Detection and discrimination of B pertussis and B holmesii by real-time PCR targeting IS481 using a beacon probe and probe-target melting analysis.

Abstract:

:A beacon probe was designed to detect one of the two documented single nucleotide changes in IS481 target allele of Bordetella holmesii genome as compared to Bordetella pertussis. PCR amplified product targeting a region of IS481 in presence of the probe was subjected to a post-PCR hybridization and melting cycle. Hybrid of the probe with B. pertussis specific target had a different thermal stability than that with allele having the single nucleotide change in B. holmesii. The melting of B. pertussis-probe hybrid occurred in a single phase; while that of B. holmesii-probe hybrid was biphasic-one for allele identical to that in B. pertussis and the other for that with a single nucleotide change in B. holmesii genome, with a difference in melting temperature (T(m)) of 6.5 degrees C. The characteristic melting profile and T(m) analysis was the basis for discriminatory detection of B. pertussis from B. holmesii. The method was applied in a representative set of clinical isolates of B. pertussis and B. holmesii and the result was in agreement with conventional culture method.

journal_name

Mol Cell Probes

authors

Poddar SK

doi

10.1016/s0890-8508(03)00026-4

subject

Has Abstract

pub_date

2003-04-01 00:00:00

pages

91-8

issue

2-3

eissn

0890-8508

issn

1096-1194

pii

S0890850803000264

journal_volume

17

pub_type

杂志文章
  • Alternate PCR assays for screening of JH1 mutation associated with embryonic death in Jersey cattle.

    abstract::Jersey haplotype (JH) 1, a stop-gain lethal mutation in the CWC15 gene, causes embryonic losses in Jersey cattle. Two PCR based assays using Amplification Refractory Mutation System (T-ARMS-PCR) and restriction fragment length polymorphism (PCR-RFLP) were developed for screening of the JH1 in cattle. During the screen...

    journal_title:Molecular and cellular probes

    pub_type: 杂志文章

    doi:10.1016/j.mcp.2020.101688

    authors: Kumar A,Gupta ID,Mohan G,M R V,D RK,S J,Kataria RS,Niranjan SK

    更新日期:2020-12-03 00:00:00

  • Analysis of major histocompatibility complex class I gene transcription using oligonucleotide probes.

    abstract::Many highly homologous genes are present in the murine major histocompatibility complex (MHC) class I gene family. Consequently, it is difficult to distinguish between RNA transcripts of individual class I genes solely on the basis of nucleic acid hybridization analysis using DNA probes over 50 base pairs long. To avo...

    journal_title:Molecular and cellular probes

    pub_type: 杂志文章

    doi:10.1016/0890-8508(87)90034-x

    authors: Mellor AL

    更新日期:1987-09-01 00:00:00

  • A pncA polymorphism to differentiate between Mycobacterium bovis and Mycobacterium tuberculosis.

    abstract::The pyrazinamidase gene coding for the enzyme that activates the bactericidal drug pyrazinamide contains a polymorphic site that is preserved in Mycobacterium bovis. We synthesized two sets of primers, one encompassing a 180 bp fragment, and the second spanning a 726 bp fragment including the full pncA gene. Following...

    journal_title:Molecular and cellular probes

    pub_type: 杂志文章

    doi:10.1016/j.mcp.2003.11.006

    authors: Barouni AS,Augusto CJ,Lopes MT,Zanini MS,Salas CE

    更新日期:2004-06-01 00:00:00

  • Rapid and sensitive detection of Chlamydia trachomatis using a ligatable binary RNA probe and Q beta replicase.

    abstract::A simple assay format was developed for the direct detection of C. trachomatis rRNA utilizing ligation of recombinant MDV-1 probe RNA fragments hybridized to 23S rRNA after capture and release from a solid support. Assay background (equivalent to 10(4) targets) was suppressed by blocking sequences in the 5' MDV report...

    journal_title:Molecular and cellular probes

    pub_type: 杂志文章

    doi:10.1006/mcpr.1997.0135

    authors: Stefano JE,Genovese L,An Q,Lu L,McCarty J,Du Y,Stefano K,Burg JL,King W,Lane DJ

    更新日期:1997-12-01 00:00:00

  • Detection of PCR products using PNA strand invasion.

    abstract::The unique ability of homopyrimidine peptide nucleic acid (PNA) to strand invade homopurine sites of duplex DNA offers a potential alternative to existing techniques for rapid detection of PCR products. From gel shift studies, PNA was found to specifically strand invade homopurine sites that had been incorporated into...

    journal_title:Molecular and cellular probes

    pub_type: 杂志文章

    doi:10.1006/mcpr.2000.0311

    authors: Drewe LJ,Brightwell G,Hall EA

    更新日期:2000-10-01 00:00:00

  • Up-regulated miR-374a-3p relieves lipopolysaccharides induced injury in CHON-001 cells via regulating Wingless-type MMTV integration site family member 5B.

    abstract:BACKGROUND:Osteoarthritis (OA) is a frequent and incurable joint disease, inducing significant pain and seriously threatening to human health. It has been reported that microRNAs (miRNAs) play crucial roles on cancers and inflammatory diseases via cooperating with genes. However, the effect of miR-374a-3p/Wingless-type...

    journal_title:Molecular and cellular probes

    pub_type: 杂志文章

    doi:10.1016/j.mcp.2020.101541

    authors: Shi FL,Ren LX

    更新日期:2020-06-01 00:00:00

  • A novel RT-PCR approach for detection and characterization of citrus viroids.

    abstract::Citrus plants are natural hosts of five viroid species and a large number of sequence variants. Because of their small size, viroids lend themselves to various RT-PCR approaches for their detection and further characterization. The one-step RT-PCR approach proposed here is based on the synthesis of viroid-cDNA by reve...

    journal_title:Molecular and cellular probes

    pub_type: 杂志文章

    doi:10.1016/j.mcp.2005.11.001

    authors: Bernad L,Duran-Vila N

    更新日期:2006-04-01 00:00:00

  • Fluorescence-based DNA minisequence analysis for detection of known single-base changes in genomic DNA.

    abstract::We describe a rapid, automated method for direct detection of known single-base changes in genomic DNA. Fluorescence-based DNA minisequence analysis is employed in a template-dependent reaction which involves a single nucleotide extension of an oligonucleotide primer by the correct fluorescently-tagged dideoxynucleoti...

    journal_title:Molecular and cellular probes

    pub_type: 杂志文章

    doi:10.1006/mcpr.1995.0027

    authors: Kobayashi M,Rappaport E,Blasband A,Semeraro A,Sartore M,Surrey S,Fortina P

    更新日期:1995-06-01 00:00:00

  • Impact of fixation artifacts and threshold selection on high resolution melting analysis for KRAS mutation screening.

    abstract:INTRODUCTION:Treatment in metastatic colorectal cancer (mCRC) has expanded with monoclonal antibodies targeting epidermal growth factor receptor, but is restricted to patients with a wild-type (WT) KRAS mutational status. The most sensitive assays for KRAS mutation detection in formalin-fixed paraffin embedded (FFPE) t...

    journal_title:Molecular and cellular probes

    pub_type: 杂志文章

    doi:10.1016/j.mcp.2017.06.003

    authors: Pérez-Báez W,García-Latorre EA,Maldonado-Martínez HA,Coronado-Martínez I,Flores-García L,Taja-Chayeb L

    更新日期:2017-10-01 00:00:00

  • Rapid and visual detection of dengue virus using recombinase polymerase amplification method combined with lateral flow dipstick.

    abstract::Dengue virus (DENV), a member of the genus Flavivirus within the family Flaviviridae, is one of the most significant mosquito-borne viruses that causing dengue fever in human. A rapid diagnostic would be helpful to detect DENV infection in a timely manner. In the last decade, recombinase polymerase amplification (RPA)...

    journal_title:Molecular and cellular probes

    pub_type: 杂志文章

    doi:10.1016/j.mcp.2019.06.003

    authors: Xi Y,Xu CZ,Xie ZZ,Zhu DL,Dong JM

    更新日期:2019-08-01 00:00:00

  • Use of DNA restriction endonuclease digest and ribosomal RNA gene probe patterns to fingerprint Helicobacter pylori and Helicobacter mustelae isolated from human and animal hosts.

    abstract::Variation amongst strains of Helicobacter pylori and Helicobacter mustelae was examined by DNA restriction endonuclease digestion and rRNA gene patterns generated using a non-radioactive probe. Chromosomal DNA was extracted from 30 cultures of H. pylori from human, Rhesus monkey and pig gastric mucosa, and from three ...

    journal_title:Molecular and cellular probes

    pub_type: 杂志文章

    doi:10.1016/0890-8508(90)90023-s

    authors: Morgan DD,Owen RJ

    更新日期:1990-08-01 00:00:00

  • Identification of crucial regulatory relationships between long non-coding RNAs and protein-coding genes in lung squamous cell carcinoma.

    abstract:PURPOSE:This study aimed to analyze the relationships of long non-coding RNAs (lncRNAs) and protein-coding genes in lung squamous cell carcinoma (LUSC). METHODS:RNA-seq data of LUSC deposited in the TCGA database were used to identify differentially expressed protein-coding genes (DECGs) and differentially expressed l...

    journal_title:Molecular and cellular probes

    pub_type: 杂志文章

    doi:10.1016/j.mcp.2016.02.009

    authors: Wu X,Ruan L,Yang Y,Mei Q

    更新日期:2016-06-01 00:00:00

  • Tracking the extramedullary PML-RARα-positive cell reservoirs in a preclinical model: biomarker of long-term drug efficacy.

    abstract::Using an acute promyelocytic leukemia (APL) preclinical model, we show that oncogene-specific PCR (Polymerase Chain Reaction)-based assays allow to evaluate the efficacy of immunotherapy combining all-trans retinoic acid (ATRA) and a DNA-based vaccine targeting the promyelocytic leukemia-retinoic acid receptor alpha (...

    journal_title:Molecular and cellular probes

    pub_type: 杂志文章

    doi:10.1016/j.mcp.2012.08.001

    authors: Pokorna K,Le Pogam C,Chopin M,Balitrand N,Reboul M,Cassinat B,Chomienne C,Padua RA,Pla M

    更新日期:2013-02-01 00:00:00

  • SNP genotyping with FRET probes. Optimizing the resolution of heterozygotes.

    abstract::Analysis of single nucleotide polymorphisms by PCR with fluorescence resonance energy transfer (FRET) probes often can produce a result where the melting peak corresponding to perfectly matched sequence (A allele) has a smaller area than the peak corresponding to the allele with a mismatch (B allele). This imbalance c...

    journal_title:Molecular and cellular probes

    pub_type: 杂志文章

    doi:10.1016/j.mcp.2004.03.003

    authors: Martínez-García A,Sastre I,Tenorio R,Bullido MJ

    更新日期:2004-08-01 00:00:00

  • A novel highly informative polyA microsatellite on the telomeric side of the INK4a/ARF locus.

    abstract::The INK4a/ARF locus encodes two cell cycle-regulatory proteins, p16(INK4a)and p14(ARF). Inactivation of the p16(INK4a)(MTS1) tumor suppressor gene by mutations, promoter methylation or gene deletions is a common event in the development of many different human tumors. The present report describes a novel polyA mononuc...

    journal_title:Molecular and cellular probes

    pub_type: 杂志文章

    doi:10.1006/mcpr.2001.0352

    authors: Chaubert P,Burri N,Cousin P,Shaw P

    更新日期:2001-06-01 00:00:00

  • Opportunities and challenges for the application of microfluidic technologies in point-of-care veterinary diagnostics.

    abstract::There is a growing need for low-cost, rapid and reliable diagnostic results in veterinary medicine. Point-of-care (POC) tests have tremendous advantages over existing laboratory-based tests, due to their intrinsic low-cost and rapidity. A considerable number of POC tests are presently available, mostly in dipstick or ...

    journal_title:Molecular and cellular probes

    pub_type: 杂志文章,评审

    doi:10.1016/j.mcp.2016.07.004

    authors: Busin V,Wells B,Kersaudy-Kerhoas M,Shu W,Burgess ST

    更新日期:2016-10-01 00:00:00

  • Quantitative real-time PCR assay for Clostridium septicum in poultry gangrenous dermatitis associated samples.

    abstract::Clostridium septicum is a spore-forming anaerobe frequently implicated in cases of gangrenous dermatitis (GD) and other spontaneously occurring myonecrotic infections of poultry. Although C. septicum is readily cultured from diseased tissues it can be difficult to enumerate due to its tendency to swarm over the surfac...

    journal_title:Molecular and cellular probes

    pub_type: 杂志文章

    doi:10.1016/j.mcp.2010.04.001

    authors: Neumann AP,Dunham SM,Rehberger TG,Siragusa GR

    更新日期:2010-08-01 00:00:00

  • A novel real-time PCR assay for highly specific detection and quantification of vaginal lactobacilli.

    abstract::PCR detection and quantification of vaginal lactobacilli remains problematic because of the high level of genetic heterogeneity and taxonomic complexity within the genus Lactobacillus. The aim of the present study was to identify conserved sequences among the genomes of major species of vaginal lactobacilli that could...

    journal_title:Molecular and cellular probes

    pub_type: 杂志文章

    doi:10.1016/j.mcp.2016.11.006

    authors: Demkin VV,Koshechkin SI,Slesarev A

    更新日期:2017-04-01 00:00:00

  • Competitive reverse transcription/polymerase chain reaction for the quantification of p53 and mdm2 mRNA expression.

    abstract::Wild-type p53 (wtp53) is a tumour suppressor gene involved in cell cycle regulation. The mdm2 protein can complex with the p53 protein and influence its function as a regulator of cell growth. To detect and quantify wtp53 and mdm2 mRNA expression, we established the competitive reverse transcription/polymerase chain r...

    journal_title:Molecular and cellular probes

    pub_type: 杂志文章

    doi:10.1006/mcpr.1996.0059

    authors: Totzke G,Sachinidis A,Vetter H,Ko Y

    更新日期:1996-12-01 00:00:00

  • Label-free monitoring of DNA methyltransferase activity based on terminal deoxynucleotidyl transferase using a thioflavin T probe.

    abstract::We have developed a new methodology for fluorescence turn-on detection of DNA methyltransferase (MTase) activity based on terminal deoxynucleotidyl transferase (TdT) using a thioflavin T probe. This method is highly selective and sensitive. The fluorescence intensity was direct proportion to Dam MTase concentration in...

    journal_title:Molecular and cellular probes

    pub_type: 杂志文章

    doi:10.1016/j.mcp.2016.02.001

    authors: Ma C,Liu H,Li W,Chen H,Jin S,Wang J,Wang J

    更新日期:2016-04-01 00:00:00

  • MiR-34a suppresses the proliferation and invasion of gastric cancer by modulating PDL1 in the immune microenvironment.

    abstract:OBJECTIVES:As one of the most serious malignant carcinomas that threaten the life of sufferers constantly, gastric cancer has attracted a lot of interest among researchers. miR-34a, a member of hundreds of microRNAs (miRNAs), has been elucidated to exert a suppressive role in gastric cancer tumorgenesis based on previo...

    journal_title:Molecular and cellular probes

    pub_type: 杂志文章

    doi:10.1016/j.mcp.2020.101601

    authors: Yong H,Fu J,Gao G,Shi H,Zheng D,Zhou X

    更新日期:2020-10-01 00:00:00

  • Molecular diagnosis of genital HPV DNA types by polymerase chain reaction and sensitivity-standardized filter in situ hybridization in randomly sampled cohorts of Singapore women.

    abstract::Infection of the cervix uteri with various types of human papillomaviruses is generally considered a necessary factor in the etiology of cancer of the cervix uteri. In many human populations throughout the world, approximately 90% of cervical carcinomas are found to harbour HPV genomes, as judged by Southern blot hybr...

    journal_title:Molecular and cellular probes

    pub_type: 杂志文章

    doi:10.1016/0890-8508(90)90013-p

    authors: Chow V,Tham KM,Yeo-Gloss M,Lim-Tan SK,Sng I,Thirumoorthy T,Bernard HU

    更新日期:1990-04-01 00:00:00

  • Evaluation of the detection limits of PCR for identification of Mycoplasma pneumoniae in clinical samples.

    abstract::The detection limits of the polymerase chain reaction (PCR) for Mycoplasma pneumoniae were determined using specimens from persons known to have had M. pneumoniae pneumonia. Four primers were selected from the known sequence of the P1 gene. The primer pair (P1-178 and P1-809) which generates a 631 fragment gave the lo...

    journal_title:Molecular and cellular probes

    pub_type: 杂志文章

    doi:10.1006/mcpr.1994.1017

    authors: Leng Z,Kenny GE,Roberts MC

    更新日期:1994-04-01 00:00:00

  • Direct measurement of calpastatin subtypes by sandwich enzyme immunoassay using monoclonal antibodies.

    abstract::Six stable hybridoma cell lines secreting monoclonal antibodies to human calpastatin were established. All monoclonal antibodies belong to the IgG1 subclass and recognized different epitopes on calpastatin. At least two groups were distinguished; the first group was specific for muscle-type (M-) calpastatin and the se...

    journal_title:Molecular and cellular probes

    pub_type: 杂志文章

    doi:10.1016/0890-8508(91)90047-n

    authors: Yokota H,Katayama M,Hino F,Kato I,Takano E,Maki M,Hatanaka M,Murachi T

    更新日期:1991-08-01 00:00:00

  • A simple PCR-based genotyping method for M105I mutation of alpha-SNAP enhances the study of early pathological changes in hyh phenotype.

    abstract::alpha-SNAP is an essential component of the protein machinery responsible for membrane fusion events in different cell types. The hyh (hydrocephalus with hop gait) mouse carries a missense mutation in Napa gene that results in a point mutation (M105I) in alpha-SNAP protein. Homozygous animals for the mutant allele hav...

    journal_title:Molecular and cellular probes

    pub_type: 杂志文章

    doi:10.1016/j.mcp.2009.07.002

    authors: Bátiz LF,Roales-Buján R,Rodríguez-Pérez LM,Matas IM,Páez P,Roque M,Jiménez AJ,Ramos C,Pérez-Fígares JM

    更新日期:2009-12-01 00:00:00

  • Mutation screening of the chromosome 8q24.3-human activity-regulated cytoskeleton-associated gene (ARC) in idiopathic generalized epilepsy.

    abstract::Idiopathic generalized epilepsy (IGE) comprises a heterogeneous group of disorders, in which a high genetic predisposition and a complex mode of inheritance have been suggested. However, genes, which confer liability to common IGE subtypes including juvenile myoclonic epilepsy (JME) and childhood absence epilepsy (CAE...

    journal_title:Molecular and cellular probes

    pub_type: 杂志文章

    doi:10.1006/mcpr.2000.0314

    authors: Haug K,Kremerskothen J,Hallmann K,Sander T,Dullinger J,Rau B,Beyenburg S,Lentze MJ,Barnekow A,Elger CE,Propping P,Heils A

    更新日期:2000-08-01 00:00:00

  • Successful quantification of cytomegalovirus DNA by competitive PCR and detection with capillary electrophoresis.

    abstract::Human cytomegalovirus (HCMV) is responsible for severe infections in immunocompromised patients. Viral load has recently been identified as one of the major risk factors for subsequent development of HCMV disease. In this context, we developed a protocol allowing rapid, sensitive and precise quantification of HCMV DNA...

    journal_title:Molecular and cellular probes

    pub_type: 杂志文章

    doi:10.1006/mcpr.1996.0071

    authors: Poirier-Toulemonde AS,Imbert-Marcille BM,Ferré-Aubineau V,Besse B,Le Roux MG,Cantarovich D,Billaudel S

    更新日期:1997-02-01 00:00:00

  • Rapid and cost effective genotyping method for polymorphisms in PPARG, PPARGC1 and TCF7L2 genes.

    abstract::Polymorphisms (rs1801282, rs8192678, rs7903146) of peroxisome proliferator-activated receptor gamma (PPARG), peroxisome proliferator-activated receptor gamma coactivator-1 alpha (PPARGC1A) and transcription factor 7-like 2 (TCF7L2) have recently been associated with different diseases, mainly type 2 diabetes. An assay...

    journal_title:Molecular and cellular probes

    pub_type: 杂志文章

    doi:10.1016/j.mcp.2008.10.001

    authors: Habalová V,Klimcáková L,Zidzik J,Tkác I

    更新日期:2009-02-01 00:00:00

  • Down-regulation of UBA6 exacerbates brain injury by inhibiting the activation of Notch signaling pathway to promote cerebral cell apoptosis in rat acute cerebral infarction model.

    abstract::This study aimed to examine the UBA6 role in brain injury mediated by acute cerebral infarction (ACI). In order to screen potential therapeutic targets for ACI, two expression profiles, including GSE97537 and GSE97533 datasets, were downloaded from the GEO database. The Venn method to identify the common DEGs. 68 up-r...

    journal_title:Molecular and cellular probes

    pub_type: 杂志文章

    doi:10.1016/j.mcp.2020.101612

    authors: Chen Z,Liu J,Chen Q,Su M,Lu H,Yang Y,Zhou G,Zhang X,Liu Y,Dong W,Fang Q

    更新日期:2020-10-01 00:00:00

  • A method for the rapid construction of cRNA standard curves in quantitative real-time reverse transcription polymerase chain reaction.

    abstract::Quantification of nucleic acids, especially of mRNA, is increasingly important in biomedical research. The recently developed quantitative real-time polymerase chain reaction (PCR) - a highly sensitive technology for the rapid, accurate and reproducible quantification of gene expression - offers major advantages over ...

    journal_title:Molecular and cellular probes

    pub_type: 杂志文章

    doi:10.1006/mcpr.2002.0405

    authors: Fronhoffs S,Totzke G,Stier S,Wernert N,Rothe M,Brüning T,Koch B,Sachinidis A,Vetter H,Ko Y

    更新日期:2002-04-01 00:00:00