence ratio: 1.12 [95% CI: 1.05 to 1.20]), BNT162b2 (1.12 [1.03 to 1.21]), and positive PCR test (7.27 [6.86 to 7.72]). Rates of cerebral venous sinus thrombosis were higher than otherwise expected after first dose of ChAdOx1 (4.14 [2.54 to 6.76]) and a SARS-CoV-2 PCR positive test (3.74 [1.56 to 8.98]). Rates of arterial thromboembolism after vaccination were no higher than expected but were increased after a SARS-CoV-2 PCR positive test (1.39 [1.21 to 1.61]). Rates of venous thromboembolism with thrombocytopenia were higher than expected after a SARS-CoV-2 PCR positive test (5.76 [3.19 to 10.40]).
Thrombosis and thrombocytopenia after vaccination against and infection with SARS-CoV-2 in Catalonia, Spain
Authors: Burn Edward , Roel Elena , Pistillo Andrea , Fernández-Bertolín Sergio , Aragón Maria , Raventós Berta , Reyes Carlen , Verhamme Katia , Rijnbeek Peter , Li Xintong , Strauss Victoria Y. , Prieto-Alhambra Daniel , Duarte-Salles Talita 
Published: November 2022

AbstractPopulation-based studies can provide important evidence on the safety of COVID-19 vaccines. Here we compare rates of thrombosis and thrombocytopenia following vaccination against SARS-CoV-2 with the background (expected) rates in the general population. In addition, we compare the rates of the same adverse events among persons infected with SARS-CoV-2 with background rates. Primary care and linked hospital data from Catalonia, Spain informed the study, with participants vaccinated with BNT162b2 or ChAdOx1 (27/12/2020-23/06/2021), COVID-19 cases (01/09/2020-23/06/2021) or present in the database as of 01/01/2017. We included 2,021,366 BNT162b2 (1,327,031 with 2 doses), 592,408 ChAdOx1, 174,556 COVID-19 cases, and 4,573,494 background participants. Standardised incidence ratios for venous thromboembolism were 1.18 (95% CI 1.06-1.32) and 0.92 (0.81-1.05) after first- and second dose BNT162b2, and 0.92 (0.71-1.18) after first dose ChAdOx1. The standardised incidence ratio for venous thromboembolism in COVID-19 was 10.19 (9.43-11.02). Standardised incidence ratios for arterial thromboembolism were 1.02 (0.95-1.09) and 1.04 (0.97-1.12) after first- and second dose BNT162b2, 1.06 (0.91-1.23) after first-dose ChAdOx1 and 4.13 (3.83-4.45) for COVID-19. Standardised incidence ratios for thrombocytopenia were 1.49 (1.43-1.54) and 1.40 (1.35-1.45) after first- and second dose BNT162b2, 1.28 (1.19-1.38) after first-dose ChAdOx1 and 4.59 (4.41- 4.77) for COVID-19. While rates of thrombosis with thrombocytopenia were generally similar to background rates, the standardised incidence ratio for pulmonary embolism with thrombocytopenia after first-dose BNT162b2 was 1.70 (1.11-2.61). These findings suggest that the safety profiles of BNT162b2 and ChAdOx1 are similar, with rates of adverse events seen after vaccination typically similar to background rates. Meanwhile, rates of adverse events are much increased for COVID-19 cases further underlining the importance of vaccination.
Deglacial release of petrogenic and permafrost carbon from the Canadian Arctic impacting the carbon cycle
Authors: Wu Junjie , Mollenhauer Gesine , Stein Ruediger , Köhler Peter , Hefter Jens , Fahl Kirsten , Grotheer Hendrik , Wei Bingbing , Nam Seung-Il 
Published: November 2022

AbstractThe changes in atmospheric pCO2 provide evidence for the release of large amounts of ancient carbon during the last deglaciation. However, the sources and mechanisms that contributed to this process remain unresolved. Here, we present evidence for substantial ancient terrestrial carbon remobilization in the Canadian Arctic following the Laurentide Ice Sheet retreat. Glacial-retreat-induced physical erosion of bedrock has mobilized petrogenic carbon, as revealed by sedimentary records of radiocarbon dates and thermal maturity of organic carbon from the Canadian Beaufort Sea. Additionally, coastal erosion during the meltwater pulses 1a and 1b has remobilized pre-aged carbon from permafrost. Assuming extensive petrogenic organic carbon oxidation during the glacial retreat, a model-based assessment suggests that the combined processes have contributed 12 ppm to the deglacial CO2 rise. Our findings suggest potentially positive climate feedback of ice-sheet retreat by accelerating terrestrial organic carbon remobilization and subsequent oxidation during the glacial-interglacial transition.
CRISPR-Cas12a induced DNA double-strand breaks are repaired by multiple pathways with different mutation profiles in Magnaporthe oryzae
Authors: Huang Jun , Rowe David , Subedi Pratima , Zhang Wei , Suelter Tyler , Valent Barbara , Cook David E. 
Published: November 2022

AbstractCRISPR-Cas mediated genome engineering has revolutionized functional genomics. However, understanding of DNA repair following Cas-mediated DNA cleavage remains incomplete. Using Cas12a ribonucleoprotein genome editing in the fungal pathogen, Magnaporthe oryzae, we detail non-canonical DNA repair outcomes from hundreds of transformants. Sanger and nanopore sequencing analysis reveals significant variation in DNA repair profiles, ranging from small INDELs to kilobase size deletions and insertions. Furthermore, we find the frequency of DNA repair outcomes varies between loci. The results are not specific to the Cas-nuclease or selection procedure. Through Ku80 deletion analysis, a key protein required for canonical non-homologous end joining, we demonstrate activity of an alternative end joining mechanism that creates larger DNA deletions, and uses longer microhomology compared to C-NHEJ. Together, our results suggest preferential DNA repair pathway activity in the genome that can create different mutation profiles following repair, which could create biased genome variation and impact genome engineering and genome evolution.
Quantum bath engineering of a high impedance microwave mode through quasiparticle tunneling
Authors: Aiello Gianluca , Féchant Mathieu , Morvan Alexis , Basset Julien , Aprili Marco , Gabelli Julien , Estève Jérôme 
Published: November 2022

AbstractIn microwave quantum optics, dissipation usually corresponds to quantum jumps, where photons are lost one by one. Here we demonstrate a new approach to dissipation engineering. By coupling a high impedance microwave resonator to a tunnel junction, we use the photoassisted tunneling of quasiparticles as a tunable dissipative process. We are able to adjust the minimum number of lost photons per tunneling event to be one, two or more, through a dc voltage. Consequently, different Fock states of the resonator experience different loss processes. Causality then implies that each state experiences a different energy (Lamb) shift, as confirmed experimentally. This photoassisted tunneling process is analogous to a photoelectric effect, which requires a quantum description of light to be quantitatively understood. This work opens up new possibilities for quantum state manipulation in superconducting circuits, which do not rely on the Josephson effect.
Measuring exposure to misinformation from political elites on Twitter
Authors: Mosleh Mohsen , Rand David G. 
Published: November 2022

AbstractMisinformation can come directly from public figures and organizations (referred to here as “elites”). Here, we develop a tool for measuring Twitter users’ exposure to misinformation from elites based on the public figures and organizations they choose to follow. Using a database of professional fact-checks by PolitiFact, we calculate falsity scores for 816 elites based on the veracity of their statements. We then assign users an elite misinformation-exposure score based on the falsity scores of the elites they follow on Twitter. Users’ misinformation-exposure scores are negatively correlated with the quality of news they share themselves, and positively correlated with estimated conservative ideology. Additionally, we analyze the co-follower, co-share, and co-retweet networks of 5000 Twitter users and observe an association between conservative ideology and misinformation exposure. Finally, we find that estimated ideological extremity is associated with more misinformation exposure to a greater extent for users estimated to be conservative than for users estimated to be liberal. Finally, we create an open-source R library and an Application Programming Interface (API) making our elite misinformation-exposure estimation tool openly available to the community.
Expanding cross-presenting dendritic cells enhances oncolytic virotherapy and is critical for long-term anti-tumor immunity
Authors: Svensson-Arvelund Judit , Cuadrado-Castano Sara , Pantsulaia Gvantsa , Kim Kristy , Aleynick Mark , Hammerich Linda , Upadhyay Ranjan , Yellin Michael , Marsh Henry , Oreper Daniel , Jhunjhunwala Suchit , Moussion Christine , Merad Miriam , Brown Brian D. , García-Sastre Adolfo , Brody Joshua D. 
Published: November 2022

AbstractImmunotherapies directly enhancing anti-tumor CD8+ T cell responses have yielded measurable but limited success, highlighting the need for alternatives. Anti-tumor T cell responses critically depend on antigen presenting dendritic cells (DC), and enhancing mobilization, antigen loading and activation of these cells represent an attractive possibility to potentiate T cell based therapies. Here we show that expansion of DCs by Flt3L administration impacts in situ vaccination with oncolytic Newcastle Disease Virus (NDV). Mechanistically, NDV activates DCs and sensitizes them to dying tumor cells through upregulation of dead-cell receptors and synergizes with Flt3L to promote anti-tumor CD8+ T cell cross-priming. In vivo, Flt3L-NDV in situ vaccination induces parallel amplification of virus- and tumor-specific T cells, including CD8+ T cells reactive to newly-described neoepitopes, promoting long-term tumor control. Cross-presenting conventional Type 1 DCs are indispensable for the anti-tumor, but not anti-viral, T cell response, and type I IFN-dependent CD4+ Th1 effector cells contribute to optimal anti-tumor immunity. These data demonstrate that mobilizing DCs to increase tumor antigen cross-presentation improves oncolytic virotherapy and that neoepitope-specific T cells can be induced without individualized, ex vivo manufactured vaccines.