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Virus‐induced gene silencing database for phenomics and functional genomics in Nicotiana benthamiana
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| Zeitschriftentitel: | Plant Direct |
|---|---|
| Personen und Körperschaften: | , , , , , , , , , , , , , , , |
| In: | Plant Direct, 2, 2018, 4 |
| Format: | E-Article |
| Sprache: | Englisch |
| veröffentlicht: |
Wiley
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| Schlagwörter: |
| author_facet |
Senthil‐Kumar, Muthappa Wang, Mingyi Chang, Junil Ramegowda, Venkategowda del Pozo, Olga Liu, Yule Doraiswamy, Vanthana Lee, Hee‐Kyung Ryu, Choong‐Min Wang, Keri Xu, Ping Van Eck, Joyce Chakravarthy, Suma Dinesh‐Kumar, Savithramma P. Martin, Gregory B. Mysore, Kirankumar S. Senthil‐Kumar, Muthappa Wang, Mingyi Chang, Junil Ramegowda, Venkategowda del Pozo, Olga Liu, Yule Doraiswamy, Vanthana Lee, Hee‐Kyung Ryu, Choong‐Min Wang, Keri Xu, Ping Van Eck, Joyce Chakravarthy, Suma Dinesh‐Kumar, Savithramma P. Martin, Gregory B. Mysore, Kirankumar S. |
|---|---|
| author |
Senthil‐Kumar, Muthappa Wang, Mingyi Chang, Junil Ramegowda, Venkategowda del Pozo, Olga Liu, Yule Doraiswamy, Vanthana Lee, Hee‐Kyung Ryu, Choong‐Min Wang, Keri Xu, Ping Van Eck, Joyce Chakravarthy, Suma Dinesh‐Kumar, Savithramma P. Martin, Gregory B. Mysore, Kirankumar S. |
| spellingShingle |
Senthil‐Kumar, Muthappa Wang, Mingyi Chang, Junil Ramegowda, Venkategowda del Pozo, Olga Liu, Yule Doraiswamy, Vanthana Lee, Hee‐Kyung Ryu, Choong‐Min Wang, Keri Xu, Ping Van Eck, Joyce Chakravarthy, Suma Dinesh‐Kumar, Savithramma P. Martin, Gregory B. Mysore, Kirankumar S. Plant Direct Virus‐induced gene silencing database for phenomics and functional genomics in Nicotiana benthamiana Plant Science Biochemistry, Genetics and Molecular Biology (miscellaneous) Ecology Ecology, Evolution, Behavior and Systematics |
| author_sort |
senthil‐kumar, muthappa |
| spelling |
Senthil‐Kumar, Muthappa Wang, Mingyi Chang, Junil Ramegowda, Venkategowda del Pozo, Olga Liu, Yule Doraiswamy, Vanthana Lee, Hee‐Kyung Ryu, Choong‐Min Wang, Keri Xu, Ping Van Eck, Joyce Chakravarthy, Suma Dinesh‐Kumar, Savithramma P. Martin, Gregory B. Mysore, Kirankumar S. 2475-4455 2475-4455 Wiley Plant Science Biochemistry, Genetics and Molecular Biology (miscellaneous) Ecology Ecology, Evolution, Behavior and Systematics http://dx.doi.org/10.1002/pld3.55 <jats:title>Abstract</jats:title><jats:p>Virus‐induced gene silencing (<jats:styled-content style="fixed-case">VIGS</jats:styled-content>) is an important forward and reverse genetics method for the study of gene function in many plant species, especially <jats:italic>Nicotiana benthamiana</jats:italic>. However, despite the widespread use of <jats:styled-content style="fixed-case">VIGS</jats:styled-content>, a searchable database compiling the phenotypes observed with this method is lacking. Such a database would allow researchers to know the phenotype associated with the silencing of a large number of individual genes without experimentation. We have developed a <jats:styled-content style="fixed-case">VIGS</jats:styled-content> phenomics and functional genomics database (<jats:styled-content style="fixed-case">VPGD</jats:styled-content>) that has <jats:styled-content style="fixed-case">DNA</jats:styled-content> sequence information derived from over 4,000 <jats:italic>N. benthamiana </jats:italic><jats:styled-content style="fixed-case">VIGS</jats:styled-content> clones along with the associated silencing phenotype for approximately 1,300 genes. The <jats:styled-content style="fixed-case">VPGD</jats:styled-content> has a built‐in <jats:styled-content style="fixed-case">BLAST</jats:styled-content> search feature that provides silencing phenotype information of specific genes. In addition, a keyword‐based search function could be used to find a specific phenotype of interest with the corresponding gene, including its Gene Ontology descriptions. Query gene sequences from other plant species that have not been used for <jats:styled-content style="fixed-case">VIGS</jats:styled-content> can also be searched for their homologs and silencing phenotype in <jats:italic>N. benthamiana</jats:italic>. <jats:styled-content style="fixed-case">VPGD</jats:styled-content> is useful for identifying gene function not only in <jats:italic>N. benthamiana</jats:italic> but also in related Solanaceae plants such as tomato and potato. The database is accessible at <jats:ext-link xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="http://vigs.noble.org">http://vigs.noble.org</jats:ext-link>.</jats:p> Virus‐induced gene silencing database for phenomics and functional genomics in <i>Nicotiana benthamiana</i> Plant Direct |
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10.1002/pld3.55 |
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| title |
Virus‐induced gene silencing database for phenomics and functional genomics in Nicotiana benthamiana |
| title_unstemmed |
Virus‐induced gene silencing database for phenomics and functional genomics in Nicotiana benthamiana |
| title_full |
Virus‐induced gene silencing database for phenomics and functional genomics in Nicotiana benthamiana |
| title_fullStr |
Virus‐induced gene silencing database for phenomics and functional genomics in Nicotiana benthamiana |
| title_full_unstemmed |
Virus‐induced gene silencing database for phenomics and functional genomics in Nicotiana benthamiana |
| title_short |
Virus‐induced gene silencing database for phenomics and functional genomics in Nicotiana benthamiana |
| title_sort |
virus‐induced gene silencing database for phenomics and functional genomics in <i>nicotiana benthamiana</i> |
| topic |
Plant Science Biochemistry, Genetics and Molecular Biology (miscellaneous) Ecology Ecology, Evolution, Behavior and Systematics |
| url |
http://dx.doi.org/10.1002/pld3.55 |
| publishDate |
2018 |
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<jats:title>Abstract</jats:title><jats:p>Virus‐induced gene silencing (<jats:styled-content style="fixed-case">VIGS</jats:styled-content>) is an important forward and reverse genetics method for the study of gene function in many plant species, especially <jats:italic>Nicotiana benthamiana</jats:italic>. However, despite the widespread use of <jats:styled-content style="fixed-case">VIGS</jats:styled-content>, a searchable database compiling the phenotypes observed with this method is lacking. Such a database would allow researchers to know the phenotype associated with the silencing of a large number of individual genes without experimentation. We have developed a <jats:styled-content style="fixed-case">VIGS</jats:styled-content> phenomics and functional genomics database (<jats:styled-content style="fixed-case">VPGD</jats:styled-content>) that has <jats:styled-content style="fixed-case">DNA</jats:styled-content> sequence information derived from over 4,000 <jats:italic>N. benthamiana </jats:italic><jats:styled-content style="fixed-case">VIGS</jats:styled-content> clones along with the associated silencing phenotype for approximately 1,300 genes. The <jats:styled-content style="fixed-case">VPGD</jats:styled-content> has a built‐in <jats:styled-content style="fixed-case">BLAST</jats:styled-content> search feature that provides silencing phenotype information of specific genes. In addition, a keyword‐based search function could be used to find a specific phenotype of interest with the corresponding gene, including its Gene Ontology descriptions. Query gene sequences from other plant species that have not been used for <jats:styled-content style="fixed-case">VIGS</jats:styled-content> can also be searched for their homologs and silencing phenotype in <jats:italic>N. benthamiana</jats:italic>. <jats:styled-content style="fixed-case">VPGD</jats:styled-content> is useful for identifying gene function not only in <jats:italic>N. benthamiana</jats:italic> but also in related Solanaceae plants such as tomato and potato. The database is accessible at <jats:ext-link xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="http://vigs.noble.org">http://vigs.noble.org</jats:ext-link>.</jats:p> |
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| author_facet | Senthil‐Kumar, Muthappa, Wang, Mingyi, Chang, Junil, Ramegowda, Venkategowda, del Pozo, Olga, Liu, Yule, Doraiswamy, Vanthana, Lee, Hee‐Kyung, Ryu, Choong‐Min, Wang, Keri, Xu, Ping, Van Eck, Joyce, Chakravarthy, Suma, Dinesh‐Kumar, Savithramma P., Martin, Gregory B., Mysore, Kirankumar S., Senthil‐Kumar, Muthappa, Wang, Mingyi, Chang, Junil, Ramegowda, Venkategowda, del Pozo, Olga, Liu, Yule, Doraiswamy, Vanthana, Lee, Hee‐Kyung, Ryu, Choong‐Min, Wang, Keri, Xu, Ping, Van Eck, Joyce, Chakravarthy, Suma, Dinesh‐Kumar, Savithramma P., Martin, Gregory B., Mysore, Kirankumar S. |
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| description | <jats:title>Abstract</jats:title><jats:p>Virus‐induced gene silencing (<jats:styled-content style="fixed-case">VIGS</jats:styled-content>) is an important forward and reverse genetics method for the study of gene function in many plant species, especially <jats:italic>Nicotiana benthamiana</jats:italic>. However, despite the widespread use of <jats:styled-content style="fixed-case">VIGS</jats:styled-content>, a searchable database compiling the phenotypes observed with this method is lacking. Such a database would allow researchers to know the phenotype associated with the silencing of a large number of individual genes without experimentation. We have developed a <jats:styled-content style="fixed-case">VIGS</jats:styled-content> phenomics and functional genomics database (<jats:styled-content style="fixed-case">VPGD</jats:styled-content>) that has <jats:styled-content style="fixed-case">DNA</jats:styled-content> sequence information derived from over 4,000 <jats:italic>N. benthamiana </jats:italic><jats:styled-content style="fixed-case">VIGS</jats:styled-content> clones along with the associated silencing phenotype for approximately 1,300 genes. The <jats:styled-content style="fixed-case">VPGD</jats:styled-content> has a built‐in <jats:styled-content style="fixed-case">BLAST</jats:styled-content> search feature that provides silencing phenotype information of specific genes. In addition, a keyword‐based search function could be used to find a specific phenotype of interest with the corresponding gene, including its Gene Ontology descriptions. Query gene sequences from other plant species that have not been used for <jats:styled-content style="fixed-case">VIGS</jats:styled-content> can also be searched for their homologs and silencing phenotype in <jats:italic>N. benthamiana</jats:italic>. <jats:styled-content style="fixed-case">VPGD</jats:styled-content> is useful for identifying gene function not only in <jats:italic>N. benthamiana</jats:italic> but also in related Solanaceae plants such as tomato and potato. The database is accessible at <jats:ext-link xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="http://vigs.noble.org">http://vigs.noble.org</jats:ext-link>.</jats:p> |
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| spelling | Senthil‐Kumar, Muthappa Wang, Mingyi Chang, Junil Ramegowda, Venkategowda del Pozo, Olga Liu, Yule Doraiswamy, Vanthana Lee, Hee‐Kyung Ryu, Choong‐Min Wang, Keri Xu, Ping Van Eck, Joyce Chakravarthy, Suma Dinesh‐Kumar, Savithramma P. Martin, Gregory B. Mysore, Kirankumar S. 2475-4455 2475-4455 Wiley Plant Science Biochemistry, Genetics and Molecular Biology (miscellaneous) Ecology Ecology, Evolution, Behavior and Systematics http://dx.doi.org/10.1002/pld3.55 <jats:title>Abstract</jats:title><jats:p>Virus‐induced gene silencing (<jats:styled-content style="fixed-case">VIGS</jats:styled-content>) is an important forward and reverse genetics method for the study of gene function in many plant species, especially <jats:italic>Nicotiana benthamiana</jats:italic>. However, despite the widespread use of <jats:styled-content style="fixed-case">VIGS</jats:styled-content>, a searchable database compiling the phenotypes observed with this method is lacking. Such a database would allow researchers to know the phenotype associated with the silencing of a large number of individual genes without experimentation. We have developed a <jats:styled-content style="fixed-case">VIGS</jats:styled-content> phenomics and functional genomics database (<jats:styled-content style="fixed-case">VPGD</jats:styled-content>) that has <jats:styled-content style="fixed-case">DNA</jats:styled-content> sequence information derived from over 4,000 <jats:italic>N. benthamiana </jats:italic><jats:styled-content style="fixed-case">VIGS</jats:styled-content> clones along with the associated silencing phenotype for approximately 1,300 genes. The <jats:styled-content style="fixed-case">VPGD</jats:styled-content> has a built‐in <jats:styled-content style="fixed-case">BLAST</jats:styled-content> search feature that provides silencing phenotype information of specific genes. In addition, a keyword‐based search function could be used to find a specific phenotype of interest with the corresponding gene, including its Gene Ontology descriptions. Query gene sequences from other plant species that have not been used for <jats:styled-content style="fixed-case">VIGS</jats:styled-content> can also be searched for their homologs and silencing phenotype in <jats:italic>N. benthamiana</jats:italic>. <jats:styled-content style="fixed-case">VPGD</jats:styled-content> is useful for identifying gene function not only in <jats:italic>N. benthamiana</jats:italic> but also in related Solanaceae plants such as tomato and potato. The database is accessible at <jats:ext-link xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="http://vigs.noble.org">http://vigs.noble.org</jats:ext-link>.</jats:p> Virus‐induced gene silencing database for phenomics and functional genomics in <i>Nicotiana benthamiana</i> Plant Direct |
| spellingShingle | Senthil‐Kumar, Muthappa, Wang, Mingyi, Chang, Junil, Ramegowda, Venkategowda, del Pozo, Olga, Liu, Yule, Doraiswamy, Vanthana, Lee, Hee‐Kyung, Ryu, Choong‐Min, Wang, Keri, Xu, Ping, Van Eck, Joyce, Chakravarthy, Suma, Dinesh‐Kumar, Savithramma P., Martin, Gregory B., Mysore, Kirankumar S., Plant Direct, Virus‐induced gene silencing database for phenomics and functional genomics in Nicotiana benthamiana, Plant Science, Biochemistry, Genetics and Molecular Biology (miscellaneous), Ecology, Ecology, Evolution, Behavior and Systematics |
| title | Virus‐induced gene silencing database for phenomics and functional genomics in Nicotiana benthamiana |
| title_full | Virus‐induced gene silencing database for phenomics and functional genomics in Nicotiana benthamiana |
| title_fullStr | Virus‐induced gene silencing database for phenomics and functional genomics in Nicotiana benthamiana |
| title_full_unstemmed | Virus‐induced gene silencing database for phenomics and functional genomics in Nicotiana benthamiana |
| title_short | Virus‐induced gene silencing database for phenomics and functional genomics in Nicotiana benthamiana |
| title_sort | virus‐induced gene silencing database for phenomics and functional genomics in <i>nicotiana benthamiana</i> |
| title_unstemmed | Virus‐induced gene silencing database for phenomics and functional genomics in Nicotiana benthamiana |
| topic | Plant Science, Biochemistry, Genetics and Molecular Biology (miscellaneous), Ecology, Ecology, Evolution, Behavior and Systematics |
| url | http://dx.doi.org/10.1002/pld3.55 |