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hybridization chain reaction

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https://www.readbyqxmd.com/read/28098177/an-extended-n-h-bond-driven-by-a-conserved-second-order-interaction-orients-the-flavin-n5-orbital-in-cholesterol-oxidase
#1
Emily Golden, Li-Juan Yu, Flora Meilleur, Matthew P Blakeley, Anthony P Duff, Amir Karton, Alice Vrielink
The protein microenvironment surrounding the flavin cofactor in flavoenzymes is key to the efficiency and diversity of reactions catalysed by this class of enzymes. X-ray diffraction structures of oxidoreductase flavoenzymes have revealed recurrent features which facilitate catalysis, such as a hydrogen bond between a main chain nitrogen atom and the flavin redox center (N5). A neutron diffraction study of cholesterol oxidase has revealed an unusual elongated main chain nitrogen to hydrogen bond distance positioning the hydrogen atom towards the flavin N5 reactive center...
January 18, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28093630/brassica-napus-ds-3-encoding-a-della-protein-negatively-regulates-stem-elongation-through-gibberellin-signaling-pathway
#2
Bo Zhao, Haitao Li, Juanjuan Li, Bo Wang, Cheng Dai, Jing Wang, Kede Liu
Identification and characterization of a semi-dwarfing gene ds-3 encoding a mutant DELLA protein regulating plant height through gibberellin signaling pathway. Lodging is one of the most important factors causing severe yield loss in oilseed rape. Utilization of semi-dwarf varieties has been proved the most effective way to increase lodging resistance and yield in many crops. To develop semi-dwarf germplasm in oilseed rape, we identified a semi-dwarf mutant ds-3 which showed a reduced response to phytohormones gibberellins (GAs)...
January 16, 2017: TAG. Theoretical and Applied Genetics. Theoretische und Angewandte Genetik
https://www.readbyqxmd.com/read/28093127/magnetic-beads-based-dna-hybridization-chain-reaction-amplification-and-dnazyme-recognition-for-colorimetric-detection-of-uranyl-ion-in-seafood
#3
Hongyan Zhang, Xian Cheng, Lian Chen, Fan Mo, LiangJun Xu, FengFu Fu
A novel colorimetric biosensor, which employs DNAzyme-functionalized magnetic beads (MBs) as recognition probe, enzyme-assisted catalytic oxidation of TMB (3,3',5,5'-tetramethylbenzidine sulfate) as signal and DNA hybridization chain reaction as amplification strategy, has been developed for detecting trace uranyl ion (UO2(2+)) in seafood and aqueous environment with high sensitivity and specificity. We demonstrated that UO2(2+) can specifically cleave DNAzyme immobilized on MBs surface to release a short single-strand DNA (primer), and the released primer trigger DNA hybridization chain reaction to form a long one dimensional DNA concatamer on the MBs surface...
March 1, 2017: Analytica Chimica Acta
https://www.readbyqxmd.com/read/28092433/design-and-analysis-of-localized-dna-hybridization-chain-reactions
#4
Hieu Bui, Vincent Miao, Sudhanshu Garg, Reem Mokhtar, Tianqi Song, John Reif
Theoretical models of localized DNA hybridization reactions on nanoscale substrates indicate potential benefits over conventional DNA hybridization reactions. Recently, a few approaches have been proposed to speed-up DNA hybridization reactions; however, experimental confirmation and quantification of the acceleration factor have been lacking. Here, a system to investigate localized DNA hybridization reactions on a nanoscale substrate is presented. The system consists of six metastable DNA hairpins that are tethered to a long DNA track...
January 16, 2017: Small
https://www.readbyqxmd.com/read/28088955/-effect-of-kr%C3%A3-ppel-like-zinc-finger-transcription-factor-2-on-%C3%AE-glutamylcysteine-synthetase-in-bronchial-epithelial-cells-of-chronic-obstructive-pulmonary-disease
#5
J Li, A G Dai, C Y Huang, R C Hu
Objective: To research the regulation effects of Krüppel like zinc finger transcription factor 2 (KLF2) on γ-glutamylcysteine synthetase (γ-GCS) in airway epithelial cells of chronic obstructive pulmonary disease (COPD). Methods: (1) Human specimen experiment: lung tissue of pulmonary lobectomy patients with lung cancer with or without COPD was collected from Department of Thoracic Surgery of Hunan Cancer Hospital from December 2008 to December 2009. The patients were divided into COPD group and control group without COPD...
January 10, 2017: Zhonghua Yi Xue za Zhi [Chinese medical journal]
https://www.readbyqxmd.com/read/28086795/atherosclerotic-and-thrombotic-genetic-and-environmental-determinants-in-egyptian-coronary-artery-disease-patients-a-pilot-study
#6
Manal S Fawzy, Eman A Toraih, Nagwa M Aly, Abeer Fakhr-Eldeen, Dahlia I Badran, Mohammad H Hussein
BACKGROUND: Coronary artery disease (CAD) is the leading cause of morbidity and mortality worldwide. Multiple genetic variants in combination with various environmental risk factors have been implicated. This study aimed to investigate the association of twelve thrombotic and atherosclerotic gene variants in combination with other environmental risk factors with CAD risk in a preliminary sample of Egyptian CAD patients. METHODS: Twenty three consecutive CAD patients undergoing diagnostic coronary angiography and 34 unrelated controls, have been enrolled in the study...
January 13, 2017: BMC Cardiovascular Disorders
https://www.readbyqxmd.com/read/28079290/clamped-hybridization-chain-reactions-for-the-self-assembly-of-patterned-dna-hydrogels
#7
Jianbang Wang, Jie Chao, Huajie Liu, Shao Su, Lianhui Wang, Wei Huang, Itamar Willner, Chunhai Fan
DNA hydrogels hold great potential for biological and biomedical applications owing to their programmable nature and macroscopic sizes. However, most previous studies involve spontaneous and homogenous gelation procedures in solution, which often lack precise control. A clamped hybridization chain reaction (C-HCR)-based strategy has been developed to guide DNA self-assembly to form macroscopic hydrogels. Analogous to catalysts in chemical synthesis or seeds in crystal growth, we introduced DNA initiators to induce the gelation process, including crosslinked self-assembly and clamped hybridization in three dimensions with spatial and temporal control...
January 12, 2017: Angewandte Chemie
https://www.readbyqxmd.com/read/28070921/brm-smarca2-negative-clear-cell-renal-cell-carcinoma-is-associated-with-a-high-percentage-of-brm-somatic-mutations-deletions-and-promoter-methylation
#8
Qiu-Yuan Xia, Xue-Mei Zhan, Xiang-Shan Fan, Sheng-Bing Ye, Shan-Shan Shi, Rui Li, Xue Wei, Xuan Wang, Heng-Hui Ma, Zhen-Feng Lu, Xiao-Jun Zhou, Qiu Rao
AIMS: The aim of this study was to investigate potential molecular mechanisms associated with loss of BRM expression in poorly differentiated clear cell renal cell carcinoma (ccRCC). METHODS AND RESULTS: Nineteen previously selected BRM-negative RCC tissues were examined by DNA sequencing, fluorescence in-situ hybridization (FISH) and methylation-specific polymerase chain reaction (PCR) of the BRM gene. BRM mutation was identified in 78.9% (15 of 19) cases, chromosome 9 monosomy or BRM deletion in 43...
November 7, 2016: Histopathology
https://www.readbyqxmd.com/read/28069083/pcr-primers-for-straightforward-differentiation-of-haemonchus-contortus-haemonchus-placei-and-their-hybrids
#9
M R V Amarante, M C Santos, C C Bassetto, A F T Amarante
Haemonchus contortus and Haemonchus placei are among the major parasites of small ruminants and cattle. Although infection with these nematodes is host-specific, with H. placei predominating in cattle and H. contortus in sheep, cross-infections are observed in areas where both parasites are sympatric, and hybrid offspring can occur. Therefore, a fast and precise method is required for differentiating the parasites. Identification based on spicule morphometry is the most common technique for differentiating Haemonchus species...
January 10, 2017: Journal of Helminthology
https://www.readbyqxmd.com/read/28065229/detection-of-echinoderm-microtubule-associated-protein-like-4-anaplastic-lymphoma-kinase-fusion-genes-in-non-small-cell-lung-cancer-clinical-samples-by-a-real-time-quantitative-reverse-transcription-polymerase-chain-reaction-method
#10
Jing Zhao, Jin-Yin Zhao, Zhi-Xia Chen, Wei Zhong, Long-Yun Li, Li-Cheng Liu, Xiao-Xu Hu, Wei-Jun Chen, Meng-Zhao Wang
Objective To establish a real-time quantitative reverse transcription polymerase chain reaction assay (qRT-PCR) for the rapid, sensitive, and specific detection of echinoderm microtubule associated protein like 4-anaplastic lymphoma kinase (EML4-ALK) fusion genes in non-small cell lung cancer. Methods The specific primers for the four variants of EML4-ALK fusion genes (V1, V2, V3a, and V3b) and Taqman fluorescence probes for the detection of the target sequences were carefully designed by the Primer Premier 5...
December 20, 2016: Zhongguo Yi Xue Ke Xue Yuan Xue Bao. Acta Academiae Medicinae Sinicae
https://www.readbyqxmd.com/read/28064313/-biological-microchip-for-establishing-the-structure-of-fusion-transcripts-involving-mll-in-children-with-acute-leukemia
#11
T V Nasedkina, A Yu Ikonnikova, G A Tsaur, A V Karateeva, Yu I Ammour, M A Avdonina, A I Karachunskii, A S Zasedatelev
MLL is involved in fusion genes with more than 100 partner genes, approximately 80 of which have been characterized at the molecular level. MLL fusion genes are often found in infants (60-80% of acute lymphoblastic leukemia (ALL) cases and 40-50% of acute myeloblastic leukemia (AML) cases) and are appreciably rarer (8-10%) in children older than 1 year of age. MLL rearrangements are important markers in diagnosis and treatment choice. To identify the partner gene is of primary importance for prognosis and minimal residual disease monitoring...
November 2016: Molekuliarnaia Biologiia
https://www.readbyqxmd.com/read/28059412/stepwise-cyclopropanation-on-the-polycyclopropanated-polyketide-formation-in-jawsamycin-biosynthesis
#12
Tomoshige Hiratsuka, Hideaki Suzuki, Atsushi Minami, Hideaki Oikawa
Jawsamycin is a polyketide-nucleoside hybrid with a unique polycyclopropane moiety on a single polyketide chain. The unexpected isolation of cyclopropane deficient jawsamycin analogs allowed us to propose a stepwise cyclopropanation mechanism for the enzymatic synthesis of this polyketide. The concise timing of the cyclopropanation could be regulated by a delicate balance between reaction rates of the condensation and cyclopropanation reactions.
January 6, 2017: Organic & Biomolecular Chemistry
https://www.readbyqxmd.com/read/28056441/a-dna-stabilized-silver-nanoclusters-graphene-oxide-based-platform-for-the-sensitive-detection-of-dna-through-hybridization-chain-reaction
#13
Siqi Zhang, Kun Wang, Kai-Bin Li, Wei Shi, Wen-Ping Jia, Xiaoying Chen, Ting Sun, De-Man Han
A silver nanoclusters (AgNCs)/graphene oxide (GO)-based fluorescence sensor was developed for label-free DNA detection through hybridization chain reaction (HCR). A DNA sequence associated with the human immunodeficiency virus (HIV) was selected as a model target. Two DNA probes, hairpin probe 1 (H1) and hairpin probe 2 (H2), were partially complementary. GO was used as an adsorption material to capture the hairpin probes and a selective fluorescence quencher was used to reduce the background signal. Upon addition of AgNO3 and NaBH4, the AgNCs were synthesized at the terminals of the H1 and H2 probes...
December 30, 2016: Biosensors & Bioelectronics
https://www.readbyqxmd.com/read/28056099/integrated-analysis-of-genome-wide-copy-number-alterations-and-gene-expression-profiling-of-lung-cancer-in-xuanwei-china
#14
Yanliang Zhang, Qiuyue Xue, Guoqing Pan, Qing H Meng, Xiaoyu Tuo, Xuemei Cai, Zhenghui Chen, Ya Li, Tao Huang, Xincen Duan, Yong Duan
OBJECTIVES: Lung cancer in Xuanwei (LCXW), China, is known throughout the world for its distinctive characteristics, but little is known about its pathogenesis. The purpose of this study was to screen potential novel "driver genes" in LCXW. METHODS: Genome-wide DNA copy number alterations (CNAs) were detected by array-based comparative genomic hybridization and differentially expressed genes (DEGs) by gene expression microarrays in 8 paired LCXW and non-cancerous lung tissues...
2017: PloS One
https://www.readbyqxmd.com/read/28055240/multimodality-technologies-in-the-assessment-of-hematolymphoid-neoplasms
#15
Shiyong Li, David L Jaye, Kyle T Bradley, Linsheng Zhang, Debra Saxe, George Deeb, Charlie E Hill, Karen P Mann
Accurate assessment of tissues for hematolymphoid neoplasms requires an integrated multiparameter approach. Although morphologic examination by light microscopy remains the mainstay of initial assessment for hematolymphoid neoplasms, immunophenotypic analysis by immunohistochemistry and/or flow cytometry is essential to determine the pattern of differentiation and to detect minimal disease when morphology is inconclusive. In some cases, immunophenotypic analysis provides additional information for targeted immunotherapy and prognostication...
January 5, 2017: Archives of Pathology & Laboratory Medicine
https://www.readbyqxmd.com/read/28053840/no-detection-of-episomal-or-integrated-high-risk-human-papillomavirus-in-nonsmall-cell-lung-carcinomas-among-korean-population
#16
Jeong Eun Lee, Yong-Moon Lee, In-Ock Seong, Min-Woong Kang, Choong Sik Lee, Kyung-Hee Kim
OBJECTIVES: High-risk human papillomavirus (hrHPV) is known to be a representative cancer-causing agent in the genital and head and neck regions. Many studies have detected hrHPV DNA in nonsmall cell lung carcinoma. However, hrHPV-etiologic correlation in nonsmall cell lung carcinoma remains unclear. This study is designed to determine the prevalence of episomal or integrated hrHPV DNA in nonsmall cell lung carcinoma among the Korean population. METHODS: Surgically resected nonsmall cell lung carcinoma tissues, including 134 cases of squamous cell carcinoma (SqCC) and 99 cases of adenocarcinoma (ADC), were examined...
December 2016: Osong Public Health and Research Perspectives
https://www.readbyqxmd.com/read/28049404/cystic-fibrosis-mutation-detection-with-spr-biosensor-in-real-samples-via-multiple-surfaces-binding-method
#17
Yasin Ugur Kayran, Dilsat Ozkan-Ariksoysal, Seda Nur Topkaya, Burcin Tezcanli Kaymaz, Buket Kosova Can
Surface Plasmon Resonance (SPR) based biosensor system was developed for the detection of Delta F508 (DF508del) Cystic Fibrosis (CF) mutation in both synthetic and real samples. In order to provide an effective hybridization between probe and the Polymerase Chain Reaction (PCR) amplicons (target), streptavidin was bound to the surface and biotin-tag probe was sent to the streptavidin-coated surface. For the target preparation, blood samples were collected from the patients who suffer from CF. Following the DNA isolation; samples were amplified with PCR with biotin-tag...
January 3, 2017: Combinatorial Chemistry & High Throughput Screening
https://www.readbyqxmd.com/read/28049087/sequestration-of-dyes-from-artificially-prepared-textile-effluent-using-rsm-ccd-optimized-hybrid-backbone-based-adsorbent-kinetic-and-equilibrium-studies
#18
Sukriti, Jitender Sharma, Amritpal Singh Chadha, Vaishali Pruthi, Prerna Anand, Jaspreet Bhatia, B S Kaith
Present work reports the synthesis of semi-Interpenetrating Network Polymer (semi-IPN) using Gelatin-Gum xanthan hybrid backbone and polyvinyl alcohol in presence of l-tartaric acid and ammonium persulphate as the crosslinker-initiator system. Reaction parameters were optimized with Response Surface Methodology (RSM) in order to maximize the percent gel fraction of the synthesized sample. Polyvinyl alcohol, l-Tartaric acid, ammonium persulphate, reaction temperature, time and pH of the reaction medium were found to make an impact on the percentage gel fraction obtained...
December 31, 2016: Journal of Environmental Management
https://www.readbyqxmd.com/read/28043600/benefits-and-challenges-of-molecular-diagnostics-for-childhood-tuberculosis
#19
Cristina Gutierrez
Expanding tuberculosis (TB)-diagnostic services, including access to rapid tests, is a World Health Organization (WHO) strategy to accelerate progress toward ending TB. Faster and more sensitive molecular tests capable of diagnosing TB and drug-resistant TB have the technical capacity to address limitations associated with smears and cultures by increasing accuracy and shortening turnaround times as compared with those of these conventional laboratory methods. Nucleic acid amplification assays used to detect and analyze Mycobacterium tuberculosis (MTB)-complex nucleic acids can be used directly on specimens from patients suspected of having TB...
December 2016: International Journal of Mycobacteriology
https://www.readbyqxmd.com/read/28040139/prenatal-diagnosis-of-paternal-duplication-of-11p15-5%C3%A2-14-3-its-implication-of-beckwith-wiedemann-syndrome
#20
Kuan Ju Chen, Yu Mei Liu, Chien Hong Li, Yao Lung Chang, Shuenn Dyh Chang
OBJECTIVE: To characterize a prenatally detected chromosomal aberration with molecular cytogenetic approaches and explore its relationship with Beckwith-Wiedemann syndrome (BWS). CASE REPORT: A 33-year-old woman, gravida 2, para 0, was referred to our prenatal clinic at 20+ weeks due to an abnormal amniocentesis karyotyping finding, which showed 46,XY,add(11)(q24.2)dn. The mother conceived through in vitro fertilization-intracytoplasmic sperm injection (IVF-ICSI), then embryo transfer...
December 2016: Taiwanese Journal of Obstetrics & Gynecology
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