bluuebunny/crossref_metadata_2025_split huggingface dataset:
Genetic Structure and Diversity of Banana Bunchy Top Virus (BBTV) in the Philippines
Authors: Mendoza Jay-Vee S. , dela Cueva Fe M. , Cortaga Cris Q. , Manohar Anand Noel C. , Gardoce Roanne R. , Lachica Grace C. , Gonzales Maricel C. , Thomas John E. , Lantican Darlon V. 
Published: May 2021

AbstractBanana bunchy top virus (BBTV) is an important disease of banana in the Philippines and in other banana-producing countries. This study was conducted to investigate the genetic structure and diversity of Philippine BBTV isolates which remain unexplored in the country. BBTV-infected plant tissues were sampled from banana-growing provinces (i.e., Cagayan, Isabela, Quirino, Batangas, Laguna, Rizal, Quezon, Palawan, Cebu, Leyte, and Davao del Sur) and the partial DNA-R gene of BBTV was sequenced. Analysis of all local BBTV isolates showed a nucleotide diversity (π) of 0.00721, average number of nucleotide differences (k) of 5.51984, and haplotype diversity (hd) of 0.971. Neutrality tests using Fu’s Fs and Tajima’s D showed significant and highly negative values which suggest an excess number of rare alleles due to recent population expansion or from genetic hitchhiking. Haplotype network and phylogenetic analyses revealed that the local BBTV isolates were closely related to Southeast Asian (SEA) group and exhibited a monophyletic clade with distinct haplotype grouping from other SEA sequences. However, some Indonesian and Indian reference sequences were also clustered within the Philippine BBTV group suggesting sequence homology. Results also showed that the local BBTV isolates may be categorized into three major haplotype groups (HA, HB, and HC) but only the HC group remained distinct upon comparison with other Philippine and SEA reference sequences. BBTV isolates from Quezon were the most diverse while isolates from Palawan displayed low genetic diversity indices and belonged only in the HC group. The assessment of the degree of variability among Philippine BBTV isolates will provide a reference towards the development of high-throughput BBTV detection systems as well as enable to devise plant breeding strategies to manage the current BBTV spread and variations.
Simultaneous dimensionality reduction and integration for single-cell ATAC-seq data using deep learning
Authors: Kopp Wolfgang , Akalin Altuna , Ohler Uwe 
Published: May 2021

AbstractAdvances in single-cell technologies enable the routine interrogation of chromatin accessibility for tens of thousands of single cells, shedding light on gene regulatory processes at an unprecedented resolution. Meanwhile, size, sparsity and high dimensionality of the resulting data continue to pose challenges for its computational analysis, and specifically the integration of data from different sources. We have developed a dedicated computational approach, a variational auto-encoder using a noise model specifically designed for single-cell ATAC-seq data, which facilitates simultaneous dimensionality reduction and batch correction via an adversarial learning strategy. We showcase both its individual advantages on carefully chosen real and simulated data sets, as well as the benefits for detailed cell type characterization via integrating multiple complex datasets.
Neuronal extracellular vesicles mediate BDNF-dependent dendritogenesis and synapse maturation via microRNAs
Authors: Antoniou Anna , Auderset Loic , Kaurani Lalit , Fischer Andre , Schneider Anja 
Published: May 2021

AbstractExtracellular vesicles (EVs) have emerged as novel regulators of several biological processes, in part via the transfer of EV content such as microRNA; small non-coding RNAs that regulate protein production, between cells. However, how neuronal EVs contribute to trans-neuronal signaling is largely elusive. We examined the role of neuron-derived EVs in neuronal morphogenesis downstream signaling induced by brain-derived neurotrophic factor (BDNF). We found that EVs perpetuated BDNF induction of dendrite complexity and synapse maturation in naïve hippocampal neurons, which was dependent on the activity of three microRNAs, miR-132-5p, miR-218 and miR-690. These microRNAs were up-regulated in BDNF-stimulated EVs. Moreover, supplementation with BDNF-EVs rescued the block of BDNF-induced phenotypes upon inhibition of miRNA activity. Our data therefore suggest a major role for EVs in BDNF-dependent morphogenesis, and provide new evidence for the functional transfer of microRNAs between neurons. This is not only an important step towards understanding the function of EVs in inter-neuronal signaling, but is also relevant for many disorders characterized by decreased BDNF signaling, such as major depression or cognitive impairment.
Myeloid-mediated IL-1R signaling in immuno-responsive Thy-1 negative fibroblasts is critical for pulmonary fibrosis
Authors: Abebayehu Daniel , Yeh Chiuan-Ren , Bingham Grace C. , Ewald Sarah , Barker Thomas H. 
Published: May 2021

AbstractIdiopathic pulmonary fibrosis (IPF) is a fatal disease with poorly defined pathogenic mechanism and no cure. It is characterized by chronic inflammation, myofibroblast accumulation, and aberrant extracellular matrix (ECM) remodeling. Fibrosis progression is considered to occur due to sustained aberrant fibroblast mechanotransduction: sensing “normal” soft tissue as stiff scarred tissue leading to the overproduction of ECM that then stiffens the microenvironment, thus reinforcing a progressive, stiffness-dependent fibrotic program. How chronic inflammation leads to aberrant mechanotransduction is not well understood. Thy-1 is a regulator of mechanotransduction in fibroblasts. Thy-1 expression is lost in fibroblastic foci, the active sites of fibrosis, although the mechanism of this loss is unknown. We demonstrate that in IPF tissue, the αSMA+ fibroproliferative foci express the Type 1 IL-1 receptor (IL-1RI) and IL-1RI-deficient mice did not develop bleomycin-induced pulmonary fibrosis. Using ASC speck formation during inflammasome activation as a marker of mature IL-1β release, we identified the immune compartment as the source of active IL-1β during bleomycin-induced fibrosis. Furthermore, incubating mouse lung fibroblasts on soft (2kPa) hydrogels with IL-1β was sufficient to reduce Thy-1 surface expression and induce αvβ3 integrin activation. As expected, Thy-1 negative fibroblasts exhibited elevated αvβ3 integrin activation but surprisingly, Thy-1 negative fibroblasts also expressed higher levels of IL-1RI, potentially linking the immuno-responsive and mechanosensitivity of this fibroblast subpopulation. Leveraging the non-resolving fibrosis that occurs in Thy-1-/- mice, we observed that crossing Thy-1-/- mice onto the IL-1RI-/- background was sufficient to reduce fibrosis. Together, these data indicate that Thy-1 negative fibroblasts are an immuno-responsive subpopulation that also display altered mechanotransduction, potentially serving as the link between the noted inflammation and aberrant mechanotransduction observed in IPF.
OsbZIP47 an integrator for meristem regulators during rice plant growth and development
Authors: Prakash Sandhan , Rai Rashmi , Peesapati Raghavaram , Vijayraghavan Usha 
Published: May 2021

ABSTRACTStem cell homeostasis by the WUS-CLV negative feedback loop is generally conserved across species; however, its links with other meristem regulators may have species-specific distinctions, rice being an example. We characterize rice OsbZIP47 for vegetative and inflorescence phenotypes in knockdown (OsbZIP47KD) transgenics and uncover its role in meristem maintenance and developmental progression. The shoot apical meristem (SAM) size in five day old OsbZIP47KD seedlings, was reduced as compared to the wild-type (WT). Whereas SAM in older twenty-five-day OsbZIP47KD plants was larger with increased size for L1 and underlying cells. We tested protein interactions of OsbZIP47 with other transcription factors and found partnerships with OsMADS1, RFL, and OSH1. Results from meta-analysis of deregulated panicle transcriptome datasets, in OsbZIP47KD, OsMADS1KD and RFLKD knockdown transgenics, and OSH1 genome-wide binding sites divulge potential targets coregulated by OsbZIP47, OsMADS1, OSH1 and RFL. Transcript analysis in OsbZIP47KD SAM and panicles showed abnormal gene expression for CLAVATA peptide-like signaling FON2-LIKE CLE PROTEIN1 (FCP1), FLORAL ORGAN NUMBER 2 (FON2), and hormone pathway: cytokinin (CK) Isopenteyltransferase2 (OsIPT2), Isopenteyltransferase8 (OsIPT8); auxin biosynthesis OsYUCCA6, OsYUCCA7; gibberellic acid (GA) biosynthesis GA20Ox1, GA20Ox4 and brassinosteriod biosynthesis CYP734A4 genes. The effects on ABBERANT PANICLE ORGANIZATION1 (APO1), OsMADS16, and DROOPING LEAF relate to second and third whorl organ phenotypes in OsbZIP47KD florets. Further, we demonstrate that OsbZIP47 redox status affects its DNA binding to cis elements in the FCP1 locus. Taken together, we provide insights on unique functional roles for OsbZIP47 in rice shoot meristem maintenance, its progression through inflorescence branching and floret development.One sentence summaryOsbZIP47 regulates rice shoot meristem size, panicle and floret development in concert with other meristem regulators such as OsMADS1, RFL and OSH1.
Circulating CD138 (syndecan-1) enhances APRIL-mediated autoreactive B cell survival and differentiation in MRL/Lpr mice
Authors: Liu Lunhua , Akkoyunlu Mustafa 
Published: May 2021

AbstractHigh levels of serum CD138, a heparan sulfate-bearing proteoglycan, correlates with increased disease activity in systemic lupus erythematosus (SLE) patients. Mechanisms responsible for serum CD138 production and its biological function in SLE disease remain poorly understood. In this study, corroborating patient data, we detected an increase in serum CD138 in MRL/Lpr mice parallel to disease activity. Although TCRβ+CD138+ T cells expand in MRL/Lpr mice as the disease progresses, surprisingly, TCRβ+CD138- cells were the primary source of circulating CD138 as the transfer of TCRβ+CD138- cells to young MRL/Lpr mice, but not TCRβ+CD138+ cells, resulted with higher serum CD138 in the recipient mice. We found that elevated trypsin, expressed by TCRβ+CD138- cells, was able to cleave CD138 from T cells. Moreover, suggesting the contribution of cleaved CD138 to the increase in blood CD138, trypsin inhibitors ‘defined trypsin inhibitor’ (DTI) or leupeptin increased CD138 expression on TCRβ+CD138- cells. Furthermore, soluble CD138 was able to bind ‘a proliferation inducing ligand’ (APRIL) and enhanced APRIL-mediated plasma cell generation and autoreactive antibody production through the phosphorylation of extracellular-signal-regulated kinase (ERK) in B cells. APRIL receptor, ‘transmembrane activator, calcium modulator, and cyclophilin ligand interactor’ (TACI) was involved in the enhancement of APRIL activity by CD138, as the synergistic effect of APRIL and CD138 was ablated on TACI deficient B cells. These findings indicate a regulatory role for soluble CD138 in B cell differentiation and autoreactive antibody secretion in SLE disease.
Food and nutrition education in Australian primary schools: parents' views
Authors: Aydin Gozde , Booth Alison , Margerison Claire , Worsley Anthony 
Published: May 2021

PurposePrimary schools provide continuous, intensive contact with large numbers of children starting from a young age, thus providing an appropriate setting for the promotion of healthy eating through food and nutrition education (FNE). This qualitative study explores the views of Australian primary school parents about FNE in primary schools.Design/methodology/approachIn total, 19 parents of primary school children from Victoria participated in semi-structured interviews. Audio recordings were transcribed and underwent thematic analysis using Nvivo. A total of three themes emerged: FNE topics currently taught in primary schools, essential food skills and knowledge for primary school children and the importance of FNE.FindingsMost parents thought that FNE is as important as the core subjects of primary school. Parental support for FNE, which is delivered over a prolonged period, and expanded by hands-on content such as cooking and gardening classes was evident. Parents viewed these classes as likely to improve children's food-related knowledge and healthy eating behaviours. Parents expressed appreciation for schools' emphasis on food sustainability and its alignment with school policies and practices. Parents were keen to see more sustainability included in the curriculum.Practical implicationsThese results may have implications for curriculum developers and schools, as the findings can assist the design of food and nutrition curricula for primary schools which can empower children as well as their families to make better food-related decisions.Originality/valueAustralian parents' views of FNE in primary schools have been under examined.
Tribological and ageing behavior of Az91D magnesium alloy fortified with nano lanthanum and nanoceria by stir casting for aviation application
Authors: Fahad Mohammed , B. Bavanish 
Published: May 2021

Purpose
The aviation field requires a material with the ability to withstand severe environmental conditions. The purpose of this paper is to provide higher wear resistance and improve the lifetime of aircraft. Hence, it is vital to enhance the wear resistance and strength of the material.

Design/methodology/approach
In this investigation, the Az91D magnesium alloy was reinforced with lanthanum (La2O3) and cerium oxide (CeO2) nanoparticles by stir casting and heat treatment process and the tribological and mechanical properties were analyzed.

Findings
The results showed the Az91D/CeO2 composite exhibited higher density (1.96 g/cm3) and lower porosity (1.01%) compared to other materials due to the diffusion of CeO2 nanoparticles in between the atoms of Az91D alloy. The hardness of Az91D/ CeO2 & Az91D/ La2O3 was improved by 38% and 34%, respectively, compared to Az91D alloy owing to the reinforcing effect of hard nanoparticles. Further, the inclusion of nanoparticles decreased the mass loss and showed lower wear rate compared to the Az91D alloy due to the pinning effect of nanoparticles. In addition, the friction coefficient was observed in the order of Az91D > Az91D/ La2O3 > Az91D/ CeO2. Moreover, the heat treatment displayed positive results on the properties of all the materials.

Originality/value
This work is original as the combination of cerium oxide nanoparticles with Az91D magnesium alloy is not tried by earlier investigators. Further, the comparative performance of both lanthanum and cerium oxide nanoparticles on the tribological and mechanical behavior of Az91D alloy has been analyzed for aviation application. This study will provide new information to the scientific world to increase the lifetime of aviation structures.
The connectedness between Sukuk and conventional bond markets and the implications for investors
Authors: Samitas Aristeidis , Papathanasiou Spyros , Koutsokostas Drosos 
Published: May 2021

Purpose
The purpose of this paper is to examine the connectedness across a variety of Sukuk and conventional bond indices and the implications for optimal asset allocation for the period January 1, 2010–April 30, 2020.

Design/methodology/approach
The data set consists of five major Sukuk (Dow Jones Sukuk, Thompson Reuters BPA Malaysia Sukuk, Indonesia Government Sukuk, S&P MENA Sukuk and Tadawul Sukuk and Bonds Index) and five conventional bond indexes, one for developed (USA) and four for emerging markets (Malaysia, Indonesia, Africa and Qatar). This study investigates the connectedness and volatility spillover effects across the aforementioned indices, by following the Diebold and Yilmaz (2012) approach, based on the time-varying parameter vector autoregressive (TVP-VAR) model. In addition, this paper provides optimal hedge ratios and portfolio weights for investors.

Findings
The empirical results show that Sukuk and conventional bond markets are highly integrated and that total connectedness exhibits sensitivity to exogenous shocks. The Dow Jones and the Malaysian Sukuk indices are the primary shock transmitters to other markets. However, the weak volatility spillovers between the Dow Jones and conventional bonds suggest that opportunities for optimal asset allocation may in fact exist. The highest (lowest) hedging effectiveness can be achieved by taking a short position in Malaysian (Qatarian) bonds.

Originality/value
To the best of the knowledge, this is the largest sample taken into account to investigate the connectedness between Sukuk and conventional bonds.
The impact of message framing and perceived consumer effectiveness on green ads
Authors: Ekebas-Turedi Ceren , Kordrostami Elika , Benoit Ilgım Dara 
Published: May 2021

Purpose
The purpose of this study is to investigate the impact of ad message framing (self-benefit vs other-benefit messages) and perceived consumer effectiveness (PCE) on green advertising effectiveness.

Design/methodology/approach
The conceptual framework was borrowed from self-congruity theory and was tested with two between-subject design experiments; PCE was measured in the first study and manipulated in the second.

Findings
The findings show that both measured and primed PCE (low vs high) moderate the impact of a green ad’s message framing on consumer responses (i.e. attitude toward the brand and purchase intention). Specifically, an other-benefit message is more effective when consumers perceive that their individual actions can positively influence environmental issues (high PCE). In contrast, a self-benefit message is more effective when consumers perceive that their individual actions might not be enough to influence environmental issues (low PCE). This research also shows that the influence of message framing on consumer responses is mediated by the perceived social responsibility of the company.

Practical implications
This paper offers an outline for designing effective ad campaigns for green products. Managers can determine or manipulate the PCE level of their target market and frame the message in their ad campaign accordingly, which will positively drive perceived social responsibility and, in turn, the ad campaign’s effectiveness.

Originality/value
This paper contributes to both the green advertising and self-congruity literature by showing the moderating effect of PCE on the effectiveness of message framing in green advertising.
Travel distance to flu and COVID-19 vaccination sites for people with disabilities and age 65 and older, Chicago metropolitan area
Authors: Guhlincozzi Aida Rosalia , Lotfata Aynaz 
Published: May 2021

PurposeHaving easy access to the flu and COVID-19 vaccination sites may be important for controlling the spread of the infection. Chicago implemented a broad strategy of opening COVID-19 vaccination locations across the city in a variety of locations.Design/methodology/approachWe defined access as having vaccinations within one mile. Data came from the American Community Survey (ACS), Centers for Disease Control and Prevention (CDC), Social Vulnerability Index (SVI), Illinois Department of Public Health (IDPH) and the Chicago Data Portal. We calculated the street-network distance from the population-weighted centroid of census tracts to the nearest vaccination sites before, during and post COVID-19 pandemic. We compared the demographics of census tracts within one mile to those greater than one mile during each period.FindingsPeople age 65 and above and with disabilities saw significant decreases in flu vaccination site access to locations within one mile of their census tract in 2020–2021 compared to 2018–2019. The COVID-19 vaccination sites mimic these flu vaccination site patterns, suggesting a severe lack of geographic access for a group likely to experience limited mobility. Results combining instances of both flu and COVID-19 vaccination sites suggest that making COVID-19 vaccination sites available at flu shot site locations would significantly reduce the number of people with limited mobility lacking geographic access.Originality/valuePolicymakers should explore how this expanded network of vaccination locations could facilitate permanent improvements to access to vaccination sites for people with disabilities.
Repairing trust within teams after organizational change
Authors: Kähkönen Tiina 
Published: May 2021

PurposeThis study examines trust-repair practices at the team level after organizational change.Design/methodology/approachA qualitative research approach was adopted, and data were collected from key informants through focus group discussions and interviews. The data analysis involved thematic coding and followed the structured procedure.FindingsThis study found that after organization change, trust can be repaired at the team level by improving team leaders' information sharing and knowledge in change management, and by enforcing communication, collaboration and ethical behaviour among team members.Research limitations/implicationsThis paper makes three key contributions by (1) identifying trust violations in teams, (2) proposing trust-repair mechanisms and (3) extending the understanding of trust-repair and preservation at the team level following organizational change.Practical implicationsThis paper provides practical information from a real-work context and can improve managers' understanding of active trust-repair.Originality/valueThis paper outlines active trust-repair mechanisms in an organizational change context and expands the current theory by presenting novel insights into organizational trust-repair at the team level. This study contributes to trust literature by proposing promising avenues for future trust-repair research.
Prognostic value of ferroptosis‐related genes in patients with lung adenocarcinoma
Authors: Zhu Guangsheng , Huang Hua , Xu Songlin , Shi Ruifeng , Gao Zhouyong , Lei Xi , Zhu Shuai , Zhou Ning , Zu Lingling , Mello Ramon A. De , Chen Jun , Xu Song 
Published: May 2021

AbstractBackgroundThe prevalence of lung adenocarcinomas (LUADs) has dramatically increased in recent decades. Ferroptosis is a process of iron‐dependent regulatory cell death. It is still unclear whether the expression of ferroptosis‐related genes (FRGs) is involved in the pathogenesis and survival of patients with LUAD.MethodsWe retrieved LUAD data from The Cancer Genome Atlas (TCGA) and Gene Expression Omnibus (GEO) databases and used LASSO Cox regression analysis to select the gene signature suitable for modeling. The risk score was calculated according to the model, and the patients were divided into high‐ and low‐risk groups according to the median risk score. Functional enrichment analysis was carried out by this group, and a model for predicting clinical prognosis was established by combining this group with clinical factors.ResultsGene set enrichment analysis (GSEA) and single‐sample gene set enrichment analysis (ssGSEA) analysis showed that there were several immune‐related pathways and immune infiltration differences between high‐ and low‐risk groups. A prognostic model integrating 10 ferroptosis‐related genes (FR‐DEGs), and clinical factors were constructed and validated in an external cohort.ConclusionsThe FR‐DEGs signature was related to immune infiltration, and a model based on FR‐DEGs and clinical factors was established to predict the prognosis of patients with LUAD.
Exploring bias in restraint use: Four strategies to mitigate bias in care of the agitated patient in the emergency department
Authors: Jin Rowen O. , Anaebere Tiffany C. , Haar Rohini J. 
Published: May 2021

AbstractAgitation is a routine and increasingly common presentation to the emergency department (ED). In the wake of a national examination into racism and police use of force, this article aims to extend that reflection into emergency medicine in the management of patients presenting with acute agitation. Through an overview of ethicolegal considerations in restraint use and current literature on implicit bias in medicine, this article provides a discussion on how bias may impact care of the agitated patient. Concrete strategies are offered at an individual, institutional, and health system level to help mitigate bias and improve care.