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https://www.readbyqxmd.com/read/28915660/mass-spectrometry-based-assay-for-the-molecular-diagnosis-of-glioma-concomitant-detection-of-chromosome-1p-19q-codeletion-and-idh1-idh2-and-tert-mutation-status
#1
Chiara Pesenti, Leda Paganini, Laura Fontana, Emanuela Veniani, Letterio Runza, Stefano Ferrero, Silvano Bosari, Maura Menghi, Giovanni Marfia, Manuela Caroli, Rosamaria Silipigni, Silvana Guerneri, Silvia Tabano, Monica Miozzo
The World Health Organization recently revised the diagnosis of glioma, to integrate molecular parameters, including IDH mutations and codeletion (loss of heterozygosity; LOH) of chromosome arms 1p/19q, into the definitions of adult glioma histological subtypes. Mutations in the TERT promoter may also be useful for glioma diagnosis and prognosis. The integration of molecular markers into routine diagnosis requires their rapid and reliable assessment. We propose a MassARRAY (MS)-based test that can identify 1p/19q codeletion using quantitative SNP genotyping and, simultaneously, characterize hotspot mutations in the IDH1, IDH2, and TERT genes in tumor DNA...
August 22, 2017: Oncotarget
https://www.readbyqxmd.com/read/28915462/abundance-of-large-old-trees-in-wood-pastures-of-transylvania-romania
#2
Tibor Hartel, Jan Hanspach, Cosmin I Moga, Lucian Holban, Árpád Szapanyos, Réka Tamás, Csaba Hováth, Kinga-Olga Réti
Wood-pastures are special types of agroforestry systems that integrate trees with livestock grazing. Wood pastures can be hotspots for large old tree abundance and have exceptional natural values; but they are declining all over Europe. While presence of large old trees in wood-pastures can provide arguments for their maintenance, actual data on their distribution and abundance are sparse. Our study is the first to survey large old trees in Eastern Europe over such a large area. We surveyed 97 wood-pastures in Transylvania (Romania) in order to (i) provide a descriptive overview of the large old tree abundance; and (ii) to explore the environmental determinants of the abundance and persistence of large old trees in wood-pastures...
September 12, 2017: Science of the Total Environment
https://www.readbyqxmd.com/read/28914310/plasmonic-enhancement-of-sers-measured-on-molecules-in-carbon-nanotubes
#3
Niclas S Mueller, Sebastian Heeg, Patryk Kusch, Etienne Gaufrès, Nathalie Y-W Tang, Uwe Hübner, Richard Martel, Aravind Vijayaraghavan, Stephanie Reich
We isolated the plasmonic contribution to surface-enhanced Raman scattering (SERS) and found it to be much stronger than expected. Organic dyes encapsulated in single-walled carbon nanotubes are ideal probes for quantifying plasmonic enhancement in a Raman experiment. The molecules are chemically protected through the nanotube wall and spatially isolated from the metal, which prevents enhancement by chemical means and through surface roughness. The tubes carry molecules into SERS hotspots, thereby defining molecular position and making it accessible for structural characterization with atomic-force and electron microscopy...
September 15, 2017: Faraday Discussions
https://www.readbyqxmd.com/read/28913558/only-setbp1-hotspot-mutations-are-associated-with-refractory-disease-in-myeloid-malignancies
#4
Nils Winkelmann, Vivien Schäfer, Jenny Rinke, Alexander Kaiser, Philipp Ernst, Sebastian Scholl, Andreas Hochhaus, Thomas Ernst
INTRODUCTION: SETBP1 mutations have been established as a diagnostic marker in myeloid malignancies and are associated with inferior survival. Since there is limited data on their clinical impact and stability during disease progression, we sought to investigate the relationship between SETBP1 mutations and disease evolution. METHODS: Bidirectional Sanger sequencing of the SETBP1 gene was performed for 442 unselected patients with World Health Organization (WHO) defined myeloid disorders...
September 14, 2017: Journal of Cancer Research and Clinical Oncology
https://www.readbyqxmd.com/read/28913538/differences-in-cisplatin-distribution-in-sensitive-and-resistant-ovarian-cancer-cells-a-tem-nanosims-study
#5
Ronald F S Lee, Tina Riedel, Stéphane Escrig, Catherine Maclachlan, Graham W Knott, Curt A Davey, Kai Johnsson, Anders Meibom, Paul J Dyson
Cisplatin is a widely used anti-cancer drug, but its effect is often limited by acquired resistance to the compound during treatment. Here, we use a combination of transmission electron microscopy (TEM) and nanoscale-secondary ion mass spectrometry (NanoSIMS) to reveal differences between cisplatin uptake in human ovarian cancers cells, which are known to be susceptible to acquired resistance to cisplatin. Both cisplatin sensitive and resistant cell lines were studied, revealing markedly less cisplatin in the resistant cell line...
September 15, 2017: Metallomics: Integrated Biometal Science
https://www.readbyqxmd.com/read/28913424/reca-filament-maintains-structural-integrity-using-atp-driven-internal-dynamics
#6
Sung Hyun Kim, TakKyoon Ahn, Tao Ju Cui, Sweeny Chauhan, Jaeyoung Sung, Chirlmin Joo, Doseok Kim
At the core of homologous DNA repair, RecA catalyzes the strand exchange reaction. This process is initiated by a RecA loading protein, which nucleates clusters of RecA proteins on single-stranded DNA. Each cluster grows to cover the single-stranded DNA but may leave 1- to 2-nucleotide (nt) gaps between the clusters due to three different structural phases of the nucleoprotein filaments. It remains to be revealed how RecA proteins eliminate the gaps to make a seamless kilobase-long filament. We develop a single-molecule fluorescence assay to observe the novel internal dynamics of the RecA filament...
September 2017: Science Advances
https://www.readbyqxmd.com/read/28912793/diverse-rice-landraces-of-north-east-india-enables-the-identification-of-novel-genetic-resources-for-magnaporthe-resistance
#7
Bangale Umakanth, Balija Vishalakshi, P Sathish Kumar, S J S Rama Devi, Vijay Pal Bhadana, P Senguttuvel, Sudhir Kumar, Susheel Kumar Sharma, Pawan Kumar Sharma, M S Prasad, Maganti S Madhav
North-East (NE) India, the probable origin of rice has diverse genetic resources. Many rice landraces of NE India were not yet characterized for blast resistance. A set of 232 landraces of NE India, were screened for field resistance at two different hotspots of rice blast, viz., IIRR-UBN, Hyderabad and ICAR-NEH, Manipur in two consecutive seasons. The phenotypic evaluation as well as gene profiling for 12 major blast resistance genes (Pitp, Pi33, Pi54, Pib, Pi20, Pi38, Pita2, Pi1, Piz, Pi9, Pizt, and Pi40) with linked as well as gene-specific markers, identified 84 resistant landraces possessing different gene(s) either in singly or in combinations and also identified seven resistant landraces which do not have the tested genes, indicating the valuable genetic resources for blast resistance...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28912555/new-taxa-of-freshwater-mussels-unionidae-from-a-species-rich-but-overlooked-evolutionary-hotspot-in-southeast-asia
#8
Ivan N Bolotov, Ilya V Vikhrev, Alexander V Kondakov, Ekaterina S Konopleva, Mikhail Yu Gofarov, Olga V Aksenova, Sakboworn Tumpeesuwan
Southeast Asia harbors a unique and diverse freshwater fauna of Mesozoic origin, which is under severe threat of extinction because of rapid economic development and urbanization. The largest freshwater basins of the region are certainly the primary evolutionary hotspots and they attract the most attention as key biodiversity areas for conservation. In contrast, medium-sized rivers are considered low-importance areas with secondary biodiversity, whose faunas originated via founder events from larger basins during the Pleistocene, although such a scenario has never been tested by using a phylogenetic approach...
September 14, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28912148/thermal-imaging-is-a-non-invasive-alternative-to-pet-ct-for-measurement-of-brown-adipose-tissue-activity-in-humans
#9
James Matthew Law, David Edward Morris, Chioma Izzi Engbeaya, Victoria Salem, Christopher Coello, Lindsay Robinson, Maduka Jayasinghe, Rebecca Scott, Roger Gunn, Eugenii Rabiner, Tricia Tan, Waljit Dhillo, Stephen Bloom, Helen Budge, Michael Symonds
Background: Obesity and its metabolic consequences are a major cause of morbidity and mortality. Brown adipose tissue (BAT) utilises glucose and free fatty acids to produce heat, thereby increasing energy expenditure. Effective evaluation of human BAT stimulators is constrained by current standard BAT assessment methods as positron emission tomography-computed tomography (PET-CT) requires exposure to high doses of ionising radiation. Infrared thermography (IRT) is a potential non-invasive, safe alternative, although direct corroboration with PET-CT has not previously been established...
September 14, 2017: Journal of Nuclear Medicine: Official Publication, Society of Nuclear Medicine
https://www.readbyqxmd.com/read/28912033/dissecting-the-cd93-multimerin-2-interaction-involved-in-cell-adhesion-and-migration-of-the-activated-endothelium
#10
Federico Galvagni, Federica Nardi, Ottavia Spiga, Alfonso Trezza, Giulia Tarticchio, Rosanna Pellicani, Eva Andreuzzi, Elena Caldi, Paolo Toti, Gian Marco Tosi, Annalisa Santucci, Renato V Iozzo, Maurizio Mongiat, Maurizio Orlandini
The glycoprotein CD93 has recently been recognized to play an important role in the regulation of the angiogenic process. Moreover, CD93 is highly expressed in the endothelial cells of tumor blood vessel and faintly expressed in the non-proliferating endothelium. Much evidence suggests that CD93 mediates adhesion in the endothelium. Here we identify Multimerin 2 (MMRN2), a pan-endothelial extracellular matrix protein, as a specific ligand for CD93. We found that CD93 and MMRN2 are co-expressed in the blood vessels of various human tumors...
September 11, 2017: Matrix Biology: Journal of the International Society for Matrix Biology
https://www.readbyqxmd.com/read/28911167/in-utero-exposure-to-a-high-fat-diet-programs-hepatic-hypermethylation-and-gene-dysregulation-and-development-of-metabolic-syndrome-in-male-mice
#11
Yoshinori Seki, Masako Suzuki, Xingyi Guo, Alan Scott Glenn, Patricia M Vuguin, Ariana Fiallo, Quan Du, Yi-An Ko, Yiting Yu, Katalin Susztak, Deyou Zheng, John M Greally, Ellen B Katz, Maureen J Charron
Exposure to a high-fat (HF) diet in utero is associated with increased incidence of cardiovascular disease, diabetes, and metabolic syndrome later in life. However, the molecular basis of this enhanced susceptibility for metabolic disease is poorly understood. Gene expression microarray and genome-wide DNA methylation analyses of mouse liver revealed that exposure to a maternal HF milieu activated genes of immune response, inflammation, and hepatic dysfunction. DNA methylation analysis revealed 3360 differentially methylated loci, most of which (76%) were hypermethylated and distributed preferentially to hotspots on chromosomes 4 [atherosclerosis susceptibility quantitative trait loci (QTLs) 1] and 18 (insulin-dependent susceptibility QTLs 21)...
September 1, 2017: Endocrinology
https://www.readbyqxmd.com/read/28911069/clinical-utility-of-circulating-dna-analysis-for-rapid-detection-of-actionable-mutations-to-select-metastatic-colorectal-patients-for-anti-egfr-treatment
#12
A R Thierry, S El Messaoudi, C Mollevi, J L Raoul, R Guimbaud, D Pezet, P Artru, E Assenat, C Borg, M Mathonnet, C De La Fouchardière, O Bouché, C Gavoille, C Fiess, B Auzemery, R Meddeb, E Lopez-Crapez, C Sanchez, B Pastor, M Ychou
Background: While tumor-tissue remains the 'gold standard' for genetic analysis in cancer patients, it is challenged with the advent of circulating cell-free tumor DNA (ctDNA) analysis from blood samples. Here, we broaden our previous study on the clinical validation of plasma DNA in metastatic colorectal cancer patients, by evaluating its clinical utility under standard management care. Patients and methods: Concordance and data turnaround-time of ctDNA when compared with tumor-tissue analysis were studied in a real-time blinded prospective multicenter clinical study (n = 140 metastatic colorectal patients)...
September 1, 2017: Annals of Oncology: Official Journal of the European Society for Medical Oncology
https://www.readbyqxmd.com/read/28910721/an-amino-acid-domino-effect-orchestrates-clpp-s-conformational-states
#13
REVIEW
Matthias Stahl, Stephan A Sieber
Maintaining the cellular protein homeostasis means managing life on the brink of death. This balance is largely based on precise fine-tuning of enzyme activities. For instance, the ClpP protease possesses several conformational switches which are fundamental to regulating its activity. Efforts have focused on revealing the structural basis of ClpP's conformational control. In the last decade, several amino acid clusters have been identified and functionally linked to specific activation states. Researchers have now begun to couple these hotspots to one another, uncovering a global network of residues that switch in response to internal and external stimuli...
September 11, 2017: Current Opinion in Chemical Biology
https://www.readbyqxmd.com/read/28910637/intrahost-selection-pressures-drive-rapid-dengue-virus-microevolution-in-acute-human-infections
#14
Poornima Parameswaran, Chunling Wang, Surbhi Bharat Trivedi, Meghana Eswarappa, Magelda Montoya, Angel Balmaseda, Eva Harris
Dengue, caused by four dengue virus serotypes (DENV-1 to DENV-4), is a highly prevalent mosquito-borne viral disease in humans. Yet, selection pressures driving DENV microevolution within human hosts (intrahost) remain unknown. We employed a whole-genome segmented amplification approach coupled with deep sequencing to profile DENV-3 intrahost diversity in peripheral blood mononuclear cell (PBMC) and plasma samples from 77 dengue patients. DENV-3 intrahost diversity appears to be driven by immune pressures as well as replicative success in PBMCs and potentially other replication sites...
September 13, 2017: Cell Host & Microbe
https://www.readbyqxmd.com/read/28910212/feasibility-of-paramedic-performed-prehospital-lung-ultrasound-in-medical-patients-with-respiratory-distress
#15
Torben K Becker, Christian Martin-Gill, Clifton W Callaway, Francis X Guyette, Christopher Schott
OBJECTIVE: Prehospital ultrasound is not yet widely implemented. Most studies report on convenience samples and trauma patients, often by prehospital physicians or critical care clinicians. We assessed the feasibility of paramedic performed prehospital lung ultrasound in medical patients with respiratory distress. METHODS: Paramedics at 2 ambulance stations in the city of Pittsburgh, Pennsylvania, USA underwent a 2-hour training session in prehospital lung ultrasound using the SonoSite iViz, a handheld ultrasound device...
September 14, 2017: Prehospital Emergency Care
https://www.readbyqxmd.com/read/28905428/cost-effective-screening-of-dnmt3a-coding-sequence-identifies-somatic-mutation-in-pediatric-t-cell-acute-lymphoblastic-leukemia
#16
Bronisława Szarzyńska-Zawadzka, Maria Kosmalska, Łukasz Sędek, Alicja Sonsala, Magdalena Twardoch, Jerzy R Kowalczyk, Tomasz Szczepański, Michał Witt, Małgorzata Dawidowska
BACKGROUND AND OBJECTIVES: In pediatric T-cell acute lymphoblastic leukemia (T-ALL) risk assignment schemes preclude reliable prediction of outcome and thus new prognostic factors are needed. Mutations in DNMT3A are candidate prognostic and classification markers in adults with acute myeloid leukemia (AML) and T-ALL and thus were considered as candidates prognostic markers in pediatric T-ALL. PATIENTS AND METHODS: DNMT3A mutational status was investigated in 74 pediatric T-ALL samples collected at diagnosis...
September 14, 2017: European Journal of Haematology
https://www.readbyqxmd.com/read/28905417/investigating-the-structural-dynamics-of-the-piezo1-channel-activation-and-inactivation-by-coarse-grained-modeling
#17
Wenjun Zheng, Frederick Sachs
The PIEZO channels, a family of mechanosensitive channels in vertebrates, feature a fast activation by mechanical stimuli (e.g., membrane tension) followed by a slower inactivation. Although a medium-resolution structure of the trimeric form of PIEZO1 was solved by cryo-electron microscopy (cryo-EM), key structural changes responsible for the channel activation and inactivation are still unknown. Toward decrypting the structural mechanism of the PIEZO1 activation and inactivation, we performed systematic coarse-grained modeling using an elastic network model and related modeling/analysis tools (i...
September 14, 2017: Proteins
https://www.readbyqxmd.com/read/28905136/highly-sensitive-detection-of-esr1-mutations-in-cell-free-dna-from-patients-with-metastatic-breast-cancer-using-molecular-barcode-sequencing
#18
Nanae Masunaga, Naofumi Kagara, Daisuke Motooka, Shota Nakamura, Tomohiro Miyake, Tomonori Tanei, Yasuto Naoi, Masafumi Shimoda, Kenzo Shimazu, Seung Jin Kim, Shinzaburo Noguchi
PURPOSE: We aimed to develop a highly sensitive method to detect ESR1 mutations in cell-free DNA (cfDNA) using next-generation sequencing with molecular barcode (MB-NGS) targeting the hotspot segment (c.1600-1713). METHODS: The sensitivity of MB-NGS was tested using serially diluted ESR1 mutant DNA and then cfDNA samples from 34 patients with metastatic breast cancer were analyzed with MB-NGS. The results of MB-NGS were validated in comparison with conventional NGS and droplet digital PCR (ddPCR)...
September 13, 2017: Breast Cancer Research and Treatment
https://www.readbyqxmd.com/read/28903176/assessment-of-pcbs-and-exposure-risk-to-infants-in-breast-milk-of-primiparae-and-multiparae-mothers-in-an-electronic-waste-hot-spot-and-non-hot-spot-areas-in-ghana
#19
Anita Asamoah, David Kofi Essumang, Jens Muff, Sergey V Kucheryavskiy, Erik Gydesen Søgaard
The aim of the study was to assess the levels of PCBs in the breast milk of some Ghanaian women at suspected hotspot and relatively non-hotspot areas and to find out if the levels of these PCBs pose any risk to the breastfed infants. A total of 128 individual human breast milk were sampled from both primiparae and multiparae mothers. The levels of PCBs in the milk samples were compared. Some of these mothers (105 individuals) work or reside in and around Agbogbloshie (hot-spot), the largest electric and electronic waste dump and recycling site in Accra, Ghana...
September 9, 2017: Science of the Total Environment
https://www.readbyqxmd.com/read/28902981/layer-structured-materials-for-advanced-energy-storage-and-conversion
#20
REVIEW
Yanpeng Guo, Yaqing Wei, Huiqiao Li, Tianyou Zhai
Owing to the strong in-plane chemical bonds and weak van der Waals force between adjacent layers, investigations of layer structured materials have long been the hotspots in energy-related fields. The intrinsic large interlayer space endows them capabilities of guest ion intercalation, fast ion diffusion, and swift charge transfer along the channels. Meanwhile, the well-maintained in-plane integrity contributes to exceptional mechanical properties. This anisotropic structural feature is also conducive to effective chemical combination, exfoliation, or self-assembly into various nanoarchitectures, accompanied by the introduction of defects, lattice strains, and phase transformation...
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