bluuebunny/crossref_metadata_2025_split huggingface dataset:
Research on the degradation of ancient Longquan celadons in the Dalian Island shipwreck
Authors: He Yan , Li Weidong , Li Jianan , Xu Changsong , Lu Xiaoke 
Published: January 2022

AbstractEleven celadons with different degrees of degradation excavated from the Dalian Island shipwreck of the Yuan Dynasty (1271–1368 AD) were selected, and the degradation mechanism of the ancient porcelain at marine environment was investigated. The chemical composition, microstructure, and corrosion morphology of the samples were characterized. The results showed that these celadons can be divided into two types: transparent glazes and matt-opaque glazes. The glazes are subject to the combined effects of physical damage and chemical corrosion. The glaze surface became rougher through physical impact, and the increased surface area may also promote chemical corrosion. The mutual promotion of the two effects usually leads to more serious degradation. There are two possible corrosion mechanisms, depending on the glaze microstructure. Transparent glazes may experience the process of dissolution and reprecipitation. The crystallization-phase-separation structure in the matte glaze has lower chemical stability, which can contribute to more extensive corrosion.
Magnesium rescues the morphology of Bacillus subtilis mreB mutants through its inhibitory effect on peptidoglycan hydrolases
Authors: Tesson Benoit , Dajkovic Alex , Keary Ruth , Marlière Christian , Dupont-Gillain Christine C. , Carballido-López Rut 
Published: January 2022

AbstractCell wall homeostasis in bacteria is tightly regulated by balanced synthesis and degradation of peptidoglycan (PG), allowing cells to expand their sacculus during growth while maintaining physical integrity. In rod-shaped bacteria, actin-like MreB proteins are key players of the PG elongation machinery known as the Rod complex. In the Gram-positive model bacterium Bacillus subtilis depletion of the essential MreB leads to loss of rod shape and cell lysis. However, millimolar concentrations of magnesium in the growth medium rescue the viability and morphological defects of mreB mutants by an unknown mechanism. Here, we used a combination of cytological, biochemical and biophysical approaches to investigate the cell surface properties of mreB null mutant cells and the interactions of Mg2+ with the cell wall of B. subtilis. We show that ∆mreB cells have rougher and softer surfaces, and changes in PG composition indicative of increased DL- and DD-endopeptidase activities as well as increased deacetylation of the sugar moieties. Increase in DL-endopeptidase activity is mitigated by excess Mg2+ while DD-endopeptidase activity remains high. Visualization of PG degradation in pulse-chase experiments showed anisotropic PG hydrolase activity along the sidewalls of ∆mreB cells, in particular at the sites of increased cell width and bulging, while PG synthesis remained isotropic. Overall, our data support a model in which divalent cations maintain rod shape in ∆mreB cells by inhibiting PG hydrolases, possibly through the formation of crosslinks with carboxyl groups of the PG meshwork that affect the capacity of PG hydrolases to act on their substrate.
Insights into the genetic architecture of haematological traits from deep phenotyping and whole-genome sequencing for two Mediterranean isolated populations
Authors: Kuchenbaecker Karoline , Gilly Arthur , Suveges Daniel , Southam Lorraine , Giannakopoulou Olga , Kilian Britt , Tsafantakis Emmanouil , Karaleftheri Maria , Farmaki Aliki-Eleni , Gurdasani Deepti , Kundu Kousik , Sandhu Manjinder S. , Danesh John , Butterworth Adam , Barroso Inês , Dedoussis George , Zeggini Eleftheria 
Published: January 2022

AbstractHaematological traits are linked to cardiovascular, metabolic, infectious and immune disorders, as well as cancer. Here, we examine the role of genetic variation in shaping haematological traits in two isolated Mediterranean populations. Using whole-genome sequencing data at 22× depth for 1457 individuals from Crete (MANOLIS) and 1617 from the Pomak villages in Greece, we carry out a genome-wide association scan for haematological traits using linear mixed models. We discover novel associations (p < 5 × 10–9) of five rare non-coding variants with alleles conferring effects of 1.44–2.63 units of standard deviation on red and white blood cell count, platelet and red cell distribution width. Moreover, 10.0% of individuals in the Pomak population and 6.8% in MANOLIS carry a pathogenic mutation in the Haemoglobin Subunit Beta (HBB) gene. The mutational spectrum is highly diverse (10 different mutations). The most frequent mutation in MANOLIS is the common Mediterranean variant IVS-I-110 (G>A) (rs35004220). In the Pomak population, c.364C>A (“HbO-Arab”, rs33946267) is most frequent (4.4% allele frequency). We demonstrate effects on haematological and other traits, including bilirubin, cholesterol, and, in MANOLIS, height and gestation age. We find less severe effects on red blood cell traits for HbS, HbO, and IVS-I-6 (T>C) compared to other b+ mutations. Overall, we uncover allelic diversity of HBB in Greek isolated populations and find an important role for additional rare variants outside of HBB.
A diagnostic LAMP assay for rapid identification of an invasive plant pest, fall armyworm Spodoptera frugiperda (Lepidoptera: Noctuidae)
Authors: Agarwal Arati , Rako Lea , Schutze Mark K. , Starkie Melissa L. , Tay Wee Tek , Rodoni Brendan C. , Blacket Mark J. 
Published: January 2022

AbstractFall armyworm (FAW), Spodoptera frugiperda (Lepidoptera: Noctuidae), is a highly polyphagous invasive plant pest that has expanded its global geographic distribution, including recently into much of Australia. Rapid diagnostic tests are required for identification of FAW to assist subsequent management and control. We developed a new loop-mediated isothermal amplification (LAMP) assay based on the mitochondrial cytochrome c oxidase subunit I (COI) gene for accurate and timely diagnosis of FAW in the field. The specificity of the new assay was tested against a broad panel of twenty non-target noctuids, including eight other Spodoptera species. Only S. frugiperda samples produced amplification within 20 min, with an anneal derivative temperature of 78.3 ± 0.3 °C. A gBlock dsDNA fragment was developed and trialled as a synthetic positive control, with a different anneal derivative of 81 °C. The new FAW LAMP assay was able to detect FAW DNA down to 2.4 pg, similar to an existing laboratory-based real-time PCR assay. We also trialled the new FAW assay with a colorimetric master mix and found it could successfully amplify positive FAW samples in half the time compared to an existing FAW colorimetric LAMP assay. Given the high sensitivity and rapid amplification time, we recommend the use of this newly developed FAW LAMP assay in a portable real-time fluorometer for in-field diagnosis of FAW.
A comparative analysis of complete chloroplast genomes of seven Ocotea species (Lauraceae) confirms low sequence divergence within the Ocotea complex
Authors: Trofimov Dimitrij , Cadar Daniel , Schmidt-Chanasit Jonas , Rodrigues de Moraes Pedro Luís , Rohwer Jens G. 
Published: January 2022

AbstractThe genus Ocotea (Lauraceae) includes about 450 species, of which about 90% are Neotropical, while the rest is from Macaronesia, Africa and Madagascar. In this study we present the first complete chloroplast genome sequences of seven Ocotea species, six Neotropical and one from Macaronesia. Genome sizes range from 152,630 (O. porosa) to 152,685 bp (O. aciphylla). All seven plastomes contain a total of 131 (114 unique) genes, among which 87 (80 unique) encode proteins. The order of genes (if present) is the same in all Lauraceae examined so far. Two hypervariable loci were found in the LSC region (psbA-trnH, ycf2), three in the SSC region (ycf1, ndhH, trnL(UAG)-ndhF). The pairwise cp genomic alignment between the taxa showed that the LSC and SSC regions are more variable compared to the IR regions. The protein coding regions comprise 25,503–25,520 codons in the Ocotea plastomes examined. The most frequent amino acids encoded in the plastomes were leucine, isoleucine, and serine. SSRs were found to be more frequent in the two dioecious Neotropical Ocotea species than in the four bisexual species and the gynodioecious species examined (87 vs. 75–84 SSRs). A preliminary phylogenetic analysis based on 69 complete plastomes of Lauraceae species shows the seven Ocotea species as sister group to Cinnamomum sensu lato. Sequence divergence among the Ocotea species appears to be much lower than among species of the most closely related, likewise species-rich genera Cinnamomum, Lindera and Litsea.
Petri nets and ODEs as complementary methods for comprehensive analysis on an example of the ATM–p53–NF-$$\kappa$$B signaling pathways
Authors: Gutowska Kaja , Kogut Daria , Kardynska Malgorzata , Formanowicz Piotr , Smieja Jaroslaw , Puszynski Krzysztof 
Published: January 2022

AbstractIntracellular processes are cascades of biochemical reactions, triggered in response to various types of stimuli. Mathematical models describing their dynamics have become increasingly popular in recent years, as tools supporting experimental work in analysis of pathways and regulatory networks. Not only do they provide insights into general properties of these systems, but also help in specific tasks, such as search for drug molecular targets or treatment protocols. Different tools and methods are used to model complex biological systems. In this work, we focus on ordinary differential equations (ODEs) and Petri nets. We consider specific methods of analysis of such models, i.e., sensitivity analysis (SA) and significance analysis. So far, they have been applied separately, with different goals. In this paper, we show that they can complement each other, combining the sensitivity of ODE models and the significance analysis of Petri nets. The former is used to find parameters, whose change results in the greatest quantitative and qualitative changes in the model response, while the latter is a structural analysis and allows indicating the most important subprocesses in terms of information flow in Petri net. Ultimately, both methods facilitate finding the essential processes in a given signaling pathway or regulatory network and may be used to support medical therapy development. In the paper, the use of dual modeling is illustrated with an example of ATM/p53/NF-$$\kappa$$
κ
B pathway. Each method was applied to analyze this system, resulting in finding different subsets of important processes that might be prospective targets for changing this system behavior. While some of the processes were indicated in each of the approaches, others were found by one method only and would be missed if only that method was applied. This leads to the conclusion about the complementarity of the methods under investigation. The dual modeling approach of comprehensive structural and parametric analysis yields results that would not be possible if these two modeling approaches were applied separately. The combined approach, proposed in this paper, facilitates finding not only key processes, with which significant parameters are associated, but also significant modules, corresponding to subsystems of regulatory networks. The results provide broader insight into therapy targets in diseases in which the natural control of intracellular processes is disturbed, leading to the development of more effective therapies in medicine.
Targeted isolation of photoactive pigments from mushrooms yielded a highly potent new photosensitizer: 7,7′-biphyscion
Authors: Hammerle Fabian , Bingger Isabella , Pannwitz Andrea , Magnutzki Alexander , Gstir Ronald , Rutz Adriano , Wolfender Jean-Luc , Peintner Ursula , Siewert Bianka 
Published: January 2022

AbstractPigments of fungi are a fertile ground of inspiration: they spread across various chemical backbones, absorption ranges, and bioactivities. However, basidiomycetes with strikingly colored fruiting bodies have never been explored as agents for photodynamic therapy (PDT), even though known photoactive compound classes (e.g., anthraquinones or alkaloids) are used as chemotaxonomic markers. In this study, we tested the hypothesis that the dyes of skin-heads (dermocyboid Cortinarii) can produce singlet oxygen under irradiation and thus are natural photosensitizers. Three photosensitizers based on anthraquinone structures were isolated and photopharmaceutical tests were conducted. For one of the three, i.e., (–)-7,7′-biphyscion (1), a promising photoyield and photocytotoxicity of EC50 = 0.064 µM against cancer cells (A549) was found under blue light irradiation (λexc = 468 nm, 9.3 J/cm2). The results of molecular biological methods, e.g., a viability assay and a cell cycle analysis, demonstrated the harmlessness of 1 in the dark and highlighted the apoptosis-inducing PDT potential under blue light irradiation. These results demonstrate for the first time that pigments of dermocyboid Cortinarii possess a so far undescribed activity, i.e., photoactivity, with significant potential for the field of PDT. The dimeric anthraquinone (–)-7,7′-biphyscion (1) was identified as a promising natural photosensitizer.
Ultra-low-power switching circuits based on a binary pattern generator with spiking neurons
Authors: Yajima Takeaki 
Published: January 2022

AbstractResearch on various neuro-inspired technologies has received much attention. However, while higher-order neural functions such as recognition have been emphasized, the fundamental properties of neural circuits as advanced control systems have not been fully exploited. Here, we applied the functions of central pattern generators, biological neural circuits for motor control, to the control technology of switching circuits for extremely power-saving terminal edge devices. By simply applying a binary waveform with an arbitrary temporal pattern to the transistor gate, low-power and real-time switching control can be achieved. This binary pattern generator consists of a specially designed spiking neuron circuit that generates spikes after a pre-programmed wait time in the six-order range, but consumes negligible power, with an experimental record of 1.2 pW per neuron. This control scheme has been successfully applied to voltage conversion circuits consuming only a few nanowatts, providing an ultra-low power technology for trillions of self-powered edge systems.
Towards plasma jet controlled charging of a dielectric target at grounded, biased, and floating potential
Authors: Slikboer Elmar , Guaitella Olivier , Garcia-Caurel Enrique , Sobota Ana 
Published: January 2022

AbstractElectric field and surface charge measurements are presented to understand the dynamics in the plasma–surface interaction of a plasma jet and a dielectric surface. The ITO coated backside of the dielectric allowed to impose a DC bias and thus compare the influence of a grounded, biased and floating potential. When imposing a controlled potential at the back of the target, the periodical charging is directly dependent on the pulse length, irrespective of that control potential. This is because the plasma plume is sustained throughout the pulse. When uncontrolled and thus with a floating potential surface, charge accumulation and potential build-up prevents a sustained plasma plume. An imposed DC bias also leads to a continuous surface charge to be present accumulated on the plasma side to counteract the bias. This can lead to much higher electric fields (55 kV/cm) and surface charge (200 nC/cm$$^2$$

2

) than observed previously. When the plasma jet is turned off, the continuous surface charge decreased to half its value in 25 ms. These results have implications for surface treatment applications.
Twenty seconds of visual behaviour on social media gives insight into personality
Authors: Woods Callum , Luo Zhiyuan , Watling Dawn , Durant Szonya 
Published: January 2022

AbstractEye tracking allows the researcher to capture individual differences in the expression of visual exploration behaviour, which in certain contexts has been found to reflect aspects of the user’s preferences and personality. In a novel approach, we recorded the eye movements of 180 participants whilst they browsed their Facebook News Feed and employed a machine learning approach to predict each of the self-reported Big Five personality traits from this viewing behaviour. We identify that specific visual behaviours are informative of an individual’s personality trait information, and can be used to psychologically profile social networking site users significantly better than chance after collecting only 20 seconds of viewing behaviour. We discuss potential applications for user engagement during human–computer interactions, and highlight potential privacy concerns.
Remote triggering of high magnitude earthquakes along plate boundaries
Authors: O’Malley Robert T. , Choudhury Ayush , Zhang Yue 
Published: January 2022

AbstractIt has been shown that large magnitude earthquakes can remotely trigger other large magnitude earthquakes within three days. Such triggering of high magnitude earthquakes is potentially indicative of fault systems at the end of their seismic cycles. Here a method is developed to examine local earthquake history to determine how susceptible a given area is to remote triggering of high magnitude earthquakes. The method is applied to all plate boundaries. Only 14% of global tectonic boundaries are not susceptible to remote triggering, while 86% show susceptibility to varying degrees. The most highly susceptible locations begin triggering at lower magnitudes, dependent on the type of plate boundary. Varying patterns in susceptibility to remote triggering are observed around individual plates. Finite element modeling of the Cocos Plate reveals normal modes which appear consistent with its spatial patterns of high susceptibility. Many of the natural frequencies of the Cocos Plate are closely associated with the frequencies of free oscillations of the earth and could be induced by large earthquakes. Analysis of the stress tensors generated by the normal modes supports a delayed triggering mechanism involving one-sided negative (compressive) stress normal to the plane of the fault.
Association between sleep duration on workdays and blood pressure in non-overweight/obese population in NHANES: a public database research
Authors: Su Yingjie , Li Changluo , Long Yong , He Liudang , Ding Ning 
Published: January 2022

AbstractThis study aimed to explore the association between sleep duration on workdays and blood pressure (BP) including systolic blood pressure (SBP) and diastolic blood pressure (DBP) in non-overweight/obese population. A cross-sectional study composed of 2887 individuals from NHANES was conducted. Subjective sleep duration on workdays were evaluated by the questionnaire. Multiple linear regression analyses were done to explore the relationship between sleep duration and BP. Compared with sleep duration of 6–8 h, both sleep duration < 6 h and ≥ 8 h on workdays were significantly associated with increased SBP (β, 3.58 [95% CI 1.60, 5.56] and 1.70 [95% CI 0.76, 2.64], respectively). However, the significant association was not founded in DBP. The stratified analyses showed that in females, sleep duration (< 6 h or ≥ 8 h) on workdays were associated with SBP (β = 5.99 and 2.41, respectively, both P < 0.0005). In addition, the SBP levels were much higher among participants aged (≥ 60) with sleep duration < 6 h. The effect size was 7.23 (P = 0.0217). In the subgroup classified by race, a significantly positive association between sleep duration (< 6 h, ≥ 8 h) and SBP can be seen in the White population (β = 6.64 (P = 0.0007) and 1.91 (P = 0.0215), respectively). In non-overweight/obese population, both short sleep duration (< 6 h) and long sleep duration (≥ 8 h) on workdays were correlated with higher level of SBP.
Health improvements of type 2 diabetic patients through diet and diet plus fecal microbiota transplantation
Authors: Su Lili , Hong Zhifan , Zhou Tong , Jian Yuanyuan , Xu Mei , Zhang Xuanping , Zhu Xiaoyan , Wang Jiayin 
Published: January 2022

AbstractType 2 diabetes (T2D) is a major public health problem, and gut microbiota dysbiosis has been implicated in the emergence of T2D in humans. Dietary interventions can indirectly influence the health status of patients with type 2 diabetes through their modulatory effects on the intestinal microbiota. In recent years, fecal microbiota transplantation is becoming familiar as a new medical treatment that can rapidly improve intestinal health. We conducted a 90-day controlled open-label trial to evaluate the health improvement ability of a specially designed diet, and the diet combined with fecal microbiota transplantation (FMT). According to our study, both diet and diet plus FMT treatments showed great potential in controlling blood glucose and blood pressure levels. Sequencing the V4 region of 16S rRNA gene on the Illumina MiniSeq platform revealed a shift of intestinal microbial community in T2D patients, and the changes were also observed in response to the treatments. FMT changed the gut microbiota more quickly than diet. Beneficial bacterium, such asBifidobacterium, increased along the study and was negatively correlated with blood glucose, blood pressure, blood lipid and BMI. Sulfate-reducing bacteria (SRB),BilophilaandDesulfovibrio, decreased significantly after treatment, showed a positive correlation with blood glucose indices. Thus, the specially designed diet is beneficial to improve blood glucose control in diabetic patients, it also showed the potential to reverse dyslipidemia and dysarteriotony.
Changes in the sediment microbial community structure of coastal and inland sinkholes of a karst ecosystem from the Yucatan peninsula
Authors: Suárez-Moo Pablo , Remes-Rodríguez Claudia A. , Márquez-Velázquez Norma A. , Falcón Luisa I. , García-Maldonado José Q. , Prieto-Davó Alejandra 
Published: January 2022

AbstractThe karst underground river ecosystem of Yucatan peninsula is composed of cave systems and sinkholes. The microbial diversity of water from this underground river has been studied, but, structure of the microbial community in its cave sediments remained largely unknown. Here we describe how the microbial community structure of these sediments changes due to different environmental conditions found in sediment zones along the caves of a coastal and an inland sinkhole. We found that dominant microbial groups varied according to the type of sinkhole (Coastal: Chloroflexi and Crenarchaeota; inland: Methylomirabilota and Acidobacteriota) and that the community structures differed both among sinkhole types, and within the sediment zones that were studied. These microorganisms are associated with different types of metabolism, and differed from a microbial community dominated by sulfate reducers at the coastal sinkhole, to one dominated by methylotrophs at the inland sinkhole, suggesting there are biogeochemical processes in the coastal and inland sinkholes that lead to changes in the microbial composition of the underground river ecosystem’s sediments. Our results suggest sediments from unexplored sinkhole caves are unique environmental niches with distinct microbial assemblages that putatively play an important role in the biogeochemical cycles of these ecosystems.