Literature DB >> 16157260

Sequence variation in primer targets affects the accuracy of viral quantitative PCR.

David M Whiley1, Theo P Sloots.   

Abstract

This study was designed to assess the effect of sequence mismatches between primers and their targets on viral quantitative PCR. Numerous primers were constructed incorporating various mismatches with a target sequence on the BKV T antigen gene. When using these primers in standard Taqman two-step cycling conditions, as few as two mismatches in a single primer increased cycle threshold values and significantly influenced the calculation of viral load.

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Year:  2005        PMID: 16157260     DOI: 10.1016/j.jcv.2005.02.010

Source DB:  PubMed          Journal:  J Clin Virol        ISSN: 1386-6532            Impact factor:   3.168


  37 in total

1.  Impact of genomic sequence variability on quantitative PCR assays for diagnosis of polyomavirus BK infection.

Authors:  P Randhawa; J Kant; R Shapiro; H Tan; A Basu; C Luo
Journal:  J Clin Microbiol       Date:  2011-09-28       Impact factor: 5.948

2.  The effect of primer-template mismatches on the detection and quantification of nucleic acids using the 5' nuclease assay.

Authors:  Ralph Stadhouders; Suzan D Pas; Jeer Anber; Jolanda Voermans; Ted H M Mes; Martin Schutten
Journal:  J Mol Diagn       Date:  2009-11-30       Impact factor: 5.568

3.  Evaluation of INK4A promoter methylation using pyrosequencing and circulating cell-free DNA from patients with hepatocellular carcinoma.

Authors:  Gengming Huang; Joseph D Krocker; Jason L Kirk; Shehzad N Merwat; Hyunsu Ju; Roger D Soloway; Lucas R Wieck; Albert Li; Anthony O Okorodudu; John R Petersen; Nihal E Abdulla; Andrea Duchini; Luca Cicalese; Cristiana Rastellini; Peter C Hu; Jianli Dong
Journal:  Clin Chem Lab Med       Date:  2014-06       Impact factor: 3.694

4.  A New Highly Sensitive and Specific Real-Time PCR Assay Targeting the Malate Dehydrogenase Gene of Kingella kingae and Application to 201 Pediatric Clinical Specimens.

Authors:  Nawal El Houmami; Guillaume André Durand; Janek Bzdrenga; Anne Darmon; Philippe Minodier; Hervé Seligmann; Didier Raoult; Pierre-Edouard Fournier
Journal:  J Clin Microbiol       Date:  2018-07-26       Impact factor: 5.948

5.  Marked variability of BK virus load measurement using quantitative real-time PCR among commonly used assays.

Authors:  Noah G Hoffman; Linda Cook; Ederlyn E Atienza; Ajit P Limaye; Keith R Jerome
Journal:  J Clin Microbiol       Date:  2008-06-18       Impact factor: 5.948

6.  Confirmatory real-time PCR assay for human papillomavirus (HPV) type 52 infection in anogenital specimens screened for HPV infection with the linear array HPV genotyping test.

Authors:  François Coutlée; Danielle Rouleau; Georges Ghattas; Catherine Hankins; Sylvie Vézina; Pierre Coté; John Macleod; Alexandra de Pokomandy; Deborah Money; Sharon Walmsley; Hélène Voyer; Paul Brassard; Eduardo Franco
Journal:  J Clin Microbiol       Date:  2007-09-26       Impact factor: 5.948

7.  Sequence variation of human papillomavirus type 16 and measurement of viral integration by quantitative PCR.

Authors:  Mingjun Jiang; Janet G Baseman; Laura A Koutsky; Qinghua Feng; Constance Mao; Nancy B Kiviat; Long Fu Xi
Journal:  J Clin Microbiol       Date:  2008-12-30       Impact factor: 5.948

8.  Biologic diversity of polyomavirus BK genomic sequences: Implications for molecular diagnostic laboratories.

Authors:  C Luo; M Bueno; J Kant; P Randhawa
Journal:  J Med Virol       Date:  2008-10       Impact factor: 2.327

9.  Evaluation of removal of noroviruses during wastewater treatment, using real-time reverse transcription-PCR: different behaviors of genogroups I and II.

Authors:  Allegra Kyria da Silva; Jean-Claude Le Saux; Sylvain Parnaudeau; Monique Pommepuy; Menachem Elimelech; Françoise S Le Guyader
Journal:  Appl Environ Microbiol       Date:  2007-10-12       Impact factor: 4.792

10.  Evaluation of the impact of single nucleotide polymorphisms and primer mismatches on quantitative PCR.

Authors:  Brian Boyle; Nancy Dallaire; John MacKay
Journal:  BMC Biotechnol       Date:  2009-08-28       Impact factor: 2.563

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