A method for SNP detection using MoS2@AuNPs and SYBR Green I in combination with enzyme digestion

2019 ◽  
Vol 43 (47) ◽  
pp. 18571-18574
Author(s):  
Lirong Yan ◽  
Zebin Deng ◽  
Haixia Shi ◽  
Bing Xie ◽  
Li Gao
Keyword(s):  
Single Nucleotide Polymorphisms ◽  
Gene Sequence ◽  
Enzyme Digestion ◽  
Sybr Green ◽  
Sybr Green I ◽  
Human Diseases ◽  
Nucleotide Polymorphisms ◽  
Snp Detection ◽  
Single Nucleotide

Single-nucleotide polymorphisms (SNPs) in a gene sequence are markers for a variety of human diseases.

scholarly journals Detection of Single Nucleotide Polymorphisms by Fluorescence Embedded Dye SYBR Green I Based on Graphene Oxide

2021 ◽  
Vol 9 ◽  
Author(s):  
Jiaoyun Xia ◽  
Tong Xu ◽  
Jing Qing ◽  
Lihua Wang ◽  
Junlong Tang
Keyword(s):  
Graphene Oxide ◽  
Single Nucleotide Polymorphisms ◽  
Fluorescence Emission ◽  
Sybr Green ◽  
Sybr Green I ◽  
Nucleotide Polymorphisms ◽  
Single Nucleotide ◽  
Single Base ◽  
Single Base Mismatch ◽  
Base Mismatch

The detection of single nucleotide polymorphisms (SNPs) is of great significance in the early diagnosis of diseases and the rational use of drugs. Thus, a novel biosensor based on the quenching effect of fluorescence-embedded SYBR Green I (SG) dye and graphene oxide (GO) was introduced in this study. The probe DNA forms a double helix structure with perfectly complementary DNA (pcDNA) and 15 single-base mismatch DNA (smDNA) respectively. SG is highly intercalated with perfectly complementary dsDNA (pc-dsDNA) and exhibits strong fluorescence emission. Single-base mismatch dsDNA (SNPs) has a loose double-stranded structure and exhibits poor SG intercalation and low fluorescence sensing. At this time, the sensor still showed poor SNP discrimination. GO has a strong effect on single-stranded DNA (ssDNA), which can reduce the fluorescence response of probe DNA and eliminate background interference. And competitively combined with ssDNA in SNPs, quenching the fluorescence of SG/SNP, while the fluorescence value of pc-dsDNA was retained, increasing the signal-to-noise ratio. At this time, the sensor has obtained excellent SNP resolution. Different SNPs detect different intensities of fluorescence in the near-infrared region to evaluate the sensor's identification of SNPs. The experimental parameters such as incubation time, incubation temperature and salt concentration were optimized. Under optimal conditions, 1 nM DNA with 0–10 nM linear range and differentiate 5% SNP were achieved. The detection method does not require labeling, is low cost, simple in operation, exhibits high SNP discrimination and can be distinguished by SNP at room temperature.

Single nucleotide polymorphisms in piRNA-pathway genes: an insight into genetic determinants of human diseases

2019 ◽  
Vol 295 (1) ◽  
pp. 1-12 ◽  
Author(s):  
Jyoti Roy ◽  
Kalyani Anand ◽  
Swati Mohapatra ◽  
Rojalin Nayak ◽  
Trisha Chattopadhyay ◽  
...  
Keyword(s):  
Single Nucleotide Polymorphisms ◽  
Human Diseases ◽  
Nucleotide Polymorphisms ◽  
Genetic Determinants ◽  
Single Nucleotide ◽  
Pirna Pathway ◽  
Insight Into

scholarly journals A Sequence-Dependent Emissive Ligand for the Selective Detection of Thymidine-Related Single Nucleotide Polymorphisms in Human Gene Sequence

Biochemistry ◽  
2009 ◽  
Vol 48 (1) ◽  
pp. 216-216
Author(s):  
Arivazhagan Rajendran ◽  
Chunxia Zhao ◽  
Burki Rajendar ◽  
Seiichi Nishizawa ◽  
Norio Teramae
Keyword(s):  
Single Nucleotide Polymorphisms ◽  
Gene Sequence ◽  
Human Gene ◽  
Selective Detection ◽  
Nucleotide Polymorphisms ◽  
Single Nucleotide ◽  
Sequence Dependent

A Sequence-Dependent Emissive Ligand for the Selective Detection of Thymidine-Related Single Nucleotide Polymorphisms in Human Gene Sequence.

Biochemistry ◽  
2011 ◽  
Vol 50 (36) ◽  
pp. 7833-7833
Author(s):  
Arivazhagan Rajendran ◽  
Chunxia Zhao ◽  
Burki Rajendar ◽  
Seiichi Nishizawa ◽  
Norio Teramae
Keyword(s):  
Single Nucleotide Polymorphisms ◽  
Gene Sequence ◽  
Human Gene ◽  
Selective Detection ◽  
Nucleotide Polymorphisms ◽  
Single Nucleotide ◽  
Sequence Dependent

Role of single nucleotide polymorphisms in pharmacogenomics and their association with human diseases

2015 ◽  
Vol 47 (3) ◽  
pp. 281-290 ◽  
Author(s):  
Renu Chaudhary ◽  
Bharat Singh ◽  
Manish Kumar ◽  
Surendra K. Gakhar ◽  
Adesh K. Saini ◽  
...  
Keyword(s):  
Single Nucleotide Polymorphisms ◽  
Human Diseases ◽  
Nucleotide Polymorphisms ◽  
Single Nucleotide

Single-nucleotide polymorphisms detected in expressed sequence tags of melon (Cucumis melo L.)

Genome ◽  
2004 ◽  
Vol 47 (2) ◽  
pp. 352-360 ◽  
Author(s):  
M Morales ◽  
E Roig ◽  
A J Monforte ◽  
P Arús ◽  
J Garcia-Mas
Keyword(s):  
Single Nucleotide Polymorphisms ◽  
Cucumis Melo ◽  
Expressed Sequence Tag ◽  
Primer Extension ◽  
Nucleotide Polymorphisms ◽  
Snp Detection ◽  
Single Nucleotide ◽  
Cucumis Melo L ◽  
Single Primer ◽  
Expressed Sequence

A search was performed for single-nucleotide polymorphisms (SNP) and short insertions–deletions (indels) in 34 melon (Cucumis melo L.) expressed sequence tag (EST) fragments between two distantly related melon genotypes, a group Inodorus 'Piel de sapo' market class breeding line T111 and the Korean accession PI 161375. In total, we studied 15 kb of melon sequence. The average frequency of SNPs between the two genotypes was one every 441 bp. One indel was also found every 1666 bp. Seventy-five percent of the polymorphisms were located in introns and the 3′ untranslated regions. On average, there were 1.26 SNPs plus indels per amplicon. We explored three different SNP detection systems to position five of the SNPs in a melon genetic map. Three of the SNPs were mapped using cleaved amplified polymorphic sequence (CAPS) markers, one SNP was mapped using the single primer extension reaction with fluorescent-labelled dideoxynucleotides, and one indel was mapped using polyacrilamide gel electrophoresis separation. The discovery of SNPs based on ESTs and a suitable system for SNP detection has broad potential utility in melon genome mapping.Key words: SNP, CAPS marker, single primer extension.

Association of single-nucleotide polymorphisms of the KEAP1 gene with the risk of various human diseases and its functional impact using in silico analysis

2018 ◽  
Vol 137 ◽  
pp. 205-218 ◽  
Author(s):  
Umapathy Dhamodharan ◽  
Balashanmugam Ponjayanthi ◽  
Dornadula Sireesh ◽  
Elango Bhakkiyalakshmi ◽  
Kunka Mohanram Ramkumar
Keyword(s):  
Single Nucleotide Polymorphisms ◽  
In Silico ◽  
In Silico Analysis ◽  
Human Diseases ◽  
Nucleotide Polymorphisms ◽  
Single Nucleotide ◽  
Functional Impact ◽  
Silico Analysis

Qualitative Sybr Green real-time detection of single nucleotide polymorphisms responsible for target-site resistance in insect pests: the example of Myzus persicae and Musca domestica

2016 ◽  
Vol 107 (1) ◽  
pp. 96-105 ◽  
Author(s):  
V. Puggioni ◽  
O. Chiesa ◽  
M. Panini ◽  
E. Mazzoni
Keyword(s):  
Single Nucleotide Polymorphisms ◽  
Real Time ◽  
Musca Domestica ◽  
Myzus Persicae ◽  
Insect Pests ◽  
Sybr Green ◽  
Target Site ◽  
Nucleotide Polymorphisms ◽  
Single Nucleotide ◽  
Target Site Resistance

AbstractChemical insecticides have been widely used to control insect pests, leading to the selection of resistant populations. To date, several single nucleotide polymorphisms (SNPs) have already been associated with insecticide resistance, causing reduced sensitivity to many classes of products. Monitoring and detection of target-site resistance is currently one of the most important factors for insect pest management strategies. Several methods are available for this purpose: automated and high-throughput techniques (i.e. TaqMan or pyrosequencing) are very costly; cheaper alternatives (i.e. RFLP or PASA–PCRs) are time-consuming and limited by the necessity of a final visualization step. This work presents a new approach (QSGG, Qualitative Sybr Green Genotyping) which combines the specificity of PASA–PCR with the rapidity of real-time PCR analysis. The specific real-time detection of Cq values of wild-type or mutant alleles (amplified used allele-specific primers) allows the calculation of ΔCqW–M values and the consequent identification of the genotypes of unknown samples, on the basis of ranges previously defined with reference clones. The methodology is applied here to characterize mutations described in Myzus persicae and Musca domestica and we demonstrate it represents a valid, rapid and cost-effective technique that can be adopted for monitoring target-site resistance in field populations of these and other insect species.

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