bluuebunny/crossref_metadata_2025_split huggingface dataset:
Cross-platform analysis of public responses to the 2019 Ridgecrest earthquake sequence on Twitter and Reddit
Authors: Ruan Tao , Kong Qingkai , McBride Sara K. , Sethjiwala Amatullah , Lv Qin 
Published: January 2022

AbstractOnline social networks (OSNs) have become a powerful tool to study collective human responses to extreme events such as earthquakes. Most previous research concentrated on a single platform and utilized users’ behaviors on a single platform to study people’s general responses. In this study, we explore the characteristics of people’s behaviors on different OSNs and conduct a cross-platform analysis of public responses to earthquakes. Our findings support the Uses and Gratification theory that users on Reddit and Twitter are engaging with platforms that they may feel best reflect their sense of self. Using the 2019 Ridgecrest earthquakes as our study cases, we collected 510,579 tweets and 45,770 Reddit posts (including 1437 submissions and 44,333 comments) to answer the following research questions: (1) What were the similarities and differences between public responses on Twitter and Reddit? (2) Considering the different mechanisms of Twitter and Reddit, what unique information of public responses can we learn from Reddit as compared with Twitter? By answering these research questions, we aim to bridge the gap of cross-platform public responses research towards natural hazards. Our study evinces that the users on the two different platforms have both different topics of interest and different sentiments towards the same earthquake, which indicates the necessity of investigating cross-platform OSNs to reveal a more comprehensive picture of people’s general public responses towards certain disasters. Our analysis also finds that r/conspiracy subreddit is one of the major venues where people discuss the 2019 Ridgecrest earthquakes on Reddit and different misinformation/conspiracies spread on Twitter and Reddit platforms (e.g., “Big one is coming” on Twitter and “Nuclear test” on Reddit).
Strategies for COVID-19 vaccination under a shortage scenario: a geo-stochastic modelling approach
Authors: Barreiro N. L. , Ventura C. I. , Govezensky T. , Núñez M. , Bolcatto P. G. , Barrio R. A. 
Published: January 2022

AbstractIn a world being hit by waves of COVID-19, vaccination is a light on the horizon. However, the roll-out of vaccination strategies and their influence on the pandemic are still open questions. In order to compare the effect of various strategies proposed by the World Health Organization and other authorities, a previously developed SEIRS stochastic model of geographical spreading of the virus is extended by adding a compartment for vaccinated people. The parameters of the model were fitted to describe the pandemic evolution in Argentina, Mexico and Spain to analyze the effect of the proposed vaccination strategies. The mobility parameters allow to simulate different social behaviors (e.g. lock-down interventions). Schemes in which vaccines are applied homogeneously in all the country, or limited to the most densely-populated areas, are simulated and compared. The second strategy is found to be more effective. Moreover, under the current global shortage of vaccines, it should be remarked that immunization is enhanced when mobility is reduced. Additionally, repetition of vaccination campaigns should be timed considering the immunity lapse of the vaccinated (and recovered) people. Finally, the model is extended to include the effect of isolation of detected positive cases, shown to be important to reduce infections.
Multiple roles of bamboo as a regulator of cyanobacterial bloom in aquatic systems
Authors: Hao Aimin , Su Mengyao , Kobayashi Sohei , Zhao Min , Iseri Yasushi 
Published: January 2022

AbstractTo understand the potential roles of terrestrial bamboo on controlling cyanobacterial blooms in aquatic systems, growth rates of the cyanobacterium Microcystis aeruginosa and its competitor algae were examined under different concentrations of bamboo extract. In mono-species cultures with unicellular algal strains, 5.0 g L−1 extract treatment suppressed M. aeruginosa growth, while it had little effect on the growth of green alga Scenedesmus obliquus or promoted the growth of diatom Nitzschia palea. In co-species cultures, the extract treatment increased the effect of S. obliquus and N. palea on the growth of M. aeruginosa. Under the extract treatment with a field-collected M. aeruginosa population, its cell density declined and its colony was etiolated and sank, while co-cultured N. palea increased explosively by invading the colony. These results suggest that bamboo forest stands along banks and artificially installed bamboo poles can affect the aquatic environment for phytoplankton community. Enhancing the growth of competitors, especially diatoms that can invade cyanobacterial colonies, by using extracts or by providing substrates for growth, was suggested to be the major way of the bloom control by bamboo.
Uncovering structural diversity in commuting networks: global and local entropy
Authors: Marin Valentina , Molinero Carlos , Arcaute Elsa 
Published: January 2022

AbstractIn this paper we revisit the concept of mobility entropy. Over time, the structure of spatial interactions among urban centres tends to become more complex and evolves from centralised models to more scattered origin and destination patterns. Entropy measures can be used to explore this complexity, and to quantify the degree of structural diversity of in- and out-flows at different scales and across the system. We use toy models of commuting networks to examine global and local measures, allowing the comparison to occur between different parts of the system. We show that entropy at the link and node level give different insights on the characteristics of the systems, enabling us to identify employment hubs and interdependencies between and within different parts of the system. We compute the measures in the commuting networks of the Northern Powerhouse and Greater South East regions in the UK to examine their relevance when studying real systems of cities. Finally we discuss how these can be used to inform planning and policy decisions oriented towards decentralisation and resilience.
A forecast of staple crop production in Burkina Faso to enable early warnings of shortages in domestic food availability
Authors: Laudien Rahel , Schauberger Bernhard , Waid Jillian , Gornott Christoph 
Published: January 2022

AbstractAlmost half of the Burkinabe population is moderately or severely affected by food insecurity. With climate change, domestic food production may become more under pressure, further jeopardizing food security. In this study, we focus on the production of maize, sorghum and millet as staple cereal crops in Burkina Faso to assess food availability as one component of food security. Based on a statistical weather-driven crop model, we provide a within-season forecast of crop production 1 month before the harvest. Hindcast results from 1984 to 2018 produce an r2of 0.95 in case of known harvest areas and an r2of 0.88 when harvest areas are modelled instead. We compare actually supplied calories with those usually consumed from staple crops, allowing us to provide early information on shortages in domestic cereal production on the national level. Despite the—on average—sufficient domestic cereal production from maize, sorghum and millet, a considerable level of food insecurity prevails for large parts of the population. We suggest to consider such forecasts as an early warning signal for shortages in domestic staple crop production and encourage a comprehensive assessment of all dimensions of food security to rapidly develop counteractions for looming food crises.
H84T BanLec has broad spectrum antiviral activity against human herpesviruses in cells, skin, and mice
Authors: Lloyd M. G. , Liu D. , Legendre M. , Markovitz D. M. , Moffat J. F. 
Published: January 2022

AbstractH84T BanLec is a molecularly engineered lectin cloned from bananas with broad-spectrum antiviral activity against several RNA viruses. H84T BanLec dimers bind glycoproteins containing high-mannose N-glycans on the virion envelope, blocking attachment, entry, uncoating, and spread. It was unknown whether H84T BanLec is effective against human herpesviruses varicella-zoster virus (VZV), human cytomegalovirus (HCMV), and herpes simplex virus 1 (HSV-1), which express high-mannose N-linked glycoproteins on their envelopes. We evaluated H84T BanLec against VZV-ORF57-Luc, TB40/E HCMV-fLuc-eGFP, and HSV-1 R8411 in cells, skin organ culture, and mice. The H84T BanLec EC50 was 0.025 µM for VZV (SI50 = 4000) in human foreskin fibroblasts (HFFs), 0.23 µM for HCMV (SI50 = 441) in HFFs, and 0.33 µM for HSV-1 (SI50 = 308) in Vero cells. Human skin was obtained from reduction mammoplasties and prepared for culture. Skin was infected and cultured up to 14 days. H84T BanLec prevented VZV, HCMV and HSV-1 spread in skin at 10 µM in the culture medium, and also exhibited dose-dependent antiviral effects. Additionally, H84T BanLec arrested virus spread when treatment was delayed. Histopathology of HCMV-infected skin showed no overt toxicity when H84T BanLec was present in the media. In athymic nude mice with human skin xenografts (NuSkin mice), H84T BanLec reduced VZV spread when administered subcutaneously prior to intraxenograft virus inoculation. This is the first demonstration of H84T BanLec effectiveness against DNA viruses. H84T BanLec may have additional unexplored activity against other, clinically relevant, glycosylated viruses.
Sulfotransferase 4A1 activity facilitates sulfate-dependent cellular protection to oxidative stress
Authors: Brettrager Evan J. , Meehan Arthur W. , Falany Charles N. , van Waardenburg Robert C. A. M. 
Published: January 2022

AbstractSulfotransferase 4A1 (SULT4A1) is an orphan member of the cytosolic SULT superfamily that contains enzymes that catalyze the sulfonation of hydrophobic drugs and hormones. SULT4A1 has been assessed through all classical SULT approaches yet no SULT activity has been reported. To ascertain SULT4A1 function and activity, we utilized Saccharomyces cerevisiae as a model system, which exhibits no endogenous SULT activity nor possesses SULT-related genes. We observed that ectopic SULT4A1 expression in yeast displays similar subcellular localization as reported in mouse neurons and observed that SULT4A1 is associated with the outer mitochondria membrane. SULT4A1 expression stimulates colony formation and protects these cells from hydrogen peroxide and metabolism-associated oxidative stress. These SULT4A1-mediated phenotypes are dependent on extracellular sulfate that is converted in yeast to PAPS, the universal sulfonate donor for SULT activity. Thus, heterologous SULT4A1 expression in yeast is correctly distributed and functional, and SULT4A1 antioxidant activity is sulfate dependent supporting the concept that SULT4A1 has sulfate-associated activity.
Multiple phases of human occupation in Southeast Arabia between 210,000 and 120,000 years ago
Authors: Bretzke K. , Preusser F. , Jasim S. , Miller C. , Preston G. , Raith K. , Underdown S. J. , Parton A. , Parker A. G. 
Published: January 2022

AbstractChanging climatic conditions are thought to be a major control of human presence in Arabia during the Paleolithic. Whilst the Pleistocene archaeological record shows that periods of increased monsoon rainfall attracted human occupation and led to increased population densities, the impact of arid conditions on human populations in Arabia remains largely speculative. Here, we present data from Jebel Faya in Southeast (SE) Arabia, which document four periods of human occupation between c. 210,000 and 120,000 years ago. The Jebel Faya record indicates that human occupation of SE Arabia was more regular and not exclusively linked to major humid periods. Our data show that brief phases of increased rainfall additionally enabled human settlement in the Faya region. These results imply that the mosaic environments in SE Arabia have likely formed a population refugia at the end of the Middle and the beginning of the Late Pleistocene.
Differential release of extracellular vesicle tRNA from oxidative stressed renal cells and ischemic kidneys
Authors: Lee Hee Kyung , Lee Byung Rho , Lee Tae Jin , Lee Chang Min , Li Chenglong , O’Connor Paul M. , Dong Zheng , Kwon Sang-Ho 
Published: January 2022

AbstractWhile urine-based liquid biopsy has expanded to the analyses of extracellular nucleic acids, the potential of transfer RNA (tRNA) encapsulated within extracellular vesicles has not been explored as a new class of urine biomarkers for kidney injury. Using rat kidney and mouse tubular cell injury models, we tested if extracellular vesicle-loaded tRNA and their m1A (N1-methyladenosine) modification reflect oxidative stress of kidney injury and determined the mechanism of tRNA packaging into extracellular vesicles. We determined a set of extracellular vesicle-loaded, isoaccepting tRNAs differentially released after ischemia–reperfusion injury and oxidative stress. Next, we found that m1A modification of extracellular vesicle tRNAs, despite an increase of the methylated tRNAs in intracellular vesicles, showed little or no change under oxidative stress. Mechanistically, oxidative stress decreases tRNA loading into intracellular vesicles while the tRNA-loaded vesicles are accumulated due to decreased release of the vesicles from the cell surface. Furthermore, Maf1-mediated transcriptional repression of the tRNAs decreases the cargo availability for extracellular vesicle release in response to oxidative stress. Taken together, our data support that release of extracellular vesicle tRNAs reflects oxidative stress of kidney tubules which might be useful to detect ischemic kidney injury and could lead to rebalance protein translation under oxidative stress.
Endothelial Notch signaling directly regulates the small GTPase RND1 to facilitate Notch suppression of endothelial migration
Authors: Swaminathan Bhairavi , Youn Seock-Won , Naiche L. A. , Du Jing , Villa Stephanie R. , Metz Jordan B. , Feng Huijuan , Zhang Chaolin , Kopan Raphael , Sims Peter A. , Kitajewski Jan K. 
Published: January 2022

AbstractTo control sprouting angiogenesis, endothelial Notch signaling suppresses tip cell formation, migration, and proliferation while promoting barrier formation. Each of these responses may be regulated by distinct Notch-regulated effectors. Notch activity is highly dynamic in sprouting endothelial cells, while constitutive Notch signaling drives homeostatic endothelial polarization, indicating the need for both rapid and constitutive Notch targets. In contrast to previous screens that focus on genes regulated by constitutively active Notch, we characterized the dynamic response to Notch. We examined transcriptional changes from 1.5 to 6 h after Notch signal activation via ligand-specific or EGTA induction in cultured primary human endothelial cells and neonatal mouse brain. In each combination of endothelial type and Notch manipulation, transcriptomic analysis identified distinct but overlapping sets of rapidly regulated genes and revealed many novel Notch target genes. Among the novel Notch-regulated signaling pathways identified were effectors in GPCR signaling, notably, the constitutively active GTPase RND1. In endothelial cells, RND1 was shown to be a novel direct Notch transcriptional target and required for Notch control of sprouting angiogenesis, endothelial migration, and Ras activity. We conclude that RND1 is directly regulated by endothelial Notch signaling in a rapid fashion in order to suppress endothelial migration.
Preprocedural transthoracic Doppler echocardiography to identify stenosis associated with increased coronary flow after revascularisation
Authors: Yamaguchi Masao , Hoshino Masahiro , Sugiyama Tomoyo , Kanaji Yoshihisa , Nogami Kai , Nagamine Tatsuhiro , Misawa Toru , Hada Masahiro , Araki Makoto , Hamaya Rikuta , Usui Eisuke , Murai Tadashi , Lee Tetsumin , Yonetsu Taishi , Sasano Tetsuo , Kakuta Tsunekazu 
Published: January 2022

AbstractThe benefit of percutaneous coronary intervention (PCI) has been reported to be associated with functional stenosis severity defined by fractional flow reserve (FFR). This study aimed to investigate the predictive ability of preprocedural transthoracic Doppler echocardiography (TDE) for increased coronary flow. A total of 50 left anterior descending arteries (LAD) that underwent TDE examinations were analysed. Hyperaemic LAD diastolic peak velocity (hDPV) was used as a surrogate of volumetric coronary flow. The increase in coronary flow was evaluated by the metric of % hDPV-increase defined by 100× (post-PCI hDPV-pre-PCI hDPV)/pre-PCI hDPV. The two groups divided by the median value of % hDPV-increase were compared, and the determinants of a significant coronary flow increase defined as more than the median % hDPV-increase were explored. After PCI, FFR values improved in all cases. hDPV significantly increased from 53.0 to 76.0 mm/s (P < 0.01) and the median % hDPV-increase was 45%, while hDPV decreased in 10 patients. On multivariable analysis, pre-PCI FFR and hDPV were independent predictors of a significant coronary flow increase. Preprocedural TDE-derived hDPV provided significant improvement of identification of lesions that benefit from revascularisation with respect to significant coronary flow increase.
Dynamic increase of M2 macrophages is associated with disease progression of colorectal cancers following cetuximab-based treatment
Authors: Kim Hyung-Don , Kim Sun Young , Kim Jihun , Kim Jeong Eun , Hong Yong Sang , Han Buhm , Tak Eunyoung , Ryu Yeon-Mi , Kim Sang-Yeob , Kim Tae Won 
Published: January 2022

AbstractWe aimed to investigate the dynamic changes of gene expression profiles and immune microenvironment linked to resistance to cetuximab-based treatments in patients with metastatic colorectal cancer (mCRC). A total of 106 patients with RAS-wild type mCRC who were treated with cetuximab-based treatments were included as the study population. RNA-sequencing and multiplexed immunohistochemistry were performed using paired or unpaired pre-treatment and post-treatment tumor tissues. Differentially expressed gene analysis of paired pre-treatment and post-treatment tumor tissues that develop acquired resistance (AR) identified the AR signature. Gene ontology analysis of the AR signature indicated enrichment of immune-related pathway genes. Among the immune subsets whose abundance was estimated by CIBERSORT, M2 macrophages showed the most prominent positive correlation with the expression of the AR signature. Among the post-treatment samples, progressive disease (PD) tumors showed a significantly higher abundance of M2 macrophages compared to non-PD tumors. These findings were validated by multiplexed immunohistochemistry analysis: the density of CD68+CD206+ M2 macrophages significantly increased at the time of PD following cetuximab-based treatment, whereas it did not consistently change in the tumor pairs of non-PD. In conclusion, a dynamic increase of M2 macrophages is associated with disease progression during cetuximab-based treatment of mCRCs. Targeting M2 macrophages is a promising immunotherapeutic strategy in this clinical context.
Recycling of zinc ions in disc-donut column considering forward mixing mass transfer, and effects of pulsed and non-pulsed condition
Authors: Asadollahzadeh Mehdi , Torkaman Rezvan , Torab-Mostaedi Meisam , Saremi Mojtaba 
Published: January 2022

AbstractThe current study focuses on the recovery of zinc ions by solvent extraction in the pulsed contactor. The Zn(II) ions from chloride solution were extracted into the organic phase containing di-(2-ethylhexyl) phosphoric acid (D2EHPA) extractant. The resulting data were characterized for the relative amount of (a) pulsed and no-pulsed condition; and (b) flow rate of both phases. Based on the mass balance equations for the column performance description, numerical computations of mass transfer in a disc-donut column were conducted and validated the experimental data for zinc extraction. Four different models, such as plug flow, backflow, axial dispersion, and forward mixing were evaluated in this study. The results showed that the intensification of the process with the pulsed condition increased and achieved higher mass transfer rates. The forward mixing model findings based on the curve fitting approach validated well with the experimental data. The results showed that an increase in pulsation intensity, as well as the phase flow rates, have a positive impact on the performance of the extractor. In contrast, the enhancement of flow rate led to the reduction of the described model parameters for the adverse phase.
Creation of unexplored tunnel junction by heterogeneous integration of InGaAs nanowires on germanium
Authors: Yoshida Akinobu , Gamo Hironori , Motohisa Junichi , Tomioka Katsuhiro 
Published: January 2022

AbstractHeteroepitaxy has inherent concerns regarding crystal defects originated from differences in lattice constant, thermal expansion coefficient, and crystal structure. The selection of III–V materials on group IV materials that can avoid these issues has however been limited for applications such as photonics, electronics, and photovoltaics. Here, we studied nanometer-scale direct integration of InGaAs nanowires (NWs) on Ge in terms of heterogenous integration and creation of functional materials with an as yet unexplored heterostructure. We revealed that changing the initial Ge into a (111)B-polar surce anabled vertical InGaAs NWs to be integrated for all In compositions examined. Moreover, the growth naturally formed a tunnel junction across the InGaAs/Ge interface that showed a rectification property with a huge current density of several kAcm−2 and negative differential resistance with a peak-to-valley current ratio of 2.8. The described approach expands the range of material combinations for high-performance transistors, tandem solar cells, and three-dimensional integrations.
Investigating the human jejunal microbiota
Authors: Villmones Heidi Cecilie , Svanevik Marius , Ulvestad Elling , Stenstad Tore , Anthonisen Inger Lill , Nygaard Randi Monsen , Dyrhovden Ruben , Kommedal Øyvind 
Published: January 2022

AbstractDescriptions of the small intestinal microbiota are deficient and conflicting. We aimed to get a reliable description of the jejunal bacterial microbiota by investigating samples from two separate jejunal segments collected from the luminal mucosa during surgery. Sixty patients with morbid obesity selected for elective gastric bypass surgery were included in this survey. Samples collected by rubbing a swab against the mucosa of proximal and mid jejunal segments were characterized both quantitatively and qualitatively using a combination of microbial culture, a universal quantitative PCR and 16S deep sequencing. Within the inherent limitations of partial 16S sequencing, bacteria were assigned to the species level. By microbial culture, 53 patients (88.3%) had an estimated bacterial density of < 1600 cfu/ml in both segments whereof 31 (51.7%) were culture negative in both segments corresponding to a bacterial density below 160 cfu/ml. By quantitative PCR, 46 patients (76.7%) had less than 104 bacterial genomes/ml in both segments. The most abundant and frequently identified species by 16S deep sequencing were associated with the oral cavity, most often from the Streptococcus mitis group, the Streptococcus sanguinis group, Granulicatella adiacens/para-adiacens, the Schaalia odontolytica complex and Gemella haemolysans/taiwanensis. In general, few bacterial species were identified per sample and there was a low consistency both between the two investigated segments in each patient and between patients. The jejunal mucosa of fasting obese patients contains relatively few microorganisms and a core microbiota could not be established. The identified microbes are likely representatives of a transient microbiota and there is a high degree of overlap between the most frequently identified species in the jejunum and the recently described ileum core microbiota.