bluuebunny/crossref_metadata_2025 huggingface dataset:
Evidence for a non-stochastic two-field hypothesis for persistent skin cancer risk
Authors: Konger Raymond L. , Ren Lu , Sahu Ravi P. , Derr-Yellin Ethel , Kim Young L.
Published: November 2020

With recurring carcinogen exposures, individual tumors develop in a field of genetic mutations through a stepwise process of clonal expansion and evolution. Once established, this “cancer field” persists in the absence of continued carcinogen exposures, resulting in a sustained risk for cancer development. Using a bioimaging approach, we previously demonstrated that a dermal premalignant field characterized by inflammatory angiogenesis persists following the cessation of ultraviolet light exposures and accurately predicts future overlying epidermal tumor formation. Following ultraviolet light treatments, others have observed that patches of p53 immunopositive cells persist stochastically throughout the epidermal stem cell population. However, these studies were done by random biopsies, introducing sampling bias. We now show that, rather than being randomly distributed, p53+ epidermal cells are enriched only in areas overlying this multi-focal dermal field. Moreover, we also show that the dermal field is characterized by a senescent phenotype. We propose that persistence of the overlying epithelial cancerization field in the absence of exogenous carcinogens or promoters requires a two-field composite consisting of a dermal senescent field driving the persistence of the overlying epidermal cancer field. These observations challenge current models that suggest that persistence of cancer risk in the absence of continued carcinogen exposures is simply a function of stochastically arranged, long-lived but dormant epithelial clonal stem cells mutants. The model proposed here could provide new insights into how cancer risk persists following cessation of carcinogenic exposures.
Potential involvement of Streptococcus mutans possessing collagen binding protein Cnm in infective endocarditis
Authors: Nomura Ryota , Otsugu Masatoshi , Hamada Masakazu , Matayoshi Saaya , Teramoto Noboru , Iwashita Naoki , Naka Shuhei , Matsumoto-Nakano Michiyo , Nakano Kazuhiko
Published: November 2020

Streptococcus mutans, a significant contributor to dental caries, is occasionally isolated from the blood of patients with infective endocarditis. We previously showed that S. mutans strains expressing collagen-binding protein (Cnm) are present in the oral cavity of approximately 10–20% of humans and that they can effectively invade human umbilical vein endothelial cells (HUVECs). Here, we investigated the potential molecular mechanisms of HUVEC invasion by Cnm-positive S. mutans. The ability of Cnm-positive S. mutans to invade HUVECs was significantly increased by the presence of serum, purified type IV collagen, and fibrinogen (p < 0.001). Microarray analyses of HUVECs infected by Cnm-positive or -negative S. mutans strains identified several transcripts that were differentially upregulated during invasion, including those encoding the small G protein regulatory proteins ARHGEF38 and ARHGAP9. Upregulation of these proteins occurred during invasion only in the presence of serum. Knockdown of ARHGEF38 strongly reduced HUVEC invasion by Cnm-positive S. mutans. In a rat model of infective endocarditis, cardiac endothelial cell damage was more prominent following infection with a Cnm-positive strain compared with a Cnm-negative strain. These results suggest that the type IV collagen–Cnm–ARHGEF38 pathway may play a crucial role in the pathogenesis of infective endocarditis.
Palmitate and pyruvate carbon flux in response to choline and methionine in bovine neonatal hepatocytes
Authors: Chandler T. L. , Erb S. J. , Myers William A. , Deme Pragney , Haughey Norman J. , McFadden J. W. , White H. M.
Published: November 2020

Choline and methionine may serve unique functions to alter hepatic energy metabolism. Our objective was to trace carbon flux through pathways of oxidation and glucose metabolism in bovine hepatocytes exposed to increasing concentrations of choline chloride (CC) and d,l-methionine (DLM). Primary hepatocytes were isolated from 4 Holstein calves and maintained for 24 h before treatment with CC (0, 10, 100, 1000 μmol/L) and DLM (0, 100, 300 μmol/L) in a factorial design. After 21 h, [1-14C]C16:0 or [2-14C]pyruvate was added to measure complete and incomplete oxidation, and cellular glycogen. Reactive oxygen species (ROS), cellular triglyceride (TG), and glucose and ß-hydroxybutyrate (BHB) export were quantified. Exported very-low density lipoprotein particles were isolated for untargeted lipidomics and to quantify TG. Interactions between CC and DLM, and contrasts for CC (0 vs. [10, 100, 1000 μmol/L] and linear and quadratic contrast 10, 100, 1000 μmol/L) and DLM (0 vs. [100, 300 μmol/L] and 100 vs. 300 μmol/L) were evaluated. Presence of CC increased complete oxidation of [1-14C]C16:0 and decreased BHB export. Glucose export was decreased, but cellular glycogen was increased by the presence of CC and increasing CC. Presence of CC decreased ROS and marginally decreased cellular TG. No interactions between CC and DLM were detected for these outcomes. These data suggest a hepato-protective role for CC to limit ROS and cellular TG accumulation, and to alter hepatic energy metabolism to support complete oxidation of FA and glycogen storage regardless of Met supply.
Graphene oxide/mussel foot protein composites for high-strength and ultra-tough thin films
Authors: Kim Eugene , Qin Xuyan , Qiao James B. , Zeng Qingqing , Fortner John D. , Zhang Fuzhong
Published: November 2020

Graphene oxide (GO)-based composite materials have become widely popular in many applications due to the attractive properties of GO, such as high strength and high electrical conductivity at the nanoscale. Most current GO composites use organic polymer as the matrix material and thus, their synthesis suffers from the use of organic solvents or surfactants, which raise environmental and energy-consumption concerns. Inspired by mussel foot proteins (Mfp) secreted by the saltwater mussel, Mytilus galloprovincialis and by recent advances in microbial protein production, we developed an aqueous-based green synthesis strategy for preparing GO/Mfp film composites. These GO/Mfp films display high tensile strength (134–158 MPa), stretchability (~ 26% elongation), and high toughness (20–24 MJ/m3), beyond the capabilities of many existing GO composites. Renewable production of Mfp proteins and the facile fabrication process described provides a new avenue for composite material synthesis, while the unique combination of mechanical properties of GO/Mfp films will be attractive for a range of applications.
Ecological traits, genetic diversity and regional distribution of the macroalga Treptacantha elegans along the Catalan coast (NW Mediterranean Sea)
Authors: Medrano Alba , Hereu Bernat , Mariani Simone , Neiva João , Pagès-Escolà Marta , Paulino Cristina , Rovira Graciel·la , Serrão Ester A. , Linares Cristina
Published: November 2020

The widespread decline of canopy-forming macroalgal assemblages has been documented in many regions during the last decades. This pattern is often followed by the replacement of structurally complex algal canopies by more simplified habitats (e.g., turfs or sea urchin barren grounds). Against all odds, the fucoid Treptacantha elegans, a large Mediterranean brown macroalga, broadened its depth range to deeper and exposed environments and displayed an unexpected range expansion along the northern coast of Catalonia over the last two decades. Here, we reconstruct the spread of T. elegans in time and space and unravel ecological and demographic traits such as population dynamics and genetic patterns to provide a comprehensive and integrated view of the current status and geographical expansion for this species. Fast-growing dynamics, early fertile maturity, and high turnover rate are the main competitive advantages that allow the exposed populations of T. elegans to colonize available substrata and maintain dense and patchy populations. We also provided evidence that the deeper and exposed populations of T. elegans constitute a single group across the Catalan coast, with little genetic differentiation among populations. This seems to support the hypothesis of a unique source of spread in the last decades from the Medes Islands No-Take Zone towards both southern and northern waters.
Prediction of mitochondrial genome-wide variation through sequencing of mitochondrion-enriched extracts
Authors: Fisher Kelsey E. , Bradbury Steven P. , Coates Brad S.
Published: November 2020

Although mitochondrial DNA (mtDNA) haplotype variation is often applied for estimating population dynamics and phylogenetic relationships, economical and generalized methods for entire mtDNA genome enrichment prior to high-throughput sequencing are not readily available. This study demonstrates the utility of differential centrifugation to enrich for mitochondrion within cell extracts prior to DNA extraction, short-read sequencing, and assembly using exemplars from eight maternal lineages of the insect species, Ostrinia nubilalis. Compared to controls, enriched extracts showed a significant mean increase of 48.2- and 86.1-fold in mtDNA based on quantitative PCR, and proportion of subsequent short sequence reads that aligned to the O. nubilalis reference mitochondrial genome, respectively. Compared to the reference genome, our de novo assembled O. nubilalis mitochondrial genomes contained 82 intraspecific substitution and insertion/deletion mutations, and provided evidence for correction of mis-annotated 28 C-terminal residues within the NADH dehydrogenase subunit 4. Comparison to a more recent O. nubilalis mtDNA assembly from unenriched short-read data analogously showed 77 variant sites. Twenty-eight variant positions, and a triplet ATT codon (Ile) insertion within ATP synthase subunit 8, were unique within our assemblies. This study provides a generalizable pipeline for whole mitochondrial genome sequence acquisition adaptable to applications across a range of taxa.
Hic-5 is required for activation of pancreatic stellate cells and development of pancreatic fibrosis in chronic pancreatitis
Authors: Gao Lin , Lei Xiao-Feng , Miyauchi Aya , Noguchi Masahito , Omoto Tomokatsu , Haraguchi Shogo , Miyazaki Takuro , Miyazaki Akira , Kim-Kaneyama Joo-ri
Published: November 2020

Accumulated evidence suggests that activated pancreatic stellate cells (PSCs) serve as the main source of the extracellular matrix proteins accumulated under the pathological conditions leading to pancreatic fibrosis in chronic pancreatitis (CP). However, little is known about the mechanisms of PSC activation. PSCs have morphologic and functional similarities to hepatic stellate cells, which are activated by hydrogen peroxide-inducible clone-5 (Hic-5), a TGF-β1-induced protein. In this study, we investigated whether Hic-5 activates PSCs, which promote pancreatic fibrosis development in CP. Hic-5-knockout and wild type mice were subjected to caerulein injection to induce CP. Hic-5 expression was strongly upregulated in activated PSCs from human CP tissue and from mouse pancreatic fibrosis in caerulein-induced CP. Hic-5 deficiency significantly attenuated mouse pancreatic fibrosis and PSC activation in the experimental murine CP model. Mechanistically, Hic-5 knock down significantly inhibited the TGF-β/Smad2 signaling pathway, resulting in reduced collagen production and α-smooth muscle actin expression in the activated PSCs. Taken together, we propose Hic-5 as a potential marker of activated PSCs and a novel therapeutic target in CP treatment.
Cell cycle dependence of apoptosis photo-triggered using peptide-photosensitizer conjugate
Authors: Kim Hyungjin , Watanabe Sho , Kitamatsu Mizuki , Watanabe Kazunori , Ohtsuki Takashi
Published: November 2020

Investigation of the relevance between cell cycle status and the bioactivity of exogenously delivered biomacromolecules is hindered by their time-consuming cell internalization and the cytotoxicity of transfection methods. In this study, we addressed these problems by utilizing the photochemical internalization (PCI) method using a peptide/protein-photosensitizer conjugate, which enables immediate cytoplasmic internalization of the bioactive peptides/proteins in a light-dependent manner with low cytotoxicity. To identify the cell-cycle dependent apoptosis, a TatBim peptide-photosensitizer conjugate (TatBim-PS) with apoptotic activity was photo-dependently internalized into HeLa cells expressing a fluorescent ubiquitination-based cell cycle indicator (Fucci2). Upon irradiation, cytoplasmic TatBim-PS internalization exceeded 95% for all cells classified in the G1, S, and G2/M cell cycle phases with no significant differences between groups. TatBim-PS-mediated apoptosis was more efficiently triggered by photoirradiation in the G1/S transition than in the G1 and S/G2/M phases, suggesting high sensitivity of the former phase to Bim-induced apoptosis. Thus, the cell cycle dependence of Bim peptide-induced apoptosis was successfully investigated using Fucci2 indicator and the PCI method. Since PCI-mediated cytoplasmic internalization of peptides is rapid and does not span multiple cell cycle phases, the Fucci-PCI method constitutes a promising tool for analyzing the cell cycle dependence of peptides/protein functions.
A physical memristor based Muthuswamy–Chua–Ginoux system
Authors: Ginoux Jean-Marc , Muthuswamy Bharathwaj , Meucci Riccardo , Euzzor Stefano , Di Garbo Angelo , Ganesan Kaliyaperumal
Published: November 2020

In 1976, Leon Chua showed that a thermistor can be modeled as a memristive device. Starting from this statement we designed a circuit that has four circuit elements: a linear passive inductor, a linear passive capacitor, a nonlinear resistor and a thermistor, that is, a nonlinear “locally active” memristor. Thus, the purpose of this work was to use a physical memristor, the thermistor, in a Muthuswamy–Chua chaotic system (circuit) instead of memristor emulators. Such circuit has been modeled by a new three-dimensional autonomous dynamical system exhibiting very particular properties such as the transition from torus breakdown to chaos. Then, mathematical analysis and detailed numerical investigations have enabled to establish that such a transition corresponds to the so-called route to Shilnikov spiral chaos but gives rise to a “double spiral attractor”.
Butyrate induced Tregs are capable of migration from the GALT to the pancreas to restore immunological tolerance during type-1 diabetes
Authors: Jacob Neenu , Jaiswal Shivani , Maheshwari Deep , Nallabelli Nayudu , Khatri Neeraj , Bhatia Alka , Bal Amanjit , Malik Vivek , Verma Savita , Kumar Rakesh , Sachdeva Naresh
Published: November 2020

Type-1 diabetes (T1D) is an autoimmune disease caused by progressive loss of insulin-producing beta cells in the pancreas. Butyrate is a commensal microbial-derived metabolite, implicated in intestinal homeostasis and immune regulation. Here, we investigated the mechanism of diabetes remission in non-obese diabetic (NOD) mice following butyrate administration. Sodium butyrate (150 mM) was administered to female NOD mice in drinking water after the onset of hyperglycemia (15–25 weeks age) and at 4 weeks of age (early-intervention group). Butyrate administration reduced the progression of hyperglycemia in diabetic mice and delayed onset of diabetes in the early-intervention group with a reduction in insulitis. Butyrate administration increased regulatory T cells (Tregs) in the colon, mesenteric lymph nodes, Peyer’s patches, and its protective effects diminished upon depletion of Tregs. Further, an increase in α4β7, CCR9, and GPR15 expressing Tregs in the pancreatic lymph nodes (PLN) and pancreas in butyrate-treated mice suggested migration of gut-primed Tregs towards the pancreas. Finally, the adoptive transfer experiments demonstrated that induced Tregs from gut-associated lymphoid tissue can migrate towards the pancreas and PLN and delay the onset of diabetes. Our results thus suggest that early administration of butyrate can restore immunological tolerance during T1D via induction of Tregs with migratory capabilities.
Identification of early liver toxicity gene biomarkers using comparative supervised machine learning
Authors: Smith Brandi Patrice , Auvil Loretta Sue , Welge Michael , Bushell Colleen Bannon , Bhargava Rohit , Elango Navin , Johnson Kamin , Madak-Erdogan Zeynep
Published: November 2020

Screening agrochemicals and pharmaceuticals for potential liver toxicity is required for regulatory approval and is an expensive and time-consuming process. The identification and utilization of early exposure gene signatures and robust predictive models in regulatory toxicity testing has the potential to reduce time and costs substantially. In this study, comparative supervised machine learning approaches were applied to the rat liver TG-GATEs dataset to develop feature selection and predictive testing. We identified ten gene biomarkers using three different feature selection methods that predicted liver necrosis with high specificity and selectivity in an independent validation dataset from the Microarray Quality Control (MAQC)-II study. Nine of the ten genes that were selected with the supervised methods are involved in metabolism and detoxification (Car3, Crat, Cyp39a1, Dcd, Lbp, Scly, Slc23a1, and Tkfc) and transcriptional regulation (Ablim3). Several of these genes are also implicated in liver carcinogenesis, including Crat, Car3 and Slc23a1. Our biomarker gene signature provides high statistical accuracy and a manageable number of genes to study as indicators to potentially accelerate toxicity testing based on their ability to induce liver necrosis and, eventually, liver cancer.
Features of entropy optimization on MHD couple stress nanofluid slip flow with melting heat transfer and nonlinear thermal radiation
Authors: Mabood F. , Yusuf T. A. , Bognár Gabriella
Published: November 2020

Numerical analysis is performed for magnetohydrodynamics (MHD) couple stress nanofluid flow over a stretching sheet with melting and nonlinear radiation. The second law of thermodynamics is also incorporated with first-order slip. Nanofluid characteristics for thermophoresis and Brownian moments are encountered. The system that comprises differential equations of partial derivatives is remodeled into the system of differential equations via similarity transformations and then solved numerically through the Runge–Kutta–Fehlberg fourth-fifth (RKF-45) order technique. The physical parameters, which emerges from the derived system are discussed in graphical format. The significant outcomes of the current investigation are that the velocity field decays for a higher magnetic parameter. Another, important outcome of the study is both temperature and concentration are increasing functions of the first-order slip. Nusselt and Sherwood numbers are decreasing with an increase in magnetic strength. Further, Bejan number augment due to enhancement in the first-order slip and couple stress fluid parameters whereas a differing tendency is shown for magnetic and radiation parameters.
HDL cholesterol efflux capacity is inversely associated with subclinical cardiovascular risk markers in young adults: The cardiovascular risk in Young Finns study
Authors: Hunjadi Monika , Lamina Claudia , Kahler Patrick , Bernscherer Tamara , Viikari Jorma , Lehtimäki Terho , Kähönen Mika , Hurme Mikko , Juonala Markus , Taittonen Leena , Laitinen Tomi , Jokinen Eero , Tossavainen Päivi , Hutri-Kähönen Nina , Raitakari Olli , Ritsch Andreas
Published: November 2020

The atherogenic process begins already in childhood and progresses to symptomatic condition with age. We investigated the association of cholesterol efflux capacity (CEC) and vascular markers of subclinical atherosclerosis in healthy, young adults. CEC was determined in 2282 participants of the Young Finns study using cAMP treated 3H-cholesterol-labeled J774 cells. The CEC was correlated to baseline and 6-year follow-up data of cardiovascular risk factors and ultrasound measurements of arterial structure and function. CEC was higher in women, correlated with total cholesterol, HDL-C, and apolipoprotein A-I, but not with LDL-C or apolipoprotein B. Compared to the lowest CEC quartile, the highest CEC quartile was significantly associated with high CRP levels and inversely associated with adiponectin. At baseline, high CEC was associated with decreased flow-mediated dilation (FMD) and carotid artery distensibility, as well as an increased Young's modulus of elasticity, indicating adverse changes in arterial structure, and function. The association reversed with follow-up FMD data, indicating the interaction of preclinical parameters over time. A higher CEC was directly associated with a lower risk of subclinical atherosclerosis at follow-up. In young and healthy subjects, CEC was associated with important lipid risk parameters at baseline, as in older patients and CAD patients, but inversely with early risk markers for subclinical atherosclerosis.
Alcohol induces TGFβ1 via downregulation of miR-1946a in murine lung fibroblast
Authors: Fan Xian , Mills Stephen T. , Kaalla Mevelyn J. , Sueblinvong Viranuj
Published: November 2020

Exaggerated transforming growth factor-beta 1 (TGFβ1) expression worsens fibroproliferation following bleomycin-induced lung injury in alcohol-fed mice. MicroRNA (miR)-1946a is predicted to bind to the TGFβ1 3′ untranslated region (UTR), thereby inhibiting its transcription. We hypothesize that alcohol suppresses miR-1946a and induces TGFβ1. Primary murine lung fibroblasts (PLFs) were cultured ± alcohol, miR-1946a mimic or inhibitor, and TGFβ1 signaling inhibitors. miR-1946a was analyzed after alcohol treatment in vitro and in vivo. TGFβ1 expression and TGFβ1 3′UTR-luciferase activity was quantified. We showed that alcohol suppressed miR-1946a in the alcohol-fed mouse lungs and PLFs. MiR-1946a inhibitor increased TGFβ1 expression in the fibroblast. MiR-1946a mimic treatment suppressed TGFβ1 gene expression and TGFβ1 3′UTR activity. Overexpression of miR1946a inhibited alcohol-induced TGFβ1 gene and protein expression as well as alcohol-induced TGFβ1 and α-smooth muscle actin (SMA) protein expression in PLFs. In conclusion, miR-1946a modulates TGFβ1 expression through direct interaction with TGFβ1 3′UTR. These findings identify a novel mechanism by which alcohol induces TGFβ1 in the lung.
Characteristics, injuries, and clinical outcomes of geriatric trauma patients in Japan: an analysis of the nationwide trauma registry database
Authors: Miyoshi Yukari , Kondo Yutaka , Hirano Yohei , Ishihara Tadashi , Sueyoshi Koichiro , Okamoto Ken , Tanaka Hiroshi
Published: November 2020

Geriatric trauma is a major socio-economic problem, especially among the aging Japanese society. Geriatric people are more vulnerable to trauma than younger people; thus, their outcomes are often severe. This study evaluates the characteristics of geriatric trauma divided by age in the Japanese population. We evaluated trauma characteristics in patients (n = 131,088) aged ≥ 65 years by segregating them into 2 age-based cohorts: age 65–79 years (65–79 age group; n = 70,707) and age ≥ 80 years (≥ 80 age group; n = 60,381). Clinical characteristics such as patient background, injury mechanism, injury site and severity, treatment, and outcome were examined. Injuries among men were more frequent in the 65–79 age group (58.6%) than in the ≥ 80 age group (36.3%). Falls were the leading cause of trauma among the 65–79 age group (56.7%) and the ≥ 80 age group (78.9%). In-hospital mortality was 7.7% in the 65–79 age group and 6.6% in the ≥ 80 age group. High fall in the ≥ 80 age group showed 30.5% mortality. The overall in-hospital mortality was 11.8% (the 65–79 age group, 12.3%; the ≥ 80 age group, 11.2%). Most hospitalized patients were transferred to another hospital (the 65–79 age group, 52.5%; the ≥ 80 age group, 66.2%). We demonstrated the epidemiological characteristics of Japanese geriatric trauma patients. The overall in-hospital mortality was 11.8%, and fall injury in the ≥ 80 age group required caution of trauma care.
Reflection-mode virtual histology using photoacoustic remote sensing microscopy
Authors: Bell Kevan , Abbasi Saad , Dinakaran Deepak , Taher Muba , Bigras Gilbert , van Landeghem Frank K. H. , Mackey John R. , Haji Reza Parsin
Published: November 2020

Histological visualizations are critical to clinical disease management and are fundamental to biological understanding. However, current approaches that rely on bright-field microscopy require extensive tissue preparation prior to imaging. These processes are both labor intensive and contribute to creating significant delays in clinical feedback for treatment decisions that can extend to 2–3 weeks for standard paraffin-embedded tissue preparation and interpretation, especially if ancillary testing is needed. Here, we present the first comprehensive study on the broad application of a novel label-free reflection-mode imaging modality known as photoacoustic remote sensing (PARS) for visualizing salient subcellular structures from various common histopathological tissue preparations and for use in unprocessed freshly resected tissues. The PARS modality permits non-contact visualizations of intrinsic endogenous optical absorption contrast to be extracted from thick and opaque biological targets with optical resolution. The technique was examined both as a rapid assessment tool that is capable of managing large samples (> 1 cm2) in under 10 min, and as a high contrast imaging modality capable of extracting specific biological contrast to simulate conventional histological stains such as hematoxylin and eosin (H&E). The capabilities of the proposed method are demonstrated in a variety of human tissue preparations including formalin-fixed paraffin-embedded tissue blocks and unstained slides sectioned from these blocks, including normal and neoplastic human brain, and breast epithelium involved with breast cancer. Similarly, PARS images of human skin prepared by frozen section clearly demonstrated basal cell carcinoma and normal human skin tissue. Finally, we imaged unprocessed murine kidney and achieved histologically relevant subcellular morphology in fresh tissue. This represents a vital step towards an effective real-time clinical microscope that overcomes the limitations of standard histopathologic tissue preparations and enables real-time pathology assessment.
Dam and reservoir removal projects: a mix of social-ecological trends and cost-cutting attitudes
Authors: Habel Michal , Mechkin Karl , Podgorska Krescencja , Saunes Marius , Babiński Zygmunt , Chalov Sergey , Absalon Damian , Podgórski Zbigniew , Obolewski Krystian
Published: November 2020

The removal of dams and reservoirs may seem to be an unforeseen and sometimes controversial step in water management. The removal of barriers may be different for each country or region, as each differs greatly in terms of politics, economy and social and cultural awareness. This paper addresses the complex problem of removing dams on rivers and their connected reservoirs. We demonstrate the scales of the changes, including their major ecological, economic, and social impacts. Arguments and approaches to this problem vary across states and regions, depending on the political system, economy and culture, as confirmed by the qualitative and quantitative intensities of the dam removal process and its global geographical variation. The results indicate that the removal of dams on rivers and their connected reservoirs applies predominantly to smaller structures (< 2.5 m). The existing examples provide an important conclusion that dams and reservoirs should be considered with regard to the interrelations between people and the environment. Decisions to deconstruct hydraulic engineering structures (or, likewise, to construct them) have to be applied with scrutiny. Furthermore, all decision-making processes have to be consistent and unified and thus developed to improve the lack of strategies currently implemented across world.
Inequalities in lung cancer mortality trends in Brazil, 2000–2015
Authors: Fernandes Gisele Aparecida , Menezes Fabrício dos Santos , Silva Luiz Felipe , Antunes José Leopoldo Ferreira , Toporcov Tatiana Natasha
Published: November 2020

The present study was conducted to evaluate the socioeconomic inequality related to lung cancer mortality rates and trends between 2000 and 2015 according to gender in Brazil. We retrieved the death records for cases of lung cancer (ICD-10 C33 C34) from 2000 to 2015 in adults age 30 years and older in Brazilian Regions from official databases (DATASUS) and corrected for ill-defined causes. The Prais-Winsten regression method and Pearson correlation were applied. The results were considered statistically significant when p < 0.05. The correlation between the lung cancer mortality rates and the HDI decreased when the rates for the first and last years of the historical series were compared in men (r = 0.77; r = 0.58) and women (r = 0.64; r = 0.41). However, the correlation between the trends in the lung cancer mortality rates and the HDI was negative in men (r = − 0.76) and women (r = − 0.58), indicating larger reductions (or smaller additions) among the Federative Units with the highest HDI, in contrast to trends reflecting a greater increase in those with the lowest HDI. Our results suggest a relevant inequality in the trends of mortality from lung cancer in Brazil.
Identification and analysis of miRNAs in IR56 rice in response to BPH infestations of different virulence levels
Authors: Nanda Satyabrata , Yuan San-Yue , Lai Feng-Xia , Wang Wei-Xia , Fu Qiang , Wan Pin-Jun
Published: November 2020

Rice production and sustainability are challenged by its most dreadful pest, the brown planthopper (Nilaparvata lugensStål, BPH). Therefore, the studies on rice-BPH interactions and their underlying mechanisms are of high interest. The rice ontogenetic defense, such as the role of microRNAs (miRNAs) has mostly been investigated against the pathogens, with only a few reports existing against the insect infestations. Thus, revealing the involvement of rice miRNAs in response to BPH infestations will be beneficial in understanding these complex interactions. In this study, the small RNA profiling of the IR56 rice in response to separate BPH infestations of varied virulence levels identified the BPH-responsive miRNAs and revealed the differential transcript abundance of several miRNAs during a compatible and incompatible rice-BPH interaction. The miRNA sequence analysis identified 218 known and 28 novel miRNAs distributed in 54 miRNA families. Additionally, 138 and 140 numbers of differentially expressed (DE) miRNAs were identified during the compatible and incompatible interaction, respectively. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analysis revealed the target gene candidates of DE miRNAs (including osa-miR2871a-3p, osa-miR172a, osa-miR166a-5p, osa-miR2120, and osa-miR1859) that might be involved in the IR56 rice defense responses against BPH infestation. Conversely, osa-miR530-5p, osa-miR812s, osa-miR2118g, osa-miR156l-5p, osa-miR435 and two of the novel miRNAs, including novel_16 and novel_52 might negatively modulate the IR56 rice defense. The expressional validation of the selected miRNAs and their targets further supported the IR56 rice defense regulatory network. Based on our results, we have proposed a conceptual model depicting the miRNA defense regulatory network in the IR56 rice against BPH infestation. The findings from the study add further insights into the molecular mechanisms of rice-BPH interactions and will be helpful for the future researches.
Identification and characterization of satellite DNAs in two-toed sloths of the genus Choloepus (Megalonychidae, Xenarthra)
Authors: Sena Radarane Santos , Heringer Pedro , Valeri Mirela Pelizaro , Pereira Valéria Socorro , Kuhn Gustavo C. S. , Svartman Marta
Published: November 2020

Choloepus, the only extant genus of the Megalonychidae family, is composed of two living species of two-toed sloths: Choloepus didactylus and C. hoffmanni. In this work, we identified and characterized the main satellite DNAs (satDNAs) in the sequenced genomes of these two species. SATCHO1, the most abundant satDNA in both species, is composed of 117 bp tandem repeat sequences. The second most abundant satDNA, SATCHO2, is composed of ~ 2292 bp tandem repeats. Fluorescence in situ hybridization in C. hoffmanni revealed that both satDNAs are located in the centromeric regions of all chromosomes, except the X. In fact, these satDNAs present some centromeric characteristics in their sequences, such as dyad symmetries predicted to form secondary structures. PCR experiments indicated the presence of SATCHO1 sequences in two other Xenarthra species: the tree-toed sloth Bradypus variegatus and the anteater Myrmecophaga tridactyla. Nevertheless, SATCHO1 is present as large tandem arrays only in Choloepus species, thus likely representing a satDNA exclusively in this genus. Our results reveal interesting features of the satDNA landscape in Choloepus species with the potential to aid future phylogenetic studies in Xenarthra and mammalian genomes in general.
Clustering of Alzheimer’s and Parkinson’s disease based on genetic burden of shared molecular mechanisms
Authors: Emon Mohammad Asif , Heinson Ashley , Wu Ping , Domingo-Fernández Daniel , Sood Meemansa , Vrooman Henri , Corvol Jean-Christophe , Scordis Phil , Hofmann-Apitius Martin , Fröhlich Holger
Published: November 2020

One of the visions of precision medicine has been to re-define disease taxonomies based on molecular characteristics rather than on phenotypic evidence. However, achieving this goal is highly challenging, specifically in neurology. Our contribution is a machine-learning based joint molecular subtyping of Alzheimer’s (AD) and Parkinson’s Disease (PD), based on the genetic burden of 15 molecular mechanisms comprising 27 proteins (e.g. APOE) that have been described in both diseases. We demonstrate that our joint AD/PD clustering using a combination of sparse autoencoders and sparse non-negative matrix factorization is reproducible and can be associated with significant differences of AD and PD patient subgroups on a clinical, pathophysiological and molecular level. Hence, clusters are disease-associated. To our knowledge this work is the first demonstration of a mechanism based stratification in the field of neurodegenerative diseases. Overall, we thus see this work as an important step towards a molecular mechanism-based taxonomy of neurological disorders, which could help in developing better targeted therapies in the future by going beyond classical phenotype based disease definitions.
Methyljasmonate and salicylic acid contribute to the control of Tilletia controversa Kühn, causal agent of wheat dwarf bunt
Authors: Muhae-Ud-Din Ghulam , Chen Delai , Liu Taiguo , Chen Wanquan , Gao Li
Published: November 2020

Tilletia controversa Kühn (TCK) is the causal agent of dwarf bunt of wheat, a destructive disease in wheat-growing regions of the world. The role of Meja, SA and Meja + SA were characterized for their control of TCK into roots, coleoptiles and anthers. The response of the defence genes PR-10a, Catalase, COI1-1, COII-2 and HRin1 was upregulated by Meja, SA and Meja + SA treatments, but Meja induced high level of expression compared to SA and Meja + SA at 1, 2, and 3 weeks in roots and coleoptiles, respectively. The severity of TCK effects in roots was greater at 1 week, but it decreased at 2 weeks in all treatments. We also investigated TCK hyphae proliferation into coleoptiles at 3 weeks and into anthers to determine whether hyphae move from the roots to the upper parts of the plants. The results showed that no hyphae were present in the coleoptiles and anthers of Meja-, SA- and Meja + SA-treated plants, while the hyphae were located on epidermal and sub-epidermal cells of anthers. In addition, the severity of hyphae increased with the passage of time as anthers matured. Bunted seeds were observed in the non-treated inoculated plants, while no disease symptoms were observed in the resistance of inducer treatments and control plants. Plant height was reduced after TCK infection compared to that of the treated inoculated and non-inoculated treatments. Together, these results suggested that Meja and SA display a distinct role in activation of defence genes in the roots and coleoptiles and that they eliminate the fungal pathogen movement to upper parts of the plants with the passage of time as the anthers mature.
Hydrochar did not reduce rice paddy NH3 volatilization compared to pyrochar in a soil column experiment
Authors: Liu Xiaoyu , Cheng Yueqin , Liu Yang , Chen Danyan , Chen Yin , Wang Yueman
Published: November 2020

Pyrochar (PC) is always with high pH value, and improper application might increase rice paddy ammonia volatilization (PAV), which is the main nitrogen loss through air during rice production. Differently, hydrochar (HC) takes the advantages of high productive rate and always with lower pH value compared with PC. However, effect pattern and mechanism of HC on PAV are still unclear. In the present study, soil column experiments were conducted to investigate the effect of PC and HC application on PAV. In total, treatments with four types of biochar (WPC, SPC, WHC and SHC, i.e., PC and HC prepared with wheat straw and sawdust, respectively) and two application rates (0.5% and 1.5%, w/w) were set up and non-biochar application was used as control. Results showed that, application of HC with low pH value could not reduce PAV compared with PC. Total PAV increased significantly as the increase of HC application rate (especially for WHC). The increment of PAV under high rate HC application might be due to the strong buffer capacity of soil, the aging of biochar, the high nitrogen from HC. The results indicated that HC should be pretreatment before utilization in agricultural environment considering PAV reduction.
Accuracy of hand localization is subject-specific and improved without performance feedback
Authors: Wang Tianhe , Zhu Ziyan , Kana Inoue , Yu Yuanzheng , He Hao , Wei Kunlin
Published: November 2020

Accumulating evidence indicates that the spatial error of human's hand localization appears subject-specific. However, whether the idiosyncratic pattern persists across time with good within-subject consistency has not been adequately examined. Here we measured the hand localization map by a Visual-matching task in multiple sessions over 2 days. Interestingly, we found that participants improved their hand localization accuracy when tested repetitively without performance feedback. Importantly, despite the reduction of average error, the spatial pattern of hand localization errors remained idiosyncratic. Based on individuals' hand localization performance, a standard convolutional neural network classifier could identify participants with good accuracy. Moreover, we did not find supporting evidence that participants' baseline hand localization performance could predict their motor performance in a visual Trajectory-matching task even though both tasks require accurate mapping of hand position to visual targets in the same workspace. Using a separate experiment, we not only replicated these findings but also ruled out the possibility that performance feedback during a few familiarization trials caused the observed improvement in hand localization. We conclude that the conventional hand localization test itself, even without feedback, can improve hand localization but leave the idiosyncrasy of hand localization map unchanged.
Plasma activated water triggers plant defence responses
Authors: Zambon Yuri , Contaldo Nicoletta , Laurita Romolo , Várallyay Eva , Canel Alessandro , Gherardi Matteo , Colombo Vittorio , Bertaccini Assunta
Published: November 2020

Nowadays, one of the main challenges is moving towards an eco-sustainable agriculture, able to preserve the food production through a reduced use of pesticides. Current global food sustenance by intensive agriculture is mainly based on economic crop monocultures and drastically reduces the biodiversity, increasing the yield losses due to the presence of biotic and abiotic stresses. A technology based on plasma activated water (PAW), characterized by the presence in liquid of reactive oxygen and nitrogen species, was tested to try to ensure yield stability also enhancing the plant resistance responses and to promote an eco-sustainable management of plant diseases. In PAW-treated micropropagated periwinkle shoots, periwinkle and grapevine plants, qRT-PCR and small RNAs high-throughput sequencing were used to analyse the differential expression of genes involved in the major plant defence pathways. The results indicate that PAW treatment enhances the plant defence responses and provide an encouraging framework for future applications in plant disease management programs.
A new understanding and evaluation of food sustainability in six different food systems in Kenya and Bolivia
Authors: Jacobi Johanna , Mukhovi Stellah , Llanque Aymara , Giger Markus , Bessa Adriana , Golay Christophe , Ifejika Speranza Chinwe , Mwangi Veronica , Augstburger Horacio , Buergi-Bonanomi Elisabeth , Haller Tobias , Kiteme Boniface P. , Delgado Burgoa José M. F. , Tribaldos Theresa , Rist Stephan
Published: November 2020

Food systems must become more sustainable and equitable, a transformation which requires the transdisciplinary co-production of knowledge. We present a framework of food sustainability that was co-created by academic and non-academic actors and comprises five dimensions: food security, right to food, environmental performance, poverty and inequality, and social-ecological resilience. For each dimension, an interdisciplinary research team—together with actors from different food systems—defined key indicators and empirically applied them to six case studies in Kenya and Bolivia. Food sustainability scores were analysed for the food systems as a whole, for the five dimensions, and for food system activities. We then identified the indicators with the greatest influence on sustainability scores. While all food systems displayed strengths and weaknesses, local and agroecological food systems scored comparatively highly across all dimensions. Agro-industrial food systems scored lowest in environmental performance and food security, while their resilience scores were medium to high. The lowest-scoring dimensions were right to food, poverty and inequality, with particularly low scores obtained for the indicators women’s access to land and credit, agrobiodiversity, local food traditions, social protection, and remedies for violations of the right to food. This qualifies them as key levers for policy interventions towards food sustainability.
Orexin system is expressed in avian liver and regulates hepatic lipogenesis via ERK1/2 activation
Authors: Greene E. S. , Zampiga M. , Sirri F. , Ohkubo T. , Dridi Sami
Published: November 2020

Orexins are originally characterized as orexigenic hypothalamic neuropeptides in mammals. Subsequent studies found orexin to be expressed and perform pleiotropic functions in multiple tissues in mammals. In avian (non-mammalian) species, however, orexin seemed to not affect feeding behavior and its physiological roles are poorly understood. Here, we provide evidence that orexin and its related receptors are expressed in chicken hepatocytes. Double immunofluorescence staining showed that orexin is localized in the ER, Golgi, and in the lysosomes in LMH cells. Brefeldin A treatment reduced orexin levels in the culture media, but increased it in the cell lysates. Administration of recombinant orexins upregulated the expression of orexin system in the liver of 9-day old chicks, but did not affect feed intake. Recombinant orexins increased fatty acid synthase (FASN) protein levels in chicken liver, activated acetyl-CoA carboxylase (ACCα), and increased FASN, ATP citrate lyase(ACLY), and malic enzyme (ME) protein expression in LMH cells. Blockade ERK1/2 activation by PD98059 attenuated these stimulating effects of orexin on lipogenic factors. Overexpression of ERK1/2 increased the expression of lipogenic genes, and orexin treatment induced the phosphorylated levels of ERK1/2Thr202/Tyr204, but not that of p38 Thr180/Tyr182 or JNK1/2 Thr183/Tyr185 in chicken liver and LMH cells. Taken together, this is the first report evidencing that orexin is expressed and secreted from chicken hepatocytes, and that orexin induced hepatic lipogenesis via activation of ERK1/2 signaling pathway.
Transformation of industrial wastewater into copper–nickel nanowire composites: straightforward recycling of heavy metals to obtain products of high added value
Authors: Wasiak Tomasz , Hannula Pyry-Mikko , Lundström Mari , Janas Dawid
Published: November 2020

Large amounts of industrial metal containing process and waste solutions are a growing issue. In this work, we demonstrated that they could be transformed into materials of high added values such as copper-nickel nanowires (CuNi NWs) by simple chemical reduction. A thorough investigation of the parameter space was conducted. The microstructure of the obtained material was found tunable depending on the employed concentration of precursor, reducing agent, capping agent, pH, temperature, and reaction time. Moreover, the obtained product had a strong magnetic character, which enabled us to separate it from the reaction medium with ease. The results open new perspectives for materials science by proposing a new type of nanostructure: composite NWs of very promising properties, with metallic elements originating directly from industrial process solution.
Author Correction: Artocarpus altilis extracts as a food-borne pathogen and oxidation inhibitors: RSM, COSMO RS, and molecular docking approaches
Authors: Ahmad Mohammad Norazmi , Karim Nazatul Umira , Normaya Erna , Piah Bijarimi Mat , Iqbal Anwar , Bulat Ku Halim Ku
Published: November 2020

An amendment to this paper has been published and can be accessed via a link at the top of the paper.
The Vanadate–Pyrazinecarboxylic Acid–Hydrogen Peroxide Reagent and Similar Systems for Efficient Oxidations with Peroxides
Authors: Shul'pin Georgiy B. , Shul'pina Lidia S.
Published: November 2020

A simple vanadate anion VO3− does not catalyse various oxidations with hydrogen peroxide via the generation of hydroxyl radicals. The addition of pyrazinecarboxylic acid (PCA) dramatically accelerates the oxidation reactions (Shul'pin et al., 1993) via the H2O2 decomposition as confirmed by DFT calculations: the activation barrier of the HO˙ formation in the presence of PCA is by 9.6 kcal mol−1 lower than that in the absence of PCA. In contrast to the oxidation of methane in acetonitrile by the reagent hydrogen peroxide–vanadate anion–pyrazine-2-carboxylic acid (PCA), carrying out the process in an aqueous solution is accompanied by intensive parallel destruction of the co-catalyst (PCA). Therefore, relatively high yields of methane oxidation products (mainly formic acid) can only be achieved at a sufficiently high concentration of PCA. Additives of strong acids (sulphuric, trifluoroacetic and perchloric) increase the yield of products. It has been found that perchloric acid can also be used as a co-catalyst instead of PCA. Some strong inorganic and organic acids added to the aqueous solution noticeably increase the yield of formic acid as the main product of methane oxygenation.
Vanadium-scorpionate Catalysed Oxidations
Authors: Martins L. M. D. R. S. , Pombeiro A. J. L.
Published: November 2020

Vanadium-scorpionate catalysed oxidation reactions of industrially significant organic compounds, namely hydrocarbons, are addressed in this chapter. They concern the oxidations of alkanes and p-xylene, and the carboxylation of alkanes. Some of the catalytic systems are homogeneous, whereas others involve vanadium scorpionates immobilised on solid supports. Unconventional oxidation conditions of sustainable significance, including the use of microwave irradiation, are overviewed with recently achieved developments.