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Chromogenic detection of yam mosaic virus by closed-tube reverse transcription loop-mediated isothermal amplification (CT-RT-LAMP)
A closed-tube reverse transcription loop-mediated isothermal amplification (CT-RT-LAMP) assay was developed for the detection of yam mosaic virus (YMV, genus Potyvirus ) infecting yam ( Dioscorea spp.). The assay uses a set of six oligonucleotide primers targeting the YMV coat protein region, and th...
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| Published in: | Archives of virology 2018-04, Vol.163 (4), p.1057-1061 |
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| container_issue | 4 |
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| container_title | Archives of virology |
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| creator | Nkere, Chukwuemeka K. Oyekanmi, Joshua O. Silva, Gonçalo Bömer, Moritz Atiri, Gabriel I. Onyeka, Joseph Maroya, Norbert G. Seal, Susan E. Kumar, P. Lava |
| description | A closed-tube reverse transcription loop-mediated isothermal amplification (CT-RT-LAMP) assay was developed for the detection of yam mosaic virus (YMV, genus
Potyvirus
) infecting yam (
Dioscorea
spp.). The assay uses a set of six oligonucleotide primers targeting the YMV coat protein region, and the amplification products in YMV-positive samples are visualized by chromogenic detection with SYBR Green I dye. The CT-RT-LAMP assay detected YMV in leaf and tuber tissues of infected plants. The assay is 100 times more sensitive in detecting YMV than standard RT-PCR, while maintaining the same specificity. |
| doi_str_mv | 10.1007/s00705-018-3706-0 |
| format | article |
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Potyvirus
) infecting yam (
Dioscorea
spp.). The assay uses a set of six oligonucleotide primers targeting the YMV coat protein region, and the amplification products in YMV-positive samples are visualized by chromogenic detection with SYBR Green I dye. The CT-RT-LAMP assay detected YMV in leaf and tuber tissues of infected plants. The assay is 100 times more sensitive in detecting YMV than standard RT-PCR, while maintaining the same specificity.</description><identifier>ISSN: 0304-8608</identifier><identifier>EISSN: 1432-8798</identifier><identifier>DOI: 10.1007/s00705-018-3706-0</identifier><identifier>PMID: 29308543</identifier><language>eng</language><publisher>Vienna: Springer Vienna</publisher><subject>Biomedical and Life Sciences ; Biomedicine ; Brief Report ; Capsid Proteins - analysis ; Capsid Proteins - biosynthesis ; Capsid Proteins - genetics ; Coat protein ; coat proteins ; Dioscorea ; Dioscorea - virology ; DNA polymerase ; DNA primers ; DNA Primers - chemical synthesis ; DNA Primers - metabolism ; Flowers & plants ; Fluorescent Dyes - chemistry ; Gene Expression ; Infectious Diseases ; leaves ; Medical Microbiology ; Nucleic Acid Amplification Techniques ; Oligonucleotides ; Organic Chemicals - chemistry ; Plant Diseases - virology ; Plant Leaves - virology ; Plant Tubers - virology ; Polymerase chain reaction ; Potyvirus - genetics ; Potyvirus - metabolism ; Primers ; Proteins ; reverse transcriptase polymerase chain reaction ; Reverse Transcription ; reverse transcription loop-mediated isothermal amplification ; Sensitivity and Specificity ; tubers ; Virology ; Viruses ; Yam mosaic virus ; yams</subject><ispartof>Archives of virology, 2018-04, Vol.163 (4), p.1057-1061</ispartof><rights>The Author(s) 2018</rights><rights>Archives of Virology is a copyright of Springer, (2018). All Rights Reserved.</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c503t-1ecd9178d9edb3ce2ecf187eccd1488741db46761af4b703c9642865680bc5bc3</citedby><cites>FETCH-LOGICAL-c503t-1ecd9178d9edb3ce2ecf187eccd1488741db46761af4b703c9642865680bc5bc3</cites><orcidid>0000-0003-4388-6510</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><link.rule.ids>230,314,776,780,881,27901,27902</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/29308543$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Nkere, Chukwuemeka K.</creatorcontrib><creatorcontrib>Oyekanmi, Joshua O.</creatorcontrib><creatorcontrib>Silva, Gonçalo</creatorcontrib><creatorcontrib>Bömer, Moritz</creatorcontrib><creatorcontrib>Atiri, Gabriel I.</creatorcontrib><creatorcontrib>Onyeka, Joseph</creatorcontrib><creatorcontrib>Maroya, Norbert G.</creatorcontrib><creatorcontrib>Seal, Susan E.</creatorcontrib><creatorcontrib>Kumar, P. Lava</creatorcontrib><title>Chromogenic detection of yam mosaic virus by closed-tube reverse transcription loop-mediated isothermal amplification (CT-RT-LAMP)</title><title>Archives of virology</title><addtitle>Arch Virol</addtitle><addtitle>Arch Virol</addtitle><description>A closed-tube reverse transcription loop-mediated isothermal amplification (CT-RT-LAMP) assay was developed for the detection of yam mosaic virus (YMV, genus
Potyvirus
) infecting yam (
Dioscorea
spp.). The assay uses a set of six oligonucleotide primers targeting the YMV coat protein region, and the amplification products in YMV-positive samples are visualized by chromogenic detection with SYBR Green I dye. The CT-RT-LAMP assay detected YMV in leaf and tuber tissues of infected plants. The assay is 100 times more sensitive in detecting YMV than standard RT-PCR, while maintaining the same specificity.</description><subject>Biomedical and Life Sciences</subject><subject>Biomedicine</subject><subject>Brief Report</subject><subject>Capsid Proteins - analysis</subject><subject>Capsid Proteins - biosynthesis</subject><subject>Capsid Proteins - genetics</subject><subject>Coat protein</subject><subject>coat proteins</subject><subject>Dioscorea</subject><subject>Dioscorea - virology</subject><subject>DNA polymerase</subject><subject>DNA primers</subject><subject>DNA Primers - chemical synthesis</subject><subject>DNA Primers - metabolism</subject><subject>Flowers & plants</subject><subject>Fluorescent Dyes - chemistry</subject><subject>Gene Expression</subject><subject>Infectious Diseases</subject><subject>leaves</subject><subject>Medical Microbiology</subject><subject>Nucleic Acid Amplification Techniques</subject><subject>Oligonucleotides</subject><subject>Organic Chemicals - chemistry</subject><subject>Plant Diseases - virology</subject><subject>Plant Leaves - virology</subject><subject>Plant Tubers - virology</subject><subject>Polymerase chain reaction</subject><subject>Potyvirus - genetics</subject><subject>Potyvirus - metabolism</subject><subject>Primers</subject><subject>Proteins</subject><subject>reverse transcriptase polymerase chain reaction</subject><subject>Reverse Transcription</subject><subject>reverse transcription loop-mediated isothermal amplification</subject><subject>Sensitivity and Specificity</subject><subject>tubers</subject><subject>Virology</subject><subject>Viruses</subject><subject>Yam mosaic virus</subject><subject>yams</subject><issn>0304-8608</issn><issn>1432-8798</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2018</creationdate><recordtype>article</recordtype><recordid>eNqFksGKFDEQhoMo7rj6AF4k4GU9RJNO0kkuwjLorjCiyHgO6XT1TJbuzph0D8zVJzezsy6rIF4SqPrqr0rlR-glo28ZpepdLgeVhDJNuKI1oY_QggleEa2MfowWlFNBdE31GXqW8w2lJcDlU3RWGU61FHyBfi63KQ5xA2PwuIUJ_BTiiGOHD27AQ8yuxPchzRk3B-z7mKEl09wATrCHlAFPyY3Zp7C7Lexj3JEB2uAmaHHIcdpCGlyP3bDrQxe8u8UulmvybU1Wl5-_vnmOnnSuz_Di7j5H3z9-WC-vyerL1afl5Yp4SflEGPjWMKVbA23DPVTgO6YVeN8yobUSrG1ErWrmOtEoyr2pRaVrWWvaeNl4fo7en3R3c1Mm9DCW0Xu7S2Fw6WCjC_bPzBi2dhP3VpZVKS6KwMWdQIo_ZsiTHUL20PduhDhnW1HJtaqMkv9FmdFGCsMrXdDXf6E3cU5j2cSRkpIZo1ih2InyKeacoLufm1F7NIM9mcEWM9ijGSwtNa8ePvi-4vfvF6A6Abmkxg2kB63_qfoL1f7BgQ</recordid><startdate>20180401</startdate><enddate>20180401</enddate><creator>Nkere, Chukwuemeka K.</creator><creator>Oyekanmi, Joshua O.</creator><creator>Silva, Gonçalo</creator><creator>Bömer, Moritz</creator><creator>Atiri, Gabriel I.</creator><creator>Onyeka, Joseph</creator><creator>Maroya, Norbert G.</creator><creator>Seal, Susan E.</creator><creator>Kumar, P. 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Lava</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Chromogenic detection of yam mosaic virus by closed-tube reverse transcription loop-mediated isothermal amplification (CT-RT-LAMP)</atitle><jtitle>Archives of virology</jtitle><stitle>Arch Virol</stitle><addtitle>Arch Virol</addtitle><date>2018-04-01</date><risdate>2018</risdate><volume>163</volume><issue>4</issue><spage>1057</spage><epage>1061</epage><pages>1057-1061</pages><issn>0304-8608</issn><eissn>1432-8798</eissn><abstract>A closed-tube reverse transcription loop-mediated isothermal amplification (CT-RT-LAMP) assay was developed for the detection of yam mosaic virus (YMV, genus
Potyvirus
) infecting yam (
Dioscorea
spp.). The assay uses a set of six oligonucleotide primers targeting the YMV coat protein region, and the amplification products in YMV-positive samples are visualized by chromogenic detection with SYBR Green I dye. The CT-RT-LAMP assay detected YMV in leaf and tuber tissues of infected plants. The assay is 100 times more sensitive in detecting YMV than standard RT-PCR, while maintaining the same specificity.</abstract><cop>Vienna</cop><pub>Springer Vienna</pub><pmid>29308543</pmid><doi>10.1007/s00705-018-3706-0</doi><tpages>5</tpages><orcidid>https://orcid.org/0000-0003-4388-6510</orcidid><oa>free_for_read</oa></addata></record> |
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| ispartof | Archives of virology, 2018-04, Vol.163 (4), p.1057-1061 |
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| language | eng |
| recordid | cdi_pubmedcentral_primary_oai_pubmedcentral_nih_gov_5854734 |
| source | Springer Nature |
| subjects | Biomedical and Life Sciences Biomedicine Brief Report Capsid Proteins - analysis Capsid Proteins - biosynthesis Capsid Proteins - genetics Coat protein coat proteins Dioscorea Dioscorea - virology DNA polymerase DNA primers DNA Primers - chemical synthesis DNA Primers - metabolism Flowers & plants Fluorescent Dyes - chemistry Gene Expression Infectious Diseases leaves Medical Microbiology Nucleic Acid Amplification Techniques Oligonucleotides Organic Chemicals - chemistry Plant Diseases - virology Plant Leaves - virology Plant Tubers - virology Polymerase chain reaction Potyvirus - genetics Potyvirus - metabolism Primers Proteins reverse transcriptase polymerase chain reaction Reverse Transcription reverse transcription loop-mediated isothermal amplification Sensitivity and Specificity tubers Virology Viruses Yam mosaic virus yams |
| title | Chromogenic detection of yam mosaic virus by closed-tube reverse transcription loop-mediated isothermal amplification (CT-RT-LAMP) |
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