Aptamer-Derived Nucleic Acid Oligos: Applications to Develop Nucleic Acid Chips to Analyze Proteins and Small Ligands
The specificity and affinity of aptamers for their cognate ligands are comparable to those of antibodies for antigens. To use aptamers effectively in high-throughput assays in a microarray format, to analyze various analytes, we developed a strategy in which the aptamer was split into two nonfunctio...
Gespeichert in:
| Veröffentlicht in: | Analytical chemistry (Washington) 2005-09, Vol.77 (17), p.5460-5466 |
|---|---|
| Hauptverfasser: | , |
| Format: | Artikel |
| Sprache: | eng |
| Schlagworte: | |
| Online-Zugang: | Volltext |
| Tags: |
Tag hinzufügen
Keine Tags, Fügen Sie den ersten Tag hinzu!
|
| container_end_page | 5466 |
|---|---|
| container_issue | 17 |
| container_start_page | 5460 |
| container_title | Analytical chemistry (Washington) |
| container_volume | 77 |
| creator | Yamamoto-Fujita, Rika Kumar, Penmetcha K. R |
| description | The specificity and affinity of aptamers for their cognate ligands are comparable to those of antibodies for antigens. To use aptamers effectively in high-throughput assays in a microarray format, to analyze various analytes, we developed a strategy in which the aptamer was split into two nonfunctional units and allowed to reassemble into the functional aptamer by the cognate ligand. We have named this method “analyte-dependent oligonucleotide modulation assay” (ADONMA). As proof-of-principle, we used oligonucleotides derived from the aptamer RNA against HIV-1 Tat and demonstrated, with both titer plates and plastic slide chips, that specifically in the presence of Tat or its peptide, the two oligos reconstituted the core binding regions of Tat. Thus, these results suggest that ADNOMA has the potential for use in nucleic acid microarrays for detecting various ligands. |
| doi_str_mv | 10.1021/ac050364f |
| format | Article |
| fullrecord | <record><control><sourceid>proquest_cross</sourceid><recordid>TN_cdi_proquest_miscellaneous_68535619</recordid><sourceformat>XML</sourceformat><sourcesystem>PC</sourcesystem><sourcerecordid>895772671</sourcerecordid><originalsourceid>FETCH-LOGICAL-a571t-d72122e990de5fe524fd3618f18a790fe3116fbd2a96d3ea3370890159dca9a3</originalsourceid><addsrcrecordid>eNqF0c1u1DAUBWALgei0sOAFUIQEEovAvfbYjrsLUyig0bRSZ2-5jlNcnB_spGq7Ystr8iSkzKgjYMHKsu7nI18dQp4hvEGg-NZY4MDEvH5AZsgp5KIo6EMyAwCWUwmwR_ZTugRABBSPyR4KZAiczch12Q-mcTE_ctFfuSpbjTY4b7PS-io7Cf6iS4c_v__Iyr4P3prBd23Khi47clcudP2ffvHF97-nZWvCza3LTmM3OD-9MG2VnTUmhGzpL6ZLekIe1SYk93R7HpD1h_frxcd8eXL8aVEuc8MlDnklKVLqlILK8dpxOq8rJrCosTBSQe0YoqjPK2qUqJgzjEkoFCBXlTXKsAPyahPbx-7b6NKgG5-sC8G0rhuTFgVnXKD6L0Q1RwmMTvDFX_CyG-O0b9IUZSEZgJzQ6w2ysUspulr30Tcm3mgEfdeZvu9sss-3geN546qd3JY0gZdbYJI1oY6mtT7tnASlqLpz-cb5NLjr-7mJX7WQTHK9Pj3TvDhmq3crrj_vco1NuyX-_eAvNNe4cw</addsrcrecordid><sourcetype>Aggregation Database</sourcetype><iscdi>true</iscdi><recordtype>article</recordtype><pqid>217873007</pqid></control><display><type>article</type><title>Aptamer-Derived Nucleic Acid Oligos: Applications to Develop Nucleic Acid Chips to Analyze Proteins and Small Ligands</title><source>MEDLINE</source><source>American Chemical Society Journals</source><creator>Yamamoto-Fujita, Rika ; Kumar, Penmetcha K. R</creator><creatorcontrib>Yamamoto-Fujita, Rika ; Kumar, Penmetcha K. R</creatorcontrib><description>The specificity and affinity of aptamers for their cognate ligands are comparable to those of antibodies for antigens. To use aptamers effectively in high-throughput assays in a microarray format, to analyze various analytes, we developed a strategy in which the aptamer was split into two nonfunctional units and allowed to reassemble into the functional aptamer by the cognate ligand. We have named this method “analyte-dependent oligonucleotide modulation assay” (ADONMA). As proof-of-principle, we used oligonucleotides derived from the aptamer RNA against HIV-1 Tat and demonstrated, with both titer plates and plastic slide chips, that specifically in the presence of Tat or its peptide, the two oligos reconstituted the core binding regions of Tat. Thus, these results suggest that ADNOMA has the potential for use in nucleic acid microarrays for detecting various ligands.</description><identifier>ISSN: 0003-2700</identifier><identifier>EISSN: 1520-6882</identifier><identifier>DOI: 10.1021/ac050364f</identifier><identifier>PMID: 16131053</identifier><identifier>CODEN: ANCHAM</identifier><language>eng</language><publisher>Washington, DC: American Chemical Society</publisher><subject>Amino acids ; Analytical biochemistry: general aspects, technics, instrumentation ; Analytical chemistry ; Analytical, structural and metabolic biochemistry ; Aptamers, Nucleotide - chemistry ; Base Sequence ; Biological and medical sciences ; Biosensors ; Chemistry ; Exact sciences and technology ; Fundamental and applied biological sciences. Psychology ; Gene Products, tat - chemistry ; General, instrumentation ; Human immunodeficiency virus 1 ; Lab-On-A-Chip Devices ; Ligands ; Microchip Analytical Procedures - methods ; Molecular Sequence Data ; Nucleic Acid Conformation ; Nucleic Acids - chemistry ; Oligonucleotides - chemistry ; Proteins ; Proteins - analysis ; Proteins - metabolism ; Semiconductors ; Titrimetry</subject><ispartof>Analytical chemistry (Washington), 2005-09, Vol.77 (17), p.5460-5466</ispartof><rights>Copyright © 2005 American Chemical Society</rights><rights>2005 INIST-CNRS</rights><rights>Copyright American Chemical Society Sep 1, 2005</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-a571t-d72122e990de5fe524fd3618f18a790fe3116fbd2a96d3ea3370890159dca9a3</citedby><cites>FETCH-LOGICAL-a571t-d72122e990de5fe524fd3618f18a790fe3116fbd2a96d3ea3370890159dca9a3</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://pubs.acs.org/doi/pdf/10.1021/ac050364f$$EPDF$$P50$$Gacs$$H</linktopdf><linktohtml>$$Uhttps://pubs.acs.org/doi/10.1021/ac050364f$$EHTML$$P50$$Gacs$$H</linktohtml><link.rule.ids>314,776,780,2752,27053,27901,27902,56713,56763</link.rule.ids><backlink>$$Uhttp://pascal-francis.inist.fr/vibad/index.php?action=getRecordDetail&idt=17099293$$DView record in Pascal Francis$$Hfree_for_read</backlink><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/16131053$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Yamamoto-Fujita, Rika</creatorcontrib><creatorcontrib>Kumar, Penmetcha K. R</creatorcontrib><title>Aptamer-Derived Nucleic Acid Oligos: Applications to Develop Nucleic Acid Chips to Analyze Proteins and Small Ligands</title><title>Analytical chemistry (Washington)</title><addtitle>Anal. Chem</addtitle><description>The specificity and affinity of aptamers for their cognate ligands are comparable to those of antibodies for antigens. To use aptamers effectively in high-throughput assays in a microarray format, to analyze various analytes, we developed a strategy in which the aptamer was split into two nonfunctional units and allowed to reassemble into the functional aptamer by the cognate ligand. We have named this method “analyte-dependent oligonucleotide modulation assay” (ADONMA). As proof-of-principle, we used oligonucleotides derived from the aptamer RNA against HIV-1 Tat and demonstrated, with both titer plates and plastic slide chips, that specifically in the presence of Tat or its peptide, the two oligos reconstituted the core binding regions of Tat. Thus, these results suggest that ADNOMA has the potential for use in nucleic acid microarrays for detecting various ligands.</description><subject>Amino acids</subject><subject>Analytical biochemistry: general aspects, technics, instrumentation</subject><subject>Analytical chemistry</subject><subject>Analytical, structural and metabolic biochemistry</subject><subject>Aptamers, Nucleotide - chemistry</subject><subject>Base Sequence</subject><subject>Biological and medical sciences</subject><subject>Biosensors</subject><subject>Chemistry</subject><subject>Exact sciences and technology</subject><subject>Fundamental and applied biological sciences. Psychology</subject><subject>Gene Products, tat - chemistry</subject><subject>General, instrumentation</subject><subject>Human immunodeficiency virus 1</subject><subject>Lab-On-A-Chip Devices</subject><subject>Ligands</subject><subject>Microchip Analytical Procedures - methods</subject><subject>Molecular Sequence Data</subject><subject>Nucleic Acid Conformation</subject><subject>Nucleic Acids - chemistry</subject><subject>Oligonucleotides - chemistry</subject><subject>Proteins</subject><subject>Proteins - analysis</subject><subject>Proteins - metabolism</subject><subject>Semiconductors</subject><subject>Titrimetry</subject><issn>0003-2700</issn><issn>1520-6882</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2005</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNqF0c1u1DAUBWALgei0sOAFUIQEEovAvfbYjrsLUyig0bRSZ2-5jlNcnB_spGq7Ystr8iSkzKgjYMHKsu7nI18dQp4hvEGg-NZY4MDEvH5AZsgp5KIo6EMyAwCWUwmwR_ZTugRABBSPyR4KZAiczch12Q-mcTE_ctFfuSpbjTY4b7PS-io7Cf6iS4c_v__Iyr4P3prBd23Khi47clcudP2ffvHF97-nZWvCza3LTmM3OD-9MG2VnTUmhGzpL6ZLekIe1SYk93R7HpD1h_frxcd8eXL8aVEuc8MlDnklKVLqlILK8dpxOq8rJrCosTBSQe0YoqjPK2qUqJgzjEkoFCBXlTXKsAPyahPbx-7b6NKgG5-sC8G0rhuTFgVnXKD6L0Q1RwmMTvDFX_CyG-O0b9IUZSEZgJzQ6w2ysUspulr30Tcm3mgEfdeZvu9sss-3geN546qd3JY0gZdbYJI1oY6mtT7tnASlqLpz-cb5NLjr-7mJX7WQTHK9Pj3TvDhmq3crrj_vco1NuyX-_eAvNNe4cw</recordid><startdate>20050901</startdate><enddate>20050901</enddate><creator>Yamamoto-Fujita, Rika</creator><creator>Kumar, Penmetcha K. R</creator><general>American Chemical Society</general><scope>BSCLL</scope><scope>IQODW</scope><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>7QF</scope><scope>7QO</scope><scope>7QQ</scope><scope>7SC</scope><scope>7SE</scope><scope>7SP</scope><scope>7SR</scope><scope>7TA</scope><scope>7TB</scope><scope>7TM</scope><scope>7U5</scope><scope>7U7</scope><scope>7U9</scope><scope>8BQ</scope><scope>8FD</scope><scope>C1K</scope><scope>F28</scope><scope>FR3</scope><scope>H8D</scope><scope>H8G</scope><scope>H94</scope><scope>JG9</scope><scope>JQ2</scope><scope>KR7</scope><scope>L7M</scope><scope>L~C</scope><scope>L~D</scope><scope>P64</scope><scope>7X8</scope></search><sort><creationdate>20050901</creationdate><title>Aptamer-Derived Nucleic Acid Oligos: Applications to Develop Nucleic Acid Chips to Analyze Proteins and Small Ligands</title><author>Yamamoto-Fujita, Rika ; Kumar, Penmetcha K. R</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-a571t-d72122e990de5fe524fd3618f18a790fe3116fbd2a96d3ea3370890159dca9a3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2005</creationdate><topic>Amino acids</topic><topic>Analytical biochemistry: general aspects, technics, instrumentation</topic><topic>Analytical chemistry</topic><topic>Analytical, structural and metabolic biochemistry</topic><topic>Aptamers, Nucleotide - chemistry</topic><topic>Base Sequence</topic><topic>Biological and medical sciences</topic><topic>Biosensors</topic><topic>Chemistry</topic><topic>Exact sciences and technology</topic><topic>Fundamental and applied biological sciences. Psychology</topic><topic>Gene Products, tat - chemistry</topic><topic>General, instrumentation</topic><topic>Human immunodeficiency virus 1</topic><topic>Lab-On-A-Chip Devices</topic><topic>Ligands</topic><topic>Microchip Analytical Procedures - methods</topic><topic>Molecular Sequence Data</topic><topic>Nucleic Acid Conformation</topic><topic>Nucleic Acids - chemistry</topic><topic>Oligonucleotides - chemistry</topic><topic>Proteins</topic><topic>Proteins - analysis</topic><topic>Proteins - metabolism</topic><topic>Semiconductors</topic><topic>Titrimetry</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Yamamoto-Fujita, Rika</creatorcontrib><creatorcontrib>Kumar, Penmetcha K. R</creatorcontrib><collection>Istex</collection><collection>Pascal-Francis</collection><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>Aluminium Industry Abstracts</collection><collection>Biotechnology Research Abstracts</collection><collection>Ceramic Abstracts</collection><collection>Computer and Information Systems Abstracts</collection><collection>Corrosion Abstracts</collection><collection>Electronics & Communications Abstracts</collection><collection>Engineered Materials Abstracts</collection><collection>Materials Business File</collection><collection>Mechanical & Transportation Engineering Abstracts</collection><collection>Nucleic Acids Abstracts</collection><collection>Solid State and Superconductivity Abstracts</collection><collection>Toxicology Abstracts</collection><collection>Virology and AIDS Abstracts</collection><collection>METADEX</collection><collection>Technology Research Database</collection><collection>Environmental Sciences and Pollution Management</collection><collection>ANTE: Abstracts in New Technology & Engineering</collection><collection>Engineering Research Database</collection><collection>Aerospace Database</collection><collection>Copper Technical Reference Library</collection><collection>AIDS and Cancer Research Abstracts</collection><collection>Materials Research Database</collection><collection>ProQuest Computer Science Collection</collection><collection>Civil Engineering Abstracts</collection><collection>Advanced Technologies Database with Aerospace</collection><collection>Computer and Information Systems Abstracts Academic</collection><collection>Computer and Information Systems Abstracts Professional</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>MEDLINE - Academic</collection><jtitle>Analytical chemistry (Washington)</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Yamamoto-Fujita, Rika</au><au>Kumar, Penmetcha K. R</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Aptamer-Derived Nucleic Acid Oligos: Applications to Develop Nucleic Acid Chips to Analyze Proteins and Small Ligands</atitle><jtitle>Analytical chemistry (Washington)</jtitle><addtitle>Anal. Chem</addtitle><date>2005-09-01</date><risdate>2005</risdate><volume>77</volume><issue>17</issue><spage>5460</spage><epage>5466</epage><pages>5460-5466</pages><issn>0003-2700</issn><eissn>1520-6882</eissn><coden>ANCHAM</coden><abstract>The specificity and affinity of aptamers for their cognate ligands are comparable to those of antibodies for antigens. To use aptamers effectively in high-throughput assays in a microarray format, to analyze various analytes, we developed a strategy in which the aptamer was split into two nonfunctional units and allowed to reassemble into the functional aptamer by the cognate ligand. We have named this method “analyte-dependent oligonucleotide modulation assay” (ADONMA). As proof-of-principle, we used oligonucleotides derived from the aptamer RNA against HIV-1 Tat and demonstrated, with both titer plates and plastic slide chips, that specifically in the presence of Tat or its peptide, the two oligos reconstituted the core binding regions of Tat. Thus, these results suggest that ADNOMA has the potential for use in nucleic acid microarrays for detecting various ligands.</abstract><cop>Washington, DC</cop><pub>American Chemical Society</pub><pmid>16131053</pmid><doi>10.1021/ac050364f</doi><tpages>7</tpages></addata></record> |
| fulltext | fulltext |
| identifier | ISSN: 0003-2700 |
| ispartof | Analytical chemistry (Washington), 2005-09, Vol.77 (17), p.5460-5466 |
| issn | 0003-2700 1520-6882 |
| language | eng |
| recordid | cdi_proquest_miscellaneous_68535619 |
| source | MEDLINE; American Chemical Society Journals |
| subjects | Amino acids Analytical biochemistry: general aspects, technics, instrumentation Analytical chemistry Analytical, structural and metabolic biochemistry Aptamers, Nucleotide - chemistry Base Sequence Biological and medical sciences Biosensors Chemistry Exact sciences and technology Fundamental and applied biological sciences. Psychology Gene Products, tat - chemistry General, instrumentation Human immunodeficiency virus 1 Lab-On-A-Chip Devices Ligands Microchip Analytical Procedures - methods Molecular Sequence Data Nucleic Acid Conformation Nucleic Acids - chemistry Oligonucleotides - chemistry Proteins Proteins - analysis Proteins - metabolism Semiconductors Titrimetry |
| title | Aptamer-Derived Nucleic Acid Oligos: Applications to Develop Nucleic Acid Chips to Analyze Proteins and Small Ligands |
| url | https://sfx.bib-bvb.de/sfx_tum?ctx_ver=Z39.88-2004&ctx_enc=info:ofi/enc:UTF-8&ctx_tim=2025-02-04T01%3A44%3A36IST&url_ver=Z39.88-2004&url_ctx_fmt=infofi/fmt:kev:mtx:ctx&rfr_id=info:sid/primo.exlibrisgroup.com:primo3-Article-proquest_cross&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.genre=article&rft.atitle=Aptamer-Derived%20Nucleic%20Acid%20Oligos:%E2%80%89%20Applications%20to%20Develop%20Nucleic%20Acid%20Chips%20to%20Analyze%20Proteins%20and%20Small%20Ligands&rft.jtitle=Analytical%20chemistry%20(Washington)&rft.au=Yamamoto-Fujita,%20Rika&rft.date=2005-09-01&rft.volume=77&rft.issue=17&rft.spage=5460&rft.epage=5466&rft.pages=5460-5466&rft.issn=0003-2700&rft.eissn=1520-6882&rft.coden=ANCHAM&rft_id=info:doi/10.1021/ac050364f&rft_dat=%3Cproquest_cross%3E895772671%3C/proquest_cross%3E%3Curl%3E%3C/url%3E&disable_directlink=true&sfx.directlink=off&sfx.report_link=0&rft_id=info:oai/&rft_pqid=217873007&rft_id=info:pmid/16131053&rfr_iscdi=true |