bluuebunny/crossref_metadata_2025 huggingface dataset:
Insights from genomes and genetic epidemiology of SARS-CoV-2 isolates from the state of Andhra Pradesh
Authors: Roja Rani Pallavali , Imran Mohamed , Lakshmi J. Vijaya , Jolly Bani , Afsar S. , Jain Abhinav , Divakar Mohit Kumar , Suresh Panyam , Sharma Disha , Rajesh Nambi , Bhoyar Rahul C. , Ankaiah Dasari , Shanthi Kumari Sanaga , Ranjan Gyan , Anitha Lavanya Valluri , Rophina Mercy , Umadevi S. , Sehgal Paras , Renuka Devi Avula , Surekha A. , Chandra Sekhar Pulala , Hymavathy Rajamadugu , Vanaja P.R. , Scaria Vinod , Sivasubbu Sridhar
Published: August 2021

Coronavirus disease 2019 (COVID-19) emerged from a city in China and has now spread as a global pandemic affecting millions of individuals. The causative agent, severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), is being extensively studied in terms of its genetic epidemiology using genomic approaches. Andhra Pradesh is one of the major states of India with the third-largest number of COVID-19 cases with a limited understanding of its genetic epidemiology. In this study, we have sequenced 293 SARS-CoV-2 genome isolates from Andhra Pradesh with a mean coverage of 13324X. We identified 564 high-quality SARS-CoV-2 variants. A total of 18 variants mapped to reverse transcription polymerase chain reaction primer/probe sites, and four variants are known to be associated with an increase in infectivity. Phylogenetic analysis of the genomes revealed the circulating SARS-CoV-2 in Andhra Pradesh majorly clustered under the clade A2a (20A, 20B and 20C) (94%), whereas 6% fall under the I/A3i clade, a clade previously defined to be present in large numbers in India. To the best of our knowledge, this is the most comprehensive genetic epidemiological analysis performed for the state of Andhra Pradesh.
Sorting out the aid–corruption nexus
Authors: Pavlik Jamie Bologna , Young Andrew T.
Published: August 2021

We employ matching methods to explore the relationships between foreign aid flows and corruption in recipient countries. Data are drawn from recipients of foreign aid for the 1996–2013 period. We find no compelling evidence of an effect running from corruption to aid flows. Furthermore, point estimates imply that corruption reforms lead countries to receive less aid. Alternatively, we generally find that, over a 10-year horizon, a sustained increase in aid leads to more corruption in a recipient. It is the sustained nature of an aid increase that seems to be important for this effect. (We generally do not report significant results for large changes in aid that are not sustained over time.)
PROTAGORAS AND THE BEGINNINGS OF GRAMMAR
Authors: Huitink Luuk , Willi Andreas
Published: August 2021

Offering a re-evaluation of all the available evidence, including passages from Aristotle'sRhetoric,PoeticsandSophistici Elenchi, Diogenes Laertius’ biographical sketch as well as the grammar scene in Aristophanes’Clouds, this article argues that Protagoras’ engagement with grammatical questions must have been more sophisticated and thorough than is often assumed. In Protagoras’ discovery of grammatical gender, formal considerations – most likely inspired by the analysis of personal names – played a more fundamental role than semantic ones, and his typology of πυθμένες λόγων equally presupposes the formal recognition of at least verbal mood, if not also tense.
Genetic Susceptibility to Pneumonia: A GWAS Meta-Analysis Between the UK Biobank and FinnGen
Authors: Campos Adrian I. , Kho Pik , Vazquez-Prada Karla X. , García-Marín Luis M. , Martin Nicholas G. , Cuéllar-Partida Gabriel , Rentería Miguel E.
Published: August 2021

Pneumonia is a respiratory condition with complex etiology. Host genetic variation is thought to contribute to individual differences in susceptibility and symptom manifestation. Here, we analyze pneumonia data from the UK Biobank (14,780 cases and 439,096 controls) and FinnGen (9980 cases and 86,519 controls) and perform a genomewide association study meta-analysis. We use gene-based tests, colocalization, genetic correlation, latent causal variable (LCV) and polygenic prediction in an independent Australian sample (N = 5595) to draw insights into the etiology of pneumonia risk. We identify two independent loci on chromosome 15 (lead single-nucleotide polymorphisms rs2009746 and rs76474922) to be associated with pneumonia (p < 5e−8). Gene-based tests revealed 18 genes in chromosomes 15, 16 and 9, including IL127, PBX3, ApoB receptor (APOBR) and smoking related genes CHRNA3/5, statistically associated with pneumonia. We observed genetic correlations between pneumonia and cardiorespiratory, psychiatric and inflammatory related traits. LCV analysis suggests a strong genetic causal relationship with cardiovascular health phenotypes. Polygenic risk scores for pneumonia significantly predicted self-reported pneumonia in an independent sample, albeit with a small effect size (OR = 1.11 95% CI [1.04, 1.19], p < .05). Sensitivity analyses suggested the associations in chromosome 15 are mediated by smoking history, but the associations in chromosomes 16 and 9, and polygenic prediction were robust to adjustment for smoking. Altogether, our results highlight common genetic variants, genes and potential pathways that contribute to individual differences in susceptibility to pneumonia, and advance our understanding of the genetic factors underlying heterogeneity in respiratory medical outcomes.
Geometry of the Décollement Below Eastern Bangladesh and Implications for Seismic Hazard
Authors: Bürgi Paula , Hubbard Judith , Akhter Syed Humayun , Peterson Dana E.
Published: August 2021

Eastern Bangladesh sits on the seismically active Chittagong‐Myanmar fold and thrust belt (CMFB), a north‐trending accretionary wedge on the eastern side of the India‐Eurasia collision. Earthquakes on the basal décollement and associated thrusts within the CMFB present a hazard to this densely populated region. In this study, we interpret 28 seismic reflection profiles from both published and unpublished sources to constrain the depth of the basal décollement. To convert profiles from the time domain to the depth domain, we integrate sonic log and seismic stacking velocity data to generate time‐velocity relationships for different parts of the CMFB. Our analysis reveals that the décollement is ∼9 km deep in northeast and southeast Bangladesh, but shallows to ∼5 km in east‐central Bangladesh. The décollement has an area of 7.25 × 104 km2 (∼150 × 450 km), making it capable of an Mw 8.5 earthquake. However, the warped geometry of this fault might act as a rupture barrier were a large earthquake to occur on the décollement. Our combined velocity and fault model lay the groundwork for future studies to address seismic segmentation, ground shaking, and rupture modeling in the CMFB. Finally, we use our compiled data set to analyze the evolution of fold kinematics in the CMFB. We observe that folding style and failure mode varies, from mainly ductile deformation in the foreland to mainly brittle in the hinterland. The dual‐failure modes within the CMFB support the hypothesis that a region with ductile deformation may still be capable of seismic behavior.
Brazil’s Antarctic Station Rises from the Ashes
Authors: Rodrigues Meghie
Published: August 2021

The sophisticated new research station will allow for better science on the icy continent.
Interannual Variations of Vegetation Optical Depth are Due to Both Water Stress and Biomass Changes
Authors: Konings Alexandra G. , Holtzman Nataniel M. , Rao Krishna , Xu Liang , Saatchi Sassan S.
Published: August 2021

Microwave radiometry can be used to measure vegetation water content through vegetation optical depth (VOD). VOD can vary due to changes in water stress alone, but also scales with aboveground biomass. Several studies have therefore interpreted VOD temporal anomalies as linearly proportional to biomass anomalies, neglecting the influence of water stress. Here, we explicitly test this assumption using a new annual‐resolution data set of biomass derived from optical, radar, and lidar remote sensing. Both L‐band and X‐band VOD datasets are tested. Although VOD and biomass variations are highly correlated in space, their temporal anomalies are almost uncorrelated. At regional scale, it is as common for VOD anomalies to be more correlated to root‐zone soil moisture anomalies (a proxy for water stress) than to biomass anomalies as for the opposite to occur. Care should therefore be taken when deriving biomass anomalies from VOD, especially in the absence of any large‐scale biomass disturbances.
Assessment of pregnancy dietary intake and association with maternal and neonatal outcomes
Authors: Costanza Jole , Camanni Margherita , Ferrari Maria Maddalena , De Cosmi Valentina , Tabano Silvia , Fontana Laura , Radaelli Tatjana , Privitera Giulia , Alberico Daniela , Colapietro Patrizia , Motta Silvia , Sirchia Silvia , Stampalija Tamara , Tabasso Chiara , Roggero Paola , Parazzini Fabio , Mosca Fabio , Ferrazzi Enrico , Bosari Silvano , Miozzo Monica , Agostoni Carlo
Published: August 2021

Background

Maternal dietary habits are contributors of maternal and fetal health; however, available data are heterogeneous and not conclusive.

Methods

Nutrient intake during pregnancy was assessed in 503 women with uncomplicated pregnancies, using the validated Food Frequency Questionnaire developed by the European Prospective Investigation into Cancer and Nutrition (EPIC-FFQ).

Results

In all, 68% of women had a normal body mass index at the beginning of pregnancy, and 83% of newborns had an appropriate weight for gestational age. Maternal pre-pregnancy body mass index (BMI), gestational weight gain (GWG), and placental weight were independently correlated with birth weight. GWG was not related to the pre-pregnancy BMI. EPIC-FFQ evaluation showed that 30% of women adhered to the European Food Safety Authority (EFSA) ranges for macronutrient intake. In most pregnant women (98.1%), consumption of water was below recommendations. Comparing women with intakes within EFSA ranges for macronutrients with those who did not, no differences were found in BMI, GWG, and neonatal or placental weight. Neither maternal nor neonatal parameters were associated with the maternal dietary profiles.

Conclusions

In our population, maternal pre-pregnancy BMI, GWG, and placental weight are determinants of birth weight percentile, while no association was found with maternal nutrition. Future studies should explore associations through all infancy.

Impact

Maternal anthropometrics and nutrition status may affect offspring birth weight.

In 503 healthy women, maternal pre-pregnancy body mass index (BMI), gestational weight gain (GWG), and placental weight were independently correlated to neonatal birth weight. GWG was not related to the pre-pregnancy BMI. In all, 30% of women respected the EFSA ranges for macronutrients. Neither maternal nor neonatal parameters were associated with maternal dietary profiles considered in this study.

Maternal pre-pregnancy BMI, GWG, and placental weight are determinants of neonatal birth weight percentile, while a connection with maternal nutrition profiles was not found.
Alternatively spliced ANLN isoforms synergistically contribute to the progression of head and neck squamous cell carcinoma
Authors: Guo Erliang , Mao Xionghui , Wang Xueying , Guo Lunhua , An Changming , Zhang Cong , Song Kaibin , Wang Guohui , Duan Chunbin , Zhang Xiwei , Yang Xianguang , Yuan Zhennan , Sun Ji , Li Xiaomei , Yang Weiwei , Meng Hongxue , Miao Susheng
Published: August 2021

Head and neck squamous cell carcinoma (HNSCC) is a common cancer with high mortality. Anilin actin-binding protein (ANLN) has been reported to be associated with carcinogenesis in multiple tumors. However, the expression pattern and functional effects of ANLN in HNSCC remain to be unclear. Clinical data and online databases were used to analyze the expression of ANLN and its relationship with HNSCC patient survival. Expression of two major splice variants of ANLN was assessed in HNSCC tissues and cell lines. The functional effects and related mechanisms of ANLN isoforms were investigated in HNSCC in vitro and in vivo. Our study showed that patients with high expression of ANLN had a poor prognosis. The two primary isoforms of ANLN transcripts ANLN-201 and ANLN-210 were highly expressed in HNSCC tissues and cell lines. Knockout of ANLN restrained cell proliferation, migration, and invasion of SCC-9 cells. Mechanically, ANLN-201 could interact with c-Myc to keep its protein stability, thereby playing a oncogenic role in HNSCC. ANLN-210 could be transferred to macrophages via exosomes by binding to RNA-binding protein hnRNPC. Exosomal ANLN-210 promoted macrophage polarization via PTEN/PI3K/Akt signaling pathway, thus stimulating tumor growth of HNSCC. ANLN was an independent prognostic factor in patients with HNSCC. Alternatively spliced ANLN isoforms collaboratively promote HNSCC tumorigenesis in vitro and in vivo, which might provide the in-depth role and mechanism of ANLN in HNSCC development.
Interleukin-17A regulates ependymal cell proliferation and functional recovery after spinal cord injury in mice
Authors: Miyajima Hisao , Itokazu Takahide , Tanabe Shogo , Yamashita Toshihide
Published: August 2021

Ependymal cells have been suggested to act as neural stem cells and exert beneficial effects after spinal cord injury (SCI). However, the molecular mechanism underlying ependymal cell regulation after SCI remains unknown. To examine the possible effect of IL-17A on ependymal cell proliferation after SCI, we locally administrated IL-17A neutralizing antibody to the injured spinal cord of a contusion SCI mouse model, and revealed that IL-17A neutralization promoted ependymal cell proliferation, which was paralleled by functional recovery and axonal reorganization of both the corticospinal tract and the raphespinal tract. Further, to test whether ependymal cell-specific manipulation of IL-17A signaling is enough to affect the outcomes of SCI, we generated ependymal cell-specific conditional IL-17RA-knockout mice and analyzed their anatomical and functional response to SCI. As a result, conditional knockout of IL-17RA in ependymal cells enhanced both axonal growth and functional recovery, accompanied by an increase in mRNA expression of neurotrophic factors. Thus, Ependymal cells may enhance the regenerative process partially by secreting neurotrophic factors, and IL-17A stimulation negatively regulates this beneficial effect. Molecular manipulation of ependymal cells might be a viable strategy for improving functional recovery.
Splicing modulators: on the way from nature to clinic
Authors: Schneider-Poetsch Tilman , Chhipi-Shrestha Jagat Krishna , Yoshida Minoru
Published: August 2021

Over the course of more than two decades, natural products isolated from various microorganisms and plants have built the foundation for chemical biology research into the mechanism of pre-mRNA splicing. Hand in hand with advances in scientific methodology small molecule splicing modulators have become powerful tools for investigating, not just the splicing mechanism, but also the cellular effect of altered mRNA processing. Based on thorough structure-activity studies, synthetic analogues have moved on from scientific tool compounds to experimental drugs. With current advances in drug discovery methodology and new means of attacking targets previously thought undruggable, we can expect further advances in both research and therapeutics based on small molecule splicing modulators.
The search for lunar mantle rocks exposed on the surface of the Moon
Authors: Moriarty Daniel P. , Dygert Nick , Valencia Sarah N. , Watkins Ryan N. , Petro Noah E.
Published: August 2021

The lunar surface is ancient and well-preserved, recording Solar System history and planetary evolution processes. Ancient basin-scale impacts excavated lunar mantle rocks, which are expected to remain present on the surface. Sampling these rocks would provide insight into fundamental planetary processes, including differentiation and magmatic evolution. There is contention among lunar scientists as to what lithologies make up the upper lunar mantle, and where they may have been exposed on the surface. We review dynamical models of lunar differentiation in the context of recent experiments and spacecraft data, assessing candidate lithologies, their distribution, and implications for lunar evolution.
Chemical tools for epichaperome-mediated interactome dysfunctions of the central nervous system
Authors: Bolaender Alexander , Zatorska Danuta , He Huazhong , Joshi Suhasini , Sharma Sahil , Digwal Chander S. , Patel Hardik J. , Sun Weilin , Imber Brandon S. , Ochiana Stefan O. , Patel Maulik R. , Shrestha Liza , Shah Smit. K. , Wang Shuo , Karimov Rashad , Tao Hui , Patel Pallav D. , Martin Ananda Rodilla , Yan Pengrong , Panchal Palak , Almodovar Justina , Corben Adriana , Rimner Andreas , Ginsberg Stephen D. , Lyashchenko Serge , Burnazi Eva , Ku Anson , Kalidindi Teja , Lee Sang Gyu , Grkovski Milan , Beattie Bradley J. , Zanzonico Pat , Lewis Jason S. , Larson Steve , Rodina Anna , Pillarsetty Nagavarakishore , Tabar Viviane , Dunphy Mark P. , Taldone Tony , Shimizu Fumiko , Chiosis Gabriela
Published: August 2021

Diseases are a manifestation of how thousands of proteins interact. In several diseases, such as cancer and Alzheimer’s disease, proteome-wide disturbances in protein-protein interactions are caused by alterations to chaperome scaffolds termed epichaperomes. Epichaperome-directed chemical probes may be useful for detecting and reversing defective chaperomes. Here we provide structural, biochemical, and functional insights into the discovery of epichaperome probes, with a focus on their use in central nervous system diseases. We demonstrate on-target activity and kinetic selectivity of a radiolabeled epichaperome probe in both cells and mice, together with a proof-of-principle in human patients in an exploratory single group assignment diagnostic study (ClinicalTrials.gov Identifier: NCT03371420). The clinical study is designed to determine the pharmacokinetic parameters and the incidence of adverse events in patients receiving a single microdose of the radiolabeled probe administered by intravenous injection. In sum, we introduce a discovery platform for brain-directed chemical probes that specifically modulate epichaperomes and provide proof-of-principle applications in their use in the detection, quantification, and modulation of the target in complex biological systems.
Time-varying optimization of COVID-19 vaccine prioritization in the context of limited vaccination capacity
Authors: Han Shasha , Cai Jun , Yang Juan , Zhang Juanjuan , Wu Qianhui , Zheng Wen , Shi Huilin , Ajelli Marco , Zhou Xiao-Hua , Yu Hongjie
Published: August 2021

Dynamically adapting the allocation of COVID-19 vaccines to the evolving epidemiological situation could be key to reduce COVID-19 burden. Here we developed a data-driven mechanistic model of SARS-CoV-2 transmission to explore optimal vaccine prioritization strategies in China. We found that a time-varying vaccination program (i.e., allocating vaccines to different target groups as the epidemic evolves) can be highly beneficial as it is capable of simultaneously achieving different objectives (e.g., minimizing the number of deaths and of infections). Our findings suggest that boosting the vaccination capacity up to 2.5 million first doses per day (0.17% rollout speed) or higher could greatly reduce COVID-19 burden, should a new wave start to unfold in China with reproduction number ≤1.5. The highest priority categories are consistent under a broad range of assumptions. Finally, a high vaccination capacity in the early phase of the vaccination campaign is key to achieve large gains of strategic prioritizations.
Cognitive functions and underlying parameters of human brain physiology are associated with chronotype
Authors: Salehinejad Mohammad Ali , Wischnewski Miles , Ghanavati Elham , Mosayebi-Samani Mohsen , Kuo Min-Fang , Nitsche Michael A.
Published: August 2021

Circadian rhythms have natural relative variations among humans known as chronotype. Chronotype or being a morning or evening person, has a specific physiological, behavioural, and also genetic manifestation. Whether and how chronotype modulates human brain physiology and cognition is, however, not well understood. Here we examine how cortical excitability, neuroplasticity, and cognition are associated with chronotype in early and late chronotype individuals. We monitor motor cortical excitability, brain stimulation-induced neuroplasticity, and examine motor learning and cognitive functions at circadian-preferred and non-preferred times of day in 32 individuals. Motor learning and cognitive performance (working memory, and attention) along with their electrophysiological components are significantly enhanced at the circadian-preferred, compared to the non-preferred time. This outperformance is associated with enhanced cortical excitability (prominent cortical facilitation, diminished cortical inhibition), and long-term potentiation/depression-like plasticity. Our data show convergent findings of how chronotype can modulate human brain functions from basic physiological mechanisms to behaviour and higher-order cognition.
Cerebral malaria: insight into pathology from optical coherence tomography
Authors: Tu Zhanhan , Gormley Jack , Sheth Viral , Seydel Karl B. , Taylor Terrie , Beare Nicholas , Barrera Valentina , Proudlock Frank A. , Manda Chatonda , Harding Simon , Gottlob Irene
Published: August 2021

We aimed to investigate structural retinal changes in malarial retinopathy (MR) using hand-held optical coherence tomography (HH-OCT) to assess its diagnostic potential. Children with MR (n = 43) underwent ophthalmoscopy, fluorescein angiography and HH-OCT during admission, 1-month (n = 31) and 1-year (n = 8) post-discharge. Controls were comatose patients without malaria (n = 6) and age/sex-matched healthy children (n = 43). OCT changes and retinal layer thicknesses were compared. On HH-OCT, hyper-reflective areas (HRAs) were seen in the inner retina of 81% of MR patients, corresponding to ischaemic retinal whitening on fundus photography. Cotton wool spots were present in 37% and abnormal hyper-reflective dots, co-localized to capillary plexus, in 93%. Hyper-reflective vessel walls were present in 84%, and intra-retinal cysts in 9%. Vascular changes and cysts resolved within 48 h. HRAs developed into retinal thinning at 1 month (p = 0.027) which was more pronounced after 1 year (p = 0.009). Ischaemic retinal whitening is located within inner retinal layers, distinguishing it from cotton wool spots. Vascular hyper-reflectivity may represent the sequestration of parasitized erythrocytes in vessels, a key CM feature. The mechanisms of post-ischemic retinal atrophy and cerebral atrophy with cognitive impairment may be similar in CM survivors. HH-OCT has the potential for monitoring patients, treatment response and predicting neurological deficits.
Hazardous base surges of Taal’s 2020 eruption
Authors: Lagmay A. M. F. , Balangue-Tarriela M. I. R. , Aurelio M. , Ybanez R. , Bonus-Ybanez A. , Sulapas J. , Baldago C. , Sarmiento D. M. , Cabria H. , Rodolfo R. , Rafael D. J. , Trinidad J. R. , Obille E. , Rosell N.
Published: August 2021

After 43 years of repose, Taal Volcano erupted on 12 January 2020 forming hazardous base surges. Using field, remote sensing (i.e. UAV and LiDAR), and numerical methods, we gathered primary data to generate well-constrained observed information on dune bedform characteristics, impact dynamic pressures and velocities of base surges. This is to advance our knowledge on this type of hazard to understand and evaluate its consequences and risks. The dilute and wet surges traveled at 50-60 ms−1 near the crater rim and decelerated before making impact on coastal communities with dynamic pressures of at least 1.7 kPa. The base surges killed more than a thousand livestock in the southeast of Taal Volcano Island, and then traveled another ~ 600 m offshore. This work is a rare document of a complete, fresh, and practically undisturbed base surge deposit, important in the study of dune deposits formed by volcanic and other processes on Earth and other planets.
Joint modeling of blood pressure measurement and survival time of hypertension patients
Authors: Kosa Hakime Ayele , Erango Markos Abiso
Published: August 2021

Hypertension is a chronic disease that has a major health problem over the centuries due to its significant contribution to the global burden. The objective of this study was to examine the association of survival time and longitudinal Systolic Blood Pressure (SBP) measurement and finding potential barrier that affects SBP measurement and the survival time of hypertension patients. The study considered a cohort of 318 hypertension patients who were aged 18 years or older and were under follow-up from January 1, 2012, to February 30, 2020, at Arba Minch General Hospital. To analyze the data we employed linear mixed effect model, Weibull model, and joint modeling approach for longitudinal and survival data. The results from joint model analysis indicate that systolic blood pressure measurement is significantly associated with survival time of hypertension patients. The results from the longitudinal sub-model reveals that alcohol use, Khat intake, smoking tobacco, stages of hypertension diseases, adherence to treatment, related diseases, and family history had statistical significant relationship with mean change in the$$\sqrt{SBP}$$SBPmeasurement. Furthermore, from the survival sub-model, we found the survival probability of hypertension patients was determined by family history, stages of hypertension disease, related diseases, and smoking tobacco. The analysis suggests that there is a strong association between SBP measurement and survival time of hypertension patients. Thus we recommend aggressive work by all concerned bodies towards awareness creation about the effect of potential barriers.
Nucleotide-decorated AuNPs as probes for nucleotide-binding proteins
Authors: Perzanowska Olga , Majewski Maciej , Strenkowska Malwina , Głowala Paulina , Czarnocki-Cieciura Mariusz , Mazur Maciej , Kowalska Joanna , Jemielity Jacek
Published: August 2021

Gold nanoparticles (AuNPs) decorated with biologically relevant molecules have variety of applications in optical sensing of bioanalytes. Coating AuNPs with small nucleotides produces particles with high stability in water, but functionality-compatible strategies are needed to uncover the full potential of this type of conjugates. Here, we demonstrate that lipoic acid-modified dinucleotides can be used to modify AuNPs surfaces in a controllable manner to produce conjugates that are stable in aqueous buffers and biological mixtures and capable of interacting with nucleotide-binding proteins. Using this strategy we obtained AuNPs decorated with 7-methylguanosine mRNA 5’ cap analogs and showed that they bind cap-specific protein, eIF4E. AuNPs decorated with non-functional dinucleotides also interacted with eIF4E, albeit with lower affinity, suggesting that eIF4E binding to cap-decorated AuNPs is partially mediated by unspecific ionic interactions. This issue was overcome by applying lipoic-acid-Tris conjugate as a charge-neutral diluting molecule. Tris-Lipo-diluted cap-AuNPs conjugates interacted with eIF4E in fully specific manner, enabling design of functional tools. To demonstrate the potential of these conjugates in protein sensing, we designed a two-component eIF4E sensing system consisting of cap-AuNP and 4E-BP1-AuNP conjugates, wherein 4E-BP1 is a short peptide derived from 4E-BP protein that specifically binds eIF4E at a site different to that of the 5’ cap. This system facilitated controlled aggregation, in which eIF4E plays the role of the agent that crosslinks two types of AuNP, thereby inducing a naked-eye visible absorbance redshift. The reported AuNPs-nucleotide conjugation method based on lipoic acid affinity for gold, can be harnessed to obtain other types of nucleotide-functionalized AuNPs, thereby paving the way to studying other nucleotide-binding proteins.
Detection of early changes in the post-radiosurgery vestibular schwannoma microenvironment using multinuclear MRI
Authors: Lewis Daniel , McHugh Damien J. , Li Ka-loh , Zhu Xiaoping , Mcbain Catherine , Lloyd Simon K. , Jackson Alan , Pathmanaban Omar N. , King Andrew T. , Coope David J.
Published: August 2021

Stereotactic radiosurgery (SRS) is an established, effective therapy against vestibular schwannoma (VS). The mechanisms of tumour response are, however, unknown and in this study we sought to evaluate changes in the irradiated VS tumour microenvironment through a multinuclear MRI approach. Five patients with growing sporadic VS underwent a multi-timepoint comprehensive MRI protocol, which included diffusion tensor imaging (DTI), dynamic contrast-enhanced (DCE) MRI and a spiral 23Na-MRI acquisition for total sodium concentration (TSC) quantification. Post-treatment voxelwise changes in TSC, DTI metrics and DCE-MRI derived microvascular biomarkers (Ktrans, ve and vp) were evaluated and compared against pre-treatment values. Changes in tumour TSC and microvascular parameters were observable as early as 2 weeks post-treatment, preceding changes in structural imaging. At 6 months post-treatment there were significant voxelwise increases in tumour TSC (p < 0.001) and mean diffusivity (p < 0.001, repeated-measures ANOVA) with marked decreases in tumour microvascular parameters (p < 0.001, repeated-measures ANOVA). This study presents the first in vivo evaluation of alterations in the VS tumour microenvironment following SRS, demonstrating that changes in tumour sodium homeostasis and microvascular parameters can be imaged as early as 2 weeks following treatment. Future studies should seek to investigate these clinically relevant MRI metrics as early biomarkers of SRS response.
Noxic effects of polystyrene microparticles on murine macrophages and epithelial cells
Authors: Rudolph Julia , Völkl Matthias , Jérôme Valérie , Scheibel Thomas , Freitag Ruth
Published: August 2021

Microplastic (MP) contamination has been identified as an ecological problem with an increasing impact on everyday life. Yet, possible effects of MP at the cellular level are still poorly understood. Here, the interaction of murine macrophages (J774A.1, ImKC) and epithelial cells (STC-1, BNL CL.2) with well-characterized poly(styrene) MP particles (MPP) of varying sizes (0.2–6.0 µm) was studied. Macrophages are expected to actively engulf particles which could be confirmed in this study, while epithelial cells are found in tissues with direct contact with ingested or inhaled MPP. Here, the epithelial cells from both investigated cell lines did not ingest MPP in significant numbers. Concomitantly, no cytotoxic effects nor any influence on cellular proliferation were observed. Cells from the two macrophage cell lines showed high ingestion of MPP of all sizes, but cytotoxic effects were observed only for one of them (ImKC) and only at MPP concentrations above 250 µg/mL. Indications of cellular stress as well as effects on cell proliferation were observed for cell populations with high particle cell interactions.
Bioacoustic classification of avian calls from raw sound waveforms with an open-source deep learning architecture
Authors: Bravo Sanchez Francisco J. , Hossain Md Rahat , English Nathan B. , Moore Steven T.
Published: August 2021

The use of autonomous recordings of animal sounds to detect species is a popular conservation tool, constantly improving in fidelity as audio hardware and software evolves. Current classification algorithms utilise sound features extracted from the recording rather than the sound itself, with varying degrees of success. Neural networks that learn directly from the raw sound waveforms have been implemented in human speech recognition but the requirements of detailed labelled data have limited their use in bioacoustics. Here we test SincNet, an efficient neural network architecture that learns from the raw waveform using sinc-based filters. Results using an off-the-shelf implementation of SincNet on a publicly available bird sound dataset (NIPS4Bplus) show that the neural network rapidly converged reaching accuracies of over 65% with limited data. Their performance is comparable with traditional methods after hyperparameter tuning but they are more efficient. Learning directly from the raw waveform allows the algorithm to select automatically those elements of the sound that are best suited for the task, bypassing the onerous task of selecting feature extraction techniques and reducing possible biases. We use publicly released code and datasets to encourage others to replicate our results and to apply SincNet to their own datasets; and we review possible enhancements in the hope that algorithms that learn from the raw waveform will become useful bioacoustic tools.
Trade-offs between vocal accommodation and individual recognisability in common marmoset vocalizations
Authors: Zürcher Y. , Willems E. P. , Burkart J. M.
Published: August 2021

Recent studies find increasing evidence for vocal accommodation in nonhuman primates, indicating that this form of vocal learning is more prevalent than previously thought. Convergent vocal accommodation (i.e. becoming more similar to partners) indicates social closeness. At the same time, however, becoming too similar may compromise individual recognisability. This is especially problematic if individual recognisability is an important part of the call function, like in long-distance contact calls. In contrast, in calls with a different function, the trade-off between signalling social closeness and individual recognisability might be less severe. We therefore hypothesized that the extent and consequences of accommodation depend on the function of a given call, and expected (1) more accommodation in calls for which individual identity is less crucial and (2) that individual identity is less compromised in calls that serve mainly to transmit identity compared to calls where individual recognisability is less important. We quantified vocal accommodation in three call types over the process of pair formation in common marmoset monkeys (Callithrix jacchus, n = 20). These three call types have different functions and vary with the degree to which they refer to individual identity of the caller. In accordance with our predictions, we found that animals converged most in close contact calls (trill calls), but less in calls where individual identity is more essential (phee- and food calls). In two out of three call types, the amount of accommodation was predicted by the initial vocal distance. Moreover, accommodation led to a drop in statistical individual recognisability in trill calls, but not in phee calls and food calls. Overall, our study shows that patterns of vocal accommodation vary between call types with different functions, suggestive of trade-offs between signalling social closeness and individual recognisability in marmoset vocalizations.
Insights into the Middle Eastern paternal genetic pool in Tunisia: high prevalence of T-M70 haplogroup in an Arab population
Authors: Elkamel Sarra , Marques Sofia L. , Alvarez Luis , Gomes Veronica , Boussetta Sami , Mourali-Chebil Soufia , Khodjet-El-Khil Houssein , Cherni Lotfi , Benammar-Elgaaied Amel , Prata Maria J.
Published: August 2021

To obtain refreshed insights into the paternal lineages of Tunisian populations, Y-chromosome diversity was assessed in two populations belonging to an Arab genealogical lineage, Kairouan and Wesletia, as well as in four Tunisian Andalusian populations, Testour, Slouguia, Qalaat-El-Andalous and El Alia. The Arabs from Kairouan revealed 73.47% of E-M81 and close affinities with Berber groups, indicating they are likely arabized Berbers, clearly differentiated from the Arabs from Wesletia, who harbored the highest frequency (71.8%) of the Middle Eastern component ever observed in North Africa. In the Tunisian Andalusians, the North African component largely prevailed, followed by the Middle Eastern contribution. Global comparative analysis highlighted the heterogeneity of Tunisian populations, among which, as a whole, dominated a set of lineages ascribed to be of autochthonous Berber origin (71.67%), beside a component of essentially Middle Eastern extraction (18.35%), and signatures of Sub-Saharan (5.2%), European (3.45%) and Asiatic (1.33%) contributions. The remarkable frequency of T-M70 in Wesletia (17.4%) prompted to refine its phylogeographic analysis, allowing to confirm its Middle Eastern origin, though signs of local evolution in Northern Africa were also detected. Evidence was clear on the ancient introduction of T lineages into the region, probably since Neolithic times associated to spread of agriculture.
Humidifier disinfectant, sodium dichloroisocyanurate (NaDCC): assessment of respiratory effects to protect workers’ health
Authors: Seo DongSeok , Lee Yong-Hoon , Jo JiMin
Published: August 2021

In South Korea, it has been found that biocides used to control and eliminate harmful organisms are used as humidifier disinfectants and cause lung disease in users. Hence, efforts have been focused on studying the toxicity of biocides in workers who handle them. The purpose of this study was to evaluate the effects of inhalation exposure to sodium dichloroisocyanurate (NaDCC) to protect the health of workers handling NaDCC. F344 rats were exposed to 0.8-, 4-, and 20-mg/m3 of NaDCC for 6 h per day, 5 days per week for 14 days, and the recovery period after exposure was 14 days. In the 20-mg/m3-exposure group, we observed a decrease in food intake in females, a weight loss in males, and a decrease in partially active thromboplastin time in males and females 2 weeks after exposure. We noted a decrease in white blood cells in males in the 4- and 20-mg/m3-exposed groups. Both males and females in the 20-mg/m3 group and males in the 4-mg/m3 group showed irritation in the larynx related to test substance exposure. However, these findings were not observed in the recovery group. The main target organs affected by repeated 2-week inhalation exposure to NaDCC were the nasal cavity and larynx in the upper respiratory tract. The No Observed Adverse Effect Level (NOAEL) was considered to be 0.8 mg/m3 because effects related to NaDCC exposure were observed even at of 4 mg/m3, and these effects were found to be reversible.
Solidified floating organic droplet microextraction coupled with HPLC for rapid determination of trans, trans muconic acid in benzene biomonitoring
Authors: Dehghani Fatemeh , Omidi Fariborz , Heravizadeh Omidreza , Yousefinejad Saeed
Published: August 2021

Benzene is one of the carcinogenic compounds in the work environments. Exposure assessment of benzene through biological monitoring is an acceptable way to accurately measure the real exposure in order to conducting the health risk assessment, but it is always complicated, laborious, time consuming and costly process. A new sensitive, simple, fast and environmental friendly method was developed for the determination of urinary metabolite of benzene, trans trans muconic acid (t,t-MA) by dispersive liquid–liquid micro extraction based on solidification of floating organic droplet coupled with high-performance liquid chromatography with ultra violet detector. Central composite design methodology was utilized to evaluate the effective factors on the extraction output of the target metabolite. The calibration curve was plotted in the concentration ranges of 0.02–5 µg mL−1. The precision and accuracy of the method were assayed via the relative standard deviation (RSD%) and relative recovery (RR%) using spiked samples with three replications. The RR% and RSD% of the optimized method were 86.9–91.3% and 4.3–6.3% respectively. The limit of detection (LOD) of the method was 0.006 µg mL−1. The level of t,t-MA in real samples was ranged from 0.54 to 1.64 mg/g creatinine. We demonstrated that t,t-MA can be extracted and determined by an inexpensive, simple and fast method.
Morphological, cytochemical and ultrastructural aspects of blood cells in freshwater stingray species in the middle Rio Negro basin of Amazonian Brazil
Authors: de Oliveira Adriano Teixeira , Lemos Jefferson Raphael Gonzaga de , Santos Marcio Quara de Carvalho , Pantoja-Lima Jackson , Aride Paulo Henrique Rocha , Araújo Maria Lúcia Góes de , Tavares-Dias Marcos , Marcon Jaydione Luiz
Published: August 2021

In the present work, we examined the morphology, dimensions, cytochemical staining reactions and ultrastructure of blood cells from three freshwater stingray species, Potamotrygon wallacei, Potamotrygon motoro and Paratrygon aiereba, living in the waters of the middle Rio Negro basin (Barcelos, Amazonas, Brazil). We identified erythrocytes, erythroblasts, thrombocytes and four types of leukocytes (basophils, heterophils, lymphocytes and monocytes) in the blood of these stingray species. In all the freshwater stingray species studied, the shapes and dimensions of these cells were similar to those of marine elasmobranchs. Positive PAS staining occurred in heterophils and thrombocytes, and weak staining occurred in lymphocytes and monocytes, while metachromasia only occurred in basophils. Positive Sudan Black B staining was observed in thrombocytes and lymphocytes, and weak staining occurred in heterophils. Basophils and heterophils were the only cells with positive bromophenol blue staining, while no peroxidase staining was observed in any of the four leukocyte types. This is the first study to establish the dimensions and cytochemical staining profiles of blood cells in Amazonian stingray species. Because these elasmobranch species are exported as ornamental fish to countries worldwide, this study can contribute to establishing standards for blood constituents that may be helpful in assessing the health and welfare of these fish in artificial systems.
Sudden cardiac death among Iranian population: a two decades follow-up of Tehran lipid and glucose study
Authors: Toreyhi Hossein , Asgari Samaneh , Khalili Davood , Pishgahi Mehdi , Azizi Fereidoun , Hadaegh Farzad
Published: August 2021

Sudden cardiac death (SCD) is described as death within one hour, if observed, from the onset of symptoms, and within 24 h of being alive and well if not observe. Study population includes 3705 men and 4446 women, aged ≥ 30 years. Multivariable Cox proportional hazard models were used to determine the risk factors associated with SCD. After a median follow-up of 17.9 years, 244 SCD (165 in males) occurred. The age-standardized incidence rate (95% confidence intervals (CI)) of SCD was 2.3 (2.1–2.7) per 1000 person-year. Current smoking [Hazard ratio (HR): 2.43, 95% CI: 1.73–3.42], high waist circumference [1.49: 1.04–2.12], hypertension [1.39: 1.05–1.84], type 2 diabetes mellitus [2.78: 2.09–3.69], pulse rate ≥ 90 beats per/minute [1.72: 1.22–2.42] and prevalent cardiovascular disease [1.75: 1.26–2.45] were significant risk factors. The corresponding population attributed fractions (PAF) were 14.30, 16.58, 14.03, 19.60, 7.62, and 8.30, respectively. Being overweight [0.58: 0.40–0.83] and obese [0.61: 0.38–0.98] decreased the risk of SCD. After excluding known diabetes cases from our data analysis, the newly diagnosed diabetes still showed an HR of 2.0 (1.32–3.00) with a PAF of 7.15% in the full adjustment model. To deal with sudden death as a catastrophic outcome, multi-component strategies by policy health makers are suggested.
Transcriptome profile of goat folliculogenesis reveals the interaction of oocyte and granulosa cell in correlation with different fertility population
Authors: Li Shen , Wang Junjie , Zhang Hongfu , Ma Dongxue , Zhao Minghui , Li Na , Men Yuhao , Zhang Yuan , Chu Huimin , Lei Chuzhao , Shen Wei , Othman Othman El-Mahdy , Zhao Yong , Min Lingjiang
Published: August 2021

To understand the molecular and genetic mechanisms related to the litter size in one species of two different populations (high litter size and low litter size), we performed RNA-seq for the oocytes and granulosa cells (GCs) at different developmental stages of follicle, and identified the interaction of genes from both sides of follicle (oocyte and GCs) and the ligand-receptor pairs from these two sides. Our data were very comprehensive to uncover the difference between these two populations regarding the folliculogenesis. First, we identified a set of potential genes in oocyte and GCs as the marker genes which can be used to determine the goat fertility capability and ovarian reserve ability. The data showed that GRHPR, GPR84, CYB5A and ERAL1 were highly expressed in oocyte while JUNB, SCN2A, MEGE8, ZEB2, EGR1and PRRC2A were highly expressed in GCs. We found more functional genes were expressed in oocytes and GCs in high fertility group (HL) than that in low fertility group (LL). We uncovered that ligand-receptor pairs in Notch signaling pathway and transforming growth factor-β (TGF-β) superfamily pathways played important roles in goat folliculogenesis for the different fertility population. Moreover, we discovered that the correlations of the gene expression in oocytes and GCs at different stages in the two populations HL and LL were different, too. All the data reflected the gene expression landscape in oocytes and GCs which was correlated well with the fertility capability.
Cottonseed-derived gossypol and ethanol extracts differentially regulate cell viability and VEGF gene expression in mouse macrophages
Authors: Cao Heping , Sethumadhavan Kandan , Wu Xiaoyu , Zeng Xiaochun
Published: August 2021

Vascular endothelial growth factor (VEGF) plays an important role in chronic inflammation associated with several diseases. Many plant extracts have nutritional and healthy benefits by down-regulating VEGF expression, but there was no report on VEGF regulation by cottonseed extracts in any biological system. The objective was to investigate cell viability and VEGF expression regulated by gossypol and ethanol extracts using lipopolysaccharides (LPS) as a control. MTT, qPCR and immunoblotting techniques were used to monitor cell viability, VEGF mRNA and protein levels in mouse RAW264.7 macrophages. Gossypol dramatically reduced macrophage viability but cottonseed extracts and LPS exhibited minor effect on cell viability. VEGFb mRNA levels were approximately 40 fold of VEGFa in the macrophages. Gossypol increased VEGFa and VEGFb mRNA levels up to 27 and 4 fold, respectively, and increased VEGF protein. LPS increased VEGFa mRNA by sixfold but decreased VEGFb mRNA. LPS increased VEGF protein in 2–4 h but decreased in 8–24 h. Glanded seed extracts showed some stimulating effects on VEGF mRNA levels. Glandless seed coat extract showed increased VEGFb mRNA levels but its kernel extract reduced VEGF mRNA levels. This study demonstrated that gossypol and ethanol extracts differentially regulated cell viability and VEGF expression in mouse macrophages.
Nonresonant amplification of spin waves through interface magnetoelectric effect and spin-transfer torque
Authors: Graczyk Piotr , Krawczyk Maciej
Published: August 2021

We present a new mechanism for manipulation of the spin-wave amplitude through the use of the dynamic charge-mediated magnetoelectric effect in ultrathin multilayers composed of dielectric thin-film capacitors separated by a ferromagnetic bilayer. Propagating spin waves can be amplified and attenuated with rising and decreasing slopes of the oscillating voltage, respectively, locally applied to the sample. The way the spin accumulation is generated makes the interaction of the spin-transfer torque with the magnetization dynamics mode-selective and restricted to some range of spin-wave frequencies, which is contrary to known types of the spin-transfer torque effects. The interfacial nature of spin-dependent screening allows to reduce the thickness of the fixed magnetization layer to a few nanometers, thus the proposed effect significantly contributes toward realization of the magnonic devices and also miniaturization of the spintronic devices.