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https://www.readbyqxmd.com/read/29779275/-salivary-microbial-communities-associated-with-severe-early-childhood-caries
#1
Tong-Zheng Sun, Fei Teng, Song-Bo Jia, Yong-Ping Tang, Ming Jiang, Shi Huang, Xiao Yuan, Xiao-Lan Li, Fang Yang
OBJECTIVE: To compare the salivary microbial profiles of healthy subjects and those with severe early childhood caries (S-ECC) by using high-throughput sequencing. METHODS: Salivary samples were obtained from children with S-ECC (group C, n=24) and healthy children (group H, n=24). Total metagenomic DNA was extracted, and DNA amplicons of the V1-V3 hypervariable region of the 16S rRNA gene were generated and subjected to 454 sequencing. The characteristics of oral microbial communities from the two groups were compared based on microbial diversity and taxonomy assignment...
April 1, 2018: Hua Xi Kou Qiang Yi Xue za Zhi, Huaxi Kouqiang Yixue Zazhi, West China Journal of Stomatology
https://www.readbyqxmd.com/read/29779155/prioritising-risk-factors-for-type-2-diabetes-causal-inference-through-genetic-approaches
#2
REVIEW
Laura B L Wittemans, Luca A Lotta, Claudia Langenberg
PURPOSE OF THE REVIEW: Causality has been demonstrated for few of the many putative risk factors for type 2 diabetes (T2D) emerging from observational epidemiology. Genetic approaches are increasingly being used to infer causality, and in this review, we discuss how genetic discoveries have shaped our understanding of the causal role of factors associated with T2D. RECENT FINDINGS: Genetic discoveries have led to the identification of novel potential aetiological factors of T2D, including the protective role of peripheral fat storage capacity and specific metabolic pathways, such as the branched-chain amino acid breakdown...
May 19, 2018: Current Diabetes Reports
https://www.readbyqxmd.com/read/29779127/physiological-and-transcriptomic-analysis-of-a-chronologically-long-lived-saccharomyces-cerevisiae-strain-obtained-by-evolutionary-engineering
#3
Mevlüt Arslan, Can Holyavkin, Halil İbrahim Kısakesen, Alican Topaloğlu, Yusuf Sürmeli, Zeynep Petek Çakar
High-throughput aging studies with yeast as a model organism involve transposon-mutagenesis and yeast knockout collection, which have been pivotal strategies for understanding the complex cellular aging process. In this study, a chronologically long-lived Saccharomyces cerevisiae mutant was successfully obtained by using another high-throughput approach, evolutionary engineering, based on systematic selection in successive batch cultures under gradually increasing levels of caloric restriction. Detailed comparative physiological and transcriptomic analyses of the chronologically long-lived mutant and the reference strain revealed enhanced levels of respiratory metabolism, upregulation of genes related to carbohydrate metabolic processes, glycogen-trehalose pathways, stress response, and repression of protein synthesis-related genes in the long-lived mutant SRM11, already in the absence of caloric restriction...
May 19, 2018: Molecular Biotechnology
https://www.readbyqxmd.com/read/29778790/applicability-of-integrated-cell-culture-reverse-transcriptase-quantitative-pcr-icc-rtqpcr-for-the-simultaneous-detection-of-the-four-human-enteric-enterovirus-species-in-disinfection-studies
#4
Hodon Ryu, Karen A Schrantz, Nichole E Brinkman, Laura A Boczek
A newly developed integrated cell culture reverse transcriptase quantitative PCR (ICC-RTqPCR) method and its applicability in UV disinfection studies is described. This method utilizes a cell culture system coupled with four RTqPCR assays to detect four species of human enterovirus (e.g., Enterovirus A, Enterovirus B, Enterovirus C and Enterovirus D). Evaluation of the RTqPCR assays was conducted with coxsackievirus A10, echovirus 30, poliovirus 1 and enterovirus 70 and resulted in 100% specificity for the tested assays...
May 17, 2018: Journal of Virological Methods
https://www.readbyqxmd.com/read/29778532/non-alcoholic-fatty-liver-disease-insights-from-sphingolipidomics
#5
David J Montefusco, Jeremy C Allegood, Sarah Spiegel, L Ashley Cowart
Non-alcoholic fatty liver disease (NAFLD) is a major clinical concern and its treatment consumes abundant resources. While accumulation of lipids in hepatocytes initiates the disease, this in itself is not necessarily harmful; rather, initiation of inflammation and subsequent fibrosis and cirrhosis are critical steps in NAFLD pathology. Mechanisms linking lipid overload to downstream disease progression are not fully understood; however, bioactive lipid metabolism may underlie instigation of proinflammatory signaling...
May 17, 2018: Biochemical and Biophysical Research Communications
https://www.readbyqxmd.com/read/29778222/exploring-dinoflagellate-biology-with-high-throughput-proteomics
#6
REVIEW
David Morse, Sirius P K Tse, Samuel C L Lo
Dinoflagellates are notorious for their ability to form the harmful algal blooms known as "red tides," yet the mechanisms underlying bloom formation remain poorly understood. Despite recent advances in nucleic acid sequencing, which have generated transcriptomes from a wide range of species exposed to a variety of different conditions, measuring changes in RNA levels have not generally produced great insight into dinoflagellate cell biology or environmental physiology, nor do we have a thorough grasp on the molecular events underpinning bloom formation...
May 2018: Harmful Algae
https://www.readbyqxmd.com/read/29778220/development-of-a-qpcr-assay-to-detect-and-quantify-ichthyotoxic-flagellates-along-the-norwegian-coast-and-the-first-norwegian-record-of-fibrocapsa-japonica-raphidophyceae
#7
Anette Engesmo, David Strand, Sandra Gran-Stadniczeñko, Bente Edvardsen, Linda K Medlin, Wenche Eikrem
Blooms of ichthyotoxic microalgae pose a great challenge to the aquaculture industry world-wide, and there is a need for fast and specific methods for their detection and quantification in monitoring programs. In this study, quantitative real-time PCR (qPCR) assays for the detection and enumeration of three ichthyotoxic flagellates: the dinoflagellate Karenia mikimotoi (Miyake & Kominami ex Oda) Hansen & Moestrup and the two raphidophytes Heterosigma akashiwo (Hada) Hada ex Hara & Chihara and Fibrocapsa japonica Toriumi & Takano were developed...
May 2018: Harmful Algae
https://www.readbyqxmd.com/read/29778165/simultaneous-pyridine-biodegradation-and-nitrogen-removal-in-an-aerobic-granular-system
#8
Xiaodong Liu, Shijing Wu, Dejin Zhang, Jinyou Shen, Weiqing Han, Xiuyun Sun, Jiansheng Li, Lianjun Wang
Simultaneous pyridine biodegradation and nitrogen removal were successfully achieved in a sequencing batch reactor (SBR) based on aerobic granules. In a typical SBR cycle, nitritation occurred obviously after the majority of pyridine was removed, while denitrification occurred at early stage of the cycle when oxygen consumption was aggravated. The effect of several key operation parameters, i.e., air flow rate, influent NH4 + -N concentration, influent pH and pyridine concentration, on nitritation, pyridine degradation and total nitrogen (TN) removal, was systematically investigated...
May 2018: Journal of Environmental Sciences (China)
https://www.readbyqxmd.com/read/29778154/effects-of-chlortetracycline-cu-and-their-combination-on-the-performance-and-microbial-community-dynamics-in-swine-manure-anaerobic-digestion
#9
Rui Wang, Junya Zhang, Jibao Liu, Dawei Yu, Hui Zhong, Yawei Wang, Meixue Chen, Juan Tong, Yuansong Wei
Swine manure was typical for the combined pollution of heavy metals and antibiotics. The effects of widely used veterinary antibiotic chlortetracycline (CTC), Cu and their combination on swine manure anaerobic digestion performance and microbial community have never been investigated. Thus, four 2L anaerobic digestion reactors were established including reactor A (control), B (CTC spiked by 0.5g/kg dry weight, dw), C (Cu spiked by 5g/kg dw) and D (combination of CTC, 0.5g/kg dw, and Cu, 5g/kg dw), and dynamics of bacterial and archaeal community structure was investigated using high throughput sequencing method...
May 2018: Journal of Environmental Sciences (China)
https://www.readbyqxmd.com/read/29778016/multiscale-reconstruction-of-a-synthetic-biomimetic-micro-niche-for-enhancing-and-monitoring-the-differentiation-of-stem-cells
#10
Rui Li, Jinming Li, Jianbin Xu, Dexter Siu Hong Wong, Xiaoyu Chen, Weihao Yuan, Liming Bian
Stem cells reside in a three-dimensional (3D) niche microenvironment, which provides specific cues, including cell-matrix interactions and soluble factors, that are essential to the differentiation of stem cells in vivo. Herein we demonstrate a general approach to the synthetic reconstruction of 3D biomimetic niche environment of stem cells by the multiscale combination of macroscopic porous hydrogels and a nanoscale upconversion nanoparticles (UCNP)-based nanocomplex. The porous biopolymeric hydrogels emulate the spongy bone microstructure and provide 3D environment conducive to the differentiation of seeded stem cells...
May 4, 2018: Biomaterials
https://www.readbyqxmd.com/read/29777622/comparative-analysis-of-the-bacterial-community-compositions-of-the-shrimp-intestine-surrounding-water-and-sediment
#11
Dongwei Hou, Zhijian Huang, Shenzheng Zeng, Jian Liu, Shaoping Weng, Jianguo He
AIMS: To reveal the relationship of the bacterial communities in shrimp intestine and surrounding environments. METHODS AND RESULTS: We examined bacterial communities in intestine of pacific white shrimp, Litopenaeus vannamei, the surrounding water and sediment by high-throughput sequencing analysis. Sequences were clustered into operational taxonomic units (OTUs) at 97% similarity levels, which ranged from 4,956 to 5,976 in each sample. All OTUs were affiliated with at least 64 phyla...
May 19, 2018: Journal of Applied Microbiology
https://www.readbyqxmd.com/read/29777376/comprehensive-molecular-diagnosis-of-epstein-barr-virus-associated-lymphoproliferative-diseases-using-next-generation-sequencing
#12
Shintaro Ono, Manabu Nakayama, Hirokazu Kanegane, Akihiro Hoshino, Saeko Shimodera, Hirofumi Shibata, Hisanori Fujino, Takahiro Fujino, Yuta Yunomae, Tsubasa Okano, Motoi Yamashita, Takahiro Yasumi, Kazushi Izawa, Masatoshi Takagi, Kohsuke Imai, Kejian Zhang, Rebecca Marsh, Capucine Picard, Sylvain Latour, Osamu Ohara, Tomohiro Morio
Epstein-Barr virus (EBV) is associated with several life-threatening diseases, such as lymphoproliferative disease (LPD), particularly in immunocompromised hosts. Some categories of primary immunodeficiency diseases (PIDs) including X-linked lymphoproliferative syndrome (XLP), are characterized by susceptibility and vulnerability to EBV infection. The number of genetically defined PIDs is rapidly increasing, and clinical genetic testing plays an important role in establishing a definitive diagnosis. Whole-exome sequencing is performed for diagnosing rare genetic diseases, but is both expensive and time-consuming...
May 18, 2018: International Journal of Hematology
https://www.readbyqxmd.com/read/29777105/phenotypic-diversification-by-enhanced-genome-restructuring-after-induction-of-multiple-dna-double-strand-breaks
#13
Nobuhiko Muramoto, Arisa Oda, Hidenori Tanaka, Takahiro Nakamura, Kazuto Kugou, Kazuki Suda, Aki Kobayashi, Shiori Yoneda, Akinori Ikeuchi, Hiroki Sugimoto, Satoshi Kondo, Chikara Ohto, Takehiko Shibata, Norihiro Mitsukawa, Kunihiro Ohta
DNA double-strand break (DSB)-mediated genome rearrangements are assumed to provide diverse raw genetic materials enabling accelerated adaptive evolution; however, it remains unclear about the consequences of massive simultaneous DSB formation in cells and their resulting phenotypic impact. Here, we establish an artificial genome-restructuring technology by conditionally introducing multiple genomic DSBs in vivo using a temperature-dependent endonuclease TaqI. Application in yeast and Arabidopsis thaliana generates strains with phenotypes, including improved ethanol production from xylose at higher temperature and increased plant biomass, that are stably inherited to offspring after multiple passages...
May 18, 2018: Nature Communications
https://www.readbyqxmd.com/read/29777104/optical-wireless-link-between-a-nanoscale-antenna-and-a-transducing-rectenna
#14
Arindam Dasgupta, Marie-Maxime Mennemanteuil, Mickaël Buret, Nicolas Cazier, Gérard Colas-des-Francs, Alexandre Bouhelier
Initiated as a cable-replacement solution, short-range wireless power transfer has rapidly become ubiquitous in the development of modern high-data throughput networking in centimeter to meter accessibility range. Wireless technology is now penetrating a higher level of system integration for chip-to-chip and on-chip radiofrequency interconnects. However, standard CMOS integrated millimeter-wave antennas have typical size commensurable with the operating wavelength, and are thus an unrealistic solution for downsizing transmitters and receivers to the micrometer and nanometer scale...
May 18, 2018: Nature Communications
https://www.readbyqxmd.com/read/29777089/human-plasma-and-serum-extracellular-small-rna-reference-profiles-and-their-clinical-utility
#15
Klaas E A Max, Karl Bertram, Kemal Marc Akat, Kimberly A Bogardus, Jenny Li, Pavel Morozov, Iddo Z Ben-Dov, Xin Li, Zachary R Weiss, Azadeh Azizian, Anuoluwapo Sopeyin, Thomas G Diacovo, Catherine Adamidi, Zev Williams, Thomas Tuschl
Circulating extracellular RNAs (exRNAs) have the potential to serve as biomarkers for a wide range of medical conditions. However, limitations in existing exRNA isolation methods and a lack of knowledge on parameters affecting exRNA variability in human samples may hinder their successful discovery and clinical implementation. Using combinations of denaturants, reducing agents, proteolysis, and revised organic extraction, we developed an automated, high-throughput approach for recovery of exRNAs and exDNA from the same biofluid sample...
May 18, 2018: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/29776628/molecular-pathology-techniques-advances-in-2018
#16
REVIEW
Mark J Bluth, Martin H Bluth
Molecular pathology techniques continue to evolve. Although polymerase chain reaction (PCR) remains the cornerstone methodology for nucleic acid amplification, improvements in nucleic acid detection methodologies (i.e. PCR) have increased the detection sensitivity by using fluorescent and bead based array technologies. Single base pair lesions can be detected via sequencing and related techniques to discern point mutations in disease pathogenesis. Novel technologies, such as high- resolution melting analysis, provide fast high throughput post PCR analysis of genetic mutations or variance in nucleic acid sequences...
June 2018: Clinics in Laboratory Medicine
https://www.readbyqxmd.com/read/29776627/introduction-molecular-medicine-in-the-common-era-applications-and-impact-of-molecular-pathology-in-health-and-disease
#17
REVIEW
Martin H Bluth
The unprecedented expansion of molecular pathology continues to affect and influence the clinical laboratory. Technological advances in high-throughput automation, cost containment, and refined methodology have improved the understanding of pathobiology through application of molecular pathology to multiple disease spaces. Incorporation of this field to emerging omics platforms, pharmacovigilance and biomarker discovery, and accessibility by lay consumers demonstrates the widespread reach of molecular pathology in the clinical marketplace...
June 2018: Clinics in Laboratory Medicine
https://www.readbyqxmd.com/read/29776438/uninterrupted-monitoring-of-drug-effects-in-human-induced-pluripotent-stem-cell-derived-cardiomyocytes-with-bioluminescence-ca-2-microscopy
#18
Kazushi Suzuki, Takahito Onishi, Chieko Nakada, Shunsuke Takei, Matthew J Daniels, Masahiro Nakano, Tomoki Matsuda, Takeharu Nagai
OBJECTIVE: Cardiomyocytes derived from human-induced pluripotent stem cells are a powerful platform for high-throughput drug screening in vitro. However, current modalities for drug testing, such as electrophysiology and fluorescence imaging have inherent drawbacks. To circumvent these problems, we report the development of a bioluminescent Ca2+ indicator GmNL(Ca2+ ), and its application in a customized microscope for high-throughput drug screening. RESULTS: GmNL(Ca2+ ) gives a 140% signal change with Ca2+ , and can image drug-induced changes of Ca2+ dynamics in cultured cells...
May 18, 2018: BMC Research Notes
https://www.readbyqxmd.com/read/29775913/mobile-phone-based-evaluation-of-latent-tuberculosis-infection-proof-of-concept-for-an-integrated-image-capture-and-analysis-system
#19
Safa Naraghi, Tinashe Mutsvangwa, René Goliath, Molebogeng X Rangaka, Tania S Douglas
BACKGROUND: The tuberculin skin test is the most widely used method for detecting latent tuberculosis infection in adults and active tuberculosis in children. We present the development of a mobile-phone based screening tool for measuring the tuberculin skin test induration. METHOD: The tool makes use of a mobile application developed on the Android platform to capture images of an induration, and photogrammetric reconstruction using Agisoft PhotoScan to reconstruct the induration in 3D, followed by 3D measurement of the induration with the aid of functions from the Python programming language...
May 8, 2018: Computers in Biology and Medicine
https://www.readbyqxmd.com/read/29775797/functional-screening-of-selective-mitochondrial-inhibitors-of-plasmodium
#20
Maria G Gomez-Lorenzo, Ane Rodríguez-Alejandre, Sonia Moliner-Cubel, María Martínez-Hoyos, Noemí Bahamontes-Rosa, Rubén Gonzalez Del Rio, Carolina Ródenas, Jesús de la Fuente, Jose Luis Lavandera, Jose F García-Bustos, Alfonso Mendoza-Losana
Phenotypic screening has produced most of the new chemical entities currently in clinical development for malaria, plus many lead compounds active against Plasmodium falciparum asexual stages. However, lack of knowledge about the mode of action of these compounds delays and may even hamper their future development. Identifying the mode of action of the inhibitors greatly helps to prioritise compounds for further development as novel antimalarials. Here we describe a whole-cell method to detect inhibitors of the mitochondrial electron transport chain, using oxygen consumption as high throughput readout in 384-well plate format...
May 9, 2018: International Journal for Parasitology, Drugs and Drug Resistance
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