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https://www.readbyqxmd.com/read/28231343/occurrence-of-mitochondrial-co1-pseudogenes-in-neocalanus-plumchrus-crustacea-copepoda-hybridization-indicated-by-recombined-nuclear-mitochondrial-pseudogenes
#1
Ryuji J Machida, Ya-Ying Lin
A portion of the mitochondrial cytochrome c oxidase I gene was sequenced using both genomic DNA and complement DNA from three planktonic copepod Neocalanus species (N. cristatus, N. plumchrus, and N. flemingeri). Small but critical sequence differences in CO1 were observed between gDNA and cDNA from N. plumchrus. Furthermore, careful observation revealed the presence of recombination between sequences in gDNA from N. plumchrus. Moreover, a chimera of the N. cristatus and N. plumchrus sequences was obtained from N...
2017: PloS One
https://www.readbyqxmd.com/read/28231342/nonlinear-image-registration-with-bidirectional-metric-and-reciprocal-regularization
#2
Shihui Ying, Dan Li, Bin Xiao, Yaxin Peng, Shaoyi Du, Meifeng Xu
Nonlinear registration is an important technique to align two different images and widely applied in medical image analysis. In this paper, we develop a novel nonlinear registration framework based on the diffeomorphic demons, where a reciprocal regularizer is introduced to assume that the deformation between two images is an exact diffeomorphism. In detail, first, we adopt a bidirectional metric to improve the symmetry of the energy functional, whose variables are two reciprocal deformations. Secondly, we slack these two deformations into two independent variables and introduce a reciprocal regularizer to assure the deformations being the exact diffeomorphism...
2017: PloS One
https://www.readbyqxmd.com/read/28231341/identification-of-the-er-resident-e3-ubiquitin-ligase-rnf145-as-a-novel-lxr-regulated-gene
#3
Emma C L Cook, Jessica K Nelson, Vincenzo Sorrentino, Duco Koenis, Martina Moeton, Saskia Scheij, Roelof Ottenhoff, Boris Bleijlevens, Anke Loregger, Noam Zelcer
Cellular cholesterol metabolism is subject to tight regulation to maintain adequate levels of this central lipid molecule. Herein, the sterol-responsive Liver X Receptors (LXRs) play an important role owing to their ability to reduce cellular cholesterol load. In this context, identifying the full set of LXR-regulated genes will contribute to our understanding of their role in cholesterol metabolism. Using global transcriptional analysis we report here the identification of RNF145 as an LXR-regulated target gene...
2017: PloS One
https://www.readbyqxmd.com/read/28231340/the-widely-used-nicotiana-benthamiana-16c-line-has-an-unusual-t-dna-integration-pattern-including-a-transposon-sequence
#4
Joshua G Philips, Fatima Naim, Michał T Lorenc, Kevin J Dudley, Roger P Hellens, Peter M Waterhouse
Nicotiana benthamiana is employed around the world for many types of research and one transgenic line has been used more extensively than any other. This line, 16c, expresses the Aequorea victoria green fluorescent protein (GFP), highly and constitutively, and has been a major resource for visualising the mobility and actions of small RNAs. Insights into the mechanisms studied at a molecular level in N. benthamiana 16c are likely to be deeper and more accurate with a greater knowledge of the GFP gene integration site...
2017: PloS One
https://www.readbyqxmd.com/read/28231339/limits-of-use-of-social-media-for-monitoring-biosecurity-events
#5
Marijke Welvaert, Omar Al-Ghattas, Mark Cameron, Peter Caley
Compared to applications that trigger massive information streams, like earthquakes and human disease epidemics, the data input for agricultural and environmental biosecurity events (ie. the introduction of unwanted exotic pests and pathogens), is expected to be sparse and less frequent. To investigate if Twitter data can be useful for the detection and monitoring of biosecurity events, we adopted a three-step process. First, we confirmed that sightings of two migratory species, the Bogong moth (Agrotis infusa) and the Common Koel (Eudynamys scolopaceus) are reported on Twitter...
2017: PloS One
https://www.readbyqxmd.com/read/28231338/genes-encoding-two-theileria-parva-antigens-recognized-by-cd8-t-cells-exhibit-sequence-diversity-in-south-sudanese-cattle-populations-but-the-majority-of-alleles-are-similar-to-the-muguga-component-of-the-live-vaccine-cocktail
#6
Diaeldin A Salih, Roger Pelle, Joram M Mwacharo, Moses N Njahira, Wani L Marcellino, Henry Kiara, Agol K Malak, Abdel Rahim M El Hussein, Richard Bishop, Robert A Skilton
East Coast fever (ECF), caused by Theileria parva infection, is a frequently fatal disease of cattle in eastern, central and southern Africa, and an emerging disease in South Sudan. Immunization using the infection and treatment method (ITM) is increasingly being used for control in countries affected by ECF, but not yet in South Sudan. It has been reported that CD8+ T-cell lymphocytes specific for parasitized cells play a central role in the immunity induced by ITM and a number of T. parva antigens recognized by parasite-specific CD8+ T-cells have been identified...
2017: PloS One
https://www.readbyqxmd.com/read/28231337/4d-dose-simulation-in-volumetric-arc-therapy-accuracy-and-affecting-parameters
#7
Thilo Sothmann, Tobias Gauer, René Werner
Radiotherapy of lung and liver lesions has changed from normofractioned 3D-CRT to stereotactic treatment in a single or few fractions, often employing volumetric arc therapy (VMAT)-based techniques. Potential unintended interference of respiratory target motion and dynamically changing beam parameters during VMAT dose delivery motivates establishing 4D quality assurance (4D QA) procedures to assess appropriateness of generated VMAT treatment plans when taking into account patient-specific motion characteristics...
2017: PloS One
https://www.readbyqxmd.com/read/28231336/comparison-of-neurological-health-outcomes-between-two-adolescent-cohorts-exposed-to-pesticides-in-egypt
#8
Ahmed A Ismail, Matthew R Bonner, Olfat Hendy, Gaafar Abdel Rasoul, Kai Wang, James R Olson, Diane S Rohlman
Pesticide-exposed adolescents may have a higher risk of neurotoxic effects because of their developing brains and bodies. However, only a limited number of studies have addressed this risk among adolescents. The aim of this study was to compare neurological outcomes from two cohorts of Egyptian adolescents working as pesticide applicators. In 2005 and 2009, two cohorts of male adolescents working as pesticide applicators for the cotton crop were recruited from Menoufia Governorate, Egypt. The same application schedule and pesticides were used at both times, including both organophosphorus, and pyrethroid compounds...
2017: PloS One
https://www.readbyqxmd.com/read/28231335/immigrants-in-the-one-percent-the-national-origin-of-top-wealth-owners
#9
Lisa A Keister, Brian Aronson
BACKGROUND: Economic inequality in the United States is extreme, but little is known about the national origin of affluent households. Households in the top one percent by total wealth own vastly disproportionate quantities of household assets and have correspondingly high levels of economic, social, and political influence. The overrepresentation of white natives (i.e., those born in the U.S.) among high-wealth households is well-documented, but changing migration dynamics suggest that a growing portion of top households may be immigrants...
2017: PloS One
https://www.readbyqxmd.com/read/28231334/prevalence-of-hpv-16-and-18-and-attitudes-toward-hpv-vaccination-trials-in-patients-with-cervical-cancer-in-mali
#10
Ibrahima Téguété, Amadou Dolo, Kotou Sangare, Abdoulaye Sissoko, Mali Rochas, Sarah Beseme, Karamoko Tounkara, Shahla Yekta, Anne S De Groot, Ousmane A Koita
BACKGROUND: Cervical cancer is one of the most common and lethal cancers in West Africa. Even though vaccines that protect against the most common Human papillomavirus (HPV) strains, 16 and 18, are currently in use in developed countries, the implementation of these vaccines in developing countries has been painfully slow, considering the pre-eminence of HPV-associated cervical cancer among women in those countries. AIM: We performed serological and PCR-based assessment of blood and tissue specimens obtained from women undergoing cervical cancer-related surgery at a major urban hospital in Bamako...
2017: PloS One
https://www.readbyqxmd.com/read/28231333/molecular-mechanisms-of-cooperative-binding-of-transcription-factors-runx1-cbf%C3%AE-ets1-on-the-tcr%C3%AE-gene-enhancer
#11
Kota Kasahara, Masaaki Shiina, Ikuo Fukuda, Kazuhiro Ogata, Haruki Nakamura
Ets1 is an essential transcription factor (TF) for several important physiological processes, including cell proliferation and differentiation. Its recognition of the enhancer region of the TCRα gene is enhanced by the cooperative binding of the Runx1-CBFβ heterodimer, with the cancelation of phosphorylation-dependent autoinhibition. The detailed mechanism of this interesting cooperativity between Ets1 and the Runx1-CBFβ heterodimer is still largely unclear. Here, we investigated the molecular mechanisms of this cooperativity, by using molecular dynamics simulations...
2017: PloS One
https://www.readbyqxmd.com/read/28231332/the-moderating-role-of-absorptive-capacity-and-the-differential-effects-of-acquisitions-and-alliances-on-big-pharma-firms-innovation-performance
#12
K D S Fernald, H P G Pennings, J F van den Bosch, H R Commandeur, E Claassen
In the context of increased pharmaceutical innovation deficits and Big Pharma blockbusters' patent expirations, this paper examines the moderating role of firms' absorptive capacity in external innovation activities of Big Pharma firms. The study indicates a rising interest of Big Pharma in acquisitions of and alliances with biotechnology companies. Unfortunately, this increased interest is not reflected in the number of new drugs generated by Big Pharma. We find that acquisitions of biotech companies have negatively affected Big Pharma firms' innovation performance on average but these acquisitions might have a positive effect at higher levels of acquiring firms' absorptive capacity...
2017: PloS One
https://www.readbyqxmd.com/read/28231331/mesenchymal-stromal-cells-mscs-induce-ex-vivo-proliferation-and-erythroid-commitment-of-cord-blood-haematopoietic-stem-cells-cb-cd34-cells
#13
Simone Perucca, Andrea Di Palma, Pier Paolo Piccaluga, Claudia Gemelli, Elisa Zoratti, Giulio Bassi, Edoardo Giacopuzzi, Andrea Lojacono, Giuseppe Borsani, Enrico Tagliafico, Maria Teresa Scupoli, Simona Bernardi, Camilla Zanaglio, Federica Cattina, Valeria Cancelli, Michele Malagola, Mauro Krampera, Mirella Marini, Camillo Almici, Sergio Ferrari, Domenico Russo
A human bone marrow-derived mesenchymal stromal cell (MSCs) and cord blood-derived CD34+ stem cell co-culture system was set up in order to evaluate the proliferative and differentiative effects induced by MSCs on CD34+ stem cells, and the reciprocal influences on gene expression profiles. After 10 days of co-culture, non-adherent (SN-fraction) and adherent (AD-fraction) CD34+ stem cells were collected and analysed separately. In the presence of MSCs, a significant increase in CD34+ cell number was observed (fold increase = 14...
2017: PloS One
https://www.readbyqxmd.com/read/28231330/the-effects-of-exogenous-hormones-on-rooting-process-and-the-activities-of-key-enzymes-of-malus-hupehensis-stem-cuttings
#14
Wangxiang Zhang, Junjun Fan, Qianqian Tan, Mingming Zhao, Ting Zhou, Fuliang Cao
Malus hupehensis is an excellent Malus rootstock species, known for its strong adverse-resistance and apomixes. In the present study, stem cuttings of M. hupehensis were treated with three types of exogenous hormones, including indole acetic acid (IAA), naphthalene acetic acid (NAA), or green growth regulator (GGR). The effects and mechanisms of exogenous hormone treatment and antioxidant enzyme activity on adventitious root formation were investigated. The results showed that the apparent morphology of the adventitious root had four stages, including root pre-emergence stage (S0), early stage of root formation (S1), massive root formation stage (S2), and later stage of root formation (S3)...
2017: PloS One
https://www.readbyqxmd.com/read/28231329/changes-in-field-workability-and-drought-risk-from-projected-climate-change-drive-spatially-variable-risks-in-illinois-cropping-systems
#15
Bradley J Tomasek, Martin M Williams, Adam S Davis
As weather patterns become more volatile and extreme, risks introduced by weather variability will become more critical to agricultural production. The availability of days suitable for field work is driven by soil temperature and moisture, both of which may be altered by climate change. We projected changes in Illinois season length, spring field workability, and summer drought risk under three different emissions scenarios (B1, A1B, and A2) down to the crop district scale. Across all scenarios, thermal time units increased in parallel with a longer frost-free season...
2017: PloS One
https://www.readbyqxmd.com/read/28231328/integrating-the-sd-clue-s-and-invest-models-into-assessment-of-oasis-carbon-storage-in-northwestern-china
#16
Youjia Liang, Lijun Liu, Jiejun Huang
Spatio-temporal integrated assessment of land-use change impacts on carbon storage services is a new and important research field in land science and landscape ecology. The objective of this paper is to use an integrated SD-CLUE-S and InVEST model to simulate and predict land-use changes impacts during 2000-2018 on carbon storage at pixel and regional scales in the Zhangye oasis, Northwest China. The SD-CLUE-S model was used to simulate land-use change, and three land-use scenarios (current trend, moderate protection, and strict protection) were defined in collaboration with oasis socioeconomic development and ecological environment conservation by local government...
2017: PloS One
https://www.readbyqxmd.com/read/28231327/functionally-focused-algorithmic-analysis-of-high-resolution-microarray-cgh-genomic-landscapes-demonstrates-comparable-genomic-copy-number-aberrations-in-msi-and-mss-sporadic-colorectal-cancer
#17
Hamad Ali, Milad S Bitar, Ashraf Al Madhoun, Makia Marafie, Fahd Al-Mulla
Array-based comparative genomic hybridization (aCGH) emerged as a powerful technology for studying copy number variations at higher resolution in many cancers including colorectal cancer. However, the lack of standardized systematic protocols including bioinformatic algorithms to obtain and analyze genomic data resulted in significant variation in the reported copy number aberration (CNA) data. Here, we present genomic aCGH data obtained using highly stringent and functionally relevant statistical algorithms from 116 well-defined microsatellites instable (MSI) and microsatellite stable (MSS) colorectal cancers...
2017: PloS One
https://www.readbyqxmd.com/read/28231326/expression-of-glyoxalase-i-is-reduced-in-cirrhotic-livers-a-possible-mechanism-in-the-development-of-cirrhosis
#18
Marcus Hollenbach, Antje Thonig, Sabine Pohl, Cristina Ripoll, Maurice Michel, Alexander Zipprich
BACKGROUND: High concentrations of methylglyoxal (MGO) cause cytotoxiticy via formation of advanced glycation endproducts (AGEs) and inflammation. MGO is detoxificated enzymatically by glyoxalase-I (Glo-I). The aim of this study was to analyze the role of Glo-I during the development of cirrhosis. METHODS: In primary hepatocytes, hepatic stellate cells (pHSC) and sinusoidal endothelial cells (pLSEC) from rats with early (CCl4 8wk) and advanced cirrhosis (CCl4 12wk) expression and activity of Glo-I were determined and compared to control...
2017: PloS One
https://www.readbyqxmd.com/read/28231325/cardiovascular-exercise-and-burden-of-arrhythmia-in-patients-with-atrial-fibrillation-a-randomized-controlled-trial
#19
Ane Katrine Skielboe, Thomas Quaade Bandholm, Stine Hakmann, Malene Mourier, Thomas Kallemose, Ulrik Dixen
BACKGROUND: Physical activity at moderate-high intensity is recommended to prevent lifestyle diseases. Patients with atrial fibrillation are at risk of a sedentary lifestyle due to fear of exercise-induced episodes of atrial fibrillation. The burden of arrhythmia can be reduced by physical exercise. The effect of exercise intensity on burden of atrial fibrillation needs to be studied further. METHODS AND RESULTS: In a 12-week randomized controlled trial, 76 patients with paroxysmal/persistent atrial fibrillation were allocated to perform exercise at either low intensity or high intensity (50% and 80% of maximal perceived exertion, respectively)...
2017: PloS One
https://www.readbyqxmd.com/read/28231324/a-framework-for-analyzing-contagion-in-assortative-banking-networks
#20
Thomas R Hurd, James P Gleeson, Sergey Melnik
We introduce a probabilistic framework that represents stylized banking networks with the aim of predicting the size of contagion events. Most previous work on random financial networks assumes independent connections between banks, whereas our framework explicitly allows for (dis)assortative edge probabilities (i.e., a tendency for small banks to link to large banks). We analyze default cascades triggered by shocking the network and find that the cascade can be understood as an explicit iterated mapping on a set of edge probabilities that converges to a fixed point...
2017: PloS One
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