bluuebunny/crossref_metadata_2025_split huggingface dataset:
Evaluation of KIMS immunoassays on a cobas c 501 analyzer for drugs of abuse and ethyl glucuronide testing in urine for forensic abstinence control
Authors: Neukamm Merja A. , Bahrami Arsham , Auwärter Volker , Mehne Felix M.P. , Höss Eva 
Published: December 2016

For the medico‐psychological assessment (MPA) during driving licence re‐granting in Germany, abstinence control including urine samples is required. In these programmes, even small amounts of markers for drug or alcohol abuse have to be detected. Thus, the concentrations of the target compounds are very low, and, in consequence, the sensitivity of the applied screening method has to be much higher than for clinical use. Modified drugs of abuse and ethyl glucuronide immunoassays on a Roche cobas c 501 analyzer were evaluated for precision, accuracy, onboard calibration stability, cross reactivity, sensitivity, and specificity using authentic urine samples. Precision (intra‐day and inter‐day relative standard deviation (RSD) and accuracy (bias) at three concentrations were 12% or lower for all parameters. The calibrations remained stable (deviations <25%) for at least 28 days for all assays except amphetamines (21 days). Satisfactory cross reactivity was determined for the relevant analytes and also for several new psychoactive substances (NPS). The sensitivity was 100% for all parameters except methadone metabolite EDDP (92%) and fully met the sensitivity criteria for MPA urine testing. The presented kinetic interaction of microparticles in a solution (KIMS) immunoassays on a cobas c 501 thus provide a new method to reliably detect drug or alcohol consumption in abstinence control programmes requiring high sensitivity. Copyright © 2016 John Wiley & Sons, Ltd.
Increased pollinator habitat enhances cacao fruit set and predator conservation
Authors: Forbes Samantha J. , Northfield Tobin D. 
Published: December 2016

AbstractThe unique benefits of wild pollinators to the productivity of agricultural crops have become increasingly recognized in recent decades. However, declines in populations of wild pollinator species, largely driven by the conversion of natural habitat to agricultural land and broad‐spectrum pesticide use often lead reductions in the provision of pollination services and crop production. With growing evidence that targeted pollinator conservation improves crop yield and/or quality, particularly for pollination specialist crops, efforts are increasing to substitute agriculturally intensive practices with those that alleviate some of the negative impacts of agriculture on pollinators and the pollination services they provide, in part through the provision of suitable pollinator habitat. Further, similarities between the responses of some pollinators and predators to habitat management suggest that efforts to conserve pollinators may also encourage predator densities. We evaluated the effects of one habitat management practice, the addition of cacao fruit husks to a monoculture cacao farm, on the provision of pollination services and the densities of two groups of entomophagous predators. We also evaluated the impacts of cacao fruit husk addition on pollen limitation, by crossing this habitat manipulation with pollen supplementation treatments. The addition of cacao fruit husks increased the number of fruits per tree and along with hand pollination treatments, increased final yields indicating a promotion of the pollination ecosystem service provided by the specialist pollinators, midges. We also found that cacao fruit husk addition increased the densities of two predator groups, spiders and skinks. Further, the conservation of these predators did not inhibit pollination through pollinator capture or deterrence. The findings show that, with moderate habitat management, both pollinator and predator conservation can be compatible goals within a highly specialized plant–pollinator system. The effectiveness of this habitat manipulation may be attributable to the increased availability of alternative habitat and food resources for both pollinators and predators. The results exemplify a win‐win relationship between agricultural production and biological conservation, whereby agricultural practices to support vital pollinators and pollination services can increase production as well as support species conservation.
Antimicrobial activity of Fe‐loaded chitosan nanoparticles
Authors: Qian Junqing , Pan Cunli , Liang Changhai 
Published: December 2016

To increase the antimicrobial activities of chitosan, chitosan nanoparticles loaded with Fe2+ or Fe3+ were prepared by surfactant‐assisted chitosan chelating Fe2+, Fe3+ and ionic gelation chitosan. Their chelating rates were determined by spectrophotometry. The particle sizes and zeta potentials of chitosan nanoparticles loaded with Fe2+ or Fe3+ were measured by size and zeta potential analysis. The nanoparticles antimicrobial activities were evaluated by different concentration against Escherichia coli, Staphylococcus aureus, Candida albicans in vitro. Results showed that the mean diameter of chitosan nanoparticles loaded with Fe2+ or Fe3+ were 206.4 and 195.2 nm, respectively. Their zeta potentials were +28.82 and +28.26 mV, respectively. The chelating rate of chitosan nanoparticles loaded with Fe2+ was greatly higher than with Fe3+. Their antimicrobial activity was showed greatly higher at lower concentrations compared to chitosan, and the antibacterial effect of chitosan nanoparticles loaded with Fe2+ or Fe3+ was preliminary observed.
Acute sensitivity of the vernal pool fairy shrimp, Branchinecta lynchi (Anostraca; Branchinectidae), and surrogate species to 10 chemicals
Authors: Ivey Chris D. , Besser John M. , Ingersoll Chris G. , Wang Ning , Rogers D. Christopher , Raimondo Sandy , Bauer Candice R. , Hammer Edward J. 
Published: December 2016

Abstract

Vernal pool fairy shrimp, Branchinecta lynchi, (Branchiopoda; Anostraca) and other fairy shrimp species have been listed as threatened or endangered under the US Endangered Species Act. Because few data exist about the sensitivity of Branchinecta spp. to toxic effects of contaminants, it is difficult to determine whether they are adequately protected by water quality criteria. A series of acute (24-h) lethality/immobilization tests was conducted with 3 species of fairy shrimp (B. lynchi, Branchinecta lindahli, and Thamnocephalus platyurus) and 10 chemicals with varying modes of toxic action: ammonia, potassium, chloride, sulfate, chromium(VI), copper, nickel, zinc, alachlor, and metolachlor. The same chemicals were tested in 48-h tests with other branchiopods (the cladocerans Daphnia magna and Ceriodaphnia dubia) and an amphipod (Hyalella azteca), and in 96-h tests with snails (Physa gyrina and Lymnaea stagnalis). Median effect concentrations (EC50s) for B. lynchi were strongly correlated (r2 = 0.975) with EC50s for the commercially available fairy shrimp species T. platyurus for most chemicals tested. Comparison of EC50s for fairy shrimp and EC50s for invertebrate taxa tested concurrently and with other published toxicity data indicated that fairy shrimp were relatively sensitive to potassium and several trace metals compared with other invertebrate taxa, although cladocerans, amphipods, and mussels had similar broad toxicant sensitivity. Interspecies correlation estimation models for predicting toxicity to fairy shrimp from surrogate species indicated that models with cladocerans and freshwater mussels as surrogates produced the best predictions of the sensitivity of fairy shrimp to contaminants. The results of these studies indicate that fairy shrimp are relatively sensitive to a range of toxicants, but Endangered Species Act-listed fairy shrimp of the genus Branchinecta were not consistently more sensitive than other fairy shrimp taxa. Environ Toxicol Chem 2017;36:797–806. Published 2016 Wiley Periodicals Inc. on behalf of SETAC. This article is a US government work and, as such, is in the public domain in the United States of America.
Mixture toxicity of phostebupirim and cyfluthrin: Species-specific responses
Authors: de Perre Chloe , Murphy Tracye M. , Lydy Michael J. 
Published: December 2016

Abstract

Currently, the potential impact of insecticide mixtures to nontarget organisms is largely unknown, and additional study is needed. The present study investigated the mixture toxicity of the organophosphate insecticide phostebupirim and the pyrethroid insecticide cyfluthrin using 4 nontarget species including Daphnia magna, Hyalella azteca, Pimephales promelas (fathead minnow), and Danio rerio (zebrafish). For each species, the toxicity of equipotent mixtures was compared with the expected toxicity estimated using the independent action (IA) and concentration addition (CA) models. Lethal and sublethal responses to D. magna and H. azteca were best described with the IA model. For both fish species, mixture toxicity was significantly higher than that estimated using either mixture model. The synergism noted in fish exposed to the combination of phostebupirim and cyfluthrin was confirmed by exposing P. promelas larvae to a nontoxic dose of phostebupirim and a range of toxic cyfluthrin concentrations, and vice versa. Sublethal and lethal concentrations to fish were up to 7 times lower for the mixture than in concurrently run individual compound exposures. Potential mechanisms for the synergistic responses found in fish are presented. Environ Toxicol Chem 2017;36:1947–1954. © 2016 SETAC
Societal stability and environmental change: Examining the archaeology‐soil erosion paradox
Authors: Brown Antony G. , Walsh Kevin 
Published: December 2016

AbstractThis paper critically examines the soil exhaustion and societal collapse hypothesis both theoretically and empirically. The persistence of civilizations, especially in the Mediterranean, despite intensive and presumably erosive arable farming creates what is described here as the archaeology soil erosion paradox. This paper examines the data used to estimate past erosion and weathering rates before presenting case studies that engage with the theoretical arguments. Study 1 shows 5000 years of high slope erosion rates with both soil use and agriculture continuously maintained in the catchment. Study 2 shows how ancient agricultural terraces were constructed as part of an integrated agricultural system that fed the ancient city of Stymphalos—now abandoned. Study 3 presents a recent example of how after the removal of terraces high soil erosion rates result during intense rainstorms but that arable agriculture can still be maintained while external costs are borne by other parties. What these case studies have in common is the creation of soil, and increased weathering rates while productivity is maintained due to a combination of soft bedrock and/or agricultural terraces. In societal terms this may not be sustainable but it does not necessarily lead to land abandonment or societal collapse.
Impact of genotyping errors on statistical power of association tests in genomic analyses: A case study
Authors: Hou Lin , Sun Ning , Mane Shrikant , Sayward Fred , Rajeevan Nallakkandi , Cheung Kei‐Hoi , Cho Kelly , Pyarajan Saiju , Aslan Mihaela , Miller Perry , Harvey Philip D. , Gaziano J. Michael , Concato John , Zhao Hongyu 
Published: December 2016

ABSTRACTA key step in genomic studies is to assess high throughput measurements across millions of markers for each participant's DNA, either using microarrays or sequencing techniques. Accurate genotype calling is essential for downstream statistical analysis of genotype‐phenotype associations, and next generation sequencing (NGS) has recently become a more common approach in genomic studies. How the accuracy of variant calling in NGS‐based studies affects downstream association analysis has not, however, been studied using empirical data in which both microarrays and NGS were available. In this article, we investigate the impact of variant calling errors on the statistical power to identify associations between single nucleotides and disease, and on associations between multiple rare variants and disease. Both differential and nondifferential genotyping errors are considered. Our results show that the power of burden tests for rare variants is strongly influenced by the specificity in variant calling, but is rather robust with regard to sensitivity. By using the variant calling accuracies estimated from a substudy of a Cooperative Studies Program project conducted by the Department of Veterans Affairs, we show that the power of association tests is mostly retained with commonly adopted variant calling pipelines. An R package, GWAS.PC, is provided to accommodate power analysis that takes account of genotyping errors (http://zhaocenter.org/software/).
Integration of gene expression and methylation to unravel biological networks in glioblastoma patients
Authors: Gadaleta Francesco , Bessonov Kyrylo , Van Steen Kristel 
Published: December 2016

ABSTRACTThe vast amount of heterogeneous omics data, encompassing a broad range of biomolecular information, requires novel methods of analysis, including those that integrate the available levels of information. In this work, we describe Regression2Net, a computational approach that is able to integrate gene expression and genomic or methylation data in two steps. First, penalized regressions are used to build Expression‐Expression (EEnet) and Expression‐Genomic or Expression‐Methylation (EMnet) networks. Second, network theory is used to highlight important communities of genes. When applying our approach, Regression2Net to gene expression and methylation profiles for individuals with glioblastoma multiforme, we identified, respectively, 284 and 447 potentially interesting genes in relation to glioblastoma pathology. These genes showed at least one connection in the integrated networks ANDnet and XORnet derived from aforementioned EEnet and EMnet networks. Although the edges in ANDnet occur in both EEnet and EMnet, the edges in XORnet occur in EMnet but not in EEnet. In‐depth biological analysis of connected genes in ANDnet and XORnet revealed genes that are related to energy metabolism, cell cycle control (AATF), immune system response, and several cancer types. Importantly, we observed significant overrepresentation of cancer‐related pathways including glioma, especially in the XORnet network, suggesting a nonignorable role of methylation in glioblastoma multiforma. In the ANDnet, we furthermore identified potential glioma suppressor genes ACCN3 and ACCN4 linked to the NBPF1 neuroblastoma breakpoint family, as well as numerous ABC transporter genes (ABCA1, ABCB1) suggesting drug resistance of glioblastoma tumors.
Quantification of peatland water storage capacity using the water table fluctuation method
Authors: Bourgault Marc‐André , Larocque Marie , Garneau Michelle 
Published: December 2016

AbstractPeat specific yield (SY) is an important parameter involved in many peatland hydrological functions such as flood attenuation, baseflow contribution to rivers, and maintaining groundwater levels in surficial aquifers. However, general knowledge on peatland water storage capacity is still very limited, due in part to the technical difficulties related to in situ measurements. The objectives of this study were to quantify vertical SY variations of water tables in peatlands using the water table fluctuation (WTF) method and to better understand the factors controlling peatland water storage capacity. The method was tested in five ombrotrophic peatlands located in the St. Lawrence Lowlands (southern Québec, Canada). In each peatland, water table wells were installed at three locations (up‐gradient, mid‐gradient, and down‐gradient). Near each well, a 1‐m long peat core (8 cm × 8 cm) was sampled, and subsamples were used to determine SY with standard gravitational drainage method. A larger peat sample (25 cm × 60 cm × 40 cm) was also collected in one peatland to estimate SY using a laboratory drainage method. In all sites, the mean water table depth ranged from 9 to 49 cm below the peat surface, with annual fluctuations varying between 15 and 29 cm for all locations. The WTF method produced similar results to the gravitational drainage experiments, with values ranging between 0.13 and 0.99 for the WTF method and between 0.01 and 0.95 for the gravitational drainage experiments. SY was found to rapidly decrease with depth within 20 cm, independently of the within‐site location and the mean annual water table depth. Dominant factors explaining SY variations were identified using analysis of variance. The most important factor was peatland site, followed by peat depth and seasonality. Variations in storage capacity considering site and seasonality followed regional effective growing degree days and evapotranspiration patterns. This work provides new data on spatial variations of peatland water storage capacity using an easily implemented method that requires only water table measurements and precipitation data.
Effect on surface character and mechanical property of unsintered hydroxyapatite/poly‐l‐lactic acid (uHA/PLLA) material by UV treatment
Authors: Moroi Akinori , Okuno Masaki , Kobayashi Go , Gamo Hitoshi , Serizawa Izumi , Yoshizawa Kunio , Ikawa Hiroumi , Ueki Koichiro 
Published: December 2016

AbstractMaterials fabricated with unsintered hydroxyapatite/poly‐l‐lactic acid (uHA/PLLA) exhibit biological activity and biocompatibility, but are also hydrophobic. This hydrophobicity limits the ability of cells or tissues to adhere to the surface of the material and thereby prevents the materials from exhibiting effective biological activity. In this study, we examined the effects of ultraviolet (UV) treatment on the hydrophobicity of uHA/PLLA. We compared the contact angle, mechanical strength, cell attachment, and cell differentiation capacity between untreated uHA/PLLA and uHA/PLLA treated with UV light. The contact angle of UV‐treated uHA/PLLA was significantly reduced compared with that of untreated uHA/PLLA. However, there were no differences in mechanical strength between untreated uHA/PLLA and UV‐treated uHA/PLLA. Notably, the ability of cells to adhere to UV‐treated uHA/PLLA was significantly increased compared with that of untreated uHA/PLLA. Similarly, there were significant differences between UV‐treated uHA/PLLA and untreated uHA/PLLA in alkaline phosphatase assays. These findings demonstrated that UV irradiation of uHA/PLLA improved the surface hydrophilicity without changing the mechanical strength of the material; thus, UV treatment of uHA/PLLA may facilitate the use of this material in biomedical applications. © 2016 Wiley Periodicals, Inc. J Biomed Mater Res Part B: Appl Biomater, 106B: 191–200, 2018.
CRMP4 Inhibits Bone Formation by Negatively Regulating BMP and RhoA Signaling
Authors: Abdallah Basem M , Figeac Florence , Larsen Kenneth H , Ditzel Nicholas , Keshari Pankaj , Isa Adiba , Jafari Abbas , Andersen Thomas L , Delaisse Jean-Marie , Goshima Yoshio , Ohshima Toshio , Kassem Moustapha 
Published: December 2016

ABSTRACT

We identified the neuroprotein collapsing response mediator protein-4 (CRMP4) as a noncanonical osteogenic factor that regulates the differentiation of mouse bone marrow skeletal stem cells (bone marrow stromal stem cells [mBMSCs]) into osteoblastic cells. CRMP4 is the only member of the CRMP1–CRMP5 family to be expressed by mBMSCs and in osteoprogenitors of both adult mouse and human bones. In vitro gain-of-function and loss-of-function of CRMP4 in murine stromal cells revealed its inhibitory effect on osteoblast differentiation. In addition, Crmp4-deficient mice (Crmp4–/–) displayed a 40% increase in bone mass, increased mineral apposition rate, and bone formation rate, compared to wild-type controls. Increased bone mass in Crmp4–/– mice was associated with enhanced BMP2 signaling and BMP2-induced osteoblast differentiation in Crmp4–/– osteoblasts (OBs). Furthermore, Crmp4–/– OBs exhibited enhanced activation of RhoA/focal adhesion kinase (FAK) signaling that led to cytoskeletal changes with increased cell spreading. In addition, Crmp4–/– OBs exhibited increased cell proliferation that was mediated via inhibiting cyclin-dependent kinase inhibitor 1B, p27Kip1 and upregulating cyclin D1 expression which are targets of RhoA signaling pathway. Our findings identify CRMP4 as a novel negative regulator of osteoblast differentiation. © 2016 American Society for Bone and Mineral Research.
Hairy and Enhancer of Split‐Related With YRPW Motif‐Like (HeyL) Is Dispensable for Bone Remodeling in Mice
Authors: Canalis Ernesto , Zanotti Stefano 
Published: December 2016

ABSTRACTNotch induces Hairy Enhancer of Split (Hes)1 and Hes‐related with YRPW motif (Hey) Hey1, Hey2 and Hey‐like (HeyL) expression in osteoblasts, but it is not known whether any of these target genes mediates the effect of Notch in the skeleton. We demonstrated that Notch1 activation in osteoblasts/osteocytes induces Hes1, Hey1, Hey2, and HeyL, but HeyL was induced to a greater extent than other target genes. To characterize HeyL null mice for their skeletal phenotype, microcomputed tomography (µCT) and histomorphometric analysis of HeyL null and sex‐matched littermate controls was performed. µCT demonstrated modest cancellous bone osteopenia in 1 month old male mice and normal microarchitecture in 3 month old male HeyL null mice. Female HeyL null mice were not different from controls at either 1 or 3 months of age. Bone histomorphometry did not demonstrate differences between HeyL null mice of either sex and littermate controls. In conclusion, HeyL null mice do not exhibit an obvious skeletal phenotype demonstrating that HeyL is dispensable for skeletal homeostasis. J. Cell. Biochem. 118: 1819–1826, 2017. © 2016 Wiley Periodicals, Inc.
Pharmacokinetics of a Single Oral Dose of the MEK1/2 Inhibitor Selumetinib in Subjects With End‐Stage Renal Disease or Varying Degrees of Hepatic Impairment Compared With Healthy Subjects
Authors: Dymond Angela W. , Martin Paul , So Karen , Huang Yifan , Severin Paul , Holmes Victoria , Mariani Gabriella , Marbury Thomas 
Published: December 2016

AbstractTwo phase I open‐label studies were conducted to investigate the pharmacokinetics (PK), safety, and tolerability of single oral doses of selumetinib in subjects with end‐stage renal disease (ESRD) undergoing hemodialysis and subjects with varying degrees of hepatic impairment; both studies included a matched control group comprised of healthy individuals. In the renal impairment study, subjects received single doses of selumetinib 50 mg; those with ESRD received selumetinib before and after dialysis (with a between‐treatment washout period of ≥7 days). In the hepatic impairment study, subjects received varying single doses of selumetinib (20‐50 mg) depending on liver dysfunction (mild, moderate, or severe as per Child‐Pugh classification). PK, safety, and tolerability data were collected from both studies. Overall, 24 subjects were included in the renal impairment study (ESRD, N = 12; healthy subjects, N = 12). Selumetinib exposure (AUC and Cmax) was not increased in the ESRD group vs healthy subjects. Selumetinib exposure was lower when selumetinib was dosed before vs after dialysis, although individual exposure was variable. Overall, 32 subjects were included in the hepatic impairment study (mild, moderate, and severe impairment, N = 8 per group; healthy subjects, N = 8). Generally, dose‐normalized total selumetinib exposure was increased by 25% to 59% in subjects with moderate and severe hepatic impairment compared with healthy subjects. Increasing Child‐Pugh score, decreasing serum albumin, and increasing prothrombin time correlated with increasing unbound selumetinib exposure. In both studies, selumetinib was well tolerated with no new safety concerns. These studies will inform dose adjustment considerations in patients.