2006
DOI: 10.1002/elps.200600136
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Genotyping of simple sequence repeat factors implicated in shadow band generation revisited

Abstract: PCR amplification of microsatellite sequences generates, besides the main product corresponding to allele size, also additional, undesired products usually shorter by multiples of the repeated unit. These extra products known as shadow bands or stutter products may complicate genotyping. The mechanism by which these artifacts are formed is not well understood and so no effective remedy has been found to cope with these spurious products. In this study, using the DNA templates containing the CAG/CTG repeats fla… Show more

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Cited by 32 publications
(19 citation statements)
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“…This was in agreement with Cho et al [15] , where SSR loci with di-nucleotide repeat motifs tended to detect greater number of alleles than with tri-nucleotide and tandem repeats sequence. Based on the study of Olejniczak and Krzyzosiak [16] , stutter bands were produced by the slippage of the polymerase amplification and the factors that influence the proportion of stutter band to the main allele were the repeat number, number of PCR cycles, length and the characteristics of the repeat sequence.…”
Section: Ssr Markers In Rice Studiesmentioning
confidence: 99%
“…This was in agreement with Cho et al [15] , where SSR loci with di-nucleotide repeat motifs tended to detect greater number of alleles than with tri-nucleotide and tandem repeats sequence. Based on the study of Olejniczak and Krzyzosiak [16] , stutter bands were produced by the slippage of the polymerase amplification and the factors that influence the proportion of stutter band to the main allele were the repeat number, number of PCR cycles, length and the characteristics of the repeat sequence.…”
Section: Ssr Markers In Rice Studiesmentioning
confidence: 99%
“…The use of tri-, tetra-, and pentanucleotide STRs in our present approach may have several advantages over dinucleotide microsatellites in PGD. It is known that shadow bands are more common for the PCR inherited the 117 bp allele from the mother and the 129 bp allele from the father products for dinucleotide microsatellites, especially for large numbers of PCR cycles required for PGD [9]. In addition, the mutation rate for dinucleotide microsatellites is greater than that of tri-, tetra-, and pentanucleotide STRs [15].…”
Section: Discussionmentioning
confidence: 97%
“…Avoiding the shadow bands that can be seen with dinucleotide microsatellites [9] should aid in the unambiguous identification of HLA alleles using either polyacrylamide gel or capillary electrophoresis (CE) methods. For laboratories that do not have ready access to CE, the use of polyacrylamide gels for STR genotyping and HLA matching is a simple and cost-effective alternative to CE for clinical testing.…”
Section: Introductionmentioning
confidence: 99%
“…1) was used to simultaneously amplify SMN1, SMN2, CYBB and KRIT1 genes. The universal part of the sense primers is non-human fragment [20,21]. Our primers are shown in Table 1.…”
Section: Universal Multiplex Pcrmentioning
confidence: 99%