bluuebunny/crossref_metadata_2025_split huggingface dataset:
Ozone exposure upregulates the expression of host susceptibility protein TMPRSS2 to SARS-CoV-2
Authors: Vo Thao , Paudel Kshitiz , Choudhary Ishita , Patial Sonika , Saini Yogesh 
Published: January 2022

AbstractSARS-CoV-2, a novel coronavirus and an etiologic agent for the current global health emergency, causes acute infection of the respiratory tract leading to severe disease and significant mortality. Ever since the start of SARS-CoV-2, also known as the COVID-19 pandemic, countless uncertainties have been revolving around the pathogenesis and epidemiology of the SARS-CoV-2 infection. While air pollution has been shown to be strongly correlated to increased SARS-CoV-2 morbidity and mortality, whether environmental pollutants such as ground-level ozone affects the susceptibility of individuals to SARS-CoV-2 is not yet established. To investigate the impact of ozone inhalation on the expression levels of signatures associated with host susceptibility to SARS-CoV-2, we analyzed lung tissues collected from mice that were sub-chronically exposed to air or 0.8 ppm ozone for three weeks (4 h/night, 5 nights/week), and analyzed the expression of signatures associated with host susceptibility to SARS-CoV-2. SARS-CoV-2 entry into the host cells is dependent on the binding of the virus to the host cellular receptor, angiotensin-converting enzyme (ACE2), and its subsequent proteolytic priming by the host-derived protease, transmembrane protease serine 2 (TMPRSS2). The Ace2 transcripts were significantly elevated in the parenchyma, but not in the extrapulmonary airways and alveolar macrophages, from ozone-exposed mice. The TMPRSS2 protein and Tmprss2 transcripts were significantly elevated in the extrapulmonary airways, parenchyma, and alveolar macrophages from ozone-exposed mice. A significant proportion of additional known SARS-CoV-2 host susceptibility genes were upregulated in alveolar macrophages and parenchyma from ozone-exposed mice. Our data indicate that the unhealthy levels of ozone in the environment may predispose individuals to severe SARS-CoV-2 infection. Given the severity of this pandemic and the challenges associated with direct testing of host-environment interactions in clinical settings, we believe that this ozone exposure-based study informs the scientific community of the potentially detrimental effects of the ambient ozone levels in determining the host susceptibility to SARS-CoV-2.
Full scale tests of various buried flexible structures under failure load
Authors: Wysokowski Adam 
Published: January 2022

AbstractThe aim of the tests described in the paper was conducting a displacement and stress analysis of four buried flexible structures made in different technologies under failure load. Generally, the laboratory tests carried out on in full scale confirms that all four culvert models of the work safely despite the reduction of the backfill layer over the structures to 0.3 m (less than according to standard recommendations) and increasing the load to 1960 -2000 kN (almost 4 times more than according to standards and recommendations). In the case of a PE plastic pipe, the main measured parameter was displacement and for other steel research models it was the stress. The obtained maximum values of these parameters were compared with the permissible standard values. Maximum displacement values were recorded in the crowns of the structures up to 12.57 mm for PE plastic pipe model. The maximum stresses for steel structures were 85.28 MPa (for corrugated steel pipe), 111.5 MPa (Box Culvert) and 447.9 MPa (Multi Plate non-circular structure). Despite the exceed stress in the case of Multi Plate structure, the steel structure did not lose its stability. The analyses carried out were aimed at determining database, which in its assumption, allows the verification of calculations performed by a numerical method such as FEM.
Gene-environment interactions between CREB1 and childhood maltreatment on aggression among male Chinese adolescents
Authors: Zhang Yanmei , Kang Chun , Yang Haijun , Yang Min , Wei Sha , Wang Yan , Huang Xing , Yu Yizhen 
Published: January 2022

AbstractBoth the genetic and environmental factors may affect aggression susceptibility. However, the conclusions of these associations remain discrepant. In addition, studies that explored the association between CREB1 and aggression were meager. The aim of our present study was to assess whether CREB1 polymorphisms were related to aggression and also to explore the interactive effects of CREB1 variants and childhood maltreatment on aggression. A total of 488 individuals with aggressive behavior and 488 controls were recruited. Aggression and childhood maltreatment were surveyed by standardized self-administered questionnaires. Buccal cells were also obtained and genotyping was conducted using SNPscan. Logistic regressions were applied to investigate both individual effects of CREB1 polymorphisms and the interactive influences with childhood maltreatment on aggression. We found that adolescents who carried the rs4675690 T allele in CREB1 showed a higher level of aggression compared with those who carried wildtype genotypes (CC) under the dominant model (OR = 1.67, 95% CI, 1.16–2.40) after controlling for age and childhood maltreatment. Moreover, we also found that rs4675690 T allele had a synergic additive interaction with childhood sexual abuse and emotional neglect on aggression. The significant interactive effects of CREB1 polymorphisms and childhood maltreatment on aggression were reported for the first time.
Responses of birds and mammals to long-established wind farms in India
Authors: Kumara Honnavalli N. , Babu S. , Rao G. Babu , Mahato Santanu , Bhattacharya Malyasri , Rao Nitin Venkatesh Ranga , Tamiliniyan D. , Parengal Harif , Deepak D. , Balakrishnan Athira , Bilaskar Mahesh 
Published: January 2022

AbstractWind turbines have been recognised as an alternative and clean-energy source with a low environmental impact. The selection of sites for wind-farm often creates serious conservation concerns on biodiversity. Wind turbines have become a serious threat to migratory birds as they collide with the turbine blades in some regions across the globe, while the impact on terrestrial mammals is relatively less explored. In this context, we assessed the responses of birds and mammals to the wind turbines in central Karnataka, India from January 2016 to May 2018 using carcass searches to quantify animal collisions (i.e., birds and bats), fixed radius point count for bird population parameters, and an occupancy framework for assessing the factor that determines the spatial occurrence of terrestrial mammals. The mean annual animal fatality rate per wind turbine was 0.26/year. Species richness, abundance, and unique species of birds were relatively higher in control sites over wind turbine sites. Species and functional compositions of birds in control sites were different from wind turbine sites, explaining the varied patterns of bird assemblages of different feeding guilds. Blackbuck, Chinkara, Golden Jackal, and Jungle Cat were less likely to occupy sites with a high number of wind turbines. The study indicates that certain bird and mammal species avoided wind turbine-dominated sites, affecting their distribution pattern. This is of concern to the management of the forested areas with wind turbines. We raised conservation issues and mitigating measures to overcome the negative effects of wind turbines on animals.
Intranasal insulin modulates cerebrospinal fluid markers of neuroinflammation in mild cognitive impairment and Alzheimer’s disease: a randomized trial
Authors: Kellar Derek , Register Thomas , Lockhart Samuel N. , Aisen Paul , Raman Rema , Rissman Robert A. , Brewer James , Craft Suzanne 
Published: January 2022

AbstractIntranasal insulin (INI) has shown promise as a treatment for Alzheimer’s disease (AD) in pilot clinical trials. In a recent phase 2 trial, participants with mild cognitive impairment (MCI) or AD who were treated with INI with one of two delivery devices showed improved cerebral spinal fluid (CSF) biomarker profiles and slower symptom progression compared with placebo. In the cohort which showed benefit, we measured changes in CSF markers of inflammation, immune function and vascular integrity and assessed their relationship with changes in cognition, brain volume, and CSF amyloid and tau concentrations. The insulin-treated group had increased CSF interferon-γ (p = 0.032) and eotaxin (p = 0.049), and reduced interleukin-6 (p = 0.048) over the 12 month trial compared to placebo. Trends were observed for increased CSF macrophage-derived chemokine for the placebo group (p = 0.083), and increased interleukin-2 in the insulin-treated group (p = 0.093). Insulin-treated and placebo groups showed strikingly different patterns of associations between changes in CSF immune/inflammatory/vascular markers and changes in cognition, brain volume, and amyloid and tau concentrations. In summary, INI treatment altered the typical progression of markers of inflammation and immune function seen in AD, suggesting that INI may promote a compensatory immune response associated with therapeutic benefit.
Studying the clinical, radiological, histological, microbiological, and immunological evolution during the different COVID-19 disease stages using minimal invasive autopsy
Authors: D’Onofrio Valentino , Keulen Lotte , Vandendriessche Annelore , Dubois Jasperina , Cartuyvels Reinoud , Vanden Abeele Marie-Elena , Fraussen Judith , Vandormael Patrick , Somers Veerle , Achten Ruth , Dendooven Amélie , Driessen Ann , Augsburg Lukasz , Hellings Niels , Lammens Martin , Vanrusselt Jan , Cox Janneke 
Published: January 2022

AbstractThe WHO defines different COVID-19 disease stages in which the pathophysiological mechanisms differ. We evaluated the characteristics of these COVID-19 disease stages. Forty-four PCR-confirmed COVID-19 patients were included in a prospective minimal invasive autopsy cohort. Patients were classified into mild-moderate (n = 4), severe-critical (n = 32) and post-acute disease (n = 8) and clinical, radiological, histological, microbiological and immunological data were compared. Classified according to Thoracic Society of America, patients with mild-moderate disease had no typical COVID-19 images on CT-Thorax versus 71.9% with typical images in severe-critical disease and 87.5% in post-acute disease (P < 0.001). Diffuse alveolar damage was absent in mild-moderate disease but present in 93.8% and 87.5% of patients with severe-critical and post-acute COVID-19 respectively (P = 0.002). Other organs with COVID-19 related histopathological changes were liver and heart. Interferon-γ levels were significantly higher in patients with severe-critical COVID-19 (P = 0.046). Anti-SARS CoV-2 IgG was positive in 66%, 40.6% and 87.5% of patients with mild-moderate, severe-critical and post-acute COVID-19 respectively (n.s.). Significant differences in histopathological and immunological characteristics between patients with mild-moderate disease compared to patients with severe-critical disease were found, whereas differences between patients with severe-critical disease and post-acute disease were limited. This emphasizes the need for tailored treatment of COVID-19 patients.
Non-cytopathic herpes simplex virus type-1 isolated from acyclovir-treated patients with recurrent infections
Authors: Roy Subrata , Sukla Soumi , De Abhishek , Biswas Subhajit 
Published: January 2022

AbstractHerpes simplex virus (HSV) usually produces cytopathic effect (CPE) within 24-72 h post-infection (P.I.). Clinical isolates from recurrent HSV infections in patients on Acyclovir therapy were collected between 2016 and 2019 and tested in cell cultures for cytopathic effects and further in-depth characterization. Fourteen such isolates did not show any CPE in A549 or Vero cell lines even at 120 h P.I. However, these cultures remained positive for HSV-DNA after several passages. Sequence analysis revealed that the non-CPE isolates were all HSV-1. Analysis of the thymidine kinase gene from the isolates revealed several previously reported and two novel ACV-resistant mutations. Immunofluorescence and Western blot data revealed a low-level expression of the immediate early protein, ICP4. Late proteins like ICP5 or capsid protein, VP16 were almost undetectable in these isolates. AFM imaging revealed that the non-CPE viruses had structural deformities compared to wild-type HSV-1. Our findings suggest that these strains are manifesting an unusual phenomenon of being non-CPE herpesviruses with low level of virus protein expressions over several passages. Probably these HSV-1 isolates are evolving towards a more “cryptic” form to establish chronic infection in the host thereby unraveling yet another strategy of herpesviruses to evade the host immune system.
Rhizosphere enzyme activities and microorganisms drive the transformation of organic and inorganic carbon in saline–alkali soil region
Authors: Qu Yunke , Tang Jie , Liu Ben , Lyu Hang , Duan Yucong , Yang Yao , Wang Sining , Li Zhaoyang 
Published: January 2022

AbstractWestern Jilin Province is one of the world's three major saline–alkali land distribution areas, and is also an important area of global climate change and carbon cycle research. Rhizosphere soil microorganisms and enzymes are the most active components in soil, which are closely related to soil carbon cycle and can reflect soil organic carbon (SOC) dynamics sensitively. Soil inorganic carbon (SIC) is the main existing form of soil carbon pool in arid saline–alkali land, and its quantity distribution affects the pattern of soil carbon accumulation and storage. Previous studies mostly focus on SOC, and pay little attention to SIC. Illumina Miseq high-throughput sequencing technology was used to reveal the changes of community structure in three maize fields (M1, M2 and M3) and three rice fields (R1, R2 and R3), which were affected by different levels of salinization during soil development. It is a new research topic of soil carbon cycle in saline–alkali soil region to investigate the effects of soil microorganisms and soil enzymes on the transformation of SOC and SIC in the rhizosphere. The results showed that the root—soil—microorganism interaction was changed by saline–alkali stress. The activities of catalase, invertase, amylase and β-glucosidase decreased with increasing salinity. At the phylum level, most bacterial abundance decreases with increasing salinity. However, the relative abundance of Proteobacteria and Firmicutes in maize field and Firmicutes, Proteobacteria and Nitrospirae in rice field increased sharply under saline–alkali stress. The results of redundancy analysis showed that the differences of rhizosphere soil between the three maize and three rice fields were mainly affected by ESP, pH and soil salt content. In saline–alkali soil region, β-glucosidase activity and amylase were significantly positively correlated with SOC content in maize fields, while catalase and β-glucosidase were significantly positively correlated with SOC content in rice fields. Actinobacteria, Bacteroidetes and Verrucomicrobia had significant positive effects on SOC content of maize and rice fields. Proteobacteria, Gemmatimonadetes and Nitrospirae were positively correlated with SIC content. These enzymes and microorganisms are beneficial to soil carbon sequestration in saline–alkali soils.
Wounding response in Porifera (sponges) activates ancestral signaling cascades involved in animal healing, regeneration, and cancer
Authors: Wu Yu-Chen , Franzenburg Soeren , Ribes Marta , Pita Lucía 
Published: January 2022

AbstractUpon injury, the homeostatic balance that ensures tissue function is disrupted. Wound-induced signaling triggers the recovery of tissue integrity and offers a context to understand the molecular mechanisms for restoring tissue homeostasis upon disturbances. Marine sessile animals are particularly vulnerable to chronic wounds caused by grazers that can compromise prey’s health. Yet, in comparison to other stressors like warming or acidification, we know little on how marine animals respond to grazing. Marine sponges (Phylum Porifera) are among the earliest-diverging animals and play key roles in the ecosystem; but they remain largely understudied. Here, we investigated the transcriptomic responses to injury caused by a specialist spongivorous opisthobranch (i.e., grazing treatment) or by clipping with a scalpel (i.e., mechanical damage treatment), in comparison to control sponges. We collected samples 3 h, 1 d, and 6 d post-treatment for differential gene expression analysis on RNA-seq data. Both grazing and mechanical damage activated a similar transcriptomic response, including a clotting-like cascade (e.g., with genes annotated as transglutaminases, metalloproteases, and integrins), calcium signaling, and Wnt and mitogen-activated protein kinase signaling pathways. Wound-induced gene expression signature in sponges resembles the initial steps of whole-body regeneration in other animals. Also, the set of genes responding to wounding in sponges included putative orthologs of cancer-related human genes. Further insights can be gained from taking sponge wound healing as an experimental system to understand how ancient genes and regulatory networks determine healthy animal tissues.
Sensitivity of candling as routine method for the detection and recovery of ascaridoids in commercial fish fillets
Authors: Mercken E. , Van Damme I. , Šoba B. , Vangeenberghe S. , Serradell A. , De Sterck T. , Lumain J. P. L. , Gabriël S. 
Published: January 2022

AbstractAscaridoids are one of the main parasitic hazards in commercial fish. Candling is the current industrial screening method whereby visible ascaridoid larvae are detected on a light table and manually removed. The aim of this study was to assess the sensitivity (Se) and negative predictive value (NPV) of this method. To make targeted recommendations to the fish industry, the Se was calculated per fish part, larval genus, and fish species. All fish parts (n = 615) were first candled, and larvae were collected, followed by enzymatic digestion to recover the remaining larvae. A fish part was considered positive if at least one larva was detected using candling and/or enzymatic digestion, with both methods combined as reference standard. The overall Se of candling was 31% (95% CI 23–41%) and NPV was 87% (95% CI 85–90%). The Se increased with higher numbers of larvae/100 g infected muscle. A low NPV was found for the belly flaps, therefore we either advise the removal or proper freezing of this part. Lastly, the Se and larval recovery was the highest for the darker and larger Pseudoterranova spp. larvae. Due to the low overall efficacy of candling, further assessment of its cost–benefit and impact on consumers’ health risk should be conducted.
Predicting clinical outcomes of cancer patients with a p53 deficiency gene signature
Authors: Schaafsma Evelien , Takacs Eric M. , Kaur Sandeep , Cheng Chao , Kurokawa Manabu 
Published: January 2022

AbstractThe tumor suppressor p53, encoded by the TP53 gene, is mutated or nullified in nearly 50% of human cancers. It has long been debated whether TP53 mutations can be utilized as a biomarker to predict clinical outcomes of cancer patients. In this study, we applied computational methods to calculate p53 deficiency scores (PDSs) that reflect the inactivation of the p53 pathway, instead of TP53 mutation status. Compared to TP53 mutation status, the p53 deficiency gene signature is a powerful predictor of overall survival and drug sensitivity in a variety of cancer types and treatments. Interestingly, the PDSs predicted clinical outcomes more accurately than drug sensitivity in cell lines, suggesting that tumor heterogeneity and/or tumor microenvironment may play an important role in predicting clinical outcomes using p53 deficiency gene signatures.
Skin microbiome profile of healthy Cameroonians and Japanese
Authors: Ogai Kazuhiro , Nana Benderli Christine , Lloyd Yukie Michelle , Arios John Paul , Jiyarom Boonyanudh , Awanakam Honore , Esemu Livo Forgu , Hori Aki , Matsuoka Ayaka , Nainu Firzan , Megnekou Rosette , Leke Rose Gana Fomban , Ekali Gabriel Loni , Okamoto Shigefumi , Kuraishi Takayuki 
Published: January 2022

AbstractThe commensal microbes of the skin have a significant impact on dermal physiology and pathophysiology. Racial and geographical differences in the skin microbiome are suggested and may play a role in the sensitivity to dermatological disorders, including infectious diseases. However, little is known about the skin microbiome profiles of people living in Central Africa, where severe tropical infectious diseases impose a burden on the inhabitants. This study provided the skin profiles of healthy Cameroonians in different body sites and compared them to healthy Japanese participants. The skin microbiome of Cameroonians was distinguishable from that of Japanese in all skin sites examined in this study. For example, Micrococcus was predominantly found in skin samples of Cameroonians but mostly absent in Japanese skin samples. Instead, the relative abundance of Cutibacterium species was significantly higher in healthy Japanese. Principal coordinate analysis of beta diversity showed that the skin microbiome of Cameroonians formed different clusters from Japanese, suggesting a substantial difference in the microbiome profiles between participants of both countries. In addition, the alpha diversity in skin microbes was higher in Cameroonians than Japanese participants. These data may offer insights into the determinant factors responsible for the distinctness of the skin microbiome of people living in Central Africa and Asia.
Integrated deep learning framework for accelerated optical coherence tomography angiography
Authors: Kim Gyuwon , Kim Jongbeom , Choi Woo June , Kim Chulhong , Lee Seungchul 
Published: January 2022

AbstractLabel-free optical coherence tomography angiography (OCTA) has become a premium imaging tool in clinics to obtain structural and functional information of microvasculatures. One primary technical drawback for OCTA, however, is its imaging speed. The current protocols require high sampling density and multiple acquisitions of cross-sectional B-scans to form one image frame, resulting in low acquisition speed. Recently, deep learning (DL)-based methods have gained attention in accelerating the OCTA acquisition process. They achieve faster acquisition using two independent reconstructing approaches: high-quality angiograms from a few repeated B-scans and high-resolution angiograms from undersampled data. While these approaches have shown promising results, they provide limited solutions that only partially account for the OCTA scanning mechanism. Herein, we propose an integrated DL method to simultaneously tackle both factors and further enhance the reconstruction performance in speed and quality. We designed an end-to-end deep neural network (DNN) framework with a two-staged adversarial training scheme to reconstruct fully-sampled, high-quality (8 repeated B-scans) angiograms from their corresponding undersampled, low-quality (2 repeated B-scans) counterparts by successively enhancing the pixel resolution and the image quality. Using an in-vivo mouse brain vasculature dataset, we evaluate our proposed framework through quantitative and qualitative assessments and demonstrate that our method can achieve superior reconstruction performance compared to the conventional means. Our DL-based framework can accelerate the OCTA imaging speed from 16 to 256$$\times $$
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while preserving the image quality, thus enabling a convenient software-only solution to enhance preclinical and clinical studies.