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https://www.readbyqxmd.com/read/28212444/sumo-modification-of-a-heterochromatin-histone-demethylase-jmjd2a-enables-viral-gene-transactivation-and-viral-replication
#1
Wan-Shan Yang, Mel Campbell, Pei-Ching Chang
Small ubiquitin-like modifier (SUMO) modification of chromatin has profound effects on transcription regulation. By using Kaposi's sarcoma associated herpesvirus (KSHV) as a model, we recently demonstrated that epigenetic modification of viral chromatin by SUMO-2/3 is involved in regulating gene expression and viral reactivation. However, how this modification orchestrates transcription reprogramming through targeting histone modifying enzymes remains largely unknown. Here we show that JMJD2A, the first identified Jumonji C domain-containing histone demethylase, is the histone demethylase responsible for SUMO-2/3 enrichment on the KSHV genome during viral reactivation...
February 17, 2017: PLoS Pathogens
https://www.readbyqxmd.com/read/28212347/molecularly-imprinted-sol-gel-based-qcm-sensor-arrays-for-the-detection-and-recognition-of-volatile-aldehydes
#2
Chuanjun Liu, Bartosz Wyszynski, Rui Yatabe, Kenshi Hayashi, Kiyoshi Toko
The detection and recognition of metabolically derived aldehydes, which have been identified as important products of oxidative stress and biomarkers of cancers; are considered as an effective approach for early cancer detection as well as health status monitoring. Quartz crystal microbalance (QCM) sensor arrays based on molecularly imprinted sol-gel (MISG) materials were developed in this work for highly sensitive detection and highly selective recognition of typical aldehyde vapors including hexanal (HAL); nonanal (NAL) and bezaldehyde (BAL)...
February 16, 2017: Sensors
https://www.readbyqxmd.com/read/28210264/high-antioxidant-activity-facilitates-maintenance-of-cell-division-in-leaves-of-drought-tolerant-maize-hybrids
#3
Viktoriya Avramova, Hamada AbdElgawad, Ivanina Vasileva, Alexandra S Petrova, Anna Holek, Joachim Mariën, Han Asard, Gerrit T S Beemster
We studied the impact of drought on growth regulation in leaves of 13 maize varieties with different drought sensitivity and geographic origins (Western Europe, Egypt, South Africa) and the inbred line B73. Combining kinematic analysis of the maize leaf growth zone with biochemical measurements at a high spatial resolution allowed us to examine the correlation between the regulation of the cellular processes cell division and elongation, and the molecular redox-regulation in response to drought. Moreover, we demonstrated differences in the response of the maize lines to mild and severe levels of water deficit...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28210221/pharmacogenomic-characterization-and-isobologram-analysis-of-the-combination-of-ascorbic-acid-and-curcumin-two-main-metabolites-of-curcuma-longa-in-cancer-cells
#4
Edna Ooko, Onat Kadioglu, Henry J Greten, Thomas Efferth
Curcuma longa has long been used in China and India as anti-inflammatory agent to treat a wide variety of conditions and also as a spice for varied curry preparations. The chemoprofile of the Curcuma species exhibits the presence of varied phytochemicals with curcumin being present in all three species but AA only being shown in C. longa. This study explored the effect of a curcumin/AA combination on human cancer cell lines. The curcumin/AA combination was assessed by isobologram analysis using the Loewe additivity drug interaction model...
2017: Frontiers in Pharmacology
https://www.readbyqxmd.com/read/28209597/athletic-groin-pain-part-2-a-prospective-cohort-study-on-the-biomechanical-evaluation-of-change-of-direction-identifies-three-clusters-of-movement-patterns
#5
A Franklyn-Miller, C Richter, E King, S Gore, K Moran, S Strike, E C Falvey
BACKGROUND: Athletic groin pain (AGP) is prevalent in sports involving repeated accelerations, decelerations, kicking and change-of-direction movements. Clinical and radiological examinations lack the ability to assess pathomechanics of AGP, but three-dimensional biomechanical movement analysis may be an important innovation. AIM: The primary aim was to describe and analyse movements used by patients with AGP during a maximum effort change-of-direction task. The secondary aim was to determine if specific anatomical diagnoses were related to a distinct movement strategy...
March 2017: British Journal of Sports Medicine
https://www.readbyqxmd.com/read/28208686/identification-of-autophagy-related-genes-and-their-regulatory-mirnas-associated-with-celiac-disease-in-children
#6
Sergio Comincini, Federico Manai, Cristina Meazza, Sara Pagani, Carolina Martinelli, Noemi Pasqua, Gloria Pelizzo, Marco Biggiogera, Mauro Bozzola
Celiac disease (CD) is a severe genetic autoimmune disorder, affecting about one in 100 people, where the ingestion of gluten leads to damage in the small intestine. Diagnosing CD is quite complex and requires blood tests and intestinal biopsy examinations. Controversy exists regarding making the diagnosis without biopsy, due to the large spectrum of manifesting symptoms; furthermore, small-intestinal gastroscopy examinations have a relatively complex management in the pediatric population. To identify novel molecular markers useful to increase the sensitivity and specificity in the diagnosis of pediatric CD patients, the expression levels of two key autophagy executor genes (ATG7 and BECN1) and their regulatory validated miRNAs (miR-17 and miR-30a, respectively) were analyzed by relative quantitative real-time-PCR on a cohort of confirmed CD patients compared to age-related controls...
February 12, 2017: International Journal of Molecular Sciences
https://www.readbyqxmd.com/read/28208451/mori-zwanzig-theory-for-dissipative-forces-in-coarse-grained-dynamics-in-the-markov-limit
#7
Sergei Izvekov
We derive alternative Markov approximations for the projected (stochastic) force and memory function in the coarse-grained (CG) generalized Langevin equation, which describes the time evolution of the center-of-mass coordinates of clusters of particles in the microscopic ensemble. This is done with the aid of the Mori-Zwanzig projection operator method based on the recently introduced projection operator [S. Izvekov, J. Chem. Phys. 138, 134106 (2013)10.1063/1.4795091]. The derivation exploits the "generalized additive fluctuating force" representation to which the projected force reduces in the adopted projection operator formalism...
January 2017: Physical Review. E
https://www.readbyqxmd.com/read/28208263/visualization-quantification-and-alignment-of-spectral-drift-in-population-scale-untargeted-metabolomics-data
#8
Jeramie D Watrous, Mir Henglin, Brian Claggett, Kim A Lehmann, Martin G Larson, Susan Cheng, Mohit Jain
Untargeted liquid-chromatography-mass spectrometry (LC-MS)-based metabolomics analysis of human biospecimens has become among the most promising strategies for probing the underpinnings of human health and disease. Analysis of spectral data across population scale cohorts, however, is precluded by day-to-day nonlinear signal drifts in LC retention time or batch effects that complicate comparison of thousands of untargeted peaks. To date, there exists no efficient means of visualization and quantitative assessment of signal drift, correction of drift when present, and automated filtering of unstable spectral features, particularly across thousands of data files in population scale experiments...
February 7, 2017: Analytical Chemistry
https://www.readbyqxmd.com/read/28205529/genetic-polymorphism-and-evolutionary-differentiation-of-eastern-chinese-han-a-comprehensive-and-comparative-analysis-on-kirs
#9
Caiyong Yin, Li Hu, Huijie Huang, Yanfang Yu, Zheng Li, Qiang Ji, Xiaochao Kong, Zhongqun Wang, Jinchuan Yan, Jiangwei Yan, Bofeng Zhu, Feng Chen
Killer cell immunoglobulin-like receptor genes, namely KIRs, cluster together within the 160 kb genomic DNA region. In this study, we used PCR-SSP approach and successfully identified the genotype of 17 KIR genes in 123 independent healthy donors residing in the Jiangsu province, China. All individuals were positive at the 7 genes. The observed carrier gene frequencies (OFs) of remaining 10 KIRs ranged from 14.63% (KIR2DS3) to 95.93% (KIR3DL1). We found 27 distinct genotypes excluding KIR1D. The most frequent occurred in 63 individuals (51...
February 16, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28203619/variation-in-the-response-of-eastern-and-southern-africa-provenances-of-faidherbia-albida-delile-a-chev-seedlings-to-water-supply-a-greenhouse-experiment
#10
Grace Koech, Daniel Ofori, Anne W T Muigai, Jonathan Muriuki, Parveen Anjarwalla, Jan De Leeuw, Jeremias G Mowo
Rural communities value Faidherbia albida in farming systems and pastoralism. Faidherbia albida provides products such as medicine, fodder, fuel, wood, food and services such as shade, soil fertility and nutrient cycling. Excessive browsing by animals, branch lopping and pod harvesting, have critically reduced the natural regeneration in some areas which exposes it to challenges due to dependence upon natural regeneration. The objective of this research was to evaluate response of Faidherbia albida provenances from eastern (Taveta Wangingombe) and southern Africa (Lupaso, Kuiseb Manapools) to different watering regimes to aid in selection of provenances for domestication...
October 2016: Global Ecology and Conservation
https://www.readbyqxmd.com/read/28203242/sunlight-modulates-fruit-metabolic-profile-and-shapes-the-spatial-pattern-of-compound-accumulation-within-the-grape-cluster
#11
Noam Reshef, Natasha Walbaum, Nurit Agam, Aaron Fait
Vineyards are characterized by their large spatial variability of solar irradiance (SI) and temperature, known to effectively modulate grape metabolism. To explore the role of sunlight in shaping fruit composition and cluster uniformity, we studied the spatial pattern of incoming irradiance, fruit temperature and metabolic profile within individual grape clusters under three levels of sunlight exposure. The experiment was conducted in a vineyard of Cabernet Sauvignon cv. located in the Negev Highlands, Israel, where excess SI and midday temperatures are known to degrade grape quality...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28195143/aging-and-serum-exomir-content-in-women-effects-of-estrogenic-hormone-replacement-therapy
#12
Reeta Kangas, Timo Törmäkangas, Vidal Fey, Juha Pursiheimo, Ilkka Miinalainen, Markku Alen, Jaakko Kaprio, Sarianna Sipilä, Anna-Marja Säämänen, Vuokko Kovanen, Eija K Laakkonen
Exosomes participate in intercellular messaging by transporting bioactive lipid-, protein- and RNA-molecules and -complexes. The contents of the exosomes reflect the physiological status of an individual making exosomes promising targets for biomarker analyses. In the present study we extracted exosome microRNAs (exomiRs) from serum samples of premenopausal women (n = 8) and monozygotic postmenopausal twins (n = 10 female pairs), discordant for the use of estrogenic hormone replacement therapy (HRT), in order to see whether the age or/and the use of HRT associates with exomiR content...
February 14, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28193414/prediction-of-peroxide-value-in-omega-3-rich-microalgae-oil-by-atr-ftir-spectroscopy-combined-with-chemometrics
#13
Nur Cebi, Mustafa Tahsin Yilmaz, Osman Sagdic, Hande Yuce, Emrah Yelboga
Our work explored, for the first time, monitoring peroxide value (PV) of omega-3 rich algae oil using ATR-FTIR spectroscopic technique. The PV of the developed method was compared by that obtained by standard method of Association of Official Analytical Chemists (AOAC). In this study, peak area integration (PAI), Partial Least Squares Regression (PLSR), and Principal Component Regression (PCR) were used as the calibration techniques. PV obtained by the AOAC method and by FTIR-ATR technique were well correlated considering the peak area related to trans double bonds and chemometrics techniques of PLSR and PCR...
June 15, 2017: Food Chemistry
https://www.readbyqxmd.com/read/28193179/gene-expression-profiles-associated-with-cigarette-smoking-and-moist-snuff-consumption
#14
Subhashini Arimilli, Behrouz Madahian, Peter Chen, Kristin Marano, G L Prasad
BACKGROUND: Among the different tobacco products that are available on the US market, cigarette smoking is shown to be the most harmful and the effects of cigarette smoking have been well studied. US epidemiological studies indicate that non-combustible tobacco products are less harmful than smoking and yet very limited biological and mechanistic information is available on the effects of these alternative tobacco products. For the first time, we characterized gene expression profiling in PBMCs from moist snuff consumers (MSC), compared with that from consumers of cigarettes (SMK) and non-tobacco consumers (NTC)...
February 14, 2017: BMC Genomics
https://www.readbyqxmd.com/read/28193066/proof-of-principle-of-rtlc-an-open-source-software-developed-for-image-evaluation-and-multivariate-analysis-of-planar-chromatograms
#15
Dimitri Fichou, Petar Ristivojević, Gertrud E Morlock
High-performance thin-layer chromatography (HPTLC) is an advantageous analytical technique for analysis of complex samples. Combined with multivariate data analysis, it turns out to be a powerful tool for profiling of many samples in parallel. So far, chromatogram analysis has been time-consuming and required the application of at least two software packages to convert HPTLC chromatograms into a numerical data matrix. Hence, this study aimed to develop a powerful, all in one open-source software for user-friendly image processing and multivariate analysis of HPTLC chromatograms...
December 20, 2016: Analytical Chemistry
https://www.readbyqxmd.com/read/28192825/dynamic-alignment-analysis-in-the-osteoarthritic-knee-using-computer-navigation
#16
Ricardo Larrainzar-Garijo, David Murillo-Vizuete, Raul Garcia-Bogalo, David Escobar-Anton, Lissette Horna-Castiñeiras, Juan Vicente Peralta-Molero
The lower limb alignment is influenced by the geometry of the joint surfaces and surrounding soft tissue tension. The mechanical behavior changes in a normal, osteoarthritic, and postoperative knee. The purpose of this study is to determine the dynamic coronal femoral tibial mechanical angle (FTMA) in osteoarthritic knees using computer navigation. The authors hypothesize that there are different varus-valgus patterns between flexion and extension in the osteoarthritic knee. We conducted a transversal observational study and included patients with osteoarthritis who underwent primary navigation TKA (Orthopilot version 4...
February 13, 2017: Journal of Knee Surgery
https://www.readbyqxmd.com/read/28192605/stagewise-generalized-estimating-equations-with-grouped-variables
#17
Gregory Vaughan, Robert Aseltine, Kun Chen, Jun Yan
Forward stagewise estimation is a revived slow-brewing approach for model building that is particularly attractive in dealing with complex data structures for both its computational efficiency and its intrinsic connections with penalized estimation. Under the framework of generalized estimating equations, we study general stagewise estimation approaches that can handle clustered data and non-Gaussian/non-linear models in the presence of prior variable grouping structure. As the grouping structure is often not ideal in that even the important groups may contain irrelevant variables, the key is to simultaneously conduct group selection and within-group variable selection, that is, bi-level selection...
February 13, 2017: Biometrics
https://www.readbyqxmd.com/read/28190676/insights-into-temperature-modulation-of-the-eucalyptus-globulus-and-eucalyptus-grandis-antioxidant-and-lignification-subproteomes
#18
Marília Gabriela de Santana Costa, Paulo Mazzafera, Tiago Santana Balbuena
Eucalyptus grandis and Eucalyptus globulus are among the most widely cultivated trees, differing in lignin composition and plantation areas, as E. grandis is mostly cultivated in tropical regions while E. globulus is preferred in temperate areas. As temperature is a key modulator in plant metabolism, a large-scale proteome analysis was carried out to investigate changes in the antioxidant system and the lignification metabolism in plantlets grown at different temperatures. Our strategy allowed the identification of 3111 stem proteins...
February 9, 2017: Phytochemistry
https://www.readbyqxmd.com/read/28187892/interactive-radiographic-image-retrieval-system
#19
Malay Kumar Kundu, Manish Chowdhury, Sudeb Das
BACKGROUND AND OBJECTIVE: Content based medical image retrieval (CBMIR) systems enable fast diagnosis through quantitative assessment of the visual information and is an active research topic over the past few decades. Most of the state-of-the-art CBMIR systems suffer from various problems: computationally expensive due to the usage of high dimensional feature vectors and complex classifier/clustering schemes. Inability to properly handle the "semantic gap" and the high intra-class versus inter-class variability problem of the medical image database (like radiographic image database)...
February 2017: Computer Methods and Programs in Biomedicine
https://www.readbyqxmd.com/read/28185562/the-australian-longitudinal-study-on-male-health-sampling-design-and-survey-weighting-implications-for-analysis-and-interpretation-of-clustered-data
#20
Matthew J Spittal, John B Carlin, Dianne Currier, Marnie Downes, Dallas R English, Ian Gordon, Jane Pirkis, Lyle Gurrin
BACKGROUND: The Australian Longitudinal Study on Male Health (Ten to Men) used a complex sampling scheme to identify potential participants for the baseline survey. This raises important questions about when and how to adjust for the sampling design when analyzing data from the baseline survey. METHODS: We describe the sampling scheme used in Ten to Men focusing on four important elements: stratification, multi-stage sampling, clustering and sample weights. We discuss how these elements fit together when using baseline data to estimate a population parameter (e...
October 31, 2016: BMC Public Health
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