bluuebunny/crossref_metadata_2025 huggingface dataset:
Land Use/Land Cover (LULC) Using Landsat Data Series (MSS, TM, ETM+ and OLI) in Azrou Forest, in the Central Middle Atlas of Morocco
Authors: Mohajane Meriame , Essahlaoui Ali , Oudija Fatiha , Hafyani Mohammed El , Hmaidi Abdellah El , Ouali Abdelhadi El , Randazzo Giovanni , Teodoro Ana C.
Published: December 2018

The study of land use/land cover (LULC) has become an increasingly important stage in the development of forest ecosystems strategies. Hence, the main goal of this study was to describe the vegetation change of Azrou Forest in the Middle Atlas, Morocco, between 1987 and 2017. To achieve this, a set of Landsat images, including one Multispectral Scanner (MSS) scene from 1987; one Enhanced Thematic Mapper Plus (ETM+) scene from 2000; two Thematic Mapper (TM) scenes from 1995 and 2011; and one Landsat 8 Operational Land Imager (OLI) scene from 2017; were acquired and processed. Ground-based survey data and the normalized difference vegetation index (NDVI) were used to identify and to improve the discrimination between LULC categories. Then, the maximum likelihood (ML) classification method was applied was applied, in order to produce land cover maps for each year. Three classes were considered by the classification of NDVI value: low-density vegetation; moderate-density vegetation, and high-density vegetation. Our study achieved classification accuracies of 66.8% (1987), 99.9% (1995), 99.8% (2000), 99.9% (2011), and 99.9% (2017). The results from the Landsat-based image analysis show that the area of low-density vegetation was decreased from 27.4% to 2.1% over the past 30 years. While, in 2017, the class of high-density vegetation was increased to 64.6% of the total area of study area. The results of this study show that the total forest cover remained stable. The present study highlights the importance of the image classification algorithms combined with NDVI index for better understanding the changes that have occurred in this forest. Therefore, the findings of this study could assist planners and decision-makers to guide, in a good manner, the sustainable land development of areas with similar backgrounds.
Population Genomic Analysis of North American Eastern Wolves (Canis lycaon) Supports Their Conservation Priority Status
Authors: Heppenheimer Elizabeth , Harrigan Ryan J. , Rutledge Linda Y. , Koepfli Klaus-Peter , DeCandia Alexandra L. , Brzeski Kristin E. , Benson John F. , Wheeldon Tyler , Patterson Brent R. , Kays Roland , Hohenlohe Paul A. , Von Holdt Bridgett M.
Published: December 2018

The threatened eastern wolf is found predominantly in protected areas of central Ontario and has an evolutionary history obscured by interbreeding with coyotes and gray wolves, which challenges its conservation status and subsequent management. Here, we used a population genomics approach to uncover spatial patterns of variation in 281 canids in central Ontario and the Great Lakes region. This represents the first genome-wide single nucleotide polymorphism (SNP) dataset with substantial sample sizes of representative populations. Although they comprise their own genetic cluster, we found evidence of eastern wolf dispersal outside of the boundaries of protected areas, in that the frequency of eastern wolf genetic variation decreases with increasing distance from provincial parks. We detected eastern wolf alleles in admixed coyotes along the northeastern regions of Lake Huron and Lake Ontario. Our analyses confirm the unique genomic composition of eastern wolves, which are mostly restricted to small fragmented patches of protected habitat in central Ontario. We hope this work will encourage an innovative discussion regarding a plan for managed introgression, which could conserve eastern wolf genetic material in any genome regardless of their potential mosaic ancestry composition and the habitats that promote them.
Towards a Central Role of ISL1 in the Bladder Exstrophy–Epispadias Complex (BEEC): Computational Characterization of Genetic Variants and Structural Modelling
Authors: Sharma Amit , Dakal Tikam , Ludwig Michael , Fröhlich Holger , Mathur Riya , Reutter Heiko
Published: December 2018

Genetic factors play a critical role in the development of human diseases. Recently, several molecular genetic studies have provided multiple lines of evidence for a critical role of genetic factors in the expression of human bladder exstrophy-epispadias complex (BEEC). At this point, ISL1 (ISL LIM homeobox 1) has emerged as the major susceptibility gene for classic bladder exstrophy (CBE), in a multifactorial disease model. Here, GWAS (Genome wide association studies) discovery and replication studies, as well as the re-sequencing of ISL1, identified sequence variants (rs9291768, rs6874700, c.137C > G (p.Ala46Gly)) associated with CBE. Here, we aimed to determine the molecular and functional consequences of these sequence variants and estimate the dependence of ISL1 protein on other predicted candidates. We used: (i) computational analysis of conserved sequence motifs to perform an evolutionary conservation analysis, based on a Bayesian algorithm, and (ii) computational 3D structural modeling. Furthermore, we looked into long non-coding RNAs (lncRNAs) residing within the ISL1 region, aiming to predict their targets. Our analysis suggests that the ISL1 protein specific N-terminal LIM domain (which harbors the variant c.137C > G), limits its transcriptional ability, and might interfere with ISL1-estrogen receptor α interactions. In conclusion, our analysis provides further useful insights about the ISL1 gene, which is involved in the formation of the BEEC, and in the development of the urinary bladder.
A Multispectral Bayesian Classification Method for Increased Acoustic Discrimination of Seabed Sediments Using Multi-Frequency Multibeam Backscatter Data
Authors: Gaida Timo C. , Tengku Ali Tengku Afrizal , Snellen Mirjam , Amiri-Simkooei Alireza , Van Dijk Thaiënne A. G. P. , Simons Dick G.
Published: December 2018

Multi-frequency backscatter data collected from multibeam echosounders (MBESs) is increasingly becoming available. The ability to collect data at multiple frequencies at the same time is expected to allow for better discrimination between seabed sediments. We propose an extension of the Bayesian method for seabed classification to multi-frequency backscatter. By combining the information retrieved at single frequencies we produce a multispectral acoustic classification map, which allows us to distinguish more seabed environments. In this study we use three triple-frequency (100, 200, and 400 kHz) backscatter datasets acquired with an R2Sonic 2026 in the Bedford Basin, Canada in 2016 and 2017 and in the Patricia Bay, Canada in 2016. The results are threefold: (1) combining 100 and 400 kHz, in general, reveals the most additional information about the seabed; (2) the use of multiple frequencies allows for a better acoustic discrimination of seabed sediments than single-frequency data; and (3) the optimal frequency selection for acoustic sediment classification depends on the local seabed. However, a quantification of the benefit using multiple frequencies cannot clearly be determined based on the existing ground-truth data. Still, a qualitative comparison and a geological interpretation indicate an improved discrimination between different seabed environments using multi-frequency backscatter.
Developing Behaviour Change Interventions for Improving Access to Health and Hygiene for People with Disabilities: Two Case Studies from Nepal and Malawi
Authors: Wilbur Jane , Bright Tess , Mahon Thérèse , Hameed Shaffa , Torondel Belen , Mulwafu Wakisa , Kuper Hannah , Polack Sarah
Published: December 2018

Limited evidence exists about how to design interventions to improve access to health care for people with disabilities in low and middle-income countries (LMICs). This paper documents the development of two behaviour change interventions. Case study one outlines the design of an intervention to improve uptake of referral for ear and hearing services for children in Malawi. Case study two describes the design of an intervention to improve menstrual hygiene management for people with intellectual impairments in Nepal. Both followed existing approaches—Medical Research Council Guidance for developing and evaluating complex interventions and Behaviour Centred Design. The purpose is to demonstrate how these frameworks can be applied, to document the interventions developed, and encourage further initiatives to advance health services targeting people with disabilities. Important components of the intervention design process were: (1) systematic reviews and formative research ensure that interventions designed are relevant to current discourse, practice and context; (2) people with disabilities and their family/carers must be at the heart of the process; (3) applying the theory of change approach and testing it helps understand links between inputs and required behaviour change, as well as ensuring that the interventions are relevant to local contexts; (4) involving creative experts may lead to the development of more engaging and appealing interventions. Further evidence is needed on the effectiveness of these types of interventions for people with disabilities to ensure that no one is left behind.
Reducing Surface Wetting Proportion of Soils Irrigated by Subsurface Drip Irrigation Can Mitigate Soil N2O Emission
Authors: Wei Qi , Xu Junzeng , Li Yawei , Liao Linxian , Liu Boyi , Jin Guangqiu , Hameed Fazli
Published: December 2018

To reveal the impact of soil moisture distributions on nitrous oxide (N2O) emissions from wet soils irrigated by sub-surface drip irrigation (SDI) with different surface soil wetting proportions, pot experiments were conducted, with surface irrigation (SI) as a control. Results indicated that irrigation triggered N2O pulsing effect in all SDI treatments, yet N2O values reduced with the decrease of surface soil wetting proportions of SDI irrigated soils, and the occurrence times were lagged. The peak N2O fluxes and the corresponding soil water filled pore space (WFPS), as well as the coefficients of determination (R2) of the exponential function between N2O fluxes and soil WFPS, decreased with the reduction of surface soil wetting proportions with SDI treatment, and from the central sub-region to the periphery sub-region. The pulse period contributed most to the reduction of N2O emissions in SDI compared to SI treatments and should be a key period for N2O emission mitigation. Over the whole experimental period, the area-weighted average cumulative N2O fluxes from SDI treatments were 82.3–157.3 mg N2O m−2 lower than those from SI treatment, with periphery sub-regions of R3 and R4 (radius of 19–27 cm and 28–36 cm from the emitter horizontally) contributing to more than 75.8% of the total N2O emission mitigation. These results suggest that reducing surface soil wetting proportions or the increments of topsoil WFPS for SDI irrigated soils is a promising strategy for N2O emission reduction.
The Effect of Providing Free Eyeglasses on Children’s Mental Health Outcomes in China: A Cluster-Randomized Controlled Trial
Authors: Guan Hongyu , Wang Huan , Du Kang , Zhao Jin , Boswell Matthew , Shi Yaojiang , Qian Yiwei
Published: December 2018

If children with common vision problems receive and use eyeglasses, their educational performance rises. Without proper treatment, visually impaired children may not achieve educational gains and could suffer from poor mental health. We use a randomized controlled trial to study the impact of an eyeglasses promotion program in rural China on the mental health of myopic primary school students. Three measures of mental health are used: learning anxiety, physical anxiety, and scores on the Mental Health Test (MHT). Our empirical analysis showed that on average, the treatment has small and insignificant for learning anxiety and MHT, and a small but significant reduction in physical anxiety. However, subgroup analysis reveals that myopic students who study more intensively see their learning anxiety and physical anxiety reduced after being provided with eyeglasses. In contrast, students with the lower study intensity suffer a rise in learning anxiety after receiving eyeglasses. A potential mechanism for the differing impacts is the increase in teasing reported among low study-intensity students that does not occur for high study-intensity students. Care should be taken to maximize the benefits and minimize the costs of in-school vision programs.
Class-Level School Performance and Life Satisfaction: Differential Sensitivity for Low- and High-Performing School-Aged Children
Authors: Rathmann Katharina , Herke Max , Bilz Ludwig , Rimpelä Arja , Hurrelmann Klaus , Richter Matthias
Published: December 2018

This study investigates whether class-level school performance affects students’ life satisfaction and if there are differential effects for high- and low-performing students. Data were derived from the National Educational Panel Study, including n = 5196 students (49.6% girls), nested in 478 classes and 250 secondary schools. School performance in class was measured by aggregating individual grade point average in Mathematics and German. The study could not reveal the “big-fish-little-pond”-effect regarding students’ life satisfaction but found differential effects for high- vs. low performing students. There was no significant association for low-performing students attending classes with higher class-level performance However, low-performing students revealed the lowest life satisfaction. High-performing students placed in classes with higher average performance reported lower life satisfaction compared to high-performing students in classes with lower average performance. This study provides evidence for the impact of the learning environment in class on school-aged children’s life satisfaction, by highlighting the differential sensitivity of high-performing students when placed in classes with higher or lower average performance.
Occurrence and Ecological and Human Health Risk Assessment of Polycyclic Aromatic Hydrocarbons in Soils from Wuhan, Central China
Authors: Gereslassie Tekleweini , Workineh Ababo , Liu Xiaoning , Yan Xue , Wang Jun
Published: December 2018

Polycyclic aromatic hydrocarbons are large groups of ubiquitous environmental pollutants composed of two or more fused aromatic rings. This study was designed to evaluate the distribution, potential sources, and ecological and cancer risks of eleven polycyclic aromatic hydrocarbons from Huangpi soils in Wuhan, central China. The soil samples for this study were taken from 0–10 cm and 10–20 cm soil depths. A modified matrix solid-phase dispersion extraction method was applied to extract analytes from the soil samples. A gas chromatograph equipped with a flame ionization detector was used to determine the concentrations of the compounds. The sum mean concentrations of the polycyclic aromatic hydrocarbons were 138.93 and 154.99 µg kg−1 in the 0–10 cm and 10–20 cm soil depths, respectively. Benzo[a]pyrene and fluorene were the most abundant compounds in the 0–10 cm and 10–20 cm soil depths, respectively. The quantitative values of the pyrogenic index, total index, and diagnostic ratio used in this study showed that the polycyclic aromatic hydrocarbons have a pyrogenic origin. The negligible and maximum permissible concentrations values for naphthalene, acenaphthylene, acenaphthene, phenanthrene, anthracene, pyrene, benz[a]anthracene, and benzo[a]pyrene indicated a moderate ecological risk. The incremental lifetime cancer risk values for adults and children showed a low and moderate cancer risk, respectively.
Distribution, Sources, and Water Quality Assessment of Dissolved Heavy Metals in the Jiulongjiang River Water, Southeast China
Authors: Liang Bin , Han Guilin , Liu Man , Yang Kunhua , Li Xiaoqiang , Liu Jinke
Published: December 2018

In this study, the concentration of eight dissolved heavy metals (Ti, Cr, Mn, Fe, Ni, Mo, Sb, and Ba) in 42 water samples from the Jiulongjiang River, southeast China, were determined by inductively coupled plasma mass spectrometry (ICP-MS). Multivariate statistical methods, including correlation analysis (CA) and factor and principal component analysis (FA/PCA), were analyzed to identify the sources of the elements. Water quality index (WQI) and health risk assessment, including hazard quotient (HQ) and hazard index (HI), were used to evaluate water quality and the impacts on human health. Our results were compared with the drinking water guidelines reported by China, the World Health Organization (WHO), and the United States Environmental Protection Agency (US EPA), revealing that Ti, Mn, and Sb were not within approved limits at some sites and might be the main pollutants in the drainage basin. Based on the spatial distributions, Ti, Mn, Fe, Ni, and Mo showed good similarity, indicating that they might come from similar sources along the river. The CA results also showed that Ti, Mn, Fe, Ni, and Mo had a high correlation coefficient. The FA/PCA results identified three principal components (PC) that accounted for 79.46% of the total variance. PC 1 suggested that a mixed lithogenic and urban land source contributed to Ti, Mn, Fe, Ni, and Mo; PC 2 showed that Cr, Ni, and Mo were influenced by the discharge of industrial effluents; Sb had a strong loading on PC 3, which was controlled by mining activities. The results of the WQI indicated that the water in the Jiulongjiang River was basically categorized as excellent water, but the water quality levels in site W5 and N4 were poorer due to urban land use. Hazard quotient and HI values showed that Sb was a potential threat to human health, indicating that preventive actions should be considered in regard to mining activities in the upper reaches of Beixi stream.
Humin as an External Electron Mediator for Microbial Pentachlorophenol Dechlorination: Exploration of Redox Active Structures Influenced by Isolation Methods
Authors: Pham Duyen Minh , Katayama Arata
Published: December 2018

Humin (HM) has been reported to function as an external electron mediator (EEM) in various microbial reducing reactions. In this study, the effect of isolation methods on EEM functionality and the chemical/electrochemical structures of HM were examined based on the correlation between dechlorination rates in the anaerobic HM-dependent pentachlorophenol (PCP)-dechlorinating consortium and the chemical/electrochemical structures of HM. A lack of PCP dechlorination activity suggested no EEM function in the HM samples prepared as a soluble fraction in dimethyl sulfoxide and sulfuric acid (which did not contain any electric capacitance). Other HM samples exhibited EEM functionality as shown by the dechlorination activity ranging from 0.55 to 3.48 (µmol Cl−) L−1d−1. The comparison of dechlorination activity with chemical structural characteristics suggested that HM with EEM functionalities had predominantly aliphatic and carbohydrate carbons with the partial structures C=O, O=C–N, and O=C–O. EEM functionality positively correlated with the proportion of O=C–N and O=C–O, suggesting an association between peptidoglycan structure and EEM functionality. The lack of detection of a quinone structure in one HM sample with EEM functionality and a negative correlation with aromatic or C=C carbon suggested that the mechanism containing quinone structures is a minor component for the functionality of EEM.
Reduced Lean Body Mass and Cardiometabolic Diseases in Adult Males with Overweight and Obesity: A Pilot Study
Authors: Khazem Shirine , Itani Leila , Kreidieh Dima , El Masri Dana , Tannir Hana , Citarella Roberto , El Ghoch Marwan
Published: December 2018

Little is known about the reduction in lean body mass (LBM) and its health consequences in overweight and in obesity, especially in males. Therefore, we aimed to assess the prevalence of low LBM in treatment-seeking adult males with overweight and obesity and the association with cardiometabolic diseases, i.e., type 2 diabetes, cardiovascular diseases and dyslipidemia. A body composition assessment was conducted by a bio-impedance analyzer (InBody 170) among a total of 110 males, of whom 72 were overweight and obese and were referred to the Outpatient Clinic in the Department of Nutrition and Dietetics at Beirut Arab University (BAU) in Lebanon, and 38 were normal-weight participants of similar ages. The participants with overweight and obesity were then categorized as being with or without low LBM. Of the sample of 72 participants, 50 (69.4%) met the criteria for reduced LBM and displayed a significantly higher prevalence of cardiometabolic diseases (i.e., type 2 diabetes, cardiovascular diseases and dyslipidemia) than those with normal LBM (36.0% vs. 9.1%; p = 0.019). Logistic regression analysis showed that low LBM increases the odds of having cardiometabolic diseases by nearly 550% (odds ratio (OR) = 5.46, 95% confidence interval (CI) = 1.31–26.39, p < 0.05) after adjusting for total fat and central adiposity. Treatment-seeking adult males with overweight and obesity displayed a great prevalence of reduced LBM, which seems to be strongly associated with cardiovascular and metabolic diseases.
Genome-Wide Identification and Analysis of U-Box E3 Ubiquitin-Protein Ligase Gene Family in Banana
Authors: Hu Huigang , Dong Chen , Sun Dequan , Hu Yulin , Xie Jianghui
Published: December 2018

The U-box gene family is a family of genes which encode U-box domain-containing proteins. However, little is known about U-box genes in banana (Musa acuminata). In this study, 91 U-box genes were identified in banana based on its genome sequence. The banana U-box genes were distributed across all 12 chromosomes at different densities. Phylogenetic analysis of U-box genes from banana, Arabidopsis, and rice suggested that they can be clustered into seven subgroups (I–VII), and most U-box genes had a closer relationship between banana and rice relative to Arabidopsis. Typical U-box domains were found in all identified MaU-box genes through the analysis of conserved motifs. Four conserved domains were found in major banana U-box proteins. The MaU-box gene family had the highest expression in the roots at the initial fruit developmental stage. The MaU-box genes exhibited stronger response to drought than to salt and low temperatures. To the best of our knowledge, this report is the first to perform genome-wide identification and analysis of the U-box gene family in banana, and the results should provide valuable information for better understanding of the function of U-box in banana.
The Aryl Hydrocarbon Receptor and the Maintenance of Lung Health
Authors: Guerrina Necola , Traboulsi Hussein , Eidelman David H. , Baglole Carolyn J.
Published: December 2018

Much of what is known about the Aryl Hydrocarbon Receptor (AhR) centers on its ability to mediate the deleterious effects of the environmental toxicant 2,3,7,8-tetrachlorodibenzo-p-dioxin (TCDD; dioxin). However, the AhR is both ubiquitously-expressed and evolutionarily-conserved, suggesting that it evolved for purposes beyond strictly mediating responses to man-made environmental toxicants. There is growing evidence that the AhR is required for the maintenance of health, as it is implicated in physiological processes such as xenobiotic metabolism, organ development and immunity. Dysregulation of AhR expression and activity is also associated with a variety of disease states, particularly those at barrier organs such as the skin, gut and lungs. The lungs are particularly vulnerable to inhaled toxicants such as cigarette smoke. However, the role of the AhR in diseases such as chronic obstructive pulmonary disease (COPD)—a respiratory illness caused predominately by cigarette smoking—and lung cancer remains largely unexplored. This review will discuss the growing body of literature that provides evidence that the AhR protects the lungs against the damaging effects of cigarette smoke.
2′-Fluoro-Pyrimidine-Modified RNA Aptamers Specific for Lipopolysaccharide Binding Protein (LBP)
Authors: Aldag Jasmin , Persson Tina , Hartmann Roland K.
Published: December 2018

Lipopolysaccaride binding protein (LBP), a glycosylated acute phase protein, plays an important role in the pathophysiology of sepsis. LBP binds with high affinity to the lipid part of bacterial lipopolysaccaride (LPS). Inhibition of the LPS-LBP interaction or blockage of LBP-mediated transfer of LPS monomers to CD14 may be therapeutical strategies to prevent septic shock. LBP is also of interest as a biomarker to identify septic patients at high risk for death, as LBP levels are elevated during early stages of severe sepsis. As a first step toward such potential applications, we isolated aptamers specific for murine LBP (mLBP) by in vitro selection from a library containing a 60-nucleotide randomized region. Modified RNA pools were transcribed in the presence of 2′-fluoro-modified pyrimidine nucleotides to stabilize transcripts against nuclease degradation. As verified for one aptamer experimentally, the selected aptamers adopt a “three-helix junction” architecture, presenting single-stranded 7-nt (5′-YGCTTCY) or 6-nt (5′-RTTTCY) consensus sequences in their core. The best binder (aptamer A011; Kd of 270 nM for binding to mLBP), characterized in more detail by structure probing and boundary analysis, was demonstrated to bind with high specificity to murine LBP.
Advancement of NF-κB Signaling Pathway: A Novel Target in Pancreatic Cancer
Authors: Pramanik Kartick C. , Makena Monish Ram , Bhowmick Kuntal , Pandey Manoj K.
Published: December 2018

Pancreatic ductal adenocarcinoma (PDAC) is one of the deadliest cancers and is the third highest among cancer related deaths. Despite modest success with therapy such as gemcitabine, pancreatic cancer incidence remains virtually unchanged in the past 25 years. Among the several driver mutations for PDAC, Kras mutation contributes a central role for its development, progression and therapeutic resistance. In addition, inflammation is implicated in the development of most human cancer, including pancreatic cancer. Nuclear factor kappa-light-chain-enhancer of activated B cells (NF-κB) is recognized as a key mediator of inflammation and has been frequently observed to be upregulated in PDAC. Several lines of evidence suggest that NF-κB pathways play a crucial role in PDAC development, progression and resistance. In this review, we focused on emphasizing the recent advancements in the involvement of NF-κB in PADC’s progression and resistance. We also highlighted the interaction of NF-κB with other signaling pathways. Lastly, we also aim to discuss how NF-κB could be an excellent target for PDAC prevention or therapy. This review could provide insight into the development of novel therapeutic strategies by considering NF-κB as a target to prevent or treat PDAC.
Modulation of Chemokine- and Adhesion-Molecule Gene Expression and Recruitment of Neutrophil Granulocytes in Rat and Mouse Liver after a Single Gadolinium Chloride or Zymosan Treatment
Authors: Ahmad Shakil , Ramadori Giuliano , Moriconi Federico
Published: December 2018

Kupffer cells are professional phagocytes of the liver clearing bacteria from portal blood. Their clearance capacity, however, can be overwhelmed, transforming them into critical mediators of hepatic-injury. We investigated the consequences of selective Kupffer cell-overload by intraperitoneally administering pyrogen-free gadolinium chloride (GdCl3) or Zymosan into rats and into endotoxin-resistant mice (C3H/HeJ). The number of myeloperoxidase-positive (MPO+) cells increased at 3 h mainly around the portal vessel after both GdCl3 and Zymosan treatment. Simultaneously, GdCl3 administration reduced detectability of ED-1+ (but not ED-2) cells near the portal vessel. Serum chemokine (C-X-C motif) ligand 1 (CXCL-1), CXCL-2 and chemokine (C-C motif) ligand 2 (CCL-2) showed a peak at 3 h after both treatment regimens although at a higher extent after Zymosan administration. Accordingly, CXCL-1, CXCL-5 and CCL-2 gene expression in the liver was up-regulated after GdCl3 treatment at 3 h. After Zymosan administration a significant up-regulation of CXCL-1, CXCL-2, CXCL-10, CCL-2, CCL-3 and CCL-20 gene expression in liver at 3 h was observed. After Zymosan administration intracellular adhesion molecule 1 (ICAM-1) and vascular cell adhesion molecule 1 (VCAM-1) gene expression was up-regulated in rat liver tissue. In C3H/HeJ mice both treatment regimens up-regulated CCL-2 and ICAM-1 gene expression after 3 h and down-regulated platelet endothelial cell adhesion molecule 1 (PECAM-1) gene expression. In conclusion, phagocytosis overload of Kupffer cells causes induction of several CXC, CC-chemokines, upregulation of “positive” adhesion molecule gene expression, down-regulation of the “negative” adhesion molecule PECAM-1 and a recruitment of neutrophil granulocytes in the portal area of the liver of treated rats and mice mainly in close contact to the liver macrophages.
Distinct Patterns of PPARγ Promoter Usage, Lipid Degradation Activity, and Gene Expression in Subcutaneous Adipose Tissue of Lean and Obese Swine
Authors: Song Bin , Di Shengwei , Cui Shiquan , Chen Na , Wang Huan , Wang Xuan , Gao Qian , Tong Guizhi , Wang Hongbao , Huang Xuankai , Ding Liyan , Gao Ying , Liu Jun , Wang Xibiao
Published: December 2018

Subcutaneous adipose tissue is a loose connective tissue specializing in the regulation of energy storage and metabolization. In domesticated pigs (Sus scrofa), the temporal development of subcutaneous adipose tissue is critical for meat production. However, the regulation of adipose tissue development remains unclear. Here, the subcutaneous adipose tissue development was characterized and compared in lean (Danish-Landrace) and obese (Min) pigs at juvenile and the juvenile-to-adult growth stages. Using RNA sequencing, we profiled the transcriptome of subcutaneous adipose tissue isolated from 4- and 16-week-old pigs and identified 24,718 expressed transcription units. Of them, 6327 genes were differentially expressed between the breeds and/or developmental stages. Compared with obese pigs, upregulated genes in lean pigs showed significant function and pathway enrichment in fatty acid degradation and mitochondrial functions. Further analysis uncovered the distinct usage preferences of the three alternative peroxisome proliferator-activated receptor γ (PPARγ) promoters associated with the development of subcutaneous adipose tissue in both breeds. Transcriptome analysis of subcutaneous adipose tissue in lean and obese pigs suggested that marker-assisted selection of fatty acid degradation and PPARγ signaling pathways could be important directions for future pork quality improvement and modern breeding.
Construction of Electrochemical Immunosensor Based on Gold-Nanoparticles/Carbon Nanotubes/Chitosan for Sensitive Determination of T-2 Toxin in Feed and Swine Meat
Authors: Wang Yanxin , Zhang Liyun , Peng Dapeng , Xie Shuyu , Chen Dongmei , Pan Yuanhu , Tao Yanfei , Yuan Zonghui
Published: December 2018

T-2 toxin (T-2) is one of major concern mycotoxins acknowledged as an unavoidable contaminant in human foods, animal feeds and also agriculture products. Thus, a facile and sensitive method is essential for accurate T-2 toxin detection. In our work, a specific electrochemical immunosensor based on gold nanoparticles/carboxylic group-functionalized single-walled carbon nanotubes/chitosan (AuNPs/cSWNTs/CS) composite was established. The mechanism of the electrochemical immunosensor was an indirect competitive binding to a given amount of anti-T-2 between free T-2 and T-2-bovine serum albumin, which was conjugated on covalently functionalized cSWNTs decorated on the glass carbon electrode. Afterwards, the alkaline phosphatase labeled anti-mouse secondary antibody was bound to the electrode surface by reacting with the primary antibody. Lastly, alkaline phosphatase catalyzed the hydrolysis of the substrate α-naphthyl phosphate, which produced an electrochemical signal. Compared with conventional methods, the established immunosensor was more sensitive and simpler. Under optimal conditions, this method could quantitatively detect T-2 from 0.01 to 100 μg·L−1 with a detection limit of 0.13 μg·L−1 and favorable recovery 91.42–102.49%. Moreover, the immunosensor was successfully applied to assay T-2 in feed and swine meat, which showed good correlation with the results obtained from liquid chromatography-tandem mass spectrometry (LC-MS/MS).
Comparative Proteomic Analysis Reveals Elevated Capacity for Photosynthesis in Polyphenol Oxidase Expression-Silenced Clematis terniflora DC. Leaves
Authors: Chen Xi , Yang Bingxian , Huang Wei , Wang Tantan , Li Yaohan , Zhong Zhuoheng , Yang Lin , Li Shouxin , Tian Jingkui
Published: December 2018

Polyphenol oxidase (PPO) catalyzes the o-hydroxylation of monophenols and oxidation of o-diphenols to quinones. Although the effects of PPO on plant physiology were recently proposed, little has been done to explore the inherent molecular mechanisms. To explore the in vivo physiological functions of PPO, a model with decreased PPO expression and enzymatic activity was constructed on Clematis terniflora DC. using virus-induced gene silencing (VIGS) technology. Proteomics was performed to identify the differentially expressed proteins (DEPs) in the model (VC) and empty vector-carrying plants (VV) untreated or exposed to high levels of UV-B and dark (HUV-B+D). Following integration, it was concluded that the DEPs mainly functioned in photosynthesis, glycolysis, and redox in the PPO silence plants. Mapman analysis showed that the DEPs were mainly involved in light reaction and Calvin cycle in photosynthesis. Further analysis illustrated that the expression level of adenosine triphosphate (ATP) synthase, the content of chlorophyll, and the photosynthesis rate were increased in VC plants compared to VV plants pre- and post HUV-B+D. These results indicate that the silence of PPO elevated the plant photosynthesis by activating the glycolysis process, regulating Calvin cycle and providing ATP for energy metabolism. This study provides a prospective approach for increasing crop yield in agricultural production.
An Overview on the Anticancer Activity of Azadirachta indica (Neem) in Gynecological Cancers
Authors: Moga Marius Alexandru , Bălan Andreea , Anastasiu Costin Vlad , Dimienescu Oana Gabriela , Neculoiu Carmen Daniela , Gavriș Claudia
Published: December 2018

In recent years, a wide range of studies have pointed out the importance of nutraceuticals as reservoirs of therapeutic compounds for several diseases, including cancer. This study is centered on the role of some nutraceuticals as anticancer agents and on their efficiency in the oncological gynecological field. Gynecological cancers include cervical, ovarian, and breast neoplasia and these are the major causes of morbidity and mortality in the female population. Cervical neoplasia affects sexually active women aged between 30 and 40 years and is considered the second leading cause of death for women worldwide. Epidemiological studies have shown a strong association of this cancer with human papilloma virus (HPV) infection, independent of any others risk factors. Ovarian cancer represents about 4% of all women’s cancers and breast neoplasia registers 52.8 new cases per 100,000 women annually. Since ancient times, herbal therapies have shown a wide range of beneficial effects and a high potential for safeguarding human health. Azadirachta indica (Neem) is a medicinal plant of Indian origin, a tree with more of 140 isolated compounds and at least 35 biologically active principles that have shown an important influence as tumor suppressors by interfering with the carcinogenesis process. Used for centuries in Asia as a natural remedy for cancer, neem compounds present in bark, leaves, flowers, and seed oil have been shown to possess properties such as chemopreventive capacity, apoptotic activities, immunomodulatory effects, and induction of p53-independent apoptosis. The current study is a systematic literature review based on the anticarcinogenic potential of neem compounds in gynecological cancers.
Coarse-Grained Protein Dynamics Studies Using Elastic Network Models
Authors: Togashi Yuichi , Flechsig Holger
Published: December 2018

Elastic networks have been used as simple models of proteins to study their slow structural dynamics. They consist of point-like particles connected by linear Hookean springs and hence are convenient for linear normal mode analysis around a given reference structure. Furthermore, dynamic simulations using these models can provide new insights. As the computational cost associated with these models is considerably lower compared to that of all-atom models, they are also convenient for comparative studies between multiple protein structures. In this review, we introduce examples of coarse-grained molecular dynamics studies using elastic network models and their derivatives, focusing on the nonlinear phenomena, and discuss their applicability to large-scale macromolecular assemblies.
Chloroplasts at the Crossroad of Photosynthesis, Pathogen Infection and Plant Defense
Authors: Lu Yan , Yao Jian
Published: December 2018

Photosynthesis, pathogen infection, and plant defense are three important biological processes that have been investigated separately for decades. Photosynthesis generates ATP, NADPH, and carbohydrates. These resources are utilized for the synthesis of many important compounds, such as primary metabolites, defense-related hormones abscisic acid, ethylene, jasmonic acid, and salicylic acid, and antimicrobial compounds. In plants and algae, photosynthesis and key steps in the synthesis of defense-related hormones occur in chloroplasts. In addition, chloroplasts are major generators of reactive oxygen species and nitric oxide, and a site for calcium signaling. These signaling molecules are essential to plant defense as well. All plants grown naturally are attacked by pathogens. Bacterial pathogens enter host tissues through natural openings or wounds. Upon invasion, bacterial pathogens utilize a combination of different virulence factors to suppress host defense and promote pathogenicity. On the other hand, plants have developed elaborate defense mechanisms to protect themselves from pathogen infections. This review summarizes recent discoveries on defensive roles of signaling molecules made by plants (primarily in their chloroplasts), counteracting roles of chloroplast-targeted effectors and phytotoxins elicited by bacterial pathogens, and how all these molecules crosstalk and regulate photosynthesis, pathogen infection, and plant defense, using chloroplasts as a major battlefield.
High Throughput Identification of Novel Conotoxins from the Vermivorous Oak Cone Snail (Conus quercinus) by Transcriptome Sequencing
Authors: Gao Bingmiao , Peng Chao , Zhu Yabing , Sun Yuhui , Zhao Tian , Huang Yu , Shi Qiong
Published: December 2018

The primary objective of this study was to realize the large-scale discovery of conotoxin sequences from different organs (including the venom duct, venom bulb and salivary gland) of the vermivorous Oak cone snail, Conus quercinus. Using high-throughput transcriptome sequencing, we identified 133 putative conotoxins that belong to 34 known superfamilies, of which nine were previously reported while the remaining 124 were novel conotoxins, with 17 in new and unassigned conotoxin groups. A-, O1-, M-, and I2- superfamilies were the most abundant, and the cysteine frameworks XIII and VIII were observed for the first time in the A- and I2-superfamilies. The transcriptome data from the venom duct, venom bulb and salivary gland showed considerable inter-organizational variations. Each organ had many exclusive conotoxins, and only seven of all the inferred mature peptides were common in the three organs. As expected, most of the identified conotoxins were synthesized in the venom duct at relatively high levels; however, a number of conotoxins were also identified in the venom bulb and the salivary gland with very low transcription levels. Therefore, various organs have different conotoxins with high diversity, suggesting greater contributions from several organs to the high-throughput discovery of new conotoxins for future drug development.
First Record of an Invasive Fruit Fly Belonging to Bactrocera dorsalis Complex (Diptera: Tephritidae) in Europe
Authors: Nugnes Francesco , Russo Elia , Viggiani Gennaro , Bernardo Umberto
Published: December 2018

Emerging pests are increasingly threatening fruit orchard health across the Mediterranean area. Tephritidae, representing serious threats for Europe, are numerous, and the fruit flies Bactrocera zonata and those belonging to Bactrocera dorsalis complex are among the most alarming species. These species are highly polyphagous and B. zonata has already spread to some Mediterranean countries. Due to these ongoing threats, in the Campania Region (southern Italy), a survey with traps and infested fruits analysis was performed with the aim of detecting the presence of species of Bactrocera dorsalis complex. In two mixed fruit-trees fields, some adults belonging to a species of Bactrocera were captured in traps baited with the highly attractive male lure (methyl eugenol). They were distinguished from similar-looking Bactrocera spp. by morphological and molecular comparative analyses. Considering the existing morphological keys, specimens were tentatively identified as B. dorsalis but molecular characterization with COI split them into two clades. Some specimens were grouped with B. dorsalis similar to B. kandiensis and B. kandiensis and others in a clade including B. dorsalis and B. invadens (syn. B. dorsalis). ITS1 sequences instead confirmed morphological identification. The integrative approach allowed identifying all the specimens collected as belonging to the B. dorsalis complex. This finding represents the first field interception in Europe of a member of one of the most dangerous groups of fruit flies.
Synopsis of Cis Latreille (Coleoptera: Ciidae) from southern Africa
Authors: Souza-Gonçalves Igor , Orsetti Artur , Lopes-Andrade Cristiano
Published: December 2018

A synopsis of the Cis Latreille, 1796 from southern Africa is provided, with the description of 10 new species: Cis bicaesariatus sp. n., Cis foveocephalus sp. n., Cis grobbelaarae sp. n., Cis lacinipennis sp. n., Cis makrosoma sp. n., Cis mpumalangaensis sp. n., Cis parvisetosus sp. n., Cis tessariplacus sp. n., Cis umlalaziensis sp. n. and Cis westerncapensis sp. n. The introduced species Cis fuscipes Mellié, 1849 is recorded for the first time from the Republic of South Africa. New geographic records are provided for the following species: Cis neserorum Souza-Gonçalves & Lopes-Andrade, 2017; Cis regius Orsetti & Lopes-Andrade, 2016 and Cis stalsi Souza-Gonçalves & Lopes-Andrade, 2017. Most southern African Cis are placed in available or newly proposed species-groups and a provisional identification key is provided.
Differential Gene Expression in Red Imported Fire Ant (Solenopsis invicta) (Hymenoptera: Formicidae) Larval and Pupal Stages
Authors: Allen Margaret L. , Rhoades Joshua H. , Sparks Michael E. , Grodowitz Michael J.
Published: December 2018

Solenopsis invicta Buren is an invasive ant species that has been introduced to multiple continents. One such area, the southern United States, has a history of multiple control projects using chemical pesticides over varying ranges, often resulting in non-target effects across trophic levels. With the advent of next generation sequencing and RNAi technology, novel investigations and new control methods are possible. A robust genome-guided transcriptome assembly was used to investigate gene expression differences between S. invicta larvae and pupae. These life stages differ in many physiological processes; of special importance is the vital role of S. invicta larvae as the colonies’ “communal gut”. Differentially expressed transcripts were identified related to many important physiological processes, including digestion, development, cell regulation and hormone signaling. This dataset provides essential developmental knowledge that reveals the dramatic changes in gene expression associated with social insect life stage roles, and can be leveraged using RNAi to develop effective control methods.
Low-Stress Mechanical Property Study of Various Functional Fabrics for Tactile Property Evaluation
Authors: Tadesse Melkie Getnet , Nagy Ladislav , Nierstrasz Vincent , Loghin Carmen , Chen Yan , Wang Lichuan
Published: December 2018

Functional finishing brings an alteration on the mechanical and surface properties of textile materials and henceforth influences the tactile properties. In this work, Kawabata evaluation systems (KES) for fabrics were utilized to notice the changes in the tactile properties of fabrics resulting from different finishing types such as inkjet printing, screen printing, and coating. The effects of functional finishing on the fabric’s tactile property were inconsistent with reference to the course of decrease or increase being dependent on the types of finishes. The findings showed that KES can be employed as a promising tool to sort out the suitable functional finishing types in terms of tactile properties. Amongst the implemented finishing types, inkjet printing offered superior tactile properties with respect to tensile energy (softness), shear rigidity, compressional softness, bending stiffness (drapability), and surface properties. The KES results confirmed that low-stress mechanical properties are strongly associated with the tactile property and might assist as a quality profile data source for guaranteeing the production and development of a virtuous quality product. The result encourages further utilization of the KES for functional fabric tactile property evaluation.
Action of Antimicrobial Peptides against Bacterial Biofilms
Authors: Yasir Muhammad , Willcox Mark Duncan Perry , Dutta Debarun
Published: December 2018

Microbes are known to colonize surfaces and form biofilms. These biofilms are communities of microbes encased in a self-produced matrix that often contains polysaccharides, DNA and proteins. Antimicrobial peptides (AMPs) have been used to control the formation and to eradicate mature biofilms. Naturally occurring or synthetic antimicrobial peptides have been shown to prevent microbial colonization of surfaces, to kill bacteria in biofilms and to disrupt the biofilm structure. This review systemically analyzed published data since 1970 to summarize the possible anti-biofilm mechanisms of AMPs. One hundred and sixty-two published reports were initially selected for this review following searches using the criteria ‘antimicrobial peptide’ OR ‘peptide’ AND ‘mechanism of action’ AND ‘biofilm’ OR ‘antibiofilm’ in the databases PubMed; Scopus; Web of Science; MEDLINE; and Cochrane Library. Studies that investigated anti-biofilm activities without describing the possible mechanisms were removed from the analysis. A total of 17 original reports were included which have articulated the mechanism of antimicrobial action of AMPs against biofilms. The major anti-biofilm mechanisms of antimicrobial peptides are: (1) disruption or degradation of the membrane potential of biofilm embedded cells; (2) interruption of bacterial cell signaling systems; (3) degradation of the polysaccharide and biofilm matrix; (4) inhibition of the alarmone system to avoid the bacterial stringent response; (5) downregulation of genes responsible for biofilm formation and transportation of binding proteins.