Highly sensitive chemiluminescent point mutation detection by circular strand-displacement amplification reaction

Shi, Chao; Ge, Yujie; Gu, Hongxi; Ma, Cuiping

doi:10.1016/j.bios.2011.05.017

Cited by 26 publications

(15 citation statements)

References 38 publications

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“…Many of these so-called single-nucleotide polymorphisms (SNPs) have been linked to human diseases, including phenylketonuria, hemophilia and certain cancers (6). Significant advances have been made in the past several years to develop accurate, rapid and cost-effective technologies for SNP detection, such as denaturing gradient gel electrophoresis (7), microfluidic devices (8), technologies based upon chip (9), allele-specific polymerase chain reaction (PCR) (10), strand displacement amplification (11), rolling circle amplification (12) and ligase chain reaction (13). …”

Section: Introductionmentioning

confidence: 99%

In vitroselection of DNA-cleaving deoxyribozyme with site-specific thymidine excision activity

Wang¹,

Zhang

et al. 2014

Nucleic Acids Res

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Single-nucleotide polymorphisms, either inherited or due to spontaneous DNA damage, are associated with numerous diseases. Developing tools for site-specific nucleotide modification may one day provide a way to alter disease polymorphisms. Here, we describe the in vitro selection and characterization of a new deoxyribozyme called F-8, which catalyzes nucleotide excision specifically at thymidine. Cleavage by F-8 generates 3′- and 5′-phosphate ends recognized by DNA modifying enzymes, which repair the targeted deoxyribonucleotide while maintaining the integrity of the rest of the sequence. These results illustrate the potential of DNAzymes as tools for DNA manipulation.

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Section: Introductionmentioning

confidence: 99%

In vitroselection of DNA-cleaving deoxyribozyme with site-specific thymidine excision activity

Wang¹,

Zhang

et al. 2014

Nucleic Acids Res

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“…Shi et al developed a ligation mediated strand displacement amplification (SDA) based chemiluminescence biosensor for SNP detection with minimal noisy background [96]. In this assay, the hairpin probes immobilized on magnetic beads were opened and hybridized with target DNA through their 5'end.…”

Section: Ligation-mediated Strand Displacement Amplification Based Chmentioning

confidence: 99%

“…It is a robust assay that takes 3 h for the whole assay with the possibility for high-throughput applications but with limited multiplexing potential. It is commonly used with wide application in various fields [96][97][98].…”

Section: Comparative Evaluation For Various Versions Of Lcr and Ligatmentioning

confidence: 99%

Advances in ligase chain reaction and ligation-based amplifications for genotyping assays: Detection and applications

Gibriel

Adel

2017

Mutation Research/Reviews in Mutation Research

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Genetic variants have been reported to cause several genetic diseases. Various genotyping assays have been developed for diagnostic and screening purposes but with certain limitations in sensitivity, specificity, cost effectiveness and/or time savings. Since the discovery of ligase chain reaction (LCR) in the late nineties, it became one of the most favored platforms for detecting these variants and also for genotyping low abundant contaminants. Recent and powerful modifications with the integration of various detection strategies such as electrochemical and magnetic biosensors, nanoparticles (NPs), quantum dots, quartz crystal and leaky surface acoustic surface biosensors, DNAzyme, rolling circle amplification (RCA), strand displacement amplification (SDA), surface enhanced raman scattering (SERS), chemiluminescence and fluorescence resonance energy transfer have been introduced to both LCR and ligation based amplifications to enable high-throughput and inexpensive multiplex genotyping with improved robustness, simplicity, sensitivity and specificity. In this article, classical and up to date modifications in LCR and ligation based amplifications are critically evaluated and compared with emphasis on points of strength and weakness, sensitivity, cost, running time, equipment needed, applications and multiplexing potential. Versatile genotyping applications such as genetic diseases detection, bacterial and viral pathogens detection are also detailed. Ligation based gold NPs biosensor, ligation based RCA and ligation mediated SDA assays enhanced detection limit tremendously with a discrimination power approaching 1.5aM, 2aM and 0.1fM respectively. MLPA (multiplexed ligation dependent probe amplification) and SNPlex assays have been commercialized for multiplex detection of at least 48 SNPs at a time. MOL-PCR (multiplex oligonucleotide ligation) has high-throughput capability with multiplex detection of 50 SNPs/well in a 96 well plate. Ligase detection reaction (LDR) is one of the most widely used LCR versions that have been successfully integrated with several detection strategies with improved sensitivity down to 0.4fM.

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“…The PCR amplification may introduce uncontrolled bias in the template replication, and thus, false positive signal can be observed (Harris et al, 2008). There are many detection strategies have been reported for discrimination of two alleles (Syvänen, 2001;Litos et al, 2007), including hybridization with allele-specific oligonucleotides (Saiki et al, 1989), allelespecific primer extension (Litos et al, 2007;Duan et al, 2007), minisequencing (Zhou et al, 2001), ligation of allele-specific probes (Landegren et al, 1988;Liu et al, 2013;Shi et al, 2011), and invasive cleavage with endonuclease (Lyamichev et al, 1999;Hall et al, 2000). The allele-specific PCR, by using a primer with the nucleotide at its 3′-end complementary to the nucleotide of detected target at the SNP site, can integrate the PCR amplification and allele discrimination (Duan et al, 2009;Choi et al, 2012).…”

Section: Introductionmentioning

confidence: 97%

Real-time fluorescence ligase chain reaction for sensitive detection of single nucleotide polymorphism based on fluorescence resonance energy transfer

Sun

Lü

et al. 2015

Biosensors and Bioelectronics

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Highly sensitive chemiluminescent point mutation detection by circular strand-displacement amplification reaction

Cited by 26 publications

References 38 publications

In vitroselection of DNA-cleaving deoxyribozyme with site-specific thymidine excision activity

In vitroselection of DNA-cleaving deoxyribozyme with site-specific thymidine excision activity

Advances in ligase chain reaction and ligation-based amplifications for genotyping assays: Detection and applications

Real-time fluorescence ligase chain reaction for sensitive detection of single nucleotide polymorphism based on fluorescence resonance energy transfer

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