bluuebunny/crossref_metadata_2025_split huggingface dataset:
Selective signatures and high genome-wide diversity in traditional Brazilian manioc (Manihot esculenta Crantz) varieties
Authors: Alves-Pereira Alessandro , Zucchi Maria Imaculada , Clement Charles R. , Viana João Paulo Gomes , Pinheiro José Baldin , Veasey Elizabeth Ann , de Souza Anete Pereira 
Published: January 2022

AbstractKnowledge about genetic diversity is essential to promote effective use and conservation of crops, because it enables farmers to adapt their crops to specific needs and is the raw material for breeding. Manioc (Manihot esculenta ssp. esculenta) is one of the world’s major food crops and has the potential to help achieve food security in the context of on-going climate changes. We evaluated single nucleotide polymorphisms in traditional Brazilian manioc varieties conserved in the gene bank of the Luiz de Queiroz College of Agriculture, University of São Paulo. We assessed genome-wide diversity and identified selective signatures contrasting varieties from different biomes with samples of manioc’s wild ancestor M. esculenta ssp. flabellifolia. We identified signatures of selection putatively associated with resistance genes, plant development and response to abiotic stresses that might have been important for the crop’s domestication and diversification resulting from cultivation in different environments. Additionally, high neutral genetic diversity within groups of varieties from different biomes and low genetic divergence among biomes reflect the complexity of manioc’s evolutionary dynamics under traditional cultivation. Our results exemplify how smallholder practices contribute to conserve manioc’s genetic resources, maintaining variation of potential adaptive significance and high levels of neutral genetic diversity.
Deep learning increases the availability of organism photographs taken by citizens in citizen science programs
Authors: Suzuki-Ohno Yukari , Westfechtel Thomas , Yokoyama Jun , Ohno Kazunori , Nakashizuka Tohru , Kawata Masakado , Okatani Takayuki 
Published: January 2022

AbstractCitizen science programs using organism photographs have become popular, but there are two problems related to photographs. One problem is the low quality of photographs. It is laborious to identify species in photographs taken outdoors because they are out of focus, partially invisible, or under different lighting conditions. The other is difficulty for non-experts to identify species. Organisms usually have interspecific similarity and intraspecific variation, which hinder species identification by non-experts. Deep learning solves these problems and increases the availability of organism photographs. We trained a deep convolutional neural network, Xception, to identify bee species using various quality of bee photographs that were taken by citizens. These bees belonged to two honey bee species and 10 bumble bee species with interspecific similarity and intraspecific variation. We investigated the accuracy of species identification by biologists and deep learning. The accuracy of species identification by Xception (83.4%) was much higher than that of biologists (53.7%). When we grouped bee photographs by different colors resulting from intraspecific variation in addition to species, the accuracy of species identification by Xception increased to 84.7%. The collaboration with deep learning and experts will increase the reliability of species identification and their use for scientific researches.
The risk of dementia in adults with abdominal aortic aneurysm
Authors: Cho Hyung-jin , Yoo Ju-hwan , Kim Mi-hyeong , Ko Kyung-jai , Jun Kang-woong , Han Kyung-do , Hwang Jeong-kye 
Published: January 2022

AbstractAbdominal aortic aneurysm (AAA) and dementia have similar epidemiological profiles and common pathogenic mechanisms. However, there have been few studies on the link between these two diseases. For this study, information from 2009 to 2015 was extracted from the Korean National Health Insurance system database. A total of 15,251 participants with a new diagnosis of AAA was included. Propensity score matching by age and sex with patients in whom AAA was not diagnosed was used to select the control group of 45,753 participants. The primary endpoint of this study was newly diagnosed dementia (Alzheimer’s disease (AD), vascular dementia (VD), or other type of dementia). The incidence of dementia was 23.084 per 1000 person years in the AAA group, which was higher than that of the control group (15.438 per 1000 person years). When divided into AD and VD groups, the incidence of AD was higher than that of VD, but the HR of AAA for occurrence of dementia was higher in VD (1.382 vs. 1.784). Among the various risk factors, there was an interaction of age, hypertension, and history of cardiovascular disease with incidence of dementia (p < 0.05). In the presence of hypertension, the HR for occurrence of dementia was high according to presence or absence of AAA (1.474 vs 1.165). In addition, this study showed higher HR in the younger age group (age < 65) and in the group with no history of cardiovascular disease [1.659 vs. 1.403 (age), 1.521 vs. 1.255 (history of cardiovascular disease)]. AAA was associated with increased risk of dementia regardless of AD or VD, even after adjusting for several comorbidities. These findings indicate that follow-up with AAA patients is necessary for early detection of signs and symptoms of dementia.
Morphological, physiological, biochemical, and transcriptome studies reveal the importance of transporters and stress signaling pathways during salinity stress in Prunus
Authors: Acharya Biswa R. , Sandhu Devinder , Dueñas Christian , Dueñas Marco , Pudussery Manju , Kaundal Amita , Ferreira Jorge F. S. , Suarez Donald L. , Skaggs Todd H. 
Published: January 2022

AbstractThe almond crop has high economic importance on a global scale, but its sensitivity to salinity stress can cause severe yield losses. Salt-tolerant rootstocks are vital for crop economic feasibility under saline conditions. Two commercial rootstocks submitted to salinity, and evaluated through different parameters, had contrasting results with the survival rates of 90.6% for ‘Rootpac 40’ (tolerant) and 38.9% for ‘Nemaguard’ (sensitive) under salinity (Electrical conductivity of water = 3 dS m−1). Under salinity, ‘Rootpac 40’ accumulated less Na and Cl and more K in leaves than ‘Nemaguard’. Increased proline accumulation in ‘Nemaguard’ indicated that it was highly stressed by salinity compared to ‘Rootpac 40’. RNA-Seq analysis revealed that a higher degree of differential gene expression was controlled by genotype rather than by treatment. Differentially expressed genes (DEGs) provided insight into the regulation of salinity tolerance in Prunus. DEGs associated with stress signaling pathways and transporters may play essential roles in the salinity tolerance of Prunus. Some additional vital players involved in salinity stress in Prunus include CBL10, AKT1, KUP8, Prupe.3G053200 (chloride channel), and Prupe.7G202700 (mechanosensitive ion channel). Genetic components of salinity stress identified in this study may be explored to develop new rootstocks suitable for salinity-affected regions.
Statistical bounds on how induced seismicity stops
Authors: Schultz Ryan , Ellsworth William L. , Beroza Gregory C. 
Published: January 2022

AbstractEarthquakes caused by human activities receive scrutiny due to the risks and hazards they pose. Seismicity that occurs after the causative anthropogenic operation stops has been particularly problematic—both because of high-profile cases of damage caused by this trailing seismicity and due to the loss of control for risk management. With this motivation, we undertake a statistical examination of how induced seismicity stops. We borrow the concept of Båth’s law from tectonic aftershock sequences. Båth’s law anticipates the difference between magnitudes in two subsets of seismicity as dependent on their population count ratio. We test this concept for its applicability to induced seismicity, including ~ 80 cases of earthquakes caused by hydraulic fracturing, enhanced geothermal systems, and other fluid-injections with clear operational end points. We find that induced seismicity obeys Båth’s law: both in terms of the magnitude-count-ratio relationship and the power law distribution of residuals. Furthermore, the distribution of count ratios is skewed and heavy-tailed, with most earthquakes occurring during stimulation/injection. We discuss potential models to improve the characterization of these count ratios and propose a Seismogenic Fault Injection Test to measure their parameters in situ. We conclude that Båth’s law quantifies the occurrence of earthquake magnitudes trailing anthropogenic operations.
Comparison of bacterial filtration efficiency vs. particle filtration efficiency to assess the performance of non-medical face masks
Authors: Whyte Henrietta Essie , Montigaud Yoann , Audoux Estelle , Verhoeven Paul , Prier Amélie , Leclerc Lara , Sarry Gwendoline , Laurent Coralie , Le Coq Laurence , Joubert Aurélie , Pourchez Jérémie 
Published: January 2022

AbstractAs a result of the current COVID-19 pandemic, the use of facemasks has become commonplace. The performance of medical facemasks is assessed using Bacterial Filtration Efficiency (BFE) tests. However, as BFE tests, require specific expertise and equipment and are time-consuming, the performance of non-medical facemasks is assessed with non-biological Particle Filtration Efficiency (PFE) tests which are comparatively easier to implement. It is necessary to better understand the possible correlations between BFE and PFE to be able to compare the performances of the different types of masks (medical vs. non-medical). In this study BFE results obtained in accordance with the standard EN 14683 are compared to the results of PFE from a reference test protocol defined by AFNOR SPEC S76-001 with the aim to determine if BFE could be predicted from PFE. Our results showed a correlation between PFE and BFE. It was also observed that PFE values were higher than BFE and this was attributed to the difference in particle size distribution considered for efficiency calculation. In order to properly compare these test protocols for a better deduction, it would be interesting to compare the filtration efficiency for a similar granulometric range.
Kidney tubule iron loading in experimental focal segmental glomerulosclerosis
Authors: van Swelm Rachel P. L. , Beurskens Sanne , Dijkman Henry , Wiegerinck Erwin T. G. , Roelofs Rian , Thévenod Frank , van der Vlag Johan , Wetzels Jack F. M. , Swinkels Dorine W. , Smeets Bart 
Published: January 2022

AbstractKidney iron deposition may play a role in the progression of tubulointerstitial injury during chronic kidney disease. Here, we studied the molecular mechanisms of kidney iron loading in experimental focal segmental glomerulosclerosis (FSGS) and investigated the effect of iron-reducing interventions on disease progression. Thy-1.1 mice were injected with anti-Thy-1.1 monoclonal antibody (mAb) to induce proteinuria. Urine, blood and tissue were collected at day (D)1, D5, D8, D15 and D22 after mAb injection. Thy-1.1 mice were subjected to captopril (CA), iron-deficient (ID) diet or iron chelation (deferoxamine; DFO). MAb injection resulted in significant albuminuria at all time points (p < 0.01). Kidney iron loading, predominantly in distal tubules, increased in time, along with urinary kidney injury molecule-1 and 24p3 concentration, as well as kidney mRNA expression of Interleukin-6 (Il-6) and Heme oxygenase-1 (Ho-1). Treatment with CA, ID diet or DFO significantly reduced kidney iron deposition at D8 and D22 (p < 0.001) and fibrosis at D22 (p < 0.05), but not kidney Il-6. ID treatment increased kidney Ho-1 (p < 0.001). In conclusion, kidney iron accumulation coincides with progression of tubulointerstitial injury in this model of FSGS. Reduction of iron loading halts disease progression. However, targeted approaches to prevent excessive kidney iron loading are warranted to maintain the delicate systemic and cellular iron balance.
The impact of pulmonary function tests on early postoperative complications in open lung resection surgery: an observational cohort study
Authors: Choi Ji Won , Jeong Heejoon , Ahn Hyun Joo , Yang Mikyung , Kim Jie Ae , Kim Duk Kyung , Lee Sang Hyun , Kim Keoungah , Choi Jisun 
Published: January 2022

AbstractWe investigated whether pulmonary function tests (PFTs) can predict pulmonary complications and if they are, to find new cutoff values in current open lung resection surgery. In this observational study, patients underwent open lung resection surgery at a tertiary hospital were analyzed (n = 1544). Various PFTs were tested by area under the receiver-operating characteristic curve (AUCROC) to predict pulmonary complications until 30 days postoperatively. In results, PFTs were generally not effective to predict pulmonary complications (AUCROC: 0.58–0.66). Therefore, we could not determine new cutoff values, and used previously reported cutoffs for post-hoc analysis [predicted postoperative forced expiratory volume in one second (ppoFEV1) < 40%, predicted postoperative diffusing capacity for carbon monoxide (ppoDLCO) < 40%]. In multivariable analysis, old age, male sex, current smoker, intraoperative transfusion and use of inotropes were independent risk factors for pulmonary complications (model 1: AUCROC 0.737). Addition of ppoFEV1 or ppoDLCO < 40% to model 1 did not significantly increase predictive capability (model 2: AUCROC 0.751, P = 0.065). In propensity score-matched subgroups, patients with ppoFEV1 or ppoDLCO < 40% showed higher rates of pulmonary complications [13% (21/160) vs. 24% (38/160), P = 0.014], but no difference in in-hospital mortality [3% (8/241) vs. 6% (14/241), P = 0.210] or mean survival duration [61 (95% CI 57–66) vs. 65 (95% CI 60–70) months, P = 0.830] compared to patients with both > 40%. In conclusion, PFTs themselves were not effective predictors of pulmonary complications. Decision to proceed with surgical resection of lung cancer should be made on an individual basis considering other risk factors and the patient's goals.
High glucose concentrations induce oxidative stress by inhibiting Nrf2 expression in rat Müller retinal cells in vitro
Authors: Albert-Garay Jesús Silvestre , Riesgo-Escovar Juan Rafael , Salceda Rocío 
Published: January 2022

AbstractDiabetic retinopathy (DR) is a complication of diabetes. Several studies have implicated oxidative stress as a fundamental factor in the progression of the disease. The nuclear factor erythroid-2-related factor 2 (Nrf2) is one of the main regulators of redox homeostasis. Glia Müller cells (MC) maintain the structural and functional stability of the retina. The objective of this study was to evaluate the effect of high glucose concentrations on reactive oxygen species (ROS) production and Nrf2 expression levels in rat MC. MC were incubated with normal (NG; 5 mM) or high glucose (HG; 25 mM) for different times. Incubation with HG increased ROS levels from 12 to 48 h but did not affect cell viability. However, exposure to 3 h of HG caused a transient decrease Nrf2 levels. At that time, we also observed a decrease in the mRNA expression of Nrf2 target genes, glutathione levels, and catalase activity, all of which increased significantly beyond initial levels after 48 h of incubation. HG exposure leads to an increase in the p65 subunit of nuclear factor-κB (NF-kB) levels, and its target genes. These results suggest that high glucose concentrations lead to alteration of the redox regulatory capacity of Nrf2 mediated by NF-kB regulation.
Occipital alpha-band brain waves when the eyes are closed are shaped by ongoing visual processes
Authors: Hohaia Wiremu , Saurels Blake W. , Johnston Alan , Yarrow Kielan , Arnold Derek H. 
Published: January 2022

AbstractOne of the seminal findings of cognitive neuroscience is that the power of occipital alpha-band (~ 10 Hz) brain waves is increased when peoples’ eyes are closed, rather than open. This has encouraged the view that alpha oscillations are a default dynamic, to which the visual brain returns in the absence of input. Accordingly, we might be unable to increase the power of alpha oscillations when the eyes are closed, above the level that would normally ensue when people close their eyes. Here we report counter evidence. We used electroencephalography (EEG) to record brain activity when people had their eyes open and closed, both before and after they had adapted to radial motion. The increase in alpha power when people closed their eyes was increased by prior adaptation to a broad range of radial motion speeds. This effect was greatest for 10 Hz motion, but robust for other frequencies (and especially 7.5 Hz). This discredits a persistent entrainment of activity at the adaptation frequency as an explanation for our findings. Our data show that the power of occipital alpha-band brain waves can be increased by motion sensitive visual processes that persist when the eyes are closed. Consequently, we suggest that the power of these brain waves is, at least in part, an index of the degree to which visual brain activity is being subjected to inhibition. This is increased when people close their eyes, but can be even further increased by pre-adaptation to radial motion.
Synthetic antibacterial minerals: harnessing a natural geochemical reaction to combat antibiotic resistance
Authors: Morrison Keith D. , Martin Kelly A. , Wimpenny Josh B. , Loots Gabriela G. 
Published: January 2022

AbstractThe overuse of antibiotics in clinical and livestock settings is accelerating the selection of multidrug resistant bacterial pathogens. Antibiotic resistant bacteria result in increased mortality and financial strain on the health care and livestock industry. The development of new antibiotics has stalled, and novel strategies are needed as we enter the age of antibiotic resistance. Certain naturally occurring clays have been shown to have antimicrobial properties and kill antibiotic resistant bacteria. Harnessing the activity of compounds within these clays that harbor antibiotic properties offers new therapeutic opportunities for fighting the potentially devastating effects of the post antibiotic era. However, natural samples are highly heterogenous and exhibit variable antibacterial effectiveness, therefore synthesizing minerals of high purity with reproducible antibacterial activity is needed. Here we describe for the first time synthetic smectite clay minerals and Fe-sulfide microspheres that reproduce the geochemical antibacterial properties observed in natural occurring clays. We show that these mineral formulations are effective at killing the ESKAPE pathogens (Enterococcus sp., Staphylococcus aureus, Klebsiella pneumoniae, Acinetobacter sp., Pseudomonas aeruginosa and Enterobacter sp.) by maintaining Fe2+ solubility and reactive oxygen species (ROS) production while buffering solution pH, unlike the application of metals alone. Our results represent the first step in utilizing a geochemical process to treat antibiotic resistant topical or gastrointestinal infections in the age of antibiotic resistance.
Impaired selective renal filtration captured by eGFRcysC/eGFRcrea ratio is associated with mortality in a population based cohort of older women
Authors: Malmgren Linnea , McGuigan Fiona E. , Christensson Anders , Akesson Kristina E. 
Published: January 2022

AbstractDeranged renal filtration of mid-sized (5–30 kDa) compared to smaller molecules (< 0.9 kDa) results in increased plasma levels of cystatin C (cysC) compared to creatinine resulting in a low eGFRcysC/eGFRcrea ratio. A ratio below 0.6 or 0.7, is termed shrunken pore syndrome (SPS), which in patient based studies is associated with mortality. Reference values for eGFRcysC/eGFRcrea ratio, the prevalence of SPS and the consequence of low eGFRcysC/eGFRcrea ratio in the general, elderly population are unknown. 75-yr old women (n = 849) from the population-based OPRA cohort, followed for 10-years had eGFR calculated with CKD-EPI study equation, and eGFRcysC/eGFRcrea ratio calculated. Mortality risk (HR [95% CI]) was estimated. Women with sarcopenia or on glucocorticoids were excluded. Almost 1 in 10 women (9%) had eGFRcysC/eGFRcrea ratio < 0.6 at age 75 and this did not increase appreciably with age. Women with ratio < 0.6 had higher 10-yr mortality risk compared with ratios > 0.9 (HRadj 1.6 [95% CI 1.1–2.5]). In elderly women eGFRcysC/eGFRcrea ratio < 0.6 is common and associated with increased mortality. Our results confirm patient-based findings, suggesting that identifying individuals with SPS may be clinically relevant to assessing mortality risk in the elderly.
Crystal-field mediated electronic transitions of EuS up to 35 GPa
Authors: Monteseguro Virginia , Barreda-Argüeso Jose A. , Ruiz-Fuertes Javier , Rosa Angelika D. , Meyerheim Holger L. , Irifune Tetsuo , Rodriguez Fernando 
Published: January 2022

AbstractAn advanced experimental and theoretical model to explain the correlation between the electronic and local structure of Eu$$^{2+}$$

2
+

in two different environments within a same compound, EuS, is presented. EuX monochalcogenides (X: O, S, Se, Te) exhibit anomalies in all their properties around 14 GPa with a semiconductor to metal transition. Although it is known that these changes are related to the $$4f^7 5d^0$$

4

f
7

5

d
0

$$\rightarrow$$
→
$$4f^6 5d^1$$

4

f
6

5

d
1

electronic transition, no consistent model of the pressure-induced modifications of the electronic structure currently exists. We show, by optical and x-ray absorption spectroscopy, and by ab initio calculations up to 35 GPa, that the pressure evolution of the crystal field plays a major role in triggering the observed electronic transitions from semiconductor to the half-metal and finally to the metallic state.
Coastal flooding and mean sea-level rise allowances in atoll island
Authors: Amores Angel , Marcos Marta , Le Cozannet Gonéri , Hinkel Jochen 
Published: January 2022

AbstractAtoll islands are among the places most vulnerable to climate change due to their low elevation above mean sea level. Even today, some of these islands suffer from severe flooding generated by wind-waves, that will be exacerbated with mean sea-level rise. Wave-induced flooding is a complex physical process that requires computationally-expensive numerical models to be reliably estimated, thus limiting its application to single island case studies. Here we present a new model-based parameterisation for wave setup and a set of numerical simulations for the wave-induced flooding in coral reef islands as a function of their morphology, the Manning friction coefficient, wave characteristics and projected mean sea level that can be used for rapid, broad scale (e.g. entire atoll island nations) flood risk assessments. We apply this new approach to the Maldives to compute the increase in wave hazard due to mean sea-level rise, as well as the change in island elevation or coastal protection required to keep wave-induced flooding constant. While future flooding in the Maldives is projected to increase drastically due to sea-level rise, we show that similar impacts in nearby islands can occur decades apart depending on the exposure to waves and the topobathymetry of each island. Such assessment can be useful to determine on which islands adaptation is most urgently needed.