Exonuclease cycling assay: an amplified assay for the detection of specific DNA sequences.

Abstract:

:An assay is described in which an oligonucleotide probe is specifically digested by lambda exonuclease only when it is annealed to its complementary sequence. In this assay, a cycling effect occurs whereby a small amount of target sequence acts as a specific co-factor in the enzymatic degradation of a larger number of molecules of an oligonucleotide probe. This amplification principle is demonstrated and the effect of the oligonucleotide probe sequence investigated. The necessary steps needed to convert this effect into a useful diagnostic tool are discussed.

journal_name

Biotechniques

journal_title

BioTechniques

authors

Copley CG,Boot C

subject

Has Abstract

pub_date

1992-12-01 00:00:00

pages

888-92

issue

6

eissn

0736-6205

issn

1940-9818

journal_volume

13

pub_type

杂志文章
  • Gene conversion of immunoglobulin variable regions in mutagenesis cassettes by replacement PCR mutagenesis.

    abstract::A technique, Replacement PCR Mutagenesis, was developed to replace one immunoglobulin variable region (V) in a M13 phage cassette with a different, homologous V. This allows the use of the same mutagenesis and subsequent expression vectors for many V regions or V segments. The method combines PCR of V fragments and in...

    journal_title:BioTechniques

    pub_type: 杂志文章

    doi:

    authors: Near RI

    更新日期:1992-01-01 00:00:00

  • A novel yeast-based recombination method to clone and propagate diverse HIV-1 isolates.

    abstract::Replication studies on human immunodeficiency virus 1 (HIV-1) rely on a few laboratory strains that are divergent from dominant HIV-1 subtypes in the epidemic. Several phenotypic differences between diverse HIV-1 isolates and subtypes could affect vaccine development and treatment, but this research field lacks robust...

    journal_title:BioTechniques

    pub_type: 杂志文章

    doi:10.2144/000113119

    authors: Dudley DM,Gao Y,Nelson KN,Henry KR,Nankya I,Gibson RM,Arts EJ

    更新日期:2009-05-01 00:00:00

  • Detection of bacterial mRNA using polymerase chain reaction.

    abstract::A method was developed for the detection of bacterial mRNAs using reverse transcriptase followed by the polymerase chain reaction (PCR) and Southern blot analysis. The method involves brief inhibition of protein synthesis with chloramphenicol, followed by reverse transcription, PCR amplification of cDNA and Southern b...

    journal_title:BioTechniques

    pub_type: 杂志文章

    doi:

    authors: Mahbubani MH,Bej AK,Miller RD,Atlas RM,DiCesare JL,Haff LA

    更新日期:1991-01-01 00:00:00

  • A simple method for genetic typing of transferrins in nonhuman primates.

    abstract::The serum protein transferrin (Tf) is a valuable marker for genetic studies of primates, because it is usually polymorphic, exhibiting as many as 13 allelic forms with high heterozygosity. The standard procedure to detect the different phenotypes requires vertical electrophoresis on polyacrylamide gels for 18 h at 4 d...

    journal_title:BioTechniques

    pub_type:

    doi:

    authors: Manis GS,Samples NK,Stone WH

    更新日期:1993-11-01 00:00:00

  • Template secondary structure promotes polymerase jumping during PCR amplification.

    abstract::Pairs of primers flanking known miniTn10 transposon insertion sites were used to confirm the presence of the transposon in DNA isolated from Legionella pneumophila mutants. It was expected that the polymerase chain reaction products derived from the mutant template would be larger than those from the wild-type (WT) te...

    journal_title:BioTechniques

    pub_type:

    doi:10.2144/99273st04

    authors: Viswanathan VK,Krcmarik K,Cianciotto NP

    更新日期:1999-09-01 00:00:00

  • Allele-specific HLA-DRB1 amplification of forensic evidence samples with mixed genotypes.

    abstract::A major problem in analyzing forensic casework samples is the presence of genetic material from more than one individual in the material evidence. For instance, in sexual assault cases the evidence (vaginal swabs) usually contains a majority of vaginal epithelial cells and varying amounts of sperm cells from the perpe...

    journal_title:BioTechniques

    pub_type: 杂志文章

    doi:

    authors: Allen M,Saldeen T,Gyllensten U

    更新日期:1995-09-01 00:00:00

  • Development of a PCR-based strategy for CYP2D6 genotyping including gene multiplication of worldwide potential use.

    abstract::There is growing consensus on the potential use of pharmacogenetics in clinical practice, and hopes have been expressed for application to the improvement of global health. However, two major challenges may lead to widening the "biotechnological gap" between the developing and the industrial world;first the unaffordab...

    journal_title:BioTechniques

    pub_type: 杂志文章

    doi:

    authors: Dorado P,Cáceres MC,Pozo-Guisado E,Wong ML,Licinio J,Llerena A

    更新日期:2005-10-01 00:00:00

  • Portable magnetic tweezers device enables visualization of the three-dimensional microscale deformation of soft biological materials.

    abstract::We have designed and built a magnetic tweezers device that enables the application of calibrated stresses to soft materials while simultaneously measuring their microscale deformation using confocal microscopy. Unlike previous magnetic tweezers designs, our device is entirely portable, allowing easy use on microscopes...

    journal_title:BioTechniques

    pub_type: 杂志文章

    doi:10.2144/000113701

    authors: Yang Y,Lin J,Meschewski R,Watson E,Valentine MT

    更新日期:2011-07-01 00:00:00

  • Efficient method to generate homologous recombinant baculovirus genomes in E. coli.

    abstract::Here we describe a convenient method to generate homologous recombinant baculoviral genomes in E. coli. The recombination takes place with the aid of recombination enzymes provided by the phage lambda Red system between a bacmid (a baculoviral genome that can replicate in bacteria) and a linear fragment. Proof of conc...

    journal_title:BioTechniques

    pub_type:

    doi:10.2144/02324st04

    authors: Hou S,Chen X,Wang H,Tao M,Hu Z

    更新日期:2002-04-01 00:00:00

  • Rapid genetic screening for hemochromatosis using automated SSCP-based capillary electrophoresis (SSCP-CE).

    abstract::Hereditary hemochromatosis (HHC) represents an autosomal recessive disease in which increased iron absorption causes iron overload and irreversible tissue damage. The recently detected association between two point mutations in the HFE gene on chromosome 6p and HHC has made it possible to screen for the disease before...

    journal_title:BioTechniques

    pub_type:

    doi:10.2144/99266st02

    authors: Bosserhoff AK,Seegers S,Hellerbrand C,Schölmerich J,Büttner R

    更新日期:1999-06-01 00:00:00

  • Glycerol enhancement of ligand-polylysine/DNA transfection.

    abstract::Primary human fibroblasts and a series of cell lines (A549, BNL CL.2, H225, NIH 3T3 and Rat-1) are efficiently transfected by using positively charged complexes of plasmid DNA and transferrin-polylysine or polylysine in the presence of glycerol (1 molar to 1.8 molar, depending on the cell type). An increase in gene ex...

    journal_title:BioTechniques

    pub_type: 杂志文章

    doi:10.2144/96205rr04

    authors: Zauner W,Kichler A,Schmidt W,Sinski A,Wagner E

    更新日期:1996-05-01 00:00:00

  • Measurement of isolated myocyte volume using the Coulter models Z2 and ZM/C256: a comparison of instrument function.

    abstract::Changes in cardiac structure that depart from normal have generally been termed "remodeling". Assessment of ventricular remodeling at the cellular level should include measurement of myocyte dimensions. A well-established and reliable method to assess myocyte remodeling uses isolated cells and the Coulter Counter/Chan...

    journal_title:BioTechniques

    pub_type: 杂志文章

    doi:10.2144/98253pf02

    authors: Said S,Tamura T,Gerdes AM

    更新日期:1998-09-01 00:00:00

  • Rapid identification of transformed wheat using a half-seed PCR assay.

    abstract::A simple, nondestructive PCR-based screening method has been developed for identifying putative transgenic soft white winter wheat (Triticum aestivum L.) carrying the coat protein gene of wheat streak mosaic virus. Removal of the endosperm end of individual seed provided sufficient material for DNA extraction and PCR....

    journal_title:BioTechniques

    pub_type:

    doi:10.2144/02323st09

    authors: McCarthy PL,Hansen JL,Zemetra RS,Berger PH

    更新日期:2002-03-01 00:00:00

  • SAW: a graphical user interface for the analysis of immunoglobulin variable domain sequences.

    abstract::The Sequence Analysis Workshop (SAW) is an interactive program for sequence analysis of immunoglobulin variable domains. Sequences for SAW can be obtained from GenBank or from a standard text file. SAW can compare a variable domain to as many as 100 different sequences, calculate the extent of homology, sort the seque...

    journal_title:BioTechniques

    pub_type:

    doi:

    authors: Elgavish RA,Schroeder HW Jr

    更新日期:1993-12-01 00:00:00

  • Denaturing gradient gel electrophoresis (DGGE): a rapid and sensitive technique to screen nucleotide sequence variation in populations.

    abstract::We describe a rapid and sensitive method for the detection of nucleotide sequence variation that can be used for large-scale screening of population markers. Denaturing gradient gel electrophoresis (DGGE) detects sequence variants of amplified fragments by the differences in their melting behavior. DGGE detects most s...

    journal_title:BioTechniques

    pub_type: 杂志文章

    doi:10.2144/99275rr02

    authors: Miller KM,Ming TJ,Schulze AD,Withler RE

    更新日期:1999-11-01 00:00:00

  • Nonradioactive assay for sequence-specific DNA binding proteins.

    abstract::A nonradioactive functional assay was developed to quantitate DNA binding proteins. The assay was designed to allow the use of 96-well microplates for high sample throughput. We show that the assay can measure sequence-specific DNA binding of purified proteins as well as DNA binding activity present in whole cell extr...

    journal_title:BioTechniques

    pub_type:

    doi:

    authors: Gubler ML,Abarzúa P

    更新日期:1995-06-01 00:00:00

  • A useful gene cassette for conditional knock-down of essential genes by targeted promoter replacement in Mycobacteria.

    abstract::A direct method to study essential genes is to construct conditional knock-down mutants by replacement of their native promoter by an inducible one. In Mycobacteria, replacement of an essential gene promoter with an anhydrotetracycline inducible one was successfully used but required a multi-step approach. In this wor...

    journal_title:BioTechniques

    pub_type: 杂志文章

    doi:10.2144/btn-2018-0074

    authors: Texier P,Coddeville M,Bordes P,Genevaux P

    更新日期:2018-09-01 00:00:00

  • Magnetic bead purification of labeled DNA fragments for high-throughput capillary electrophoresis sequencing.

    abstract::We have developed an automated purification method for dye-terminator-based DNA sequencing products using a magnetic bead approach. This 384-well protocol generates sequence fragments that are essentially free of template DNA, salt, and excess dye-terminator products. In comparison with traditional ethanol precipitati...

    journal_title:BioTechniques

    pub_type: 杂志文章

    doi:10.2144/02326st05

    authors: Elkin C,Kapur H,Smith T,Humphries D,Pollard M,Hammon N,Hawkins T

    更新日期:2002-06-01 00:00:00

  • High-throughput generation of sequence indexes from T-DNA mutagenized Arabidopsis thaliana lines.

    abstract::A pipeline has been created for the characterization of Arabidopsis thaliana mutants by generating flanking sequence tags (FSTs) and optimized for economic, high-throughput production. The GABI-Kat collection of T-DNA mutagenized A. thaliana plants was used as a source of independent transgenic lines. The pipeline inc...

    journal_title:BioTechniques

    pub_type: 杂志文章

    doi:10.2144/03356st01

    authors: Strizhov N,Li Y,Rosso MG,Viehoever P,Dekker KA,Weisshaar B

    更新日期:2003-12-01 00:00:00

  • Optimizing leading edge F-actin labeling using multiple actin probes, fixation methods and imaging modalities.

    abstract::We systematically evaluated the performance and reliability of several widely used, commercially available actin-filament probes in a highly motile breast adenocarcinoma cell line to optimize the visualization of F-actin-rich dynamic lamellipodia. We evaluated four Phalloidin-fluorophores, two anti-actin antibodies, a...

    journal_title:BioTechniques

    pub_type: 杂志文章

    doi:10.2144/btn-2018-0112

    authors: DesMarais V,Eddy RJ,Sharma VP,Stone O,Condeelis JS

    更新日期:2019-03-01 00:00:00

  • Post-hybridization recovery of membrane filter-bound DNA for enzymatic DNA amplification.

    abstract::We describe here a simple and rapid method for enzymatic DNA amplification using DNA template recovered from membrane filters previously used in hybridization analysis. This is done by first solubilizing membrane pieces carrying DNA of interest in dimethyl sulfoxide, followed by isopropanol precipitation and polymeras...

    journal_title:BioTechniques

    pub_type: 杂志文章

    doi:

    authors: Chong KY,Chen CM,Choo KB

    更新日期:1993-04-01 00:00:00

  • Surveying the repair of ancient DNA from bones via high-throughput sequencing.

    abstract::DNA damage in the form of abasic sites, chemically altered nucleotides, and strand fragmentation is the foremost limitation in obtaining genetic information from many ancient samples. Upon cell death, DNA continues to endure various chemical attacks such as hydrolysis and oxidation, but repair pathways found in vivo n...

    journal_title:BioTechniques

    pub_type: 杂志文章

    doi:10.2144/000114307

    authors: Mouttham N,Klunk J,Kuch M,Fourney R,Poinar H

    更新日期:2015-07-01 00:00:00

  • CDNA library construction from a small amount of RNA: adaptor-ligation approach for two-round cRNA amplification using T7 and SP6 RNA polymerases.

    abstract::In this study, we developed a method that allows cDNA library construction from a small amount of RNA without causing serious size bias in the resulting cDNA population. For this purpose, we adopted two-round cRNA amplification by T7 and SP6 RNA polymerases. The first-round cDNAs, flanked by the promoter sequences of ...

    journal_title:BioTechniques

    pub_type: 杂志文章

    doi:10.2144/05383RR01

    authors: Ohara R,Kikuno RF,Kitamura H,Ohara O

    更新日期:2005-03-01 00:00:00

  • QSYP peptide sequence is selected from phage display libraries by bovine IgG contaminants in monoclonal antibody preparations.

    abstract::A consensus peptide sequence, QSYP, appears as an artifact during the mapping of monoclonal antibodies (MAbs) using a random peptide phage display library. Phage bearing this QSYP sequence were independently selected by four different laboratories screening separate MAb preparations with the same phage library. In eac...

    journal_title:BioTechniques

    pub_type: 杂志文章

    doi:10.2144/03341rr04

    authors: Jacobs JM,Bailey BW,Burritt JB,Morrison SG,Morrison RP,Dratz EA,Jesaitis AJ,Teintze M

    更新日期:2003-01-01 00:00:00

  • Rapid colchicine competition-binding scintillation proximity assay using biotin-labeled tubulin.

    abstract::We have developed a rapid [3H]colchicine competition-binding scintillation proximity assay (SPA) to evaluate antimitotic compounds that bind to the colchicine-binding site on tubulin. The premise of our assay is that compounds will compete with radiolabeled colchicine for the tubulin-binding domain. Biotin-labeled tub...

    journal_title:BioTechniques

    pub_type: 杂志文章

    doi:10.2144/00291rr02

    authors: Tahir SK,Kovar P,Rosenberg SH,Ng SC

    更新日期:2000-07-01 00:00:00

  • Innovative proteomic approaches for cancer biomarker discovery.

    abstract::Substantial technological advances in proteomics and related computational science have been made in the past few years. These advances overcome in part the complexity and heterogeneity of the human proteome, permitting quantitative analysis and identification of protein changes associated with tumor development. Here...

    journal_title:BioTechniques

    pub_type: 杂志文章,评审

    doi:10.2144/000112541

    authors: Faca V,Krasnoselsky A,Hanash S

    更新日期:2007-09-01 00:00:00

  • SOP3: a web-based tool for selection of oligonucleotide primers for single nucleotide polymorphism analysis by Pyrosequencing.

    abstract::SOP3 is a web-based software tool for designing oligonucleotide primers for use in the analysis of single nucleotide polymorphisms (SNPs). Accessible via the Internet, the application is optimized for developing the PCR and sequencing primers that are necessary for Pyrosequencing. The application accepts as input gene...

    journal_title:BioTechniques

    pub_type: 杂志文章

    doi:10.2144/05381RR01

    authors: Alexander AM,Pecoraro C,Styche A,Rudert WA,Benos PV,Ringquist S,Trucco M

    更新日期:2005-01-01 00:00:00

  • Next-generation sequencing of custom amplicons to improve coverage of HaloPlex multigene panels.

    abstract::Next-generation sequencing (NGS) of multigene panels performed for genetic clinical diagnostics requires 100% coverage of all targeted genes. In the genetic diagnostics laboratory, coverage gaps are typically filled with Sanger sequencing after NGS data are collected and analyzed. Libraries prepared using the hybridiz...

    journal_title:BioTechniques

    pub_type: 杂志文章

    doi:10.2144/000114217

    authors: Coonrod EM,Durtschi JD,VanSant Webb C,Voelkerding KV,Kumánovics A

    更新日期:2014-10-01 00:00:00

  • Preparation of amino acid mixtures for cell-free expression systems.

    abstract::Here we present a procedure for preparing amino acid mixtures--having both the desired composition and a physiological pH--at high concentrations for cell-free expression systems. Up to 2.1 mg/mL of active protein was synthesized in batch mode reactions with an all Escherichia coli cell-free expression system. Our met...

    journal_title:BioTechniques

    pub_type: 杂志文章

    doi:10.2144/000114249

    authors: Caschera F,Noireaux V

    更新日期:2015-01-01 00:00:00

  • An assay for small scale screening of candidate β cell proliferative factors using intact islets.

    abstract::Current protocols for screening proliferative factors for β cells ex vivo are time-consuming, require cell lines or dissociated islets, and often entail expensive specialized screening equipment. Here we present an efficient and lower cost alternative that utilizes intact mouse islets for the initial screening of prol...

    journal_title:BioTechniques

    pub_type: 杂志文章

    doi:10.2144/000114115

    authors: Mosser RE,Gannon M

    更新日期:2013-12-01 00:00:00