bluuebunny/crossref_metadata_2025_split huggingface dataset:
3D electron-beam writing at sub-15 nm resolution using spider silk as a resist
Authors: Qin Nan , Qian Zhi-Gang , Zhou Chengzhe , Xia Xiao-Xia , Tao Tiger H. 
Published: August 2021

AbstractElectron beam lithography (EBL) is renowned to provide fabrication resolution in the deep nanometer scale. One major limitation of current EBL techniques is their incapability of arbitrary 3d nanofabrication. Resolution, structure integrity and functionalization are among the most important factors. Here we report all-aqueous-based, high-fidelity manufacturing of functional, arbitrary 3d nanostructures at a resolution of sub-15 nm using our developed voltage-regulated 3d EBL. Creating arbitrary 3d structures of high resolution and high strength at nanoscale is enabled by genetically engineering recombinant spider silk proteins as the resist. The ability to quantitatively define structural transitions with energetic electrons at different depths within the 3d protein matrix enables polymorphic spider silk proteins to be shaped approaching the molecular level. Furthermore, genetic or mesoscopic modification of spider silk proteins provides the opportunity to embed and stabilize physiochemical and/or biological functions within as-fabricated 3d nanostructures. Our approach empowers the rapid and flexible fabrication of heterogeneously functionalized and hierarchically structured 3d nanocomponents and nanodevices, offering opportunities in biomimetics, therapeutic devices and nanoscale robotics.
Neutralization of SARS-CoV-2 variants by convalescent and BNT162b2 vaccinated serum
Authors: Bates Timothy A. , Leier Hans C. , Lyski Zoe L. , McBride Savannah K. , Coulter Felicity J. , Weinstein Jules B. , Goodman James R. , Lu Zhengchun , Siegel Sarah A. R. , Sullivan Peter , Strnad Matt , Brunton Amanda E. , Lee David X. , Adey Andrew C. , Bimber Benjamin N. , O’Roak Brian J. , Curlin Marcel E. , Messer William B. , Tafesse Fikadu G. 
Published: August 2021

AbstractSARS-CoV-2 and its variants continue to infect hundreds of thousands every day despite the rollout of effective vaccines. Therefore, it is essential to understand the levels of protection that these vaccines provide in the face of emerging variants. Here, we report two demographically balanced cohorts of BNT162b2 vaccine recipients and COVID-19 patients, from which we evaluate neutralizing antibody titers against SARS-CoV-2 as well as the B.1.1.7 (alpha) and B.1.351 (beta) variants. We show that both B.1.1.7 and B.1.351 are less well neutralized by serum from vaccinated individuals, and that B.1.351, but not B.1.1.7, is less well neutralized by convalescent serum. We also find that the levels of variant-specific anti-spike antibodies are proportional to neutralizing activities. Together, our results demonstrate the escape of the emerging SARS-CoV-2 variants from neutralization by serum antibodies, which may lead to reduced protection from re-infection or increased risk of vaccine breakthrough.
Oligodendrocytic Na+-K+-Cl– co-transporter 1 activity facilitates axonal conduction and restores plasticity in the adult mouse brain
Authors: Yamazaki Yoshihiko , Abe Yoshifumi , Fujii Satoshi , Tanaka Kenji F. 
Published: August 2021

AbstractThe juvenile brain presents plasticity. Oligodendrocytes are the myelinating cells of the central nervous system and myelination can be adaptive. Plasticity decreases from juvenile to adulthood. The mechanisms involving oligodendrocytes underlying plasticity are unclear. Here, we show Na+-K+-Cl– co-transporter 1 (NKCC1), highly expressed in the juvenile mouse brain, regulates the oligodendrocyte activity from juvenile to adulthood in mice, as shown by optogenetic manipulation of oligodendrocytes. The reduced neuronal activity in adults was restored by Nkcc1 overexpression in oligodendrocytes. Moreover, in adult mice overexpressing Nkcc1, long-term potentiation and learning were facilitated compared to age-matched controls. These findings demonstrate that NKCC1 plays a regulatory role in the age-dependent activity of oligodendrocytes, furthermore inducing activation of NKCC1 in oligodendrocytes can restore neuronal plasticity in the adult mouse brain.
Relationship between tooth extraction and development of medication-related osteonecrosis of the jaw in cancer patients
Authors: Soutome Sakiko , Otsuru Mitsunobu , Hayashida Saki , Murata Maho , Yanamoto Souichi , Sawada Shunsuke , Kojima Yuka , Funahara Madoka , Iwai Hiroshi , Umeda Masahiro , Saito Toshiyuki 
Published: August 2021

AbstractTooth extraction has been avoided since it has been considered a major risk factor for medication-related osteonecrosis of the jaw (MRONJ). However, MRONJ may also develop from tooth that is an infection source. This study aimed to clarify whether tooth extraction is a risk factor for the development of MRONJ in cancer patients receiving bone-modifying agents (BMAs). This retrospective observational study included 189 patients (361 jaws) from two hospitals. The risk factors of MRONJ were identified by comparing patient characteristics between those who did and did not develop MRONJ. Furthermore, the effect of tooth extraction during BMA therapy was analyzed after adjusting for confounding factors using the propensity score matching method. MRONJ occurred in 33 patients jaws. A longer duration of BMA administration, fewer number of teeth, presence of symptoms of local infection, and infected teeth were independent risk factors of MRONJ. However, tooth extraction during BMA therapy did not increase the risk. Propensity score matching analysis showed that tooth extraction significantly lowered the risk of MRONJ development. Teeth that can be an infection source increases the risk of MRONJ, and thus, they need to be extracted even during BMA administration.
Relationship of subjective and objective sleep measures with physical performance in advanced-stage lung cancer patients
Authors: Takemura Naomi , Cheung Denise Shuk Ting , Fong Daniel Yee Tak , Lee Anne Wing Mui , Lam Tai-Chung , Ho James Chung-Man , Kam Tsz Yeung , Chik Jeannie Yin Kwan , Lin Chia-Chin 
Published: August 2021

AbstractAdvanced lung cancer patients suffer from deteriorated physical function, which negatively impacts physical and psychological health. As little is known about sleep and physical function in this population, this study aimed to examine the association between subjective and objective sleep parameters and physical function among them. 164 advanced lung cancer patients were included. Objective sleep was measured by actigraphy (measured on non-dominant wrist for 72 h), and subjective sleep quality was assessed by the Pittsburgh Sleep Quality Index (PSQI). Performance-based physical function was measured by Timed Up and Go Test (TUGT), 6-Minute Walk Test (6MWT), Sit-to-Stand Test, and One-leg Standing Test. Univariable and multivariable regression analyses were employed to examine the association between sleep and physical function. Total sleep time (TST) was significantly associated with the 6MWT (β = 0.259; 95% CI 0.120, 0.398; P < 0.001), TUGT (β = − 0.012; 95% CI = − 0.017, − 0.008; P < 0.001) and Sit-to-Stand Test (β = 0.027; 95% CI = 0.018, 0.035; P < 0.001) after adjustment for multiple covariates. PSQI global score was only significantly associated with TUGT (β = 0.140; 95% CI = 0.000, 0.280; P = 0.050) after adjustment for multiple covariates. Shorter sleep duration significantly predicted poorer physical performance in advanced lung cancer patients, and more attention is required for those with less than 4.3 h of sleep on average.Trial registration: ClinicalTrials.gov, NCT03482323. Registered 29 March 2018, https://clinicaltrials.gov/ct2/show/NCT03482323; ClinicalTrials.gov, NCT04119778. Registered 8 October 2019, https://clinicaltrials.gov/ct2/show/NCT04119778.
Loss of the ciliary protein Chibby1 in mice leads to exocrine pancreatic degeneration and pancreatitis
Authors: Cyge Benjamin , Voronina Vera , Hoque Mohammed , Kim Eunice N. , Hall Jason , Bailey-Lundberg Jennifer M. , Pazour Gregory J. , Crawford Howard C. , Moon Randall T. , Li Feng-Qian , Takemaru Ken-Ichi 
Published: August 2021

AbstractPrimary cilia protrude from the apical surface of many cell types and act as a sensory organelle that regulates diverse biological processes ranging from chemo- and mechanosensation to signaling. Ciliary dysfunction is associated with a wide array of genetic disorders, known as ciliopathies. Polycystic lesions are commonly found in the kidney, liver, and pancreas of ciliopathy patients and mouse models. However, the pathogenesis of the pancreatic phenotype remains poorly understood. Chibby1 (Cby1), a small conserved coiled-coil protein, localizes to the ciliary base and plays a crucial role in ciliogenesis. Here, we report that Cby1-knockout (KO) mice develop severe exocrine pancreatic atrophy with dilated ducts during early postnatal development. A significant reduction in the number and length of cilia was observed in Cby1-KO pancreta. In the adult Cby1-KO pancreas, inflammatory cell infiltration and fibrosis were noticeable. Intriguingly, Cby1-KO acinar cells showed an accumulation of zymogen granules (ZGs) with altered polarity. Moreover, isolated acini from Cby1-KO pancreas exhibited defective ZG secretion in vitro. Collectively, our results suggest that, upon loss of Cby1, concomitant with ciliary defects, acinar cells accumulate ZGs due to defective exocytosis, leading to cell death and progressive exocrine pancreatic degeneration after birth.
Seasonal and annual changes in the microbial communities of Ofunato Bay, Japan, based on metagenomics
Authors: Kobiyama Atsushi , Rashid Jonaira , Reza Md. Shaheed , Ikeda Yuri , Yamada Yuichiro , Kudo Toshiaki , Mizusawa Nanami , Yanagisawa Saki , Ikeda Daisuke , Sato Shigeru , Ogata Takehiko , Ikeo Kazuho , Kaga Shinnosuke , Watanabe Shiho , Naiki Kimiaki , Kaga Yoshimasa , Segawa Satoshi , Tada Yumiko , Musashi Tatsuya , Mineta Katsuhiko , Gojobori Takashi , Watabe Shugo 
Published: August 2021

AbstractFive years of datasets from 2015 to 2019 of whole genome shotgun sequencing for cells trapped on 0.2-µm filters of seawater collected monthly from Ofunato Bay, an enclosed bay in Japan, were analysed, which included the 2015 data that we had reported previously. Nucleotide sequences were determined for extracted DNA from three locations for both the upper (1 m) and deeper (8 or 10 m) depths. The biotic communities analysed at the domain level comprised bacteria, eukaryotes, archaea and viruses. The relative abundance of bacteria was over 60% in most months for the five years. The relative abundance of the SAR86 cluster was highest in the bacterial group, followed by Candidatus Pelagibacter and Planktomarina. The relative abundance of Ca. Pelagibacter showed no relationship with environmental factors, and those of SAR86 and Planktomarina showed positive correlations with salinity and dissolved oxygen, respectively. The bacterial community diversity showed seasonal changes, with high diversity around September and low diversity around January for all five years. Nonmetric multidimensional scaling analysis also revealed that the bacterial communities in the bay were grouped in a season-dependent manner and linked with environmental variables such as seawater temperature, salinity and dissolved oxygen.
Exploring deep learning capabilities for surge predictions in coastal areas
Authors: Tiggeloven Timothy , Couasnon Anaïs , van Straaten Chiem , Muis Sanne , Ward Philip J. 
Published: August 2021

AbstractTo improve coastal adaptation and management, it is critical to better understand and predict the characteristics of sea levels. Here, we explore the capabilities of artificial intelligence, from four deep learning methods to predict the surge component of sea-level variability based on local atmospheric conditions. We use an Artificial Neural Networks, Convolutional Neural Network, Long Short-Term Memory layer (LSTM) and a combination of the latter two (ConvLSTM), to construct ensembles of Neural Network (NN) models at 736 tide stations globally. The NN models show similar patterns of performance, with much higher skill in the mid-latitudes. Using our global model settings, the LSTM generally outperforms the other NN models. Furthermore, for 15 stations we assess the influence of adding complexity more predictor variables. This generally improves model performance but leads to substantial increases in computation time. The improvement in performance remains insufficient to fully capture observed dynamics in some regions. For example, in the tropics only modelling surges is insufficient to capture intra-annual sea level variability. While we focus on minimising mean absolute error for the full time series, the NN models presented here could be adapted for use in forecasting extreme sea levels or emergency response.
Investigation of sustainability embodied in existing buildings: a case study of refurbishment adopted in a Chinese contemporary building
Authors: Huang Yi , Xu Chong , Xiao Yufan , Dewancker Bart 
Published: August 2021

AbstractThe Liyuan courtyard buildings are considered as contemporary architectural symbols of the spirit in Qingdao, China. The sustainability potentials embodied in the building is evaluated by building performance simulations analysis based on field investigation in this case study. Two models with optimization refurbishment were made through building simulation software. One model with façade supplemented in the insulation layers of the envelope walls and the other model with further upgrade with consideration of recycling materials mixed were discussed and estimated with building performance simulation method. The energy performance in the building and both scenarios designed can improve the energy efficiency, while the advanced model could achieve better result in the building energy behavior dramatically. Technologies innovation are proved to be good tools to improve energy performance the existing buildings by renovation actions such as insulation improvement and so on. It is concluded the sustainability regain its authentic appearance while achieve energy efficiency embodied within contemporary buildings through adaptational renovation strategies. Multicriteria considerations might influence the balanced between different factors when making decisions in the building restoration project, it is also expected to empower the fresh glory in the development of building protection and restoration.
Diagnostic usefulness of 10-step tandem gait test for the patient with degenerative cervical myelopathy
Authors: Yoo Dallah , Kang Kyung-Chung , Lee Jung-Hee , Lee Ki Young , Hwang In-Uk 
Published: August 2021

AbstractTandem gait is considered one of the most useful screening tools for gait impairment. The aim of this study is to evaluate diagnostic usefulness of 10-step tandem gait test for the patients with degenerative cervical myelopathy (DCM). Sixty-two DCM patients were compared to 55 persons without gait abnormalities as control. We counted the number of consecutive steps and graded into five according the number of steps and stability. Five grades of tandem gait were investigated for association with clinical parameters including qualitative Japanese orthopedic association (JOA) sub-score for lower extremities and Nurick scale and quantitative balance and gait assessments. The number of tandem steps were reduced and the grades of tandem gait were differently distributed in the DCM patients compared to controls (steps, 7.1 ± 3.6 versus 9.9 ± 0.4, p < 0.001; grades of 0/1/2/3/4/5, 1/13/14/15/19 versus 0/0/2/15/38, p < 0.001 in patients with DCM and control respectively). Patients with DCM showed more unstable balance and abnormal gait features including slower velocity, shorter strides, wider bases with increased stance phase of a gait cycle compared to the control group. The grades of tandem gait were correlated with JOA sub-score (r = 0.553, p < 0.001) and the Nurick scale (r = − 0.652, p < 0.001) as well as both balance and gait parameters. In DCM patients, tandem gait was impaired and correlated with severity of gait abnormality. The authors believe that 10-step tandem gait test is an objective and useful screening test for evaluating gait disturbance in patients with DCM.
Identification of key proteins in the signaling crossroads between wound healing and cancer hallmark phenotypes
Authors: López-Cortés Andrés , Abarca Estefanía , Silva Leonardo , Velastegui Erick , León-Sosa Ariana , Karolys Germania , Cabrera Francisco , Caicedo Andrés 
Published: August 2021

AbstractWound healing (WH) and cancer seem to share common cellular and molecular processes that could work in a tight balance to maintain tissue homeostasis or, when unregulated, drive tumor progression. The “Cancer Hallmarks” comprise crucial biological properties that mediate the advancement of the disease and affect patient prognosis. These hallmarks have been proposed to overlap with essential features of the WH process. However, common hallmarks and proteins actively participating in both processes have yet to be described. In this work we identify 21 WH proteins strongly linked with solid tumors by integrated TCGA Pan-Cancer and multi-omics analyses. These proteins were associated with eight of the ten described cancer hallmarks, especially avoiding immune destruction. These results show that WH and cancer's common proteins are involved in the microenvironment modification of solid tissues and immune system regulation. This set of proteins, between WH and cancer, could represent key targets for developing therapies.
Radiomics-based machine learning differentiates “ground-glass” opacities due to COVID-19 from acute non-COVID-19 lung disease
Authors: Delli Pizzi Andrea , Chiarelli Antonio Maria , Chiacchiaretta Piero , Valdesi Cristina , Croce Pierpaolo , Mastrodicasa Domenico , Villani Michela , Trebeschi Stefano , Serafini Francesco Lorenzo , Rosa Consuelo , Cocco Giulio , Luberti Riccardo , Conte Sabrina , Mazzamurro Lucia , Mereu Manuela , Patea Rosa Lucia , Panara Valentina , Marinari Stefano , Vecchiet Jacopo , Caulo Massimo 
Published: August 2021

AbstractGround-glass opacities (GGOs) are a non-specific high-resolution computed tomography (HRCT) finding tipically observed in early Coronavirus disesase 19 (COVID-19) pneumonia. However, GGOs are also seen in other acute lung diseases, thus making challenging the differential diagnosis. To this aim, we investigated the performance of a radiomics-based machine learning method to discriminate GGOs due to COVID-19 from those due to other acute lung diseases. Two sets of patients were included: a first set of 28 patients (COVID) diagnosed with COVID-19 infection confirmed by real-time polymerase chain reaction (RT-PCR) between March and April 2020 having (a) baseline HRCT at hospital admission and (b) predominant GGOs pattern on HRCT; a second set of 30 patients (nCOVID) showing (a) predominant GGOs pattern on HRCT performed between August 2019 and April 2020 and (b) availability of final diagnosis. Two readers independently segmented GGOs on HRCTs using a semi-automated approach, and radiomics features were extracted using a standard open source software (PyRadiomics). Partial least square (PLS) regression was used as the multivariate machine-learning algorithm. A leave-one-out nested cross-validation was implemented. PLS β-weights of radiomics features, including the 5% features with the largest β-weights in magnitude (top 5%), were obtained. The diagnostic performance of the radiomics model was assessed through receiver operating characteristic (ROC) analysis. The Youden’s test assessed sensitivity and specificity of the classification. A null hypothesis probability threshold of 5% was chosen (p < 0.05). The predictive model delivered an AUC of 0.868 (Youden’s index = 0.68, sensitivity = 93%, specificity 75%, p = 4.2 × 10–7). Of the seven features included in the top 5% features, five were texture-related. A radiomics-based machine learning signature showed the potential to accurately differentiate GGOs due to COVID-19 pneumonia from those due to other acute lung diseases. Most of the discriminant radiomics features were texture-related. This approach may assist clinician to adopt the appropriate management early, while improving the triage of patients.
Multilocus sequence analysis reveals genetic diversity in Staphylococcus aureus isolate of goat with mastitis persistent after treatment with enrofloxacin
Authors: Polveiro Richard Costa , Granja Manuela Maria Cavalcante , Roldão Thais Coimbra Borba , Da Silva Lopes Ilderlane , Vidigal Pedro Marcus Pereira , Lima Magna Coroa , Moreira Maria Aparecida Scatamburlo 
Published: August 2021

AbstractStaphylococcus aureus is one of the main bacterial agents responsible for cases of mastitis in ruminants, playing an important role in the persistence and chronicity of diseases treated with antimicrobials. Using the multilocus sequence typing technique, network approaches and study of the population diversity of microorganisms, we performed analyzes of S. aureus (ES-GPM) isolated from goats with persistent mastitis (GPM). The most strains of ES-GPM were categorically different phylogenetically from the others and could be divided into two lineages: one with a majority belonging to ES-GPM and the other to varied strains. These two lineages were separated by 27 nuclear polymorphisms. The 43 strains comprised 22 clonal complexes (CCs), of which the ES-GPM strains were present in CC133, CC5 and a new complex formed by the sequence type 4966. The genetic diversity of some alleles showed be greater diversity and polymorphism than others, such as of the aroE and yqiL genes less than glpF gene. In addition, the sequences ES-GPM to the arc gene and glpF alleles showed the greatest number of mutations for ES-GPM in relation to non-ES-GPM. Therefore, this study identified genetic polymorphisms characteristic of S. aureus isolated from milk of goats diagnosed with persistent mastitis after the failed treatment with the antibiotic enrofloxacin. This study may help in the future to identify and discriminate this agent in cases of mastitis, and with that, the most appropriate antibiotic treatment can be performed in advance of the appearance of persistent mastitis caused by the agent, reducing the chances of premature culling and animal suffering.