keyword
MENU ▼
Read by QxMD icon Read
search

A primer

keyword
https://www.readbyqxmd.com/read/29786935/evaluation-of-pcr-primers-targeting-the-groel-gene-for-the-specific-detection-of-streptococcus-agalactiae-in-the-context-of-aquaculture
#1
W J Leigh, R N Zadoks, A Jaglarz, J Z Costa, G Foster, K D Thompson
AIMS: The aim of this study was to design a set of primers for specific detection and identification of Streptococcus agalactiae in polymerase chain reaction (PCR) that can detect a diverse range of S. agalactiae isolates from different hosts and that it is capable of discriminating between S. agalactiae and other species that are closely related or potentially present in aquaculture environments, notably Streptococcus iniae. METHODS AND RESULTS: Primers, based on the groEL2 gene of S...
May 22, 2018: Journal of Applied Microbiology
https://www.readbyqxmd.com/read/29785500/boosting-the-efficiency-of-site-saturation-mutagenesis-for-a-difficult-to-randomize-gene-by-a-two-step-pcr-strategy
#2
Aitao Li, Carlos G Acevedo-Rocha, Manfred T Reetz
Site-saturation mutagenesis (SSM) has been used in directed evolution of proteins for a long time. As a special form of saturation mutagenesis, it involves individual randomization at a given residue with formation of all 19 amino acids. To date, the most efficient embodiment of SSM is a one-step PCR-based approach using NNK codon degeneracy. However, in the case of difficult-to-randomize genes, SSM may not deliver all of the expected 19 mutants, which compels the user to invest further efforts by applying site-directed mutagenesis for the construction of the missing mutants...
May 21, 2018: Applied Microbiology and Biotechnology
https://www.readbyqxmd.com/read/29785177/characterization-of-new-microsatellite-markers-based-on-the-transcriptome-sequencing-of-clematis-finetiana
#3
Zhigao Liu, Weili Shao, Yamei Shen, Mengcheng Ji, Wenchao Chen, Ying Ye, Yongbao Shen
Background: Clematis is the biggest genus in the family Ranunculaceae with about 300 species. Clematis is also a globally important commercial group of flowers, especially in the United States and European countries. Their petals with different colors and shapes make the genus the "Queen of the Vines". However, the genomic information and phylogeny of Clematis based on existing molecular studies are limited. In this paper, new microsatellites (SSR) markers were identified from the transcriptome data of C...
2018: Hereditas
https://www.readbyqxmd.com/read/29784602/molecular-methods-for-diversity-assessment-among-xanthomonads-of-bulgarian-and-macedonian-pepper
#4
Taca Vancheva, Mariya Stoyanova, Elena Tasheva-Terzieva, Nevena Bogatzevska, Penka Moncheva
Bacterial spot is an important disease of pepper in Bulgaria and Macedonia. For characterization of Xanthomonas species associated with bacterial spot, 161 strains were collected from various field pepper-growing regions. Among them, 131 strains were identified as Xanthomonas euvesicatoria and 30 as Xanthomonas vesicatoria using species-specific primers and polymerase chain reaction followed by restriction fragment length polymorphism analysis. To assess the genetic diversity of the strains, two methods (Random Amplified Polymorphic DNA and Repetitive Element Palindromic-Polymerase Chain Reaction) were applied...
May 3, 2018: Brazilian Journal of Microbiology: [publication of the Brazilian Society for Microbiology]
https://www.readbyqxmd.com/read/29784461/stability-and-reactivity-of-%C3%AE-%C3%AE-ptms-silane-in-some-commercial-primer-and-adhesive-formulations
#5
Maria Dimitriadi, Angeliki Panagiotopoulou, Maria Pelecanou, Konstantina Yannakopoulou, George Eliades
OBJECTIVES: To evaluate the stability and reactivity of γ-methacryloxypropyl trimethoxysilane (MPTMS) in commercially available primers and adhesives. METHODS: Four representative primer formulations [Calibra Silane Coupling Agent/Dentsply (CLB), G-Multi Primer/GC (GMP), Kerr Silane Primer/Kerr (KSP), Monobond Plus/Ivoclar Vivadent (MBP)] and a universal adhesive [Scotchbond Universal/3M ESPE (SBU)] containing MPTMS were analyzed spectroscopically. For the stability study, the silanol content was evaluated in bulk solutions as received (reference-RE) and after aging (AG, 48°C/1month) by 1 H, 13 C, 31 P NMR and in fresh films by transmission FTIR analysis (TIR, films applied on Ge windows after solvent evaporation)...
May 18, 2018: Dental Materials: Official Publication of the Academy of Dental Materials
https://www.readbyqxmd.com/read/29783946/novel-flax-orbitide-derived-from-genetic-deletion
#6
Peta-Gaye Gillian Burnett, Lester Warren Young, Clara Marisa Olivia, Pramodkumar Dinkar Jadhav, Denis Paskal Okinyo-Owiti, Martin John Tarsisius Reaney
BACKGROUND: Flaxseed orbitides are homodetic plant cyclic peptides arising from ribosomal synthesis and post-translation modification (N to C cyclization), and lacking cysteine double bonds (Nat Prod Rep 30:108-160, 2013). Screening for orbitide composition was conducted on the flax core collection (FCC) grown at both Saskatoon, Saskatchewan and Morden, Manitoba over three growing seasons (2009-2011). Two flax (Linum usitatissimum L.) accessions 'Hollandia' (CN 98056) and 'Z 11637' (CN 98150) produce neither [1-9-NαC]-linusorb B2 (3) nor [1-9-NαC]-linusorb B3 (1)...
May 21, 2018: BMC Plant Biology
https://www.readbyqxmd.com/read/29782266/-the-association-of-gene-polymorphisms-of-matrix-metalloproteinases-9-12-and-20-and-collagen-type-i-degradation-products-with-the-remodeling-of-the-left-ventricle-in-patients-with-acute-myocardial-infarction
#7
N A Sokolova, M S Danshova, A V Govorin, D N Zaytsev, Y N Smolyakov
OBJECTIVE: to study associations of polymorphism of the genes MMP9 rs17576, MMP12 rs2276109, MMP20 rs2245803, COL1A1 rs1800012, COL1A1 rs1107946 with remodeling of the left ventricle in patients with acute myocardial infarction. MATERIALS AND METHODS: We examined 84 patients with myocardial infarction (MI). Type of early postinfarction left ventricular (LV) remodeling was determined by echocardiography on the third day of the disease. Concentration of matrix metalloproteinases (MMP) was measured by enzyme immunoassay using commercial kits; content of C-terminal telopeptide of collagen type I degradation products (ICTP) was measured by chemiluminescent immunoassay...
March 2018: Kardiologiia
https://www.readbyqxmd.com/read/29781496/a-universal-platform-for-selection-and-high-resolution-phenotypic-screening-of-bacterial-mutants-using-the-nanowell-slide
#8
H Antypas, M Veses-Garcia, E Weibull, H Andersson-Svahn, A Richter-Dahlfors
The Petri dish and microtiter plate are the golden standard for selection and screening of bacteria in microbiological research. To improve on the limited resolution and throughput of these methods, we developed a universal, user-friendly platform for selection and high-resolution phenotypic screening based on the nanowell slide. This miniaturized platform has an optimal ratio between throughput and assay complexity, holding 672 nanowells of 500 nl each. As monoclonality is essential in bacterial genetics, we used FACS to inoculate each nanowell with a single bacterium in 15 min...
May 21, 2018: Lab on a Chip
https://www.readbyqxmd.com/read/29780774/optimization-to-detect-tp53-mutations-in-circulating-cell-free-tumor-dna-from-patients-with-serous-epithelial-ovarian-cancer
#9
Yu Ran Park, Yong-Man Kim, Shin Wha Lee, Ha Young Lee, Gun Eui Lee, Jong-Eun Lee, Young-Tak Kim
Objective: Circulating cell-free tumor DNA (cfDNA) is the DNA released by apoptotic and necrotic cells of the primary tumor into the blood during the period of tumor development. The cfDNA reflects the genetic and epigenetic alterations of the original tumor. TP53 mutations are a defining feature of high-grade serous ovarian carcinoma. We optimized the methods for detecting TP53 mutations in cfDNA from blood samples. We confirmed the correlation of TP53 mutation in primary ovarian cancer tissue and it in cfDNA using digital polymerase chain reaction (dPCR)...
May 2018: Obstetrics & Gynecology Science
https://www.readbyqxmd.com/read/29780682/-nitraria-schoberi-l-hairy-root-culture-as-a-source-of-compounds-with-antiviral-activity-against-influenza-virus-subtypes-%C3%B0-h5n1-and-%C3%B0-h3n2
#10
Tatiana Zheleznichenko, Evgenii Banaev, Sergey Asbaganov, Maria Voronkova, Tatiana Kukushkina, Ekaterina Filippova, Natalia Mazurkova, Larisa Shishkina, Tatyana Novikova
The hairy root culture of halophyte Nitraria schoberi was obtained by transforming seedlings' primary leaves with a wild strain of Agrobacterium rhizogenes 15834 SWISS (transformation frequency was 78.7%). The roots' transgenic status was confirmed by PCR analysis using rolB -, rolC -, virC -, virD1 -specific primers. There was a significant increase in the biosynthesis of flavonoids, hydroxycinnamic acids, pectins, protopectins and saponins in hairy roots as compared to intact plant roots. The сatechin content in ethanol extracts of transformed roots' exceeded this factor 3...
June 2018: 3 Biotech
https://www.readbyqxmd.com/read/29780556/integration-of-isothermal-amplification-with-quantum-dot-based-fluorescence-resonance-energy-transfer-for-simultaneous-detection-of-multiple-micrornas
#11
Juan Hu, Ming-Hao Liu, Chun-Yang Zhang
MicroRNAs (miRNAs) are small non-coding RNAs that regulate important physiological processes, and their dysregulation is associated with various human diseases. Simultaneous sensitive detection of multiple miRNAs may facilitate early clinical diagnosis. In this research, we demonstrate for the first time the integration of hyperbranched rolling circle amplification (HRCA) with quantum dot (QD)-based fluorescence resonance energy transfer (FRET) for the simultaneous detection of multiple microRNAs with a single-color QD as the donor and two fluorescent dyes as the acceptors...
May 14, 2018: Chemical Science
https://www.readbyqxmd.com/read/29779183/molecular-characterization-and-potential-synthetic-applications-of-gh1-%C3%AE-glucosidase-from-higher-termite-microcerotermes-annandalei
#12
Siriphan Arthornthurasuk, Wantha Jenkhetkan, Eukote Suwan, Daranee Chokchaichamnankit, Chantragan Srisomsap, Pakorn Wattana-Amorn, Jisnuson Svasti, Prachumporn T Kongsaeree
A novel β-glucosidase from higher termite Microcerotermes annandalei (MaBG) was obtained via a screening method targeting β-glucosidases with increased activities in the presence of glucose. The purified natural MaBG showed a subunit molecular weight of 55 kDa and existed in a native form as a dimer without any glycosylation. Gene-specific primers designed from its partial amino acid sequences were used to amplify the corresponding 1,419-bp coding sequence of MaBG which encodes a 472-amino acid glycoside hydrolase family 1 (GH1) β-glucosidase...
May 19, 2018: Applied Biochemistry and Biotechnology
https://www.readbyqxmd.com/read/29778828/the-use-of-parametric-effect-sizes-in-single-study-musculoskeletal-physiotherapy-research-a-practical-primer
#13
Nikolas Pautz, Benita Olivier, Faans Steyn
Many researchers often do not report effect sizes at all, and, if they do report them, often do not report the correct measure for the design that has been used in the research. With the increased level of attention being given to the reporting of effect sizes and their corresponding confidence intervals, it is important that there is field-specific literature pertaining to the calculation and reporting of these measures. This paper acts as a practical primer for the calculation and reporting of effect size measures aimed at, but not limited to, the field of musculoskeletal physiotherapy research...
May 16, 2018: Physical Therapy in Sport
https://www.readbyqxmd.com/read/29778519/decline-of-hpv-infections-in-scandinavian-cervical-screening-populations-after-introduction-of-hpv-vaccination-programs
#14
Joakim Dillner, Mari Nygård, Christian Munk, Maria Hortlund, Bo T Hansen, Camilla Lagheden, Kai-Li Liaw, Susanne K Kjaer
OBJECTIVE: To monitor the changes in prevalence of human papillomavirus (HPV) infections in women <50 years of age, participating in cervical screening programs of Denmark, Norway, and Sweden, before and after introduction of quadrivalent HPV (qHPV) vaccination. METHODS: Liquid-based cytology samples were collected from 6538 women who attended cervical screening in Denmark, Norway, and Sweden in 2006-2008 and from 6332 similarly enrolled women in 2012-2013...
May 16, 2018: Vaccine
https://www.readbyqxmd.com/read/29778198/molecular-characterization-of-dermatophytes-isolated-from-cattle-in-plateau-state-nigeria
#15
James S Dalis, Haruna M Kazeem, Jacob K P Kwaga, Clara N Kwanashie, Bitrus Yakubu, Olajide A Owolodun, Anvou R Jambol
Dermatophytes from cattle were successfully characterized to species and strain levels for the first time in Nigeria. This study was undertaken to isolate and characterize dermatophytes from cattle in Plateau State, Nigeria. Two molecular techniques were utilized. The first was the use of polymerase chain reaction (PCR) to amplify the internal transcribed spacer regions of the ribosomal DNA using ITS-1 and ITS-4 as primers. This was followed by restriction fragment length polymorphism analysis of the amplified ITS regions using the enzyme MvaI to identify dermatophyte species...
June 2018: Veterinary Microbiology
https://www.readbyqxmd.com/read/29777597/microdevice-based-solid-phase-polymerase-chain-reaction-for-rapid-detection-of-pathogenic-microorganisms
#16
Quang Nghia Pham, Kieu The Loan Trinh, Seung Won Jung, Nae Yoon Lee
We demonstrate the integration of DNA amplification and detection functionalities developed on a lab-on-a-chip microdevice utilizing solid-phase polymerase chain reaction (SP-PCR) for point-of-need (PON) DNA analyses. First, the polycarbonate microdevice was fabricated by thermal bonding to contain microchambers as reservoirs for performing SP-PCR. Next, the microchambers were subsequently modified with polyethyleneimine and glutaraldehyde for immobilizing amine-modified forward primers. During SP-PCR, the immobilized forward primers and freely diffusing fluorescence-labeled reverse primers cooperated to generate target amplicons, which remained covalently attached to the microchambers for the fluorescence detection...
May 19, 2018: Biotechnology and Bioengineering
https://www.readbyqxmd.com/read/29776924/tools-for-rapid-genetic-engineering-of-vibrio-fischeri
#17
Karen L Visick, Kelsey M Hodge-Hanson, Alice H Tischler, Allison K Bennett, Vincent Mastrodomenico
Vibrio fischeri is used as a model for number of processes, including symbiosis, quorum sensing, bioluminescence, and biofilm formation. Many of these studies depend on generating deletion mutants and complementing them. Engineering such strains, however, is a time-consuming, multi-step process that relies on cloning and subcloning. Here, we describe a set of tools that can be used to rapidly engineer deletions and insertions in the V. fischeri chromosome without cloning. We developed a uniform approach for generating deletions using PCR SOEing (Splicing by Overlap Extension) with antibiotic cassettes flanked by standardized linker sequences...
May 18, 2018: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/29776709/rapid-real-time-pcr-for-the-detection-of-imp-ndm-vim-kpc-and-oxa-48-carbapenemase-genes-in-isolates-and-spiked-stool-samples
#18
Marianne Lund, Marianne Bøgild Petersen, Anders Lægaard Jørgensen, Dorte Paulmann, Mikala Wang
An in-house real-time PCR was developed to detect the carbapenemase genes IMP, NDM, VIM, KPC and OXA-48 from both bacterial colonies and directly from fecal material. The assay is a multiplex PCR performed in two tubes with NDM, VIM and IMP genes detected in one tube and OXA-48 and KPC genes in the other. Despite the large amount of primers and probes necessary to cover all variants of especially the VIM and IMP genes, the efficiency of the PCR reactions was from 95 to 100%. When tested on 170 clinical strains and compared to culture results from a reference laboratory, 100% correspondence was found...
April 13, 2018: Diagnostic Microbiology and Infectious Disease
https://www.readbyqxmd.com/read/29776613/high-resolution-melting-analysis-hrm-for-the-assessment-of-clonality-in-feline-b-cell-lymphomas
#19
Manfred Henrich, Svenja Scheffold, Werner Hecht, Manfred Reinacher
Analysis of clonality is gaining importance in diagnosing lymphomas in veterinary medicine. Usually, PCR for the analysis of antigen receptor rearrangement (PARR) is followed by electrophoretic separation of the PCR products. Aim of this study was to test the feasibility of HRM for the assessment of clonality in B-cell lymphomas of cats. High resolution melting analysis differentiates PCR products by their different melting point using the decrease in fluorescence of an intercalating dye during melting of the PCR product...
June 2018: Veterinary Immunology and Immunopathology
https://www.readbyqxmd.com/read/29774900/multiplex-detection-of-quality-indicator-molecule-targets-in-urine-using-programmable-hairpin-probes-based-on-a-simple-double-t-type-microchip-electrophoresis-platform-and-isothermal-polymerase-catalyzed-target-recycling
#20
Lingying Zhou, Ning Gan, Yongxiang Wu, Futao Hu, Jianyuan Lin, Yuting Cao, Dazhen Wu
Recently, it has been crucial to be able to detect and quantify small molecular targets simultaneously in biological samples. Herein, a simple and conventional double-T type microchip electrophoresis (MCE) based platform for the multiplex detection of quality indicator molecule targets in urine, using ampicillin (AMPI), adenosine triphosphate (ATP) and estradiol (E2) as models, was developed. Several programmable hairpin probes (PHPs) were designed for detecting different targets and triggering isothermal polymerase-catalyzed target recycling (IPCTR) for signal amplification...
May 18, 2018: Analyst
keyword
keyword
91429
1
2
Fetch more papers »
Fetching more papers... Fetching...
Read by QxMD. Sign in or create an account to discover new knowledge that matter to you.
Remove bar
Read by QxMD icon Read
×

Search Tips

Use Boolean operators: AND/OR

diabetic AND foot
diabetes OR diabetic

Exclude a word using the 'minus' sign

Virchow -triad

Use Parentheses

water AND (cup OR glass)

Add an asterisk (*) at end of a word to include word stems

Neuro* will search for Neurology, Neuroscientist, Neurological, and so on

Use quotes to search for an exact phrase

"primary prevention of cancer"
(heart or cardiac or cardio*) AND arrest -"American Heart Association"