bluuebunny/crossref_metadata_2025_split huggingface dataset:
All-printed stretchable corneal sensor on soft contact lenses for noninvasive and painless ocular electrodiagnosis
Authors: Kim Kyunghun , Kim Ho Joong , Zhang Haozhe , Park Woohyun , Meyer Dawn , Kim Min Ku , Kim Bongjoong , Park Heun , Xu Baoxing , Kollbaum Pete , Boudouris Bryan W. , Lee Chi Hwan 
Published: March 2021

AbstractElectroretinogram examinations serve as routine clinical procedures in ophthalmology for the diagnosis and management of many ocular diseases. However, the rigid form factor of current corneal sensors produces a mismatch with the soft, curvilinear, and exceptionally sensitive human cornea, which typically requires the use of topical anesthesia and a speculum for pain management and safety. Here we report a design of an all-printed stretchable corneal sensor built on commercially-available disposable soft contact lenses that can intimately and non-invasively interface with the corneal surface of human eyes. The corneal sensor is integrated with soft contact lenses via an electrochemical anchoring mechanism in a seamless manner that ensures its mechanical and chemical reliability. Thus, the resulting device enables the high-fidelity recording of full-field electroretinogram signals in human eyes without the need of topical anesthesia or a speculum. The device, superior to clinical standards in terms of signal quality and comfortability, is expected to address unmet clinical needs in the field of ocular electrodiagnosis.
Phylogenomic and biochemical analysis reassesses temperate marine yeast Yarrowia lipolytica NCIM 3590 to be Yarrowia bubula
Authors: Gaikwad Prashant , Joshi Swanand , Mandlecha Akshay , RaviKumar Ameeta 
Published: March 2021

AbstractYarrowia clade contains yeast species morphologically, ecologically, physiologically and genetically diverse in nature. Yarrowia lipolytica NCIM 3590 (NCIM 3590), a biotechnologically important strain, isolated from Scottish sea waters was reinvestigated for its phenotypic, biochemical, molecular and genomic properties as it exhibited characteristics unlike Y. lipolytica, namely, absence of extracellular lipolytic activity, growth at lower temperatures (less than 20 °C) and in high salt concentrations (10% NaCl). Molecular identification using ITS and D1/D2 sequences suggested NCIM 3590 to be 100% identical with reference strain Yarrowia bubula CBS 12934 rather than Y. lipolytica CBS 6124 (87% identity) while phylogenetic analysis revealed that it clustered with Y. bubula under a separate clade. Further, whole genome sequencing of NCIM 3590 was performed using Illumina NextSeq technology and the draft reported here. The overall genome relatedness values obtained by dDDH (94.1%), ANIb/ANIm (99.41/99.42%) and OrthoANI (99.47%) indicated proximity between NCIM 3590 and CBS 12934 as compared to the reference strain Y. lipolytica. No extracellular lipase activity could be detected in NCIM 3590 while LIP2 gene TBLASTN analysis suggests a low 42% identity with e value 2 e−77 and 62% coverage. Hence molecular, phylogenetic, genomics, biochemical and microbial analyses suggests it belongs to Yarrowia bubula.
Neoptile feathers contribute to outline concealment of precocial chicks
Authors: Rohr Veronika A. , Volkmer Tamara , Metzler Dirk , Küpper Clemens 
Published: March 2021

AbstractCamouflage is a widespread strategy to increase survival. The cryptic plumage colouration of precocial chicks improves camouflage often through disruptive colouration. Here, we examine whether and how fringed neoptile feathers conceal the outline of chicks. We first conducted a digital experiment to test two potential mechanisms for outline concealment through appendages: (1) reduction of edge intensity and (2) luminance transition. Local Edge Intensity Analysis showed that appendages decreased edge intensity whereas a mean luminance comparison revealed that the appendages created an intermediate transition zone to conceal the object’s outline. For edge intensity, the outline diffusion was strongest for a vision system with low spatial acuity, which is characteristic of many mammalian chick predators. We then analysed photographs of young snowy plover (Charadrius nivosus) chicks to examine whether feathers increase outline concealment in a natural setting. Consistent with better camouflage, the outline of digitally cropped chicks with protruding feathers showed lower edge intensities than the outline of chicks without those feathers. However, the observed mean luminance changes did not indicate better concealment. Taken together, our results suggest that thin skin appendages such as neoptile feathers improve camouflage. As skin appendages are widespread, this mechanism may apply to many organisms.
Field evaluation of PGP Bacillus sp. strain D5 native to Crocus sativus, in traditional and non traditional areas, and mining of PGP genes from its genome
Authors: Magotra Shanu , Bhagat Nancy , Ambardar Sheetal , Ali Tahir , Hurek Barbara Reinhold , Hurek Thomas , Verma Praveen Kumar , Vakhlu Jyoti 
Published: March 2021

AbstractNative Bacillus sp. strain D5 coded as (Bar D5) has been isolated from the saffron corm that showed plant growth promotion (PGP) properties and also inhibits the growth of corm rot causing Fusarium oxysporum R1 (Fox R1) in-vitro. Bar D5 was more efficient PGP bacterium in comparison to earlier reported native bio-formulations by our group. Pot assays and field evaluation of Bar D5 confirmed its in-vivo efficacy for PGP traits and biocontrol activity as well. Pot trials were followed by field trials at traditional (Kishtwar) and non-traditional (R.S Pura) saffron cultivation areas in Jammu and Kashmir. At both places, Bar D5 bio-formulation treatment led to the increase in root number & length, shoot number & length, flower number and number & weight of daughter corms. Additionally, it also decreased the corm rot disease incidence significantly. Priming of corms with bio-formulation resulted in the reduction of pathogenic fungal load by three fold at the depth of corm sowing from ground level. The shelf life/viability of Bar D5 based bio-formulation was found to be 52% (viable spores) for one year at room temperature. Draft genome sequence of Bar D5 revealed the presence of genes necessary for PGP and biocontrol activity. Further, confirmation of gene sequences and annotation was done by amplification, re-sequencing and mapping of PGP and biocontrol genes on draft genome. Bar D5 based bio-formulation can be provided to companies/researchers interested in saffron cultivation or bio-formulation production for commercial exploitation, since saffron is grown as revenue crop across continents. The present study bridges the gap between genomics and its field application.
A novel stepwise integrative analysis pipeline reveals distinct microbiota-host interactions and link to symptoms in irritable bowel syndrome
Authors: Polster Annikka , Öhman Lena , Tap Julien , Derrien Muriel , Le Nevé Boris , Sundin Johanna , Törnblom Hans , Cvijovic Marija , Simrén Magnus 
Published: March 2021

AbstractAlthough incompletely understood, microbiota-host interactions are assumed to be altered in irritable bowel syndrome (IBS). We, therefore, aimed to develop a novel analysis pipeline tailored for the integrative analysis of microbiota-host interactions and association to symptoms and prove its utility in a pilot cohort. A multilayer stepwise integrative analysis pipeline was developed to visualize complex variable associations. Application of the pipeline was demonstrated on a dataset of IBS patients and healthy controls (HC), using the R software package to analyze colonic host mRNA and mucosal microbiota (16S rRNA gene sequencing), as well as gastrointestinal (GI) and psychological symptoms. In total, 42 IBS patients (57% female, mean age 33.6 (range 18–58)) and 20 HC (60% female, mean age 26.8 (range 23–41)) were included. Only in IBS patients, mRNA expression of Toll-like receptor 4 and genes associated with barrier function (PAR2, OCLN, TJP1) intercorrelated closely, suggesting potential functional relationships. This host genes-based “permeability cluster” was associated to mucosa-adjacent Chlamydiae and Lentisphaerae, and furthermore associated to satiety as well as to anxiety, depression and fatigue. In both IBS patients and HC, chromogranins, secretogranins and TLRs clustered together. In IBS patients, this host genes-based “immune-enteroendocrine cluster” was associated to specific members of Firmicutes, and to depression and fatigue, whereas in HC no significant association to microbiota was identified. We have developed a stepwise integrative analysis pipeline that allowed identification of unique host-microbiota intercorrelation patterns and association to symptoms in IBS patients. This analysis pipeline may aid in advancing the understanding of complex variable associations in health and disease.
A gene module identification algorithm and its applications to identify gene modules and key genes of hepatocellular carcinoma
Authors: Zhang Yan , Lin Zhengkui , Lin Xiaofeng , Zhang Xue , Zhao Qian , Sun Yeqing 
Published: March 2021

AbstractTo further improve the effect of gene modules identification, combining the Newman algorithm in community detection and K-means algorithm framework, a new method of gene module identification, GCNA-Kpca algorithm, was proposed. The core idea of the algorithm was to build a gene co-expression network (GCN) based on gene expression data firstly; Then the Newman algorithm was used to initially identify gene modules based on the topology of GCN, and the number of clusters and clustering centers were determined; Finally the number of clusters and clustering centers were input into the K-means algorithm framework, and the secondary clustering was performed based on the gene expression profile to obtain the final gene modules. The algorithm took into account the role of modularity in the clustering process, and could find the optimal membership module for each gene through multiple iterations. Experimental results showed that the algorithm proposed in this paper had the best performance in error rate, biological significance and CNN classification indicators (Precision, Recall and F-score). The gene module obtained by GCNA-Kpca was used for the task of key gene identification, and these key genes had the highest prognostic significance. Moreover, GCNA-Kpca algorithm was used to identify 10 key genes in hepatocellular carcinoma (HCC): CDC20, CCNB1, EIF4A3, H2AFX, NOP56, RFC4, NOP58, AURKA, PCNA, and FEN1. According to the validation, it was reasonable to speculate that these 10 key genes could be biomarkers for HCC. And NOP56 and NOP58 are key genes for HCC that we discovered for the first time.
Ablation of kynurenine 3-monooxygenase rescues plasma inflammatory cytokine levels in the R6/2 mouse model of Huntington’s disease
Authors: Bondulich Marie Katrin , Fan Yilan , Song Yeojin , Giorgini Flaviano , Bates Gillian P. 
Published: March 2021

AbstractKynurenine 3-monooxygenase (KMO) regulates the levels of neuroactive metabolites in the kynurenine pathway (KP), dysregulation of which is associated with Huntington’s disease (HD) pathogenesis. KMO inhibition leads to increased levels of neuroprotective relative to neurotoxic metabolites, and has been found to ameliorate disease-relevant phenotypes in several HD models. Here, we crossed KMO knockout mice to R6/2 HD mice to examine the effect of KMO depletion in the brain and periphery. KP genes were dysregulated in peripheral tissues from R6/2 mice and KMO ablation normalised levels of a subset of these. KP metabolites were also assessed, and KMO depletion led to increased levels of neuroprotective kynurenic acid in brain and periphery, and dramatically reduced neurotoxic 3-hydroxykunurenine levels in striatum and cortex. Notably, the increased levels of pro-inflammatory cytokines TNFa, IL1β, IL4 and IL6 found in R6/2 plasma were normalised upon KMO deletion. Despite these improvements in KP dysregulation and peripheral inflammation, KMO ablation had no effect upon several behavioural phenotypes. Therefore, although genetic inhibition of KMO in R6/2 mice modulates several metabolic and inflammatory parameters, these do not translate to improvements in primary disease indicators—observations which will likely be relevant for other interventions targeted at peripheral inflammation in HD.
Applicability of optical coherence tomography angiography (OCTA) imaging in Parkinson’s disease
Authors: Lauermann Jost L. , Sochurek Jan A. M. , Plöttner Pauline , Alten Florian , Kasten Meike , Prasuhn Jannik , Brüggemann Norbert , Ranjbar Mahdy 
Published: March 2021

AbstractTo evaluate the significance of motion artifacts in optical coherence tomography angiography (OCTA) images of patients with Parkinson’s disease (PD) and healthy controls. In this prospective, cross-sectional study subjects with medicated PD (ON) and healthy, age- and gender-matched volunteers were recruited. Participants underwent specific ophthalmological examinations, including OCTA. Angiograms of the superficial retinal capillary plexus were evaluated for the type and frequency of artifacts using a validated motion artifact score (MAS). A total of 30 PD patients (60 eyes), average disease duration of 9.61 ± 5.55 years, and 30 matched, healthy controls (60 eyes) were recruited. Twenty percent of all eyes had an eye disease, unknown to the participant, with a significant impact on OCTA results. After cleansing the dataset by excluding subjects with confounding ocular comorbidities 42 eyes of 28 PD patients and 53 eyes of 29 healthy controls were further evaluated. Overall MAS and all five subtypes of motion artifacts were comparable without significant differences between groups. OCTA can be used in treated PD patients (ON) without a significant increase in motion artifacts. Nevertheless, special attention should be paid to image quality during the acquisition of OCTA data, for which an experienced OCTA operator is useful.
Pictures of social interaction prompt a sustained increase of the smile expression and induce sociability
Authors: Mota Bruna Eugênia Ferreira , Rodrigues Paula Ohana , Lacerda Kíssyla Christine Duarte , David Isabel Antunes , Volchan Eliane , Campagnoli Rafaela Ramos , Souza Gabriela Guerra Leal 
Published: March 2021

AbstractViewing pictures of social interaction can facilitate approach behaviors. We conducted two studies to investigate if social interaction cues, empathy, and/or social touch modulate facial electromyographic (EMG) reactivity (as evidenced by the zygomaticus major and corrugator supercilii muscles) and mood states. We presented bonding pictures (depicting social interaction) and control pictures (without social interaction) while continuously recording zygomatic and corrugator EMG activities. In both studies, picture blocks were paired by valence and arousal. All participants were college students. In study 1, participants (n = 80, 47 women) read relevant priming texts immediately before viewing each block of 14 pictures. In study 2, participants did not read (n = 82, 63 women) priming texts before each block of 28 pictures. In study 1 and study 2, participants also completed mood states questionnaires to assess sociability and altruistic behavior. Empathy and social touch frequency were also assessed by self-reported questionnaires. In both studies, bonding pictures increased the zygomatic activity and the self-reported sociability feeling compared to control pictures. Only in study 2, bonding pictures decreased median corrugator activity compared to control pictures. We concluded that social interaction cues were efficient to increase sociability and prompt a sustained smile expression regardless of priming texts.
Potential of big data approach for remote sensing of vehicle exhaust emissions
Authors: Hao Lijun , Yin Hang , Wang Junfang , Wang Xiaohu , Ge Yunshan 
Published: March 2021

AbstractAt present, remote sensing (RS) is applied in detecting vehicle exhaust emissions, and usually the RS emission results in a definite vehicle specific power (VSP) range are used to evaluate vehicle emissions and identify high-emitting vehicles. When the VSP exceeds this range, the corresponding vehicle emission RS data will not be used to assess vehicle emissions. This method is equivalent to setting only one VSP Bin qualified for vehicle emission evaluation, and generally only one threshold limit is given for each emission pollutant without considering the fluctuation characteristics of vehicle emissions with VSP. Therefore, it is easy to cause misjudgment in identifying high-emitting vehicles and is not conducive to scientific management of vehicle emissions. In addition, the vehicle emissions outside the selected VSP Bin are more serious and should be included in the scope of supervision. This research proposed the methods of vehicle classifications and VSP Binning in order to categorize the driving conditions of each kind of vehicles, and a big data approach was proposed to analyze the vehicle emission RS data in each VSP Bin for vehicle emission evaluation.
Clinical and economic consequences of switching from omalizumab to mepolizumab in uncontrolled severe eosinophilic asthma
Authors: Carpagnano Giovanna Elisiana , Resta Emanuela , Povero Massimiliano , Pelaia Corrado , D’Amato Mariella , Crimi Nunzio , Scichilone Nicola , Scioscia Giulia , Resta Onofrio , Calabrese Cecilia , Pelaia Girolamo , Barbaro Maria Pia Foschino 
Published: March 2021

AbstractSevere asthma is burdened by frequent exacerbations and use of oral corticosteroids (OCS), which worsen patients’ health and increase healthcare spending. The aim of this study was to assess the clinical and economic impact of switching from omalizumab (OMA) to mepolizumab (MEP) in patients eligible for both biologics, but not optimally controlled by omalizumab. We retrospectively enrolled uncontrolled severe asthmatic patients who switched from OMA to MEP during the last two years. Information included blood eosinophil count, asthma control test (ACT), spirometry, serum IgE, fractional exhaled nitric oxide (FeNO), OCS intake, drugs, exacerbations/hospitalizations, visits and diagnostic exams. Within the perspective of Italian National Health System, a pre- and post-MEP 12-month standardized total cost per patient was calculated. 33 patients were enrolled: five males, mean age 57 years, disease onset 24 years. At OMA discontinuation, 88% were OCS-dependent with annual mean rate of 4.0 clinically significant exacerbations, 0.30 exacerbations needing emergency room visits or hospitalization; absenteeism due to disease was 10.4 days per patient. Switch to MEP improved all clinical outcomes, reducing total exacerbation rate (RR = 0.06, 95% CI 0.03–0.14), OCS-dependent patients (OR = 0.02, 95% CI 0.005–0.08), and number of lost working days (Δ = − 7.9, 95% CI − 11.2 to − 4.6). Pulmonary function improved, serum IgE, FeNO and eosinophils decreased. Mean annual costs were €12,239 for OMA and €12,639 for MEP (Δ = €400, 95% CI − 1588–2389); the increment due to drug therapy (+ €1,581) was almost offset by savings regarding all other cost items (− €1,181). Patients with severe eosinophilic asthma, not controlled by OMA, experienced comprehensive benefits by switching to MEP with only slight increases in economic costs.
Verbal threat learning does not spare loved ones
Authors: Morato Cristina , Guerra Pedro , Bublatzky Florian 
Published: March 2021

AbstractSignificant others provide individuals with a sense of safety and security. However, the mechanisms that underlie attachment-induced safety are hardly understood. Recent research has shown beneficial effects when viewing pictures of the romantic partner, leading to reduced pain experience and defensive responding. Building upon this, we examined the inhibitory capacity of loved face pictures on fear learning in an instructed threat paradigm. Pictures of loved familiar or unknown individuals served as signals for either threat of electric shocks or safety, while a broad set of psychophysiological measures was recorded. We assumed that a long-term learning history of beneficial relations interferes with social threat learning. Nevertheless, results yielded a typical pattern of physiological defense activation towards threat cues, regardless of whether threat was signaled by an unknown or a loved face. These findings call into question the notion that pictures of loved individuals are shielded against becoming threat cues, with implications for attachment and trauma research.
Evaluation of CO2 emissions and energy use with different container terminal layouts
Authors: Budiyanto Muhammad Arif , Huzaifi Muhammad Hanzalah , Sirait Simon Juanda , Prayoga Putu Hangga Nan 
Published: March 2021

AbstractSustainable development of container terminals is based on energy efficiency and reduction in CO2 emissions. This study estimated the energy consumption and CO2 emissions in container terminals according to their layouts. Energy consumption was calculated based on utility data as well as fuel and electricity consumptions for each container-handling equipment in the container terminal. CO2 emissions were estimated using movement modality based on the number of movements of and distance travelled by each container-handling equipment. A case study involving two types of container terminal layouts i.e. parallel and perpendicular layouts, was conducted. The contributions of each container-handling equipment to the energy consumption and CO2 emissions were estimated and evaluated using statistical analysis. The results of the case study indicated that on the CO2 emissions in parallel and perpendicular layouts were relatively similar (within the range of 16–19 kg/TEUs). These results indicate that both parallel and perpendicular layouts are suitable for future ports based on sustainable development. The results can also be used for future planning of operating patterns and layout selection in container terminals.
Investigating the microbial ecology of coastal hotspots of marine nitrogen fixation in the western North Atlantic
Authors: Wang Seaver , Tang Weiyi , Delage Erwan , Gifford Scott , Whitby Hannah , González Aridane G. , Eveillard Damien , Planquette Hélène , Cassar Nicolas 
Published: March 2021

AbstractVariation in the microbial cycling of nutrients and carbon in the ocean is an emergent property of complex planktonic communities. While recent findings have considerably expanded our understanding of the diversity and distribution of nitrogen (N2) fixing marine diazotrophs, knowledge gaps remain regarding ecological interactions between diazotrophs and other community members. Using quantitative 16S and 18S V4 rDNA amplicon sequencing, we surveyed eukaryotic and prokaryotic microbial communities from samples collected in August 2016 and 2017 across the Western North Atlantic. Leveraging and significantly expanding an earlier published 2015 molecular dataset, we examined microbial community structure and ecological co-occurrence relationships associated with intense hotspots of N2 fixation previously reported at sites off the Southern New England Shelf and Mid-Atlantic Bight. Overall, we observed a negative relationship between eukaryotic diversity and both N2 fixation and net community production (NCP). Maximum N2 fixation rates occurred at sites with high abundances of mixotrophic stramenopiles, notably Chrysophyceae. Network analysis revealed such stramenopiles to be keystone taxa alongside the haptophyte diazotroph host Braarudosphaera bigelowii and chlorophytes. Our findings highlight an intriguing relationship between marine stramenopiles and high N2 fixation coastal sites.