bluuebunny/crossref_metadata_2025_split huggingface dataset:
Transcriptional changes in dendritic cells underlying allergen specific induced tolerance in a mouse model
Authors: Nuñez Rafael , Rodriguez Maria Jose , Palomares Francisca , Gomez Francisca , Jabato Fernando M. , Cordoba-Caballero Jose , Seoane Pedro , Losada Jorge , Rojo Javier , Torres Maria Jose , Perkins James Richard , Mayorga Cristobalina 
Published: February 2022

AbstractTo investigate food allergy-tolerance mechanisms induced through allergen-specific immunotherapy we used RNA-Sequencing to measure gene expression in lymph-node-derived dendritic cells from Pru p 3-anaphylactic mice after immunotherapy with glycodendropeptides at 2 nM and 5 nM, leading to permanent tolerance and short-term desensitization, respectively. Gene expression was also measured in mice receiving no immunotherapy (anaphylaxis); and in which anaphylaxis could never occur (antigen-only). Compared to anaphylaxis, the antigen-only group showed the greatest number of expression-changes (411), followed by tolerant (186) and desensitized (119). Only 29 genes changed in all groups, including Il12b, Cebpb and Ifngr1. The desensitized group showed enrichment for genes related to chronic inflammatory response, secretory granule, and regulation of interleukin-12 production; the tolerant group showed genes related to cytokine receptor activity and glucocorticoid receptor binding, suggesting distinct pathways for similar outcomes. We identified genes and processes potentially involved in the restoration of long-term tolerance via allergen-specific immunotherapy, representing potential prognostic biomarkers.
Effects of perturbations on the stability of equilibrium points in the CR3BP with luminous and heterogeneous spheroid primaries
Authors: Singh Jagadish , Ahmad Shitu Muktar 
Published: February 2022

AbstractThis paper studies the position and stability of equilibrium points in the circular restricted three-body problem under the influence of small perturbations in the Coriolis and centrifugal forces when the primaries are radiating and heterogeneous oblate spheroids. It is seen that there exist five libration points as in the classical restricted three-body problem, three collinear $$L_{i} ,(i = 1,2,3)$$

L
i

,

(
i
=
1
,
2
,
3
)

and two triangular $$L_{i} ,(i = 4,5)$$

L
i

,

(
i
=
4
,
5
)

. It is also seen that the triangular points are no longer to form equilateral triangles with the primaries rather they form simple triangles with line joining the primaries. It is further observed that despite all perturbations the collinear points remain unstable while the triangular points are stable for $$ 0 < \mu < \mu _{c} $$

0
<
μ
<

μ
c

and unstable for $$ \mu _{c} \le \mu \le \frac{1}{2} $$

μ
c

≤
μ
≤

1
2

, where $$ \mu _{c} $$

μ
c

is the critical mass ratio depending upon aforementioned parameters. It is marked that small perturbation in the Coriolis force, radiation and heterogeneous oblateness of the both primaries have destabilizing tendencies. Their numerical examination is also performed.
Optical imaging spectroscopy for rapid, primary screening of SARS-CoV-2: a proof of concept
Authors: Gomez-Gonzalez Emilio , Barriga-Rivera Alejandro , Fernandez-Muñoz Beatriz , Navas-Garcia Jose Manuel , Fernandez-Lizaranzu Isabel , Munoz-Gonzalez Francisco Javier , Parrilla-Giraldez Ruben , Requena-Lancharro Desiree , Gil-Gamboa Pedro , Rosell-Valle Cristina , Gomez-Gonzalez Carmen , Mayorga-Buiza Maria Jose , Martin-Lopez Maria , Muñoz Olga , Gomez-Martin Juan Carlos , Relimpio-Lopez Maria Isabel , Aceituno-Castro Jesus , Perales-Esteve Manuel A. , Puppo-Moreno Antonio , Garcia-Cozar Francisco Jose , Olvera-Collantes Lucia , Gomez-Diaz Raquel , de los Santos-Trigo Silvia , Huguet-Carrasco Monserrat , Rey Manuel , Gomez Emilia , Sanchez-Pernaute Rosario , Padillo-Ruiz Javier , Marquez-Rivas Javier 
Published: February 2022

AbstractEffective testing is essential to control the coronavirus disease 2019 (COVID-19) transmission. Here we report a-proof-of-concept study on hyperspectral image analysis in the visible and near-infrared range for primary screening at the point-of-care of SARS-CoV-2. We apply spectral feature descriptors, partial least square-discriminant analysis, and artificial intelligence to extract information from optical diffuse reflectance measurements from 5 µL fluid samples at pixel, droplet, and patient levels. We discern preparations of engineered lentiviral particles pseudotyped with the spike protein of the SARS-CoV-2 from those with the G protein of the vesicular stomatitis virus in saline solution and artificial saliva. We report a quantitative analysis of 72 samples of nasopharyngeal exudate in a range of SARS-CoV-2 viral loads, and a descriptive study of another 32 fresh human saliva samples. Sensitivity for classification of exudates was 100% with peak specificity of 87.5% for discernment from PCR-negative but symptomatic cases. Proposed technology is reagent-free, fast, and scalable, and could substantially reduce the number of molecular tests currently required for COVID-19 mass screening strategies even in resource-limited settings.
Molecular detection and genetic characterization of human metapneumovirus strains circulating in Islamabad, Pakistan
Authors: Arshad Yasir , Rana Muhammad Suleman , Ikram Aamer , Salman Muhammad , Aamir Uzma Bashir , Zaidi Syed Sohail Zahoor , Alam Muhammad Masroor , Sharif Salmaan , Shaukat Shahzad , Khurshid Adnan , Hakim Rabia , Mujtaba Ghulam , Umair Massab , Sattar Sadia , Bostan Nazish 
Published: February 2022

AbstractLower respiratory illness is one of the leading causes of death among children in low- and high-income countries. Human metapneumovirus (hMPV) is a key contributor to respiratory illnesses commonly reported among children and causes serious clinical complications ranging from mild respiratory infections to severe lower respiratory tract anomalies mainly in the form of bronchiolitis and pneumonia. However, due to the lack of a national surveillance system, the clinical significance of hMPV remains obscure in the Pakistani population. This study was conducted to screen throat swabs samples collected from 127 children reported with respiratory symptoms at a tertiary care hospital in Islamabad. Out of 127, 21 (16.5%) samples were positive for hMPV with its genotype distribution as A2a (10%), A2b (20%), B1 (10%), and B2 (60%). Phylogenetic analysis showed that the hMPV viruses were closely related to those reported from neighboring countries including India and China. This work will contribute to a better understanding of this virus, its diagnosis, and the handling of patients in clinical setups. Further studies at a large-scale are warranted for a better understanding of the disease burden and epidemiology of hMPV in Pakistan.
Decreased physical activity with subjective pleasure is associated with avoidance behaviors
Authors: Kagawa Fumi , Yokoyama Satoshi , Takamura Masahiro , Takagaki Koki , Mitsuyama Yuki , Shimizu Ayaka , Jinnin Ran , Ihara Hirotaka , Kurata Akiko , Okada Go , Okamoto Yasumasa 
Published: February 2022

AbstractThe main hypothesis for the relation between physical activity and mental health is that autonomous motivation, such as subjective pleasure for the activity, plays an important role. However, no report has described empirical research designed to examine the role of subjective pleasure in the relation between objectively measured physical activity and psychological indexes. We used accelerometers to collect data indicating participants' physical activity intensity during a week. Participants recorded their subjective pleasure of activity per hour. In 69% of them, the individual correlation coefficients between physical activity and pleasure in an hour (an index of Physical Activity-Pleasure; PA-PL) were positive (r = 0.22, 95%Cl = [0.11–0.38]), indicating that pleasant sensations increased concomitantly with increasing physical activity. Conversely, 31% participants exhibited negative values of PA-PL, which means that the increase in physical activity had the opposite effect, decreasing pleasure. Multiple linear regression analysis showed that avoidance/rumination behaviors decreased significantly with increased PA-PL (β = −6.82, 95%CI: [−13.27 to −0.38], p < .05). These results indicate that subjective pleasure attached to the PA is more important than the PA amount for reducing depressive behavior.
A multi-objective optimization using response surface model coupled with particle swarm algorithm on FSW process parameters
Authors: Kahhal Parviz , Ghasemi Mohsen , Kashfi Mohammad , Ghorbani-Menghari Hossein , Kim Ji Hoon 
Published: February 2022

AbstractIn this study, multi-objective optimization of mechanical properties in friction-stir-welding of AH12 1050 aluminum alloy is performed using a combination of the response surface method and multi-objective particle swarm optimization algorithm. The process parameters are considered as tool pin diameter, shoulder diameter, rotational speed, feed speed, and tool tilt angle. The heat-affected zone’s yield strength, fracture strain, impact toughness, and hardness on the advancing and retreating sides are selected as the objective functions. Threaded and simple conical pins are utilized to evaluate the effect of the pin geometry on the specimen mechanical properties. Optimization model outputs are in agree with the obtained experimental results. The effects of process parameters on the mechanical properties of the friction-stir-welded sheets are studied. Results reveal that the lower rotational speed and higher feed speed improve the material strength and hardness. Moreover, the microstructural analysis demonstrates that the proposed methodology can achieve a fine-grained structure with the minimum defects. Improvement in the material flow is observed for the threaded cylindrical pin compared with the conical pin due to the geometric shape of the tool pin leading to more functional mechanical properties. It is found that the combination of the response surface methodology and the multi-objective particle swarm algorithm led to the modeling and optimization of the process with outstanding accuracy and low experimental cost.
Changes of the vaginal microbiota in HPV infection and cervical intraepithelial neoplasia: a cross-sectional analysis
Authors: Lin Wenyu , Zhang Qiaoyu , Chen Yaojia , Dong Binhua , Xue Huifeng , Lei Huifang , Lu Yanfang , Wei Xufang , Sun Pengming 
Published: February 2022

AbstractThis study aimed to explore the changes of the vaginal microbiota and enzymes in the women with high-risk human papillomavirus (HR-HPV) infection and cervical lesions. A total of 448 participants were carried out HPV genotyping, cytology tests, and microecology tests, and 28 participants were treated as sub-samples, in which vaginal samples were characterized by sequencing the bacterial 16S V4 ribosomal RNA (rRNA) gene region. The study found the prevalence of HR-HPV was higher in patients with BV (P = 0.036). The HR-HPV infection rate was 72.73% in G. vaginalis women, which was significantly higher than that of women with lactobacillus as the dominant microbiota (44.72%) (P = 0.04). The positive rate of sialidase (SNA) was higher in women with HR-HPV infection (P = 0.004) and women diagnosed with cervical intraepithelial neoplasia (CIN) (P = 0.041). In HPV (+) women, the α-diversity was significantly higher than that in HPV (−) women. The 16S rRNA gene-based amplicon sequencing results showed that Lactobacillus was the dominant bacteria in the normal vaginal microbiota. However, the proportion of Gardnerella and Prevotella were markedly increased in HPV (+) patients. Gardnerella and Prevotella are the most high-risk combination for the development of HPV (+) women. The SNA secreted by Gardnerella and Prevotella may play a significant role in HPV infection progress to cervical lesions.
Discovery of actinomycin L, a new member of the actinomycin family of antibiotics
Authors: Machushynets Nataliia V. , Elsayed Somayah S. , Du Chao , Siegler Maxime A. , de la Cruz Mercedes , Genilloud Olga , Hankemeier Thomas , van Wezel Gilles P. 
Published: February 2022

AbstractStreptomycetes are major producers of bioactive natural products, including the majority of the naturally produced antibiotics. While much of the low-hanging fruit has been discovered, it is predicted that less than 5% of the chemical space of natural products has been mined. Here, we describe the discovery of the novel actinomycins L1 and L2 produced by Streptomyces sp. MBT27, via application of metabolic analysis and molecular networking. Actinomycins L1 and L2 are diastereomers, and the structure of actinomycin L2 was resolved using NMR and single crystal X-ray crystallography. Actinomycin L is formed via spirolinkage of anthranilamide to the 4-oxoproline moiety of actinomycin X2, prior to the condensation of the actinomycin halves. Such a structural feature has not previously been identified in naturally occurring actinomycins. Adding anthranilamide to cultures of the actinomycin X2 producer Streptomyces antibioticus, which has the same biosynthetic gene cluster as Streptomyces sp. MBT27, resulted in the production of actinomycin L. This supports a biosynthetic pathway whereby actinomycin L is produced from two distinct metabolic routes, namely those for actinomycin X2 and for anthranilamide. Actinomycins L1 and L2 showed significant antimicrobial activity against Gram-positive bacteria. Our work shows how new molecules can still be identified even in the oldest of natural product families.
WDR72 regulates vesicle trafficking in ameloblasts
Authors: Katsura Kaitlin , Nakano Yukiko , Zhang Yan , Shemirani Rozana , Li Wu , Den Besten Pamela 
Published: February 2022

AbstractAs the hardest tissue in the human body, tooth enamel formation is a highly regulated process involving several stages of differentiation and key regulatory genes. One such gene, tryptophan‐aspartate repeat domain 72 (WDR72), has been found to cause a tooth enamel defect when deleted or mutated, resulting in a condition called amelogenesis imperfecta. Unlike the canonical genes regulating tooth development, WDR72 remains intracellularly and is not secreted to the enamel matrix space to regulate mineralization, and is found in other major organs of the body, namely the kidney, brain, liver, and heart. To date, a link between intracellular vesicle transport and enamel mineralization has been suggested, however identification of the mechanistic regulators has yet to be elucidated, in part due to the limitations associated with studying highly differentiated ameloblast cells. Here we show compelling evidence that WDR72 regulates endocytosis of proteins, both in vivo and in a novel in vitro ameloblast cell line. We elucidate WDR72’s function to be independent of intracellular vesicle acidification while still leading to defective enamel matrix pH extracellularly. We identify a vesicle function associated with microtubule assembly and propose that WDR72 directs microtubule assembly necessary for membrane mobilization and subsequent vesicle transport. Understanding WDR72 function provides a mechanistic basis for determining physiologic and pathologic tissue mineralization.
Prognostic value of postural hypotension in hospitalized patients with heart failure
Authors: Sunayama Tsutomu , Maeda Daichi , Matsue Yuya , Kagiyama Nobuyuki , Jujo Kentaro , Saito Kazuya , Kamiya Kentaro , Saito Hiroshi , Ogasawara Yuki , Maekawa Emi , Konishi Masaaki , Kitai Takeshi , Iwata Kentaro , Wada Hiroshi , Hiki Masaru , Dotare Taishi , Kasai Takatoshi , Nagamatsu Hirofumi , Ozawa Tetsuya , Izawa Katsuya , Yamamoto Shuhei , Aizawa Naoki , Yonezawa Ryusuke , Oka Kazuhiro , Momomura Shin-ichi , Minamino Tohru 
Published: February 2022

AbstractAlthough postural hypotension (PH) is reportedly associated with mortality in the general population, the prognostic value for heart failure is unclear. This was a post-hoc analysis of FRAGILE-HF, a prospective multicenter observational study focusing on frailty in elderly patients with heart failure. Overall, 730 patients aged ≥ 65 years who were hospitalized with heart failure were enrolled. PH was defined by evaluating seated PH, and was defined as a fall of ≥ 20 mmHg in systolic and/or ≥ 10 mmHg in diastolic blood pressure within 3 min after transition from a supine to sitting position. The study endpoints were all-cause death and heart failure readmission at 1 year. Predictive variables for the presence of PH were also evaluated. PH was observed in 160 patients (21.9%). Patients with PH were more likely than those without PH to be male with a New York Heart Association classification of III/IV. Logistic regression analysis showed that male sex, severe heart failure symptoms, and lack of administration of angiotensin-converting enzyme inhibitors were independently associated with PH. PH was not associated with 1-year mortality, but was associated with a lower incidence of readmission after discharge after adjustment for other covariates. In conclusion, PH was associated with reduced risk of heart failure readmission but not with 1-year mortality in older patients with heart failure.
RNA-Seq analysis of a Pax3-expressing myoblast clone in-vitro and effect of culture surface stiffness on differentiation
Authors: Richardson Louise , Wang Dapeng , Hughes Ruth , Johnson Colin A. , Peckham Michelle 
Published: February 2022

AbstractSkeletal muscle satellite cells cultured on soft surfaces (12 kPa) show improved differentiation than cells cultured on stiff surfaces (approximately 100 kPa). To better understand the reasons for this, we performed an RNA-Seq analysis for a single satellite cell clone (C1F) derived from the H2kb-tsA58 immortomouse, which differentiates into myotubes under tightly regulated conditions (withdrawal of ɣ-interferon, 37 °C). The largest change in overall gene expression occurred at day 1, as cells switched from proliferation to differentiation. Surprisingly, further analysis showed that proliferating C1F cells express Pax3 and not Pax7, confirmed by immunostaining, yet their subsequent differentiation into myotubes is normal, and enhanced on softer surfaces, as evidenced by significantly higher expression levels of myogenic regulatory factors, sarcomeric genes, enhanced fusion and improved myofibrillogenesis. Levels of mRNA encoding extracellular matrix structural constituents and related genes were consistently upregulated on hard surfaces, suggesting that a consequence of differentiating satellite cells on hard surfaces is that they attempt to manipulate their niche prior to differentiating. This comprehensive RNA-Seq dataset will be a useful resource for understanding Pax3 expressing cells.
An optimized method to obtain high-quality RNA from different tissues in Lilium davidii var. unicolor
Authors: Wang Chunlei , Hou Xuemei , Qi Nana , Li Changxia , Luo Yanyan , Hu Dongliang , Li Yihua , Liao Weibiao 
Published: February 2022

AbstractThe high quality, yield and purity total RNA samples are essential for molecular experiments. However, harvesting high quality RNA in Lilium davidii var. unicolor is a great challenge due to its polysaccharides, polyphenols and other secondary metabolites. In this study, different RNA extraction methods, namely TRIzol method, the modified TRIzol method, Kit method and cetyltrimethylammonium bromide (CTAB) method were employed to obtain total RNA from different tissues in L. davidii var. unicolor. A Nano drop spectrophotometer and 1% agarose gel electrophoresis were used to detect the RNA quality and integrity. Compared with TRIzol, Kit and CTAB methods, the modified TRIzol method obtained higher RNA concentrations from different tissues and the A260/A280 ratios of RNA samples were ranged from 1.97 to 2.27. Thus, the modified TRIzol method was shown to be the most effective RNA extraction protocol in acquiring RNA with high concentrations. Furthermore, the RNA samples isolated by the modified TRIzol and Kit methods were intact, whereas different degrees of degradation happened within RNA samples isolated by the TRIzol and CTAB methods. In addition, the modified TRIzol method could also isolate high-quality RNA from other edible lily bulbs. Taken together, the modified TRIzol method is an efficient method for total RNA isolation from L. davidii var. unicolor.
Identification of candidate genes that specifically regulate subcutaneous and intramuscular fat deposition using transcriptomic and proteomic profiles in Dingyuan pigs
Authors: Zhang Pan , Li Qinggang , Wu Yijing , Zhang Yawen , Zhang Bo , Zhang Hao 
Published: February 2022

AbstractSubcutaneous fat and intramuscular fat (IMF) deposition are closely related to meat production and pork quality. Dingyuan pig, as a native pig breed in China, low selection leads to obvious genetic and phenotypic differences in the population. Individuals with extreme fat content in the population are ideal models for studying the mechanism of fat deposition. In this study, we used RNA-Seq and tandem mass tags-based (TMT) proteomics to analyze the key pathways and genes that specifically regulate subcutaneous fat and IMF deposition in Dingyuan pigs. We identified 191 differentially expressed genes (DEGs) and 61 differentially abundant proteins (DAPs) in the high and low back fat thickness (HBF, LBF) groups, 85 DEGs and 12 DAPs were obtained in the high and low intramuscular fat (HIMF, LIMF) groups. The functional analysis showed that the DEGs and DAPs in the backfat groups were mainly involved in carbohydrates, amino acids, and fatty acids metabolism, whereas the IMF groups were involved in the insulin pathway, longevity, and some disease-related pathways. We found 40 candidate genes that might tissue-specifically lipids deposition for subcutaneous and intramuscular fat. Our research provides theoretical reference materials for the improvement of fat deposition traits of local pig breeds in my country.
Investigating weighted fishing hooks for seabird bycatch mitigation
Authors: Gilman Eric , Musyl Michael , Wild Michael , Rong Hua , Chaloupka Milani 
Published: February 2022

AbstractFisheries bycatch threatens the viability of some seabird populations and reduces fishing efficiency. Albatross bycatch in a US North Pacific tuna longline fishery has increased over the past decade and now exceeds 1000 annual captures. Seabirds interacting with this fishery reach hooks at depths up to 1 m. A branchline weight’s mass and distance from the hook affect seabird catch rates. We conducted experimental fishing to compare the commercial viability of a weighted hook relative to conventional gear with weights attached 0.75 m from the hook. We used a Bayesian random effects meta-analytic regression modelling approach to estimate pooled expected species-specific log relative risk of capture on conventional versus experimental gear. There was a significant 53% (95% HDI: − 75 to − 25%) decrease in retained species’ catch rates on experimental hooks, indicating an unacceptable economic cost, and no significant effect for discarded species. Using a Bayesian general linear mixed regression modelling approach, experimental hooks sank to 85 cm ca. 1.4 times (95% HDI: 1.37–1.48) faster than control hooks. Given their potential to reduce seabird catch rates, eliminate safety risks from bite-offs and facilitate robust compliance monitoring, it is a priority to find a weighted hook design with acceptable catch rates.