A novel automated assay with dual-color hybridization for single-nucleotide polymorphisms genotyping on gold magnetic nanoparticle array
A high-throughput and cost-effective single-nucleotide polymorphism (SNP) genotyping method based on a gold magnetic nanoparticle (GMNP) array with dual-color hybridization has been designed. Biotinylated single-strand polymerase chain reaction (PCR) products containing the SNP locus were captured b...
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| Veröffentlicht in: | Analytical biochemistry 2010-10, Vol.405 (1), p.141-143 |
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| container_title | Analytical biochemistry |
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| creator | Li, Song Liu, Hongna Liu, Lishang Tian, Lan He, Nongyue |
| description | A high-throughput and cost-effective single-nucleotide polymorphism (SNP) genotyping method based on a gold magnetic nanoparticle (GMNP) array with dual-color hybridization has been designed. Biotinylated single-strand polymerase chain reaction (PCR) products containing the SNP locus were captured by the GMNPs that were coated with streptavidin. The GMNP array was fabricated by immobilizing single-stranded DNA (ssDNA)–GMNP complexes onto a glass slide using a magnetic field, and SNPs were identified with dual-color fluorescence hybridization. Three different SNP loci from 24 samples were genotyped successfully using this platform. This procedure allows the user to directly analyze the bead fluorescence to determine the SNP genotype, and it eliminates the need for background subtraction for signal determination. This method also bypasses tedious PCR purification and concentration procedures, and it facilitates large-scale SNP studies by using a method that is highly sensitive, simple, labor-saving, and potentially automatable. |
| doi_str_mv | 10.1016/j.ab.2010.05.016 |
| format | Article |
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Biotinylated single-strand polymerase chain reaction (PCR) products containing the SNP locus were captured by the GMNPs that were coated with streptavidin. The GMNP array was fabricated by immobilizing single-stranded DNA (ssDNA)–GMNP complexes onto a glass slide using a magnetic field, and SNPs were identified with dual-color fluorescence hybridization. Three different SNP loci from 24 samples were genotyped successfully using this platform. This procedure allows the user to directly analyze the bead fluorescence to determine the SNP genotype, and it eliminates the need for background subtraction for signal determination. This method also bypasses tedious PCR purification and concentration procedures, and it facilitates large-scale SNP studies by using a method that is highly sensitive, simple, labor-saving, and potentially automatable.</description><identifier>ISSN: 0003-2697</identifier><identifier>EISSN: 1096-0309</identifier><identifier>DOI: 10.1016/j.ab.2010.05.016</identifier><identifier>PMID: 20507822</identifier><language>eng</language><publisher>United States: Elsevier Inc</publisher><subject>Automation ; Biotinylation ; DNA, Single-Stranded - chemistry ; Dual-color hybridization ; Genotype ; Gold - chemistry ; Gold magnetic nanoparticle array ; Magnetics ; Metal Nanoparticles - chemistry ; Nucleic Acid Hybridization - methods ; Polymorphism, Single Nucleotide ; Single-nucleotide polymorphisms ; Streptavidin - metabolism</subject><ispartof>Analytical biochemistry, 2010-10, Vol.405 (1), p.141-143</ispartof><rights>2010 Elsevier Inc.</rights><rights>Copyright 2010 Elsevier Inc. All rights reserved.</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c381t-16911c37ddb03a8472a265fb50aa2cdf789a0932feb507308fbf923bbfe720983</citedby><cites>FETCH-LOGICAL-c381t-16911c37ddb03a8472a265fb50aa2cdf789a0932feb507308fbf923bbfe720983</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktohtml>$$Uhttps://dx.doi.org/10.1016/j.ab.2010.05.016$$EHTML$$P50$$Gelsevier$$H</linktohtml><link.rule.ids>314,780,784,3550,27924,27925,45995</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/20507822$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Li, Song</creatorcontrib><creatorcontrib>Liu, Hongna</creatorcontrib><creatorcontrib>Liu, Lishang</creatorcontrib><creatorcontrib>Tian, Lan</creatorcontrib><creatorcontrib>He, Nongyue</creatorcontrib><title>A novel automated assay with dual-color hybridization for single-nucleotide polymorphisms genotyping on gold magnetic nanoparticle array</title><title>Analytical biochemistry</title><addtitle>Anal Biochem</addtitle><description>A high-throughput and cost-effective single-nucleotide polymorphism (SNP) genotyping method based on a gold magnetic nanoparticle (GMNP) array with dual-color hybridization has been designed. Biotinylated single-strand polymerase chain reaction (PCR) products containing the SNP locus were captured by the GMNPs that were coated with streptavidin. The GMNP array was fabricated by immobilizing single-stranded DNA (ssDNA)–GMNP complexes onto a glass slide using a magnetic field, and SNPs were identified with dual-color fluorescence hybridization. Three different SNP loci from 24 samples were genotyped successfully using this platform. This procedure allows the user to directly analyze the bead fluorescence to determine the SNP genotype, and it eliminates the need for background subtraction for signal determination. This method also bypasses tedious PCR purification and concentration procedures, and it facilitates large-scale SNP studies by using a method that is highly sensitive, simple, labor-saving, and potentially automatable.</description><subject>Automation</subject><subject>Biotinylation</subject><subject>DNA, Single-Stranded - chemistry</subject><subject>Dual-color hybridization</subject><subject>Genotype</subject><subject>Gold - chemistry</subject><subject>Gold magnetic nanoparticle array</subject><subject>Magnetics</subject><subject>Metal Nanoparticles - chemistry</subject><subject>Nucleic Acid Hybridization - methods</subject><subject>Polymorphism, Single Nucleotide</subject><subject>Single-nucleotide polymorphisms</subject><subject>Streptavidin - metabolism</subject><issn>0003-2697</issn><issn>1096-0309</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2010</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNqFkb1vFDEQxS0EIkegp0LuqPYYe2-_6KIofEiRaKC2Zu3ZO0dee7G9QctfwJ-Nowt0iGpmnn7vFfMYey1gL0C07-72OO4llBOafRGesJ2Aoa2ghuEp2wFAXcl26C7Yi5TuAIQ4NO1zdiGhga6Xcsd-XXEf7slxXHOYMZPhmBJu_IfNJ25WdJUOLkR-2sZojf2J2QbPp6Ik64-OKr9qRyFbQ3wJbptDXE42zYkfyYe8LYXixXEMzvAZj56y1dyjDwvGsjriGCNuL9mzCV2iV4_zkn37cPP1-lN1--Xj5-ur20rXvciVaAchdN0ZM0KN_aGTKNtmGhtAlNpMXT8gDLWcqEhdDf00ToOsx3GiTsLQ15fs7Tl3ieH7Simr2SZNzqGnsCbVNYe-FwDt_8nDAFIIKQoJZ1LHkFKkSS3Rzhg3JUA9FKXuFI7qoSgFjSpCsbx5DF_Hmcxfw59mCvD-DFB5xr2lqJK25DUZG0lnZYL9d_pvXWylmA</recordid><startdate>20101001</startdate><enddate>20101001</enddate><creator>Li, Song</creator><creator>Liu, Hongna</creator><creator>Liu, Lishang</creator><creator>Tian, Lan</creator><creator>He, Nongyue</creator><general>Elsevier Inc</general><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7X8</scope><scope>7TM</scope></search><sort><creationdate>20101001</creationdate><title>A novel automated assay with dual-color hybridization for single-nucleotide polymorphisms genotyping on gold magnetic nanoparticle array</title><author>Li, Song ; Liu, Hongna ; Liu, Lishang ; Tian, Lan ; He, Nongyue</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c381t-16911c37ddb03a8472a265fb50aa2cdf789a0932feb507308fbf923bbfe720983</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2010</creationdate><topic>Automation</topic><topic>Biotinylation</topic><topic>DNA, Single-Stranded - chemistry</topic><topic>Dual-color hybridization</topic><topic>Genotype</topic><topic>Gold - chemistry</topic><topic>Gold magnetic nanoparticle array</topic><topic>Magnetics</topic><topic>Metal Nanoparticles - chemistry</topic><topic>Nucleic Acid Hybridization - methods</topic><topic>Polymorphism, Single Nucleotide</topic><topic>Single-nucleotide polymorphisms</topic><topic>Streptavidin - metabolism</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Li, Song</creatorcontrib><creatorcontrib>Liu, Hongna</creatorcontrib><creatorcontrib>Liu, Lishang</creatorcontrib><creatorcontrib>Tian, Lan</creatorcontrib><creatorcontrib>He, Nongyue</creatorcontrib><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>MEDLINE - Academic</collection><collection>Nucleic Acids Abstracts</collection><jtitle>Analytical biochemistry</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Li, Song</au><au>Liu, Hongna</au><au>Liu, Lishang</au><au>Tian, Lan</au><au>He, Nongyue</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>A novel automated assay with dual-color hybridization for single-nucleotide polymorphisms genotyping on gold magnetic nanoparticle array</atitle><jtitle>Analytical biochemistry</jtitle><addtitle>Anal Biochem</addtitle><date>2010-10-01</date><risdate>2010</risdate><volume>405</volume><issue>1</issue><spage>141</spage><epage>143</epage><pages>141-143</pages><issn>0003-2697</issn><eissn>1096-0309</eissn><abstract>A high-throughput and cost-effective single-nucleotide polymorphism (SNP) genotyping method based on a gold magnetic nanoparticle (GMNP) array with dual-color hybridization has been designed. Biotinylated single-strand polymerase chain reaction (PCR) products containing the SNP locus were captured by the GMNPs that were coated with streptavidin. The GMNP array was fabricated by immobilizing single-stranded DNA (ssDNA)–GMNP complexes onto a glass slide using a magnetic field, and SNPs were identified with dual-color fluorescence hybridization. Three different SNP loci from 24 samples were genotyped successfully using this platform. This procedure allows the user to directly analyze the bead fluorescence to determine the SNP genotype, and it eliminates the need for background subtraction for signal determination. This method also bypasses tedious PCR purification and concentration procedures, and it facilitates large-scale SNP studies by using a method that is highly sensitive, simple, labor-saving, and potentially automatable.</abstract><cop>United States</cop><pub>Elsevier Inc</pub><pmid>20507822</pmid><doi>10.1016/j.ab.2010.05.016</doi><tpages>3</tpages></addata></record> |
| fulltext | fulltext |
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| ispartof | Analytical biochemistry, 2010-10, Vol.405 (1), p.141-143 |
| issn | 0003-2697 1096-0309 |
| language | eng |
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| source | MEDLINE; Access via ScienceDirect (Elsevier) |
| subjects | Automation Biotinylation DNA, Single-Stranded - chemistry Dual-color hybridization Genotype Gold - chemistry Gold magnetic nanoparticle array Magnetics Metal Nanoparticles - chemistry Nucleic Acid Hybridization - methods Polymorphism, Single Nucleotide Single-nucleotide polymorphisms Streptavidin - metabolism |
| title | A novel automated assay with dual-color hybridization for single-nucleotide polymorphisms genotyping on gold magnetic nanoparticle array |
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