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https://www.readbyqxmd.com/read/28810604/hard-clam-extracts-induce-atypical-apoptosis-in-human-gastric-cancer-cells
#1
Eing-Ju Song, Michael W Y Chan, Jyh-Wei Shin, Che-Chun Chen
Hard clams (HCs) are a nutritionally high-quality and popular seafood, and are established to be a potent antitumor food. The aim of the present study was to determine whether HC extracts induce apoptosis in the human gastric cancer cell line, AGS. In contrast with previously reported methods of extraction, crude extracts of HC were obtained by freezing and thawing and by a method free of hot water or organic solvents. The composition, quality and properties of the HC extracts were demonstrated to be stable since the extracts that were evaluated by capillary electrophoresis and HPLC analysis at different timepoints were similar...
August 2017: Experimental and Therapeutic Medicine
https://www.readbyqxmd.com/read/28805012/increasing-the-accuracy-and-precision-of-relative-telomere-length-estimates-by-rt-qpcr
#2
Justin R Eastwood, Ellis Mulder, Simon Verhulst, Anne Peters
Since attrition of telomeres, DNA caps that protect chromosome integrity, is accelerated by various forms of stress, telomere length (TL) has been proposed as an indicator of lifetime accumulated stress. In ecological studies it has been used to provide insights into aging, life-history trade-offs, the costs of reproduction and disease. qPCR is a high throughput and cost effective tool to measure relative TL (rTL) that can be applied to newly-collected and archived ecological samples. However, qPCR is susceptible to error both from the method itself and pre-analytical steps...
August 14, 2017: Molecular Ecology Resources
https://www.readbyqxmd.com/read/28794984/seasonality-richness-and-prevalence-of-intestinal-parasites-of-three-neotropical-primates-alouatta-seniculus-ateles-hybridus-and-cebus-versicolor-in-a-fragmented-forest-in-colombia
#3
Silvia Rondón, Mario Ortiz, Cielo León, Nelson Galvis, Andrés Link, Camila González
Studies on parasites infecting non-human primates are essential to better understand the potential threat to humans of zoonoses transmission, particularly under the current processes of pervasive land use change and biodiversity loss. The natural ecosystems in the Middle Magdalena river basin in Colombia have suffered a dramatic reduction and transformation into pastures and agroindustrial monocultures, threatening their biodiversity, and probably affecting the dynamics between parasites and their hosts, as well as altering the disease transmission cycles between wild populations and humans...
December 2017: International Journal for Parasitology. Parasites and Wildlife
https://www.readbyqxmd.com/read/28791410/bestrophin-1-gene-analysis-and-associated-clinical-findings-in-a-chinese-patient-with-best-vitelliform-macular-dystrophy
#4
Ying Lin, Tao Li, Hongbin Gao, Yu Lian, Chuan Chen, Yi Zhu, Yonghao Li, Bingqian Liu, Wenli Zhou, Hongye Jiang, Xialin Liu, Xiujuan Zhao, Xiaoling Liang, Chenjin Jin, Xinhua Huang, Lin Lu
The aim of the present study was to investigate the clinical characteristics and the underlying genetic causes of Best vitelliform macular dystrophy (BVMD) in a sporadic case in a Chinese patient. A 10‑year‑old boy was diagnosed with BVMD; complete ophthalmic examinations were performed, including best‑corrected visual acuity, intraocular pressure, slit‑lamp examination, fundus photograph, optical coherence tomography and fundus fluorescein angiography imaging. Genomic DNA was extracted from leukocytes of the peripheral blood collected from this patient and his family members...
August 4, 2017: Molecular Medicine Reports
https://www.readbyqxmd.com/read/28777846/-identification-of-a-novel-mutation-of-agl-gene-in-two-siblings-affected-with-glycogen-storage-disease-type-iiia
#5
Li Guo, Weixia Lin, Man Mao, Yuanzong Song
OBJECTIVE: To detect potential mutation of the AGL gene in two siblings affected with glycogen storage disease type IIIa. METHODS: Clinical data of the two siblings was collected and analyzed. Genomic DNA was extracted from peripheral venous blood samples from the patients and their parents. All exons and their flanking sequences of the AGL gene were subjected to PCR amplification and Sanger sequencing. Suspected mutation was verified in 75 healthy controls. RESULTS: The main clinical features of the two siblings included hypoglycemia and hepatomegaly, along with markedly elevated liver and myocardial enzymes...
August 10, 2017: Zhonghua Yi Xue Yi Chuan Xue za Zhi, Zhonghua Yixue Yichuanxue Zazhi, Chinese Journal of Medical Genetics
https://www.readbyqxmd.com/read/28777844/-a-novel-mutation-of-gli3-gene-underlying-synpolydactyly-in-a-family
#6
Ranran Kang, Sexin Huang, Jie Li, Yang Zou, Peiwen Xu, Ming Gao, Lijuan Wang, Hongqiang Xie, Junhao Yan, Yuan Gao
OBJECTIVE: To detect mutation of GLI3 gene in a family affected with autosomal dominant synpolydactyly. METHODS: Genomic DNA was extracted from peripheral blood samples from members of the family and 100 unrelated healthy controls. Potential mutation was screened by next-generation sequencing and confirmed by Sanger sequencing. RESULTS: A heterozygous frameshift mutation c.480dupC was identified in the GLI3 gene among all patients from the family...
August 10, 2017: Zhonghua Yi Xue Yi Chuan Xue za Zhi, Zhonghua Yixue Yichuanxue Zazhi, Chinese Journal of Medical Genetics
https://www.readbyqxmd.com/read/28776955/antineoplastic-effects-of-histone-deacetylase-inhibitors-in-neuroendocrine-cancer-cells-are-mediated-through-transcriptional-regulation-of-notch1-by-activator-protein-1
#7
Samuel Jang, Haining Jin, Madhuchhanda Roy, Alice L Ma, Shaoqin Gong, Renata Jaskula-Sztul, Herbert Chen
Notch signaling is minimally active in neuroendocrine (NE) cancer cells. While histone deacetylase inhibitors (HDACi) suppress NE cancer growth by inducing Notch, the molecular mechanism underlying this interplay has not yet been defined. NE cancer cell lines BON, H727, and MZ-CRC-1 were treated with known HDACi Thailadepsin-A (TDP-A) and valproic acid (VPA), and Notch1 mRNA expression was measured with RT-PCR. Truncated genomic fragments of the Notch1 promotor region fused with luciferase reporter were used to identify the potential transcription factor (TF) binding site...
August 4, 2017: Cancer Medicine
https://www.readbyqxmd.com/read/28771972/a-new-insight-into-cftr-allele-frequency-in-brazil-through-next-generation-sequencing
#8
Luisa M Nunes, Roberto Ribeiro, Vivian D T Niewiadonski, Ester Sabino, Guilherme L Yamamoto, Débora R Bertola, Nelson Gaburo, Luiz Vicente R F da Silva Filho
BACKGROUND: As of 2013, fewer than 20% of patients in the Brazilian CF Registry had two CFTR mutations identified. The aim of this study was to sequence the coding region of the CFTR in Brazilian CF patients and determine the frequency of mutations in this cohort. METHODS: Patients with CF and those with suspected atypical CF or CFTR-related disorders were invited to enroll. Total DNA was extracted from blood samples, quantified, and purified. Library preparation was performed using Ion Xpress™ Plus gDNA and Amplicon Library preparation kits (Life Technologies), as well as sequencing using the Ion Torrent platform (Life Technologies)...
August 3, 2017: Pediatric Pulmonology
https://www.readbyqxmd.com/read/28771897/clinical-and-mutational-spectrum-of-charcot-marie-tooth-disease-type-2z-caused-by-morc2-variants-in-japan
#9
M Ando, Y Okamoto, A Yoshimura, J-H Yuan, Y Hiramatsu, Y Higuchi, A Hashiguchi, J Mitsui, H Ishiura, S Fukumura, M Matsushima, N Ochi, J Tsugawa, S Morishita, S Tsuji, H Takashima
BACKGROUND AND PURPOSE: The microrchidia family CW-type zinc finger 2 gene (MORC2) was newly identified as a causative gene of Charcot-Marie-Tooth disease (CMT) type 2Z in 2016. We aimed to describe the clinical and mutational spectrum of patients with CMT harboring MORC2 mutations in Japan. METHODS: We analyzed samples from 781 unrelated patients clinically diagnosed with CMT using deoxyribonucleic acid microarray or targeted resequencing by next-generation sequencing, and samples from 434 mutation-negative patients were subjected to whole-exome sequencing...
August 3, 2017: European Journal of Neurology: the Official Journal of the European Federation of Neurological Societies
https://www.readbyqxmd.com/read/28767689/crisprpred-a-flexible-and-efficient-tool-for-sgrnas-on-target-activity-prediction-in-crispr-cas9-systems
#10
Md Khaledur Rahman, M Sohel Rahman
The CRISPR/Cas9-sgRNA system has recently become a popular tool for genome editing and a very hot topic in the field of medical research. In this system, Cas9 protein is directed to a desired location for gene engineering and cleaves target DNA sequence which is complementary to a 20-nucleotide guide sequence found within the sgRNA. A lot of experimental efforts, ranging from in vivo selection to in silico modeling, have been made for efficient designing of sgRNAs in CRISPR/Cas9 system. In this article, we present a novel tool, called CRISPRpred, for efficient in silico prediction of sgRNAs on-target activity which is based on the applications of Support Vector Machine (SVM) model...
2017: PloS One
https://www.readbyqxmd.com/read/28762037/genetic-polymorphism-of-growth-differentiation-factor-9-gdf9-gene-related-to-fecundity-in-two-egyptian-sheep-breeds
#11
Zaki A El Fiky, Gamal M Hassan, Mohamed I Nassar
PURPOSE: This study explores polymorphisms in the growth differentiation factor 9 (GDF9) gene (exon 1) with respect to fertility in Egyptian sheep. METHODS: Blood samples were collected, and genomic DNA was extracted from 24 Saidi and 13 Ossimi ewes. A 710 bp portion of the GDF9 gene, was amplified using specific primers, and the sequence was analyzed to clarify the phylogenetic relationship of Egyptian breed sheep. In addition, the PCR-RFLP method using Pst1 or Msp1 restriction enzymes was used to mask polymorphisms of partial exon 1 of GDF9 gene to establish molecular markers for twinning...
July 31, 2017: Journal of Assisted Reproduction and Genetics
https://www.readbyqxmd.com/read/28760680/genetic-analysis-of-a-per-2-producing-shewanella-spp-strain-harboring-a-variety-of-mobile-genetic-elements-and-antibiotic-resistant-determinants
#12
Marisa Almuzara, Sabrina Montaña, Terese Lazzaro, Sylvia Uong, Gisela Parmeciano Di Noto, German Traglia, Romina Bakai, Daniela Centrón, Andrés Iriarte, Cecilia Quiroga, Maria Soledad Ramirez
OBJECTIVE: The goal of this work is to investigate the molecular mechanisms that explain the multidrug resistant phenotype found in a novel clinical Shewanella spp. strain (Shew256) recovered from a diabetic patient. METHODS: The whole-genome shotgun sequencing was obtained with Illumina MiSeq-I and Nextera XT DNA library. De novo assembly was performed with SPADES. RAST was used to predict the open reading frames and the predictions were confirmed using BLAST. Further genomic analysis was carried out using average nucleotide identity (ANI), ACT (Artemis), OrthoMCL, ARG-ANNOT, ISFinder, PHAST, tRNAscan-SE, plasmidSPAdes, PlasmidFinder and MAUVE...
July 28, 2017: Journal of Global Antimicrobial Resistance
https://www.readbyqxmd.com/read/28757772/using-high-resolution-human-leukocyte-antigen-typing-of-11-423-randomized-unrelated-individuals-to-determine-allelic-varieties-deduce-probable-human-leukocyte-antigen-haplotypes-and-observe-linkage-disequilibria-between-human-leukocyte-antigen-b-and-c-and-human
#13
Kuo-Liang Yang, Hsee-Bin Chen
OBJECTIVE: We report here the human leukocyte antigen (HLA) allelic variety and haplotype composition in a cohort of the Taiwanese Chinese population and their patterns of linkage disequilibria on HLA-B: HLA-C alleles and HLA-DRB1: HLA-DQB1 alleles at a high-resolution level. MATERIALS AND METHODS: Peripheral whole blood from 11,423 Taiwanese Chinese unrelated individuals was collected in acid citrate dextrose. Genomic DNA was extracted using the QIAamp DNA Blood Mini Kit...
April 2017: Ci Ji Yi Xue za Zhi, Tzu-chi Medical Journal
https://www.readbyqxmd.com/read/28757039/genomic-characterisation-of-felis-catus-papillomavirus-type-5-with-proposed-classification-within-a-new-papillomavirus-genus
#14
John S Munday, Keren E Dittmer, Neroli A Thomson, Simon F Hills, Rebecca E Laurie
Four Felis catus papillomavirus (FcaPV) types have been fully sequenced from domestic cats. Of these, FcaPV-2 and -3 are thought to cause feline viral plaques and Bowenoid in situ carcinomas. Two short sequences of DNA from a previously unreported PV type were amplified from a feline viral plaque using consensus PCR primers. DNA was then extracted from a swab of the lesion and two sets of 'outward facing' primers were designed using the short sequences to amplify the entire 7600bp genome of the novel PV. The PV was designated FcaPV-5 and contained putative coding regions that were predicted to produce five early proteins and two late ones...
August 2017: Veterinary Microbiology
https://www.readbyqxmd.com/read/28749477/mapping-the-genomic-landscape-of-inherited-retinal-disease-genes-prioritizes-genes-prone-to-coding-and-noncoding-copy-number-variations
#15
Kristof Van Schil, Sarah Naessens, Stijn Van de Sompele, Marjolein Carron, Alexander Aslanidis, Caroline Van Cauwenbergh, Anja Kathrin Mayer, Mattias Van Heetvelde, Miriam Bauwens, Hannah Verdin, Frauke Coppieters, Michael E Greenberg, Marty G Yang, Marcus Karlstetter, Thomas Langmann, Katleen De Preter, Susanne Kohl, Timothy J Cherry, Bart P Leroy, Elfride De Baere
PurposePart of the hidden genetic variation in heterogeneous genetic conditions such as inherited retinal diseases (IRDs) can be explained by copy-number variations (CNVs). Here, we explored the genomic landscape of IRD genes listed in RetNet to identify and prioritize those genes susceptible to CNV formation.MethodsRetNet genes underwent an assessment of genomic features and of CNV occurrence in the Database of Genomic Variants and literature. CNVs identified in an IRD cohort were characterized using targeted locus amplification (TLA) on extracted genomic DNA...
July 27, 2017: Genetics in Medicine: Official Journal of the American College of Medical Genetics
https://www.readbyqxmd.com/read/28748911/a-novel-and-quick-pcr-based-method-to-genotype-mice-with-a-leptin-receptor-mutation-db-db-mice
#16
Bao-Yu Peng, Qiang Wang, Yan-Hong Luo, Jian-Feng He, Tao Tan, Hua Zhu
db/db mice is one of most widely used animal models in studying the cellular and molecular mechanisms of metabolic disorders, such as diabetes, hyperlipidemia, and obesity. The mice carry spontaneous point mutations in the gene encoding the leptin receptor, leading to leptin receptor inactivation. Since homozygous db/db mice are sterile, the maintenance of db/db mice requires breeding between heterozygous pairs, which makes genotyping essential for the identification of offspring. The aim of this study was to develop a quick and highly repeatable method for genotyping db/db mice, which comprised only three simple steps: Genomic DNA is extracted from either tail tips or ear notches via alkaline lysis (∼20 min); Samples are then subjected to tetra-primer amplification refractory mutation system-polymerase chain reaction (ARMS-PCR) using specially designed and validated primer sets (∼1...
July 27, 2017: Acta Pharmacologica Sinica
https://www.readbyqxmd.com/read/28747725/echinomycin-inhibits-adipogenesis-in-3t3-l1-cells-in-a-hif-independent-manner
#17
Junna Yamaguchi, Tetsuhiro Tanaka, Hisako Saito, Seitaro Nomura, Hiroyuki Aburatani, Hironori Waki, Takashi Kadowaki, Masaomi Nangaku
Obesity is a risk factor for many diseases including diabetes, cancer, cardiovascular disease, and chronic kidney disease. Obesity is characterized by the expansion of white adipose tissue (WAT). Hypertrophy and hyperplasia of adipocytes cause tissue hypoxia followed by inflammation and fibrosis. Its trigger, preadipocyte differentiation into mature adipocytes, is finely regulated by transcription factors, signal molecules, and cofactors. We found that echinomycin, a potent HIF-1 inhibitor, completely inhibited adipogenesis in 3T3-L1 WAT preadipocytes by affecting the early phase of mitotic clonal expansion...
July 26, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28746806/disposable-amperometric-polymerase-chain-reaction-free-biosensor-for-direct-detection-of-adulteration-with-horsemeat-in-raw-lysates-targeting-mitochondrial-dna
#18
Víctor Ruiz-Valdepeñas Montiel, María L Gutiérrez, Rebeca M Torrente-Rodríguez, Eloy Povedano, Eva Vargas, Á Julio Reviejo, Rosario Linacero, Francisco J Gallego, Susana Campuzano, José M Pingarrón
A novel electrochemical disposable nucleic acid biosensor for simple, rapid, and specific detection of adulterations with horsemeat is reported in this work. The biosensing platform involves immobilization of a 40-mer RNA probe specific for a characteristic fragment of the mitochondrial DNA D-loop region of horse onto the surface of magnetic microcarriers. In addition, signal amplification was accomplished by using a commercial antibody specific to RNA/DNA duplexes and a bacterial protein conjugated with a horseradish peroxidase homopolymer (ProtA-HRP40)...
August 10, 2017: Analytical Chemistry
https://www.readbyqxmd.com/read/28742856/fit-for-genomic-and-proteomic-purposes-sampling-the-fitness-of-nucleic-acid-and-protein-derivatives-from-formalin-fixed-paraffin-embedded-tissue
#19
Anna Yakovleva, Jordan L Plieskatt, Sarah Jensen, Razan Humeida, Jonathan Lang, Guangzhao Li, Paige Bracci, Sylvia Silver, Jeffrey Michael Bethony
The demand for nucleic acid and protein derivatives from formalin-fixed paraffin-embedded (FFPE) tissue has greatly increased due to advances in extraction and purification methods, making these derivatives available for numerous genomic and proteomic platforms. Previously, DNA, RNA, microRNA (miRNA), or protein derived from FFPE tissue blocks were considered "unfit" for such platforms, as the process of tissue immobilization by FFPE resulted in cross-linked, fragmented, and chemically modified macromolecules...
2017: PloS One
https://www.readbyqxmd.com/read/28739301/a-new-pcr-assay-for-the-detection-and-differentiation-of-babesia-canis-and-babesia-vogeli
#20
Giada Annoscia, Maria Stefania Latrofa, Cinzia Cantacessi, Emanuela Olivieri, Maria Teresa Manfredi, Filipe Dantas-Torres, Domenico Otranto
Babesia spp. are globally distributed tick-borne protozoan parasites that infect the red blood cells of a wide range of vertebrate hosts, including humans. Diagnosis of babesiosis is often impeded by the transient presence of the parasites in peripheral blood, as well as by their pleomorphic nature. Given the reports of an expanding and, in some cases, sympatric geographical distribution of Babesia canis and Babesia vogeli in dogs and associated vectors, in Europe, the development of time-efficient and cost-effective diagnostic tools to detect and differentiate these two species is warranted...
July 8, 2017: Ticks and Tick-borne Diseases
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