bluuebunny/crossref_metadata_2025_split huggingface dataset:
Nuclear chromosome locations dictate segregation error frequencies
Authors: Klaasen Sjoerd J. , Truong My Anh , van Jaarsveld Richard H. , Koprivec Isabella , Štimac Valentina , de Vries Sippe G. , Risteski Patrik , Kodba Snježana , Vukušić Kruno , de Luca Kim L. , Marques Joana F. , Gerrits Elianne M. , Bakker Bjorn , Foijer Floris , Kind Jop , Tolić Iva M. , Lens Susanne M. A. , Kops Geert J. P. L. 
Published: July 2022

AbstractChromosome segregation errors during cell divisions generate aneuploidies and micronuclei, which can undergo extensive chromosomal rearrangements such as chromothripsis1–5. Selective pressures then shape distinct aneuploidy and rearrangement patterns—for example, in cancer6,7—but it is unknown whether initial biases in segregation errors and micronucleation exist for particular chromosomes. Using single-cell DNA sequencing8 after an error-prone mitosis in untransformed, diploid cell lines and organoids, we show that chromosomes have different segregation error frequencies that result in non-random aneuploidy landscapes. Isolation and sequencing of single micronuclei from these cells showed that mis-segregating chromosomes frequently also preferentially become entrapped in micronuclei. A similar bias was found in naturally occurring micronuclei of two cancer cell lines. We find that segregation error frequencies of individual chromosomes correlate with their location in the interphase nucleus, and show that this is highest for peripheral chromosomes behind spindle poles. Randomization of chromosome positions, Cas9-mediated live tracking and forced repositioning of individual chromosomes showed that a greater distance from the nuclear centre directly increases the propensity to mis-segregate. Accordingly, chromothripsis in cancer genomes9 and aneuploidies in early development10 occur more frequently for larger chromosomes, which are preferentially located near the nuclear periphery. Our findings reveal a direct link between nuclear chromosome positions, segregation error frequencies and micronucleus content, with implications for our understanding of tumour genome evolution and the origins of specific aneuploidies during development.
Dopamine subsystems that track internal states
Authors: Grove James C. R. , Gray Lindsay A. , La Santa Medina Naymalis , Sivakumar Nilla , Ahn Jamie S. , Corpuz Timothy V. , Berke Joshua D. , Kreitzer Anatol C. , Knight Zachary A. 
Published: July 2022

AbstractFood and water are rewarding in part because they satisfy our internal needs1,2. Dopaminergic neurons in the ventral tegmental area (VTA) are activated by gustatory rewards3–5, but how animals learn to associate these oral cues with the delayed physiological effects of ingestion is unknown. Here we show that individual dopaminergic neurons in the VTA respond to detection of nutrients or water at specific stages of ingestion. A major subset of dopaminergic neurons tracks changes in systemic hydration that occur tens of minutes after thirsty mice drink water, whereas different dopaminergic neurons respond to nutrients in the gastrointestinal tract. We show that information about fluid balance is transmitted to the VTA by a hypothalamic pathway and then re-routed to downstream circuits that track the oral, gastrointestinal and post-absorptive stages of ingestion. To investigate the function of these signals, we used a paradigm in which a fluid’s oral and post-absorptive effects can be independently manipulated and temporally separated. We show that mice rapidly learn to prefer one fluid over another based solely on its rehydrating ability and that this post-ingestive learning is prevented if dopaminergic neurons in the VTA are selectively silenced after consumption. These findings reveal that the midbrain dopamine system contains subsystems that track different modalities and stages of ingestion, on timescales from seconds to tens of minutes, and that this information is used to drive learning about the consequences of ingestion.
Agricultural SandboxNL: A national-scale database of parcel-level processed Sentinel-1 SAR data
Authors: Kumar Vineet , Huber Manuel , Rommen Björn , Steele-Dunne Susan C. 
Published: July 2022

AbstractSynthetic Aperture Radar (SAR) data handling, processing, and interpretation are barriers preventing a rapid uptake of SAR data by application specialists and non-expert domain users in the field of agricultural monitoring. To improve the accessibility of Sentinel-1 data, we have generated a reduced-volume, multi-year Sentinel-1 SAR database. It includes mean and standard deviation of VV, VH and VH/VV backscatter, pixel counts, geometry, crop type, local incidence angle and azimuth angle at parcel-level. The database uses around 3100 Sentinel-1 images (5 TB) to produce a 12 GB time series database for approximately 770,000 crop parcels over the Netherlands for a period of three years. The database can be queried by Sentinel-1 system parameters (e.g. relative orbit) or user application-specific parameters (e.g. crop type, spatial extent, time period) for parcel level assessment. The database can be used to accelerate the development of new tools, applications and methodologies for agricultural and water related applications, such as parcel-level crop bio-geophysical parameter estimation, inter-annual variability analysis, drought monitoring, grassland monitoring and agricultural management decision-support.
Ultrafast-UV laser integrating cavity device for inactivation of SARS-CoV-2 and other viruses
Authors: Ambardar Sharad , Howell Mark C. , Mayilsamy Karthick , McGill Andrew , Green Ryan , Mohapatra Subhra , Voronine Dmitri V. , Mohapatra Shyam S. 
Published: July 2022

AbstractUltraviolet (UV) irradiation-based methods used for viral inactivation have provided an important avenue targeting severe acute respiratory-syndrome coronavirus-2 (SARS-CoV-2) virus. A major problem with state-of-the-art UV inactivation technology is that it is based on UV lamps, which have limited efficiency, require high power, large doses, and long irradiation times. These drawbacks limit the use of UV lamps in air filtering systems and other applications. To address these limitations, herein we report on the fabrication of a device comprising a pulsed nanosecond 266 nm UV laser coupled to an integrating cavity (LIC) composed of a UV reflective material, polytetrafluoroethylene. Previous UV lamp inactivation cavities were based on polished walls with specular reflections, but the diffuse reflective UV ICs were not thoroughly explored for virus inactivation. Our results show that LIC device can inactivate several respiratory viruses including SARS-CoV-2, at ~ 1 ms effective irradiation time, with > 2 orders of magnitude higher efficiency compared to UV lamps. The demonstrated 3 orders of magnitude cavity enhancement relative to direct exposure is crucial for the development of efficient real-time UV air and water purification systems. To the best of our knowledge this is the first demonstration of LIC application for broad viral inactivation with high efficiency.
Reconstructing firm-level interactions in the Dutch input–output network from production constraints
Authors: Ialongo Leonardo Niccolò , de Valk Camille , Marchese Emiliano , Jansen Fabian , Zmarrou Hicham , Squartini Tiziano , Garlaschelli Diego 
Published: July 2022

AbstractRecent crises have shown that the knowledge of the structure of input–output networks, at the firm level, is crucial when studying economic resilience from the microscopic point of view of firms that try to rewire their connections under supply and demand constraints. Unfortunately, empirical inter-firm network data are protected by confidentiality, hence rarely accessible. The available methods for network reconstruction from partial information treat all pairs of nodes as potentially interacting, thereby overestimating the rewiring capabilities of the system and the implied resilience. Here, we use two big data sets of transactions in the Netherlands to represent a large portion of the Dutch inter-firm network and document its properties. We, then, introduce a generalized maximum-entropy reconstruction method that preserves the production function of each firm in the data, i.e. the input and output flows of each node for each product type. We confirm that the new method becomes increasingly more reliable in reconstructing the empirical network as a finer product resolution is considered and can, therefore, be used as a realistic generative model of inter-firm networks with fine production constraints. Moreover, the likelihood of the model directly enumerates the number of alternative network configurations that leave each firm in its current production state, thereby estimating the reduction in the rewiring capability of the system implied by the observed input–output constraints.
Evaluation of periodontitis-related tooth loss according to the new 2018 classification of periodontitis
Authors: Takedachi Masahide , Shimabukuro Yoshio , Sawada Keigo , Koshimizu Mami , Shinada Kazuko , Asai Harumi , Mizoguchi Ayumi , Hayashi Yuko , Tsukamoto Akina , Miyago Midori , Nishihara Fuuka , Nishihata Takako , Shimabukuro Michiyo , Kurakami Hiroyuki , Sato Tomoharu , Hamazaki Yayoi , Iwayama Tomoaki , Fujihara Chiharu , Murakami Shinya 
Published: July 2022

AbstractThe new 2018 classification of periodontal diseases is reported to be related to tooth loss due to periodontal disease (TLPD) during supportive periodontal therapy (SPT). However, few reports have evaluated this relationship for Asians or have analyzed the association of the new classification and TLPD by distinguishing between active periodontal therapy (APT) and SPT. In this study, we retrospectively applied the new classification to 607 Japanese periodontitis patients and examined the relationship between the new classification and annual TLPD rates per patient during the respective periods. TLPD rates were higher in patients in stage IV and/or grade C during both APT and SPT. TLPD during SPT was not associated with the presence or absence of TLPD during APT. Multivariate analysis revealed that stage IV and grade C as independent variables were significantly associated with the number of instances of TLPD not only during the total treatment period, but also during APT or SPT. Our results suggest that the new classification has a significantly strong association with TLPD during both APT and SPT, and that patients diagnosed with stage IV and/or grade C periodontitis had a higher risk of TLPD during both periods.
Bivalent metal ions induce formation of α-synuclein fibril polymorphs with different cytotoxicities
Authors: Atarod Deyhim , Mamashli Fatemeh , Ghasemi Atiyeh , Moosavi-Movahedi Faezeh , Pirhaghi Mitra , Nedaei Hadi , Muronetz Vladimir , Haertlé Thomas , Tatzelt Jörg , Riazi Gholamhossein , Saboury Ali Akbar 
Published: July 2022

Abstractα-Synuclein (α-Syn) aggregates are key components of intracellular inclusion bodies characteristic of Parkinson’s disease (PD) and other synucleinopathies. Metal ions have been considered as the important etiological factors in PD since their interactions with α-Syn alter the kinetics of fibrillation. In the present study, we have systematically explored the effects of Zn2+, Cu2+, Ca2+, and Mg2+ cations on α-Syn fibril formation. Specifically, we determined fibrillation kinetics, size, morphology, and secondary structure of the fibrils and their cytotoxic activity. While all cations accelerate fibrillation, we observed distinct effects of the different ions. For example, Zn2+ induced fibrillation by lower tlag and higher kapp and formation of shorter fibrils, while Ca2+ ions lead to formation of longer fibrils, as evidenced by dynamic light scattering and atomic force microscopy studies. Additionally, the morphology of formed fibrils was different. Circular dichroism and attenuated total reflection-Fourier transform infrared spectroscopies revealed higher contents of β-sheets in fibrils. Interestingly, cell viability studies indicated nontoxicity of α-Syn fibrils formed in the presence of Zn2+ ions, while the fibrils formed in the presence of Cu2+, Ca2+, and Mg2+ were cytotoxic. Our results revealed that α-Syn fibrils formed in the presence of different divalent cations have distinct structural and cytotoxic features.
Soluble transferrin receptor can predict all-cause mortality regardless of anaemia and iron storage status
Authors: Kang Minjung , Kwon Soie , Lee Whanhee , Kim Yaerim , Bae Eunjin , Lee Jeonghwan , Park Jae Yoon , Kim Yong Chul , Kim Eun Young , Kim Dong Ki , Lim Chun Soo , Kim Yon Su , Lee Jung Pyo 
Published: July 2022

AbstractDespite interest in the clinical implications of soluble transferrin receptor (sTfR), previous studies on the association of sTfR with mortality in the general population are lacking. Therefore, we analysed the association between sTfR and all-cause mortality in the general United States adult population. We conducted a prospective cohort study using National Health and Nutrition Examination Survey data from 2003 to 2010. A total of 5403 premenopausal nonpregnant females were analysed in this study. The mean age was 34.2 years (range 20.0–49.9 years). Participants were divided into log(sTfR) tertiles. The primary outcome was all-cause mortality. The secondary outcome was chronic kidney disease (CKD) development (composite of estimated glomerular filtration rate < 60 ml/min/1.73 m2 and/or random urine albumin-to-creatinine ratio ≥ 30 mg/g). During a median 8.7 years of follow-up, 103 (1.9%) participants died. Compared with the reference group (log(sTfR) 0.45–0.57), the highest tertile of log(sTfR) was associated with all-cause mortality (log(sTfR) > 0.57, hazard ratio [HR] 1.77 [95% CI 1.05–2.98]) in a multivariable hazards model including covariates such as haemoglobin and ferritin. Patients in the highest tertile of log(sTfR) also had an increased risk of CKD relative to those in the reference tertile. High sTfR was associated with all-cause mortality and CKD regardless of anaemia and iron storage status.
Introduction of high-value Crocus sativus (saffron) cultivation in non-traditional regions of India through ecological modelling
Authors: Kumar Amit , Devi Mamta , Kumar Rakesh , Kumar Sanjay 
Published: July 2022

AbstractCrocus sativus L. (saffron) is a globally used expensive spice. There are a few countries like Iran, Greece, Morocco, Spain, Italy, Turkey, France, Switzerland, Pakistan, China, Japan and Australia where this spice is cultivated and exported to other countries. India contributes 5% of the world's total production of which 90% is supplied only from its Jammu and Kashmir (J&K) regions. In India, the production of saffron from J&K is 3.83 tonnes whereas its annual demand is approximately 100 tonnes. In this country, there are geographical regions that have similar environmental and ecological conditions to J&K and possess the possibility of introducing this crop. Identification of such regions can be made using Ecological Niche Modelling (ENM). Therefore, 'MaxEnt' ENM was carried out using 103 environmental variables, 20 presence data and topographic parameters (elevation, slope and aspect) to find suitable regions for saffron production in unconventional areas of India. The achieved area under the curve for the model was 0.99. The precipitation and temperature were the main environmental variable influencing its cultivation. The saffron was sowed in these new modelled locations in India representing its various states such as Himachal Pradesh, Uttarakhand, Arunachal Pradesh, Sikkim, Manipur and Tamil Nadu. The quality, as well as yield of saffron produced in some of these regions, were evaluated and found at par with the saffron grown traditionally in India. Based on the promising results obtained in this work, we are expanding saffron cultivation to more modelled areas in India to meet our national demand.
Kindchenschema and cuteness elicit interest in caring for and playing with young children, but less so when children are masked
Authors: Doebel Sabine , Stucke Nicole J. , Pang Songhan 
Published: July 2022

AbstractCuteness in the young has long been theorized to elicit care and protection. Most research on this topic has focused on human infants, despite theories suggesting that cuteness may elicit broader social interest that could support learning and development beyond infancy. In four experiments (N = 531 adults, 98 children), we tested whether ‘kindchenschema’—facial features associated with cuteness—and perceived cuteness elicit interest in playing with and caring for children, and whether masks disrupt these processes. Participants viewed images of children’s faces, masked or unmasked. Kindchenschema correlated with perceived cuteness and age, and these variables predicted adults’ interest in playing with and caring for children. Masks did not reduce cuteness ratings or interest in children, although they weakened relations between perceived cuteness and interest, and between perceived age and interest. Cuteness and related signals may guide adults’ interactions with children, fostering learning and development.
Alleviation of liver cirrhosis and associated portal-hypertension by Astragalus species in relation to their UPLC-MS/MS metabolic profiles: a mechanistic study
Authors: Ibrahim Reham S. , El-Mezayen Nesrine S. , El‐Banna Alaa A. 
Published: July 2022

AbstractLiver cirrhosis is a late-stage liver disease characterized by excessive fibrous deposition triggering portal-hypertension (PH); the prime restrainer for cirrhosis-related complications. Remedies that can dually oppose hepatic fibrosis and lower PH, may prevent progression into decompensated-cirrhosis. Different Astragalus-species members have shown antifibrotic and diuretic actions with possible subsequent PH reduction. However, A.spinosus and A.trigonus were poorly tested for eliciting these actions. Herein, A.spinosus and A.trigonus roots and aerial parts extracts were subjected to comprehensive metabolic-fingerprinting using UHPLC-MS/MS resulting in 56 identified phytoconstituents, followed by chemometric untargeted analysis that revealed variable metabolic profiles exemplified by different species and organ types. Consequently, tested extracts were in-vivo evaluated for potential antifibrotic/anticirrhotic activity by assessing specific markers. The mechanistic prospective to induce diuresis was investigated by analyzing plasma aldosterone and renal-transporters gene-expression. Serum apelin and dimethylarginine-dimethylaminohydrolase-1 were measured to indicate the overall effect on PH. All extracts amended cirrhosis and PH to varying extents and induced diuresis via different mechanisms. Further, An OPLS model was built to generate a comprehensive metabolic-profiling of A.spinosus and A.trigonus secondary-metabolites providing a chemical-based evidence for their efficacious consistency. In conclusion, A.spinosus and A.trigonus organs comprised myriad pharmacologically-active constituents that act synergistically to ameliorate cirrhosis and associated PH.
Quantification of acceleration as activity counts in ActiGraph wearable
Authors: Neishabouri Ali , Nguyen Joe , Samuelsson John , Guthrie Tyler , Biggs Matt , Wyatt Jeremy , Cross Doug , Karas Marta , Migueles Jairo H. , Khan Sheraz , Guo Christine C. 
Published: July 2022

AbstractDigital clinical measures based on data collected by wearable devices have seen rapid growth in both clinical trials and healthcare. The widely-used measures based on wearables are epoch-based physical activity counts using accelerometer data. Even though activity counts have been the backbone of thousands of clinical and epidemiological studies, there are large variations of the algorithms that compute counts and their associated parameters—many of which have often been kept proprietary by device providers. This lack of transparency has hindered comparability between studies using different devices and limited their broader clinical applicability. ActiGraph devices have been the most-used wearable accelerometer devices for over two decades. Recognizing the importance of data transparency, interpretability and interoperability to both research and clinical use, we here describe the detailed counts algorithms of five generations of ActiGraph devices going back to the first AM7164 model, and publish the current counts algorithm in ActiGraph’s ActiLife and CentrePoint software as a standalone Python package for research use. We believe that this material will provide a useful resource for the research community, accelerate digital health science and facilitate clinical applications of wearable accelerometry.
Facile fabrication of amino-functionalized MIL-68(Al) metal–organic framework for effective adsorption of arsenate (As(V))
Authors: Rahmani Alireza , Shabanloo Amir , Zabihollahi Solmaz , Salari Mehdi , Leili Mostafa , Khazaei Mohammad , Alizadeh Saber , Nematollahi Davood 
Published: July 2022

AbstractAn amino-functionalized MIL-68(Al) metal–organic framework (amino-MIL-68(Al) MOF) was synthesized by solvothermal method and then characterized by FESEM, XRD, FTIR, EDX-mapping, and BET-BJH techniques. In order to predict arsenate (As(V)) removal, a robust quadratic model (R2 > 0.99, F-value = 2389.17 and p value < 0.0001) was developed by the central composite design (CCD) method and then the genetic algorithm (GA) was utilized to optimize the system response and four independent variables. The results showed that As(V) adsorption on MOF was affected by solution pH, adsorbent dose, As(V) concentration and reaction time, respectively. Predicted and experimental As(V) removal efficiencies under optimal conditions were 99.45 and 99.87%, respectively. The fitting of experimental data showed that As(V) adsorption on MOF is well described by the nonlinear form of the Langmuir isotherm and pseudo-second-order kinetic. At optimum pH 3, the maximum As(V) adsorption capacity was 74.29 mg/g. Thermodynamic studies in the temperature range of 25 to 50 °C showed that As(V) adsorption is a spontaneous endothermic process. The reusability of MOF in ten adsorption/regeneration cycles was studied and the results showed high reusability of this adsorbent. The highest interventional effect in inhibiting As(V) adsorption was related to phosphate anion. The results of this study showed that amino-MIL-68(Al) can be used as an effective MOF with a high surface area (> 1000 m2/g) and high reusability for As(V)-contaminated water.
Magnetic anchor technique-assisted thoracoscopic lobectomy in beagles
Authors: Li Yixing , Zhang Miaomiao , Shi Aihua , Liu Peinan , Zhang Hanzhi , Zhang Yong , Lyu Yi , Yan Xiaopeng 
Published: July 2022

AbstractIn single-port thoracoscopic lobectomy, surgical instruments are likely to collide and interfere with each other. We used magnetic anchor technique to design an anchoring device suitable for thoracoscopic surgery, and verified the safety and feasibility of its use in animal experiments. Ten Beagles were used as models, and magnetic anchor technology was used to assist thoracoscopic lobectomy. During the operation, a self-designed magnetic anchored internal grasper was used in place of the traditional laparoscopic grasping forceps. The operation time, intraoperative blood loss, incidence of postoperative complications, and the effect of intraoperative use of the device were analyzed. All 10 beagles were successfully operated; the mean operation time was 19.7 ± 3.53 min (range 15–26 min), and the postoperative blood loss was < 10 mL. No surgical complications occurred. During the operation, the internal grasper was firmly clamped, the auxiliary operation field was well exposed, and the interference of the main operation hole instruments was effectively reduced. We provide preliminary experimental evidence of the safety and feasibility of magnetic anchor technique-assisted thoracoscopic lobectomy.