bluuebunny/crossref_metadata_2025 huggingface dataset:
State-level differences in public vocational rehabilitation closures among transition-aged youth with traumatic brain injury
Authors: Degeneffe Charles Edmund , Tucker Mark , Ahonle Zaccheus James
Published: November 2020

This study aimed to understand state-level variation in participation in the State/Federal Vocational Rehabilitation (State VR) System in the United States among transition-aged youth (persons under the age of 22 years at application for State VR services) with traumatic brain injury (TBI) in Federal Fiscal Year 2016. A weighted least squares regression analysis was conducted to determine the relationship of state-level population size, unemployment rate, and per-capita income to the number of State VR closures in each state for transition-aged youth with TBI. Population size and per-capita income significantly predicted closures, while there was no relationship between closures and unemployment rate. Research is needed that further explores and explains state-level disparities in participation among transition-aged youth with TBI.
The role of bioturbation-driven substrate disturbance in the Mesozoic brachiopod decline
Authors: Manojlovic Marko , Clapham Matthew E.
Published: November 2020

Brachiopods dominated the seafloor as a primary member of the Paleozoic fauna. Despite the devastating effects of the end-Permian extinction, the group recovered during the early Mesozoic only to gradually decline from the Jurassic to today. This decline likely had multiple causes, including increased predation and bioturbation-driven substrate disruption, but the role of changing substrate is not well understood. Given the importance of substrate for extant brachiopod habitat, we documented Mesozoic–Cenozoic lithologic preferences and morphological changes to assess how decreasing firm-substrate habitat may have contributed to the brachiopod decline. Compared with bivalves, Mesozoic brachiopods occurred more frequently and were disproportionately abundant in carbonate lithologies. Although patterns in glauconitic or ferruginous sediments are equivocal, brachiopods became more abundant in coarser-grained carbonates and less abundant in fine-grained siliciclastics. During the Jurassic, brachiopod species rarely had abraded beaks but tended to be more convex with a high beak, potentially consistent with a non-analogue lifestyle resting on the seafloor. However, those highly convex morphotypes largely disappeared by the Cenozoic, when more terebratulides had abraded beaks, suggesting closer attachment to hard substrates. Rhynchonellides disproportionately declined to become a minor component of Cenozoic faunas, perhaps because of less pronounced morphological shifts. Trends in lithologic preferences and morphology are consistent with bioturbation-driven substrate disruption, with brachiopods initially using firmer carbonate sediments as refugia before adapting to live primarily attached to hard surfaces. This progressive habitat restriction likely played a role in the final brachiopod decline, as bioturbating ecosystem engineers transformed benthic habitats in the Mesozoic and Cenozoic.
Scaling Data from Multiple Sources
Authors: Enamorado Ted , López-Moctezuma Gabriel , Ratkovic Marc
Published: November 2020

We introduce a method for scaling two datasets from different sources. The proposed method estimates a latent factor common to both datasets as well as an idiosyncratic factor unique to each. In addition, it offers a flexible modeling strategy that permits the scaled locations to be a function of covariates, and efficient implementation allows for inference through resampling. A simulation study shows that our proposed method improves over existing alternatives in capturing the variation common to both datasets, as well as the latent factors specific to each. We apply our proposed method to vote and speech data from the 112th U.S. Senate. We recover a shared subspace that aligns with a standard ideological dimension running from liberals to conservatives, while recovering the words most associated with each senator’s location. In addition, we estimate a word-specific subspace that ranges from national security to budget concerns, and a vote-specific subspace with Tea Party senators on one extreme and senior committee leaders on the other.
Mapping Political Communities: A Statistical Analysis of Lobbying Networks in Legislative Politics
Authors: Kim In Song , Kunisky Dmitriy
Published: November 2020

We propose a new methodology for inferring political actors’ latent memberships in communities of collective activity that drive their observable interactions. Unlike existing methods, the proposedBipartite Link Community Model(biLCM) (1) applies to two groups of actors, (2) takes into account that actors may be members of more than one community, and (3) allows a pair of actors to interact in more than one way. We apply this method to characterize legislative communities of special interest groups and politicians in the 113th U.S. Congress. Previous empirical studies of interest group politics have been limited by the difficulty of observing the ties between interest groups and politicians directly. We therefore first construct an original dataset that connects the politicians who sponsor congressional bills with the interest groups that lobby on those bills based on more than two million textual descriptions of lobbying activities. We then use thebiLCMto make quantitative measurements of actors’ community memberships ranging from narrow targeted interactions according to industry interests and jurisdictional committee membership to broad multifaceted connections across multiple policy domains.
Improved reporting of habitual food intake after confrontation with earlier results on food reporting
Authors: Goris Annelies H. C. , Westerterp Klaas R.
Published: November 2020

The aim of the present study was to improve the reporting of food intake by confronting subjects with their way of reporting food intake, e.g. under-recording and/or undereating. To minimize portion size errors, eighteen female dietitians were recruited as subjects. Energy- and water intake were measured for 1 week with a weighed dietary record. Resting metabolic rate was measured with an open-circuit ventilated-hood indirect calorimeter, and physical activity was measured with an accelerometer for movement registration. Water loss was estimated with 2H-labelled water. Energy balance was checked for by measuring empty body-weight 1 week before the start, at the start and at the end of the recording week. In the first part of the study, the change in body weight in the non-recording week was 0·14 kg and in the recording week -0·45 kg (P 0·02), indicating 12 % undereating. Total water intake closely matched measured water loss, indicating a high recording precision. There was under-reporting of habitual food intake that could be fully explained by undereating. In the second part of the study, subjects were confronted with these results and the protocol was repeated. This time there was no significant change in body weight in the recording week, indicating no undereating. The reporting of habitual food intake had been improved. In conclusion, in the studied group of highly motivated lean women, under-reporting of habitual food intake (here due to undereating) could be eliminated by confrontation with the results of this phenomenon.
Context-specific abnormalities of the central executive network in first-episode psychosis: relationship with cognition
Authors: Sarpal Deepak K. , Tarcijonas Goda , Calabro Finnegan J. , Foran William , Haas Gretchen L. , Luna Beatriz , Murty Vishnu P.
Published: November 2020

Background

Cognitive impairments, which contribute to the profound functional deficits observed in psychotic disorders, have found to be associated with abnormalities in trial-level cognitive control. However, neural tasks operate within the context of sustained cognitive states, which can be assessed with ‘background connectivity’ following the removal of task effects. To date, little is known about the integrity of brain processes supporting the maintenance of a cognitive state in individuals with psychotic disorders. Thus, here we examine background connectivity during executive processing in a cohort of participants with first-episode psychosis (FEP).

Methods

The following fMRI study examined background connectivity of the dorsolateral prefrontal cortex (DLPFC), during working memory engagement in a group of 43 patients with FEP, relative to 35 healthy controls (HC). Findings were also examined in relation to measures of executive function.

Results

The FEP group relative to HC showed significantly lower background DLPFC connectivity with bilateral superior parietal lobule (SPL) and left inferior parietal lobule. Background connectivity between DLPFC and SPL was also positively associated with overall cognition across all subjects and in our FEP group. In comparison, resting-state frontoparietal connectivity did not differ between groups and was not significantly associated with overall cognition, suggesting that psychosis-related alterations in executive networks only emerged during states of goal-oriented behavior.

Conclusions

These results provide novel evidence indicating while frontoparietal connectivity at rest appears intact in psychosis, when engaged during a cognitive state, it is impaired possibly undermining cognitive control capacities in FEP.
Suicidal/self-harm behaviors among cancer patients: a population-based competing risk analysis
Authors: Men Vera Yu , Emery Clifton Robert , Lam Tai-Chung , Yip Paul Siu Fai
Published: November 2020

Background

Cancer patients had elevated risk of suicidality. However, few researches studied the risk/protective factors of suicidal/self-harm behaviors considering the competing risk of death. The objective of this study is to systematically investigate the risk of suicidal/self-harm behaviors among Hong Kong cancer patients as well as the contributing factors.

Methods

Patients aged 10 or above who received their first cancer-related hospital admission (2002–2009) were identified and their inpatient medical records were retrieved. They were followed for 365 days for suicidal/self-harm behaviors or death. Cancer-related information and prior 2-year physical and psychiatric comorbidities were also identified. Competing risk models were performed to explore the cumulative incidence of suicidal/self-harm behavior within 1 year as well as its contributing factors. The analyses were also stratified by age and gender.

Results

In total, 152 061 cancer patients were included in the analyses. The cumulative incidence of suicidal/self-harm behaviors within 1 year was 717.48/100 000 person-years. Overall, cancer severity, a history of suicidal/self-harm behaviors, diabetes and hypertension were related to the risk of suicidal/self-harm behaviors. There was a U-shaped association between age and suicidal/self-harm behaviors with a turning point at 58. Previous psychiatric comorbidities were not related to the risk of suicidal/self-harm behaviors. The stratified analyses confirmed that the impact of contributing factors varied by age and gender.

Conclusions

Cancer patients were at risk of suicidal/self-harm behaviors, and the impacts of related factors varied by patients' characteristics. Effective suicide prevention for cancer patients should consider the influence of disease progress and the differences in age and gender.
Health literacy and age-related health-care utilisation: a multi-dimensional approach
Authors: Gerich Joachim , Moosbrugger Robert , Heigl Christoph
Published: November 2020

Inefficient health service utilisation puts pressure on health systems and may cause such negative individual consequences as over-medicalisation or exacerbation of health problems. While previous research has considered the key relevance of health literacy (HL) for efficient use of health services, the results of that research have been somewhat inconclusive. Possible reasons for diverging results of prior research may be grounded in different measurement concepts of HL and the disregarding of age-specific effects. This paper analyses the association between individuals’ HL typology based on a two-dimensional concept and indicators of health service utilisation measured by registered data covering the number of doctor visits and medication costs. Our results confirm a significant interaction effect between age and HL typology. The age-related increase in health service utilisation is strongest for individuals with the combination of high subjective HL but low health-related knowledge, while the smallest increase is for individuals with the constellation of high subjective HL combined with high health-related knowledge. Individuals with specific constellations of HL (that is, individuals with high subjective HL but low health-related knowledge) are associated with reduced service utilisation in younger ages but higher service utilisation in later stages of life, compared to other groups. These results are likely to be attributed to a higher external health-related locus of control and more traditional paternalistic role expectations in such groups.
Explaining Latin America's persistent defaults: an analysis of the debtor–creditor relations in London, 1822–1914
Authors: Flores Zendejas Juan
Published: November 2020

This article analyses the reasons why most Latin American governments frequently defaulted on their debts during the nineteenth century. Contrary to previous works, which focused on domestic factors, I argue that supply-side factors were equally important. The regulatory framework at the London Stock Exchange prevented defaulting governments from having access to the capital market. Therefore, the implicit incentive for underwriting banks and governments was to accelerate negotiations with bondholders, particularly during periods of high liquidity. Frequently, however, settlements were short-lived. In contrast, certain merchant banks opted to delay or refuse a settlement if they judged that the risk of a renewed default was too high. In such cases, even if negotiations were extended, the final agreements were more often respected, allowing governments to improve their repayment record.
The COVID-19 pandemic and its implications for the food information environment in Brazil
Authors: Rodrigues Michele Bittencourt , Matos Juliana de Paula , Horta Paula Martins
Published: November 2020

The food information environment includes food advertising disseminated in various media. With the COVID-19 pandemic and the shutdown of schools, universities, non-essential commerce, public leisure areas, bars, restaurants, among others, the food information environment has changed in Brazil. People spent more time at home which led to greater exposure to television and internet advertising content. During the COVID-19 pandemic, the food production sector has invested in new ways to advertise their products that include advertising messages of support, empathy and solidarity, as well as social responsibility campaigns looking for self-promotion such as food donation and financial aids. Sponsoring online events promoted by Brazilian musicians on social media was also enhanced during the pandemic and allowed food companies to become part of the consumer’s leisure and entertainment moments. The advertising strategies adopted by the food industry during the COVID-19 pandemic are used to generate market demands, influence the consumer purchase decision and increase their loyalty to the supplier brands. Consequently, individuals may have been more vulnerable to excessive consumption of ultra-processed foods during this health crisis. This commentary aims to describe the changes in the food information environment during the COVID-19 pandemic in Brazil and propose a pathway to promote a healthier food information environment after this health crisis. Perspectives for promoting a healthier food information environment after the pandemic are also discussed, focusing on regulating food advertising with a shared responsibility between government, the food industry, the academy and civil society.
INFINITARY COMMUTATIVITY AND ABELIANIZATION IN FUNDAMENTAL GROUPS
Authors: BRAZAS JEREMY , GILLESPIE PATRICK
Published: November 2020

Infinite product operations are at the forefront of the study of homotopy groups of Peano continua and other locally path-connected spaces. In this paper, we define what it means for a space X to have infinitely commutative

$\pi _1$
-operations at a point

$x\in X$
. Using a characterization in terms of the Specker group, we identify several natural situations in which this property arises. Maintaining a topological viewpoint, we define the transfinite abelianization of a fundamental group at any set of points

$A\subseteq X$
in a way that refines and extends previous work on the subject.
The Sickness Behavior Inventory-Revised: Sickness behavior and its associations with depression and inflammation in patients with metastatic lung cancer
Authors: McFarland Daniel C. , Walsh Leah E. , Saracino Rebecca , Nelson Christian J. , Breitbart William , Rosenfeld Barry
Published: November 2020

Background

Inflammation may contribute to the high prevalence of depressive symptoms seen in lung cancer. “Sickness behavior” is a cluster of symptoms induced by inflammation that are similar but distinct from depressive symptoms. The Sickness Behavior Inventory-Revised (SBI-R) was developed to measure sickness behavior. We hypothesized that the SBI-R would demonstrate adequate psychometric properties in association with inflammation.

Method

Participants with stage IV lung cancer (n = 92) were evaluated for sickness behavior using the SBI-R. Concomitant assessments were made of depression (Patient Hospital Questionniare-9, Hospital Anxiety and Depression Scale) and inflammation [C-reactive protein (CRP)]. Classical test theory (CTT) was applied and multivariate models were created to explain SBI-R associations with depression and inflammation. Factor Analysis was also used to identify the underlying factor structure of the hypothesized construct of sickness behavior. A longitudinal analysis was conducted for a subset of participants.

Results

The sample mean for the 12-item SBI-R was 8.3 (6.7) with a range from 0 to 33. The SBI-R demonstrated adequate internal consistency with a Cronbach's coefficient of 0.85, which did not increase by more than 0.01 with any single-item removal. This analysis examined factor loadings onto a single factor extracted using the principle components method. Eleven items had factor loadings that exceeded 0.40. SBI-R total scores were significantly correlated with depressive symptoms (r = 0.78, p < 0.001) and CRP (r = 0.47, p < 0.001). Multivariate analyses revealed that inflammation and depressive symptoms explained 67% of SBI-R variance.

Significance of results

The SBI-R demonstrated adequate reliability and construct validity in this patient population with metastatic lung cancer. The observed findings suggest that the SBI-R can meaningfully capture the presence of sickness behavior and may facilitate a greater understanding of inflammatory depression.
Contractarian ideology and the legitimacy of government
Authors: Holcombe Randall G.
Published: November 2020

Social contract theory depicts a constitutional contract as the result of a hypothetical agreement among society's members to escape a prisoners' dilemma situation. It depicts citizens as political equals agreeing to be forced into a cooperative strategy rather than a socially suboptimal strategy that gives them the highest personal payoff. Government is the organization that forces everyone to cooperate. However, citizens can never bargain as political equals. An elite few design the rules, and others are forced to comply with them. The contractarian ideology that depicts government as acting in the general public interest legitimizes the actions of government, giving those elite few who hold government power a greater ability to use it to further their own interests, often at the expense of the masses. Within the context of a prisoners' dilemma game, contractarian ideology leads to an outcome that is socially suboptimal, but beneficial for the political elite.
Correcting Citizens’ Misperceptions about non-Western Immigrants: Corrective Information, Interpretations, and Policy Opinions
Authors: Jørgensen Frederik Juhl , Osmundsen Mathias
Published: November 2020

Can corrective information change citizens’ misperceptions about immigrants and subsequently lead to favorable immigration opinions? While prior studies from the USA document how corrections about the size of minority populations fail to change citizens’ immigration-related opinions, they do not examine how other facts that speak to immigrants’ cultural or economic dependency rates can influence immigration policy opinions. To extend earlier work, we conducted a large-scale survey experiment fielded to a nationally representative sample of Danes. We randomly expose participants to information about non-Western immigrants’ (1) welfare dependency rate, (2) crime rate, and (3) proportion of the total population. We find that participants update their factual beliefs in light of correct information, but reinterpret the information in a highly selective fashion, ultimately failing to change their policy preferences.
A novel negative regulatory mechanism of Smurf2 in BMP/Smad signaling in bone
Authors: Kushioka Junichi , Kaito Takashi , Okada Rintaro , Ishiguro Hiroyuki , Bal Zeynep , Kodama Joe , Chijimatsu Ryota , Pye Melanie , Narimatsu Masahiro , Wrana Jeffrey L. , Inoue Yasumichi , Ninomiya Hiroko , Yamamoto Shin , Saitou Takashi , Yoshikawa Hideki , Imamura Takeshi
Published: November 2020

Transforming growth factor-β (TGF-β) and bone morphogenetic protein (BMP) play important roles in bone metabolism. Smad ubiquitination regulatory factors (Smurfs) regulate TGF-β/BMP signaling via ubiquitination, resulting in degradation of signaling molecules to prevent excessive activation of TGF-β/BMP signaling. Though Smurf2 has been shown to negatively regulate TGF-β/Smad signaling, its involvement in BMP/Smad signaling in bone metabolism has not been thoroughly investigated. In the present study, we sought to evaluate the role of Smurf2 in BMP/Smad signaling in bone metabolism. Absorbable collagen sponges containing 3 μg of recombinant human BMP2 (rhBMP2) were implanted in the dorsal muscle pouches of wild type (WT) and Smurf2−/− mice. The rhBMP2-induced ectopic bone in Smurf2−/− mice showed greater bone mass, higher mineral apposition and bone formation rates, and greater osteoblast numbers than the ectopic bone in WT mice. In WT mice, the ectopic bone consisted of a thin discontinuous outer cortical shell and scant inner trabecular bone. In contrast, in Smurf2−/− mice, the induced bone consisted of a thick, continuous outer cortical shell and abundant inner trabecular bone. Additionally, rhBMP2-stimulated bone marrow stromal cells (BMSCs) from Smurf2−/− mice showed increased osteogenic differentiation. Smurf2 induced the ubiquitination of Smad1/5. BMP/Smad signaling was enhanced in Smurf2−/− BMSCs stimulated with rhBMP2, and the inhibition of BMP/Smad signaling suppressed osteogenic differentiation of these BMSCs. These findings demonstrate that Smurf2 negatively regulates BMP/Smad signaling, thereby identifying a new regulatory mechanism in bone metabolism.
Genomic profiling of T-cell activation suggests increased sensitivity of memory T cells to CD28 costimulation
Authors: Glinos Dafni A. , Soskic Blagoje , Williams Cayman , Kennedy Alan , Jostins Luke , Sansom David M. , Trynka Gosia
Published: November 2020

T-cell activation is a critical driver of immune responses. The CD28 costimulation is an essential regulator of CD4 T-cell responses, however, its relative importance in naive and memory T cells is not fully understood. Using different model systems, we observe that human memory T cells are more sensitive to CD28 costimulation than naive T cells. To deconvolute how the T-cell receptor (TCR) and CD28 orchestrate activation of human T cells, we stimulate cells using varying intensities of TCR and CD28 and profiled gene expression. We show that genes involved in cell cycle progression and division are CD28-driven in memory cells, but under TCR control in naive cells. We further demonstrate that T-helper differentiation and cytokine expression are controlled by CD28. Using chromatin accessibility profiling, we observe that AP1 transcriptional regulation is enriched when both TCR and CD28 are engaged, whereas open chromatin near CD28-sensitive genes is enriched for NF-kB motifs. Lastly, we show that CD28-sensitive genes are enriched in GWAS regions associated with immune diseases, implicating a role for CD28 in disease development. Our study provides important insights into the differential role of costimulation in naive and memory T-cell responses and disease susceptibility.
Adolescent alcohol, nuts, and fiber: combined effects on benign breast disease risk in young women
Authors: Berkey Catherine S. , Tamimi Rulla M. , Willett Walter C. , Rosner Bernard , Hickey Martha , Toriola Adetunji T. , Frazier A. Lindsay , Colditz Graham A.
Published: November 2020

Adolescent drinking is associated with higher risks of proliferative benign breast disease (BBD) and invasive breast cancer (BC). Furthermore, adolescent nut and fiber consumptions are associated with lower risks of benign lesions and premenopausal BC. We hypothesize that diet (nuts, fiber) may mitigate the elevated BBD risk associated with alcohol. A prospective cohort of 9031 females, 9–15 years at baseline, completed questionnaires in 1996–2001, 2003, 2005, 2007, 2010, 2013, and 2014. Participants completed food frequency questionnaires in 1996–2001. In 2005, participants (>=18 years) began reporting biopsy-confirmed BBD (N = 173 cases). Multivariable logistic regression estimated associations between BBD and cross-classified intakes (14–17 years) of alcohol and peanut butter/nuts (separately, total dietary fiber). Only 19% of participants drank in high school; drinking was associated with elevated BBD risk (OR = 1.75, 95% CI: 1.20–2.56; p = 0.004) compared to nondrinkers. Participants consuming any nuts/butter had lower BBD risk (OR = 0.64, 95% CI: 0.45–0.90; p = 0.01) compared to those consuming none. Participants in top 75% fiber intake had lower risk (OR = 0.57, 95% CI: 0.40–0.81; p = 0.002) compared to bottom quartile. Testing our hypothesis that consuming nuts/butter mitigates the elevated alcohol risk, analyzing alcohol and nuts combined found that those who consumed both had lower risk (RR = 0.47, 95% CI: 0.24–0.89; p = 0.02) compared to drinkers eating no nuts. Our analysis of alcohol and fiber together did not demonstrate risk mitigation by fiber. For high school females who drink, their BBD risk may be attenuated by consuming nuts. Due to modest numbers, future studies need to replicate our findings in adolescent/adult females. However, high school students may be encouraged to eat nuts and fiber, and to avoid alcohol, to reduce risk of BBD and for general health benefits.
A Bayesian framework for adsorption energy prediction on bimetallic alloy catalysts
Authors: Mamun Osman , Winther Kirsten T. , Boes Jacob R. , Bligaard Thomas
Published: November 2020

For high-throughput screening of materials for heterogeneous catalysis, scaling relations provides an efficient scheme to estimate the chemisorption energies of hydrogenated species. However, conditioning on a single descriptor ignores the model uncertainty and leads to suboptimal prediction of the chemisorption energy. In this article, we extend the single descriptor linear scaling relation to a multi-descriptor linear regression models to leverage the correlation between adsorption energy of any two pair of adsorbates. With a large dataset, we use Bayesian Information Criteria (BIC) as the model evidence to select the best linear regression model. Furthermore, Gaussian Process Regression (GPR) based on the meaningful convolution of physical properties of the metal-adsorbate complex can be used to predict the baseline residual of the selected model. This integrated Bayesian model selection and Gaussian process regression, dubbed as residual learning, can achieve performance comparable to standard DFT error (0.1 eV) for most adsorbate system. For sparse and small datasets, we propose an ad hoc Bayesian Model Averaging (BMA) approach to make a robust prediction. With this Bayesian framework, we significantly reduce the model uncertainty and improve the prediction accuracy. The possibilities of the framework for high-throughput catalytic materials exploration in a realistic setting is illustrated using large and small sets of both dense and sparse simulated dataset generated from a public database of bimetallic alloys available in Catalysis-Hub.org.
A primary human T-cell spectral library to facilitate large scale quantitative T-cell proteomics
Authors: Weerakoon Harshi , Potriquet Jeremy , Shah Alok K. , Reed Sarah , Jayakody Buddhika , Kapil Charu , Midha Mukul K. , Moritz Robert L. , Lepletier Ailin , Mulvenna Jason , Miles John J. , Hill Michelle M.
Published: November 2020

Data independent analysis (DIA) exemplified by sequential window acquisition of all theoretical mass spectra (SWATH-MS) provides robust quantitative proteomics data, but the lack of a public primary human T-cell spectral library is a current resource gap. Here, we report the generation of a high-quality spectral library containing data for 4,833 distinct proteins from human T-cells across genetically unrelated donors, covering ~24% proteins of the UniProt/SwissProt reviewed human proteome. SWATH-MS analysis of 18 primary T-cell samples using the new human T-cell spectral library reliably identified and quantified 2,850 proteins at 1% false discovery rate (FDR). In comparison, the larger Pan-human spectral library identified and quantified 2,794 T-cell proteins in the same dataset. As the libraries identified an overlapping set of proteins, combining the two libraries resulted in quantification of 4,078 human T-cell proteins. Collectively, this large data archive will be a useful public resource for human T-cell proteomic studies. The human T-cell library is available at SWATHAtlas and the data are available via ProteomeXchange (PXD019446 and PXD019542) and PeptideAtlas (PASS01587).
Osteoclast-expanded super-charged NK-cells preferentially select and expand CD8+ T cells
Authors: Kaur Kawaljit , Ko Meng-Wei , Ohanian Nick , Cook Jessica , Jewett Anahid
Published: November 2020

Osteoclasts (OCs) and much less dendritic cells (DCs) induce significant expansion and functional activation of NK cells, and furthermore, the OC-expanded NK cells preferentially increase the expansion and activation of CD8+ T cells by targeting CD4+ T cells. When autologous OCs were used to expand patient NK cells much lower percentages of expanded CD8+ T cells, decreased numbers of expanded NK cells and decreased functions of NK cells could be observed, and the addition of allogeneic healthy OCs increased the patients’ NK function. Mechanistically, OC-expanded NK cells were found to lyse CD4+ T cells but not CD8+ T cells suggesting potential selection of CD8+ T cells before their expansion by OC activated NK cells. In agreement, Increased IFN-γ secretion, and NK cell-mediated cytotoxicity and higher percentages of CD8+ T cells, in various tissue compartments of oral tumor-bearing hu-BLT mice in response to immunotherapy by OC-expanded NK cells were observed. Thus, our results indicate an important relationship between NK and CD8+ T cells.
Impact of different scanners and acquisition parameters on robustness of MR radiomics features based on women’s cervix
Authors: Mi Honglan , Yuan Mingyuan , Suo Shiteng , Cheng Jiejun , Li Suqin , Duan Shaofeng , Lu Qing
Published: November 2020

MR Radiomics based on cervical lesions from one single scanner has achieved promising results. However, it is a challenge to achieve clinical translation. Considering multi-scanners and non-uniform scanning parameters from different centers in a real-world medical scenario, we should first identify the influence of such conditions on the robustness of MR radiomics features (RFs) based on the female cervix. In this study, 9 healthy female volunteers were enrolled and 3 kiwis were selected as references. Each of them underwent T2 weighted imaging in three different 3.0-T MR scanners with uniform acquisition parameters, and in one MR scanner with various scanning parameters. A total of 396 RFs were extracted from their images with and without decile intensity normalization. The RFs’ reproducibility was evaluated by coefficient of variation (CV) and quartile coefficient of dispersion (QCD). Representative features were selected using the hierarchical cluster analysis and their discrimination abilities were estimated by ROC analysis through retrospective comparison with the junctional zone and the outer muscular layer of healthy cervix in patients (n = 58) with leiomyoma. This study showed that only a few RFs were robust across different MR scanners and acquisition parameters based on females’ cervix, which might be improved by decile intensity normalization method.
Genetic monogamy and mate choice in a pair-living primate
Authors: Dolotovskaya Sofya , Roos Christian , Heymann Eckhard W.
Published: November 2020

In pair-living mammals, genetic monogamy is extremely rare. One possible reason is that in socially monogamous animals, mate choice can be severely constrained, increasing the risk of inbreeding or pairing with an incompatible or low-quality partner. To escape these constraints, individuals might engage in extra-pair copulations. Alternatively, inbreeding can be avoided by dispersal. However, little is known about the interactions between mating system, mate choice, and dispersal in pair-living mammals. Here we genotyped 41 wild individuals from 14 groups of coppery titi monkeys (Plecturocebus cupreus) in Peruvian Amazon using 18 microsatellite loci. Parentage analyses of 18 young revealed no cases of extra-pair paternity, indicating that the study population is mostly genetically monogamous. We did not find evidence for relatedness- or heterozygosity-based mate choice. Despite the lack of evidence for active inbreeding avoidance via mate choice, mating partners were on average not related. We further found that dispersal was not sex-biased, with both sexes dispersing opportunistically over varying distances. Our findings suggest that even opportunistic dispersal, as long as it is not constrained, can generate sufficient genetic diversity to prevent inbreeding. This, in turn, can render active inbreeding avoidance via mate choice and extra-pair copulations less necessary, helping to maintain genetic monogamy.
Periocular skin warming promotes body heat loss and sleep onset: a randomized placebo-controlled study
Authors: Ichiba Tomohisa , Suzuki Masahiro , Aritake-Okada Sayaka , Uchiyama Makoto
Published: November 2020

Periocular skin warming was reported to have favorable effects on subjective and objective sleep quality. We hypothesized that enhancing body heat loss by periocular skin warming would reduce sleep onset and improve sleep quality. Eighteen healthy volunteers were asked to maintain wakefulness with their eyes closed for 60 min after applying either a warming or sham eye mask, followed by a 60-min sleep period. Compared to the sham, periocular warming increased the distal skin temperature and distal–proximal skin temperature gradient only during the 30-min thermal manipulation period. In the subsequent sleep period, periocular warming facilitated sleep onset, increased stage 2 sleep and electroencephalographic delta activity during the first half of the sleep period relative to the sham. These results suggest that periocular skin warming may accelerate and deepen sleep by enhancing physiological heat loss via the distal skin, mimicking physiological conditions preceding habitual sleep.
Jitter-free 40-fs 375-keV electron pulses directly accelerated by an intense laser beam and their application to direct observation of laser pulse propagation in a vacuum
Authors: Inoue Shunsuke , Sakabe Shuji , Nakamiya Yoshihide , Hashida Masaki
Published: November 2020

We report the generation of ultrashort bright electron pulses directly driven by irradiating a solid target with intense femtosecond laser pulses. The duration of electron pulses after compression by a phase rotator composed of permanent magnets was measured as 89 fs via the ponderomotive scattering of electron and laser pulses, which were almost at the compression limit due to the dispersion of the electron optics. The electron pulse compression system consisting of permanent magnets enabled extremely high timing stability between the laser pulse and electron pulse. The long-term RMS arrival time drift was below 14 fs in 4 h, which was limited by the resolution of the current setup. Because there was no time-varying field to generate jitter, the timing jitter was essentially reduced to zero. To demonstrate the capability of the ultrafast electron pulses, we used them to directly visualize laser pulse propagation in a vacuum and perform 2D mapping of the electric fields generated by low-density plasma in real time.
Peri-operative antibiotics acutely and significantly impact intestinal microbiota following bariatric surgery
Authors: Nalluri Harika , Kizy Scott , Ewing Kristin , Luthra Girish , Leslie Daniel B. , Bernlohr David A. , Sadowsky Michael J. , Ikramuddin Sayeed , Khoruts Alexander , Staley Christopher , Jahansouz Cyrus
Published: November 2020

Bariatric surgery is the most effective treatment for weight loss. Vertical sleeve gastrectomy (VSG) involves the resection of ~ 80% of the stomach and was conceived to purely restrict oral intake. However, evidence suggests more complex mechanisms, particularly postoperative changes in gut microbiota, in facilitating weight loss and resolving associated comorbidities. VSG in humans is a complex procedure and includes peri-operative antibiotics and caloric restriction in addition to the altered anatomy. The impact of each of these factors on the intestinal microbiota have not been evaluated. The aim of this study was to determine the relative contributions of each of these factors on intestinal microbiota composition following VSG prior to substantial weight loss. Thirty-two obese patients underwent one of three treatments: (1) VSG plus routine intravenous peri-operative antibiotics (n = 12), (2) VSG with intravenous vancomycin chosen for its low intestinal penetrance (n = 12), and (3) caloric restriction (n = 8). Fecal samples were evaluated for bacterial composition prior to and 7 days following each intervention. Only patients undergoing VSG with routine peri-operative antibiotics showed a significant shift in community composition. Our data support the single dose of routine peri-operative antibiotics as the most influential factor of intestinal microbial composition acutely following VSG.
The role of ACC deaminase producing bacteria in improving sweet corn (Zea mays L. var saccharata) productivity under limited availability of irrigation water
Authors: Zarei Tayebeh , Moradi Ali , Kazemeini Seyed Abdolreza , Akhgar Abdolreza , Rahi Ashfaq Ahmad
Published: November 2020

Accumulation of stress ethylene in plants due to osmotic stress is a major challenge for the achievement of optimum sweet corn crop yield with limited availability of irrigation water. A significant increase in earth’s temperature is also making the conditions more crucial regarding the availability of ample quantity of irrigation water for crops production. Plant growth promoting rhizobacteria (PGPR) can play an imperative role in this regard. Inoculation of rhizobacteria can provide resistance and adaptability to crops against osmotic stress. In addition, these rhizobacteria also have potential to solve future food security issues. That's why the current study was planned to examine the efficacious functioning ofPseudomonas fluorescensstrains on yields and physiological characteristics of sweet corn (Zea maysL. var saccharata) under different levels of irrigation. Three irrigation levels i.e., 100% (I100no stress), 80% (I80), and 60% (I60) were used during sweet corn cultivation. However, there were four rhizobacteria strains i.e.,P. fluorescensP1,P. fluorescensP3,P. fluorescensP8,P. fluorescensP14which were used in the experiment. The results showed that severe water stress (60% of plant water requirement) decreased chlorophylla, chlorophyllb, and total chlorophyll contents,Fv/Fmratio and nutrients uptake. A significant increase in F0, Fm, proline, total soluble sugars, catalase (CAT) and peroxidase (POX) activity led to less ear yield and canned seed yield. Combination of four strains significantly increased the yield traits of sweet corn i.e., ear and (44%) and canned seed yield (27%) over control. The highest promoting effect was observed in the combination of four strains treatment and followed by P1strain in reducing the harmful effects of drought stress and improving sweet corn productivity. However, P14gave minimum improvement in growth and yield indices under limited availability of water. In conclusion, combination of four strains inoculation is an efficacious approach for the achievement of better yield of sweet corn under osmotic stress.
A novel modelling approach to quantify the response of dairy goats to a high-concentrate diet
Authors: Taghipoor Masoomeh , Delattre Maud , Giger-Reverdin Sylvie
Published: November 2020

High-producing ruminants need high-concentrate diets to satisfy their nutrient requirements and meet performance objectives. However, such diets induce sub-acute ruminal acidosis (SARA), which will adversely affect dry matter intake and lead to lower production performance. This work develops a novel modelling approach to quantify the capacity of dairy goats to adapt to a high-concentrate diet challenge at the individual level. The animal model used was dairy goats (from Saanen or Alpine breed), and rumen pH was used as the indicator of the response. A three-step modelling procedure was developed to quantify daily scores and produce a single global index for animals’ adaptive response to the new diet. The first step summarizes the post-prandial kinetics of rumen acid status using three synthetic variables. In the second step, the effect of time on the response of goats is described, in the short and long terms. In the last step, a metric based on phase trajectories ranks goats for their resilience capacity. This modelling procedure showed a high variability among the goats in response to the new diet, highlighting in particular their daily and general strategies to buffer the effect of the diet change. Two main categories of adaptive strategies were observed: (i) acid status increased, but the goats tried to minimize its variations, and (ii) acid status oscillated between increases and decreases. Such phenotyping, alongside other behavioral, digestive, and metabolic measures, can help to determine biomarkers of goats’ capacity to adapt to diets of higher nutritive value and to increase production performance without compromising their health status. Quantifying the capacity of goats to buffer the effect of highly fermentable diets helps to better adapt feed to animals in precision livestock farming. This procedure is generic and can be adapted to any indicator of animal health and performance. In particular, several indicators can be combined to assess multi-performance, which is of major interest in the context of selection for robust animals.
Effects of inflammatory and anti-inflammatory environments on the macrophage mitochondrial function
Authors: Ji Dong , Yin Jian-yun , Li Dan-feng , Zhu Chang-tai , Ye Jian-ping , Pan Yuan-qing
Published: November 2020

Mitochondrial response to inflammation is crucial in the metabolic adaptation to infection. This study aimed to explore the mitochondrial response under inflammatory and anti-inflammatory environments, with a focus on the tricarboxylic acid (TCA) cycle. Expression levels of key TCA cycle enzymes and the autophagy-related protein light chain 3b (LC3b) were determined in raw 264.7 cells treated with lipopolysaccharide (LPS) and metformin (Met). Additionally, reactive oxygen species (ROS) levels and mitochondrial membrane potential were assessed using flow cytometry. Moreover, 8-week-old C57BL/6J mice were intraperitoneally injected with LPS and Met to assess the mitochondrial response in vivo. Upon LPS stimulation, the expression of key TCA enzymes, including citrate synthase, α-ketoglutarate dehydrogenase, and isocitrate dehydrogenase 2, and the mitochondrial membrane potential decreased, whereas the levels of LC3b and ROS increased. However, treatment with Met inhibited the reduction of LPS-induced enzyme levels as well as the elevation of LC3b and ROS levels. In conclusion, the mitochondrial TCA cycle is affected by the inflammatory environment, and the LPS-induced effects can be reversed by Met treatment.
Impact of deranged B cell subsets distribution in the development of HCV-related cirrhosis and HCC in type two diabetes mellitus
Authors: Abdelwahab Fadwa A. , Hassanein Khaled M. , Hetta Helal F. , Abdelmalek Mohamed O. , Zahran Asmaa M. , El-Badawy Omnia
Published: November 2020

Type II diabetes (T2D) may worsen the course of hepatitis C virus infection with a greater risk of liver cirrhosis (LC) and hepatocellular carcinoma (HCC). In chronic viral infections, the deranged B cell subset signifies uncontrolled disease. The study aimed to verify the relation between B cell subsets’ distribution and liver disease progression in chronic hepatitis C (CHC) patients with T2D. A total of 67 CHC patients were divided into two groups; 33 non-diabetic and 34 with T2D. Each group was subdivided into CHC-without LC or HCC (N-CHC), CHC-with LC (CHC-LC), and CHC-with HCC (CHC-HCC). Twenty-seven healthy individuals also participated as controls. Flow cytometry was used to analyze CD19+ B cell subsets based on the expression of CD24 and CD38. CD19+CD24hiCD38hi Immature/transitional B cells elevated in diabetic than non-diabetic patients. In diabetic patients, while CD19+CD24+CD38− primarily memory B cells were higher in CHC-N and CHC-HCC groups than LC with a good predictive accuracy of LC, the opposite was observed for CD19+CD24−CD38− new memory B cells. Only in diabetic patients, the CD19+CD24intCD38int naïve mature B cells were high in CHC-HCC patients with good prognostic accuracy of HCC. Merely in diabetic patients, several correlations were observed between B cell subsets and liver function. Immature/transitional B cells increase remarkably in diabetic CHCpatients and might have a role in liver disease progression. Memory and Naïve B cells are good potential predictors of LC and HCCin diabetic CHCpatients, respectively. Further studies are needed to investigate the role of the CD19+CD24−CD38− new memory B cells in disease progression in CHC patients.