Cargando…
The TriForC database: a comprehensive up-to-date resource of plant triterpene biosynthesis
Triterpenes constitute a large and important class of plant natural products with diverse structures and functions. Their biological roles range from membrane structural components over plant hormones to specialized plant defence compounds. Furthermore, triterpenes have great potential for a variety...
Autores principales: | , , , , , , , , |
---|---|
Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Oxford University Press
2018
|
Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5753214/ https://www.ncbi.nlm.nih.gov/pubmed/29045755 http://dx.doi.org/10.1093/nar/gkx925 |
_version_ | 1783290231951196160 |
---|---|
author | Miettinen, Karel Iñigo, Sabrina Kreft, Lukasz Pollier, Jacob De Bo, Christof Botzki, Alexander Coppens, Frederik Bak, Søren Goossens, Alain |
author_facet | Miettinen, Karel Iñigo, Sabrina Kreft, Lukasz Pollier, Jacob De Bo, Christof Botzki, Alexander Coppens, Frederik Bak, Søren Goossens, Alain |
author_sort | Miettinen, Karel |
collection | PubMed |
description | Triterpenes constitute a large and important class of plant natural products with diverse structures and functions. Their biological roles range from membrane structural components over plant hormones to specialized plant defence compounds. Furthermore, triterpenes have great potential for a variety of commercial applications such as vaccine adjuvants, anti-cancer drugs, food supplements and agronomic agents. Their biosynthesis is carried out through complicated, branched pathways by multiple enzyme types that include oxidosqualene cyclases, cytochrome P450s, and UDP-glycosyltransferases. Given that the number of characterized triterpene biosynthesis enzymes has been growing fast recently, the need for a database specifically focusing on triterpene enzymology became eminent. Here, we present the TriForC database (http://bioinformatics.psb.ugent.be/triforc/), encompassing a comprehensive catalogue of triterpene biosynthesis enzymes. This highly interlinked database serves as a user-friendly access point to versatile data sets of enzyme and compound features, enabling the scanning of a complete catalogue of experimentally validated triterpene enzymes, their substrates and products, as well as the pathways they constitute in various plant species. The database can be accessed by direct browsing or through convenient search tools including keyword, BLAST, plant species and substructure options. This database will facilitate gene mining and creating genetic toolboxes for triterpene synthetic biology. |
format | Online Article Text |
id | pubmed-5753214 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2018 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-57532142018-01-05 The TriForC database: a comprehensive up-to-date resource of plant triterpene biosynthesis Miettinen, Karel Iñigo, Sabrina Kreft, Lukasz Pollier, Jacob De Bo, Christof Botzki, Alexander Coppens, Frederik Bak, Søren Goossens, Alain Nucleic Acids Res Database Issue Triterpenes constitute a large and important class of plant natural products with diverse structures and functions. Their biological roles range from membrane structural components over plant hormones to specialized plant defence compounds. Furthermore, triterpenes have great potential for a variety of commercial applications such as vaccine adjuvants, anti-cancer drugs, food supplements and agronomic agents. Their biosynthesis is carried out through complicated, branched pathways by multiple enzyme types that include oxidosqualene cyclases, cytochrome P450s, and UDP-glycosyltransferases. Given that the number of characterized triterpene biosynthesis enzymes has been growing fast recently, the need for a database specifically focusing on triterpene enzymology became eminent. Here, we present the TriForC database (http://bioinformatics.psb.ugent.be/triforc/), encompassing a comprehensive catalogue of triterpene biosynthesis enzymes. This highly interlinked database serves as a user-friendly access point to versatile data sets of enzyme and compound features, enabling the scanning of a complete catalogue of experimentally validated triterpene enzymes, their substrates and products, as well as the pathways they constitute in various plant species. The database can be accessed by direct browsing or through convenient search tools including keyword, BLAST, plant species and substructure options. This database will facilitate gene mining and creating genetic toolboxes for triterpene synthetic biology. Oxford University Press 2018-01-04 2017-10-17 /pmc/articles/PMC5753214/ /pubmed/29045755 http://dx.doi.org/10.1093/nar/gkx925 Text en © The Author(s) 2017. Published by Oxford University Press on behalf of Nucleic Acids Research. http://creativecommons.org/licenses/by-nc/4.0/ This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com |
spellingShingle | Database Issue Miettinen, Karel Iñigo, Sabrina Kreft, Lukasz Pollier, Jacob De Bo, Christof Botzki, Alexander Coppens, Frederik Bak, Søren Goossens, Alain The TriForC database: a comprehensive up-to-date resource of plant triterpene biosynthesis |
title | The TriForC database: a comprehensive up-to-date resource of plant triterpene biosynthesis |
title_full | The TriForC database: a comprehensive up-to-date resource of plant triterpene biosynthesis |
title_fullStr | The TriForC database: a comprehensive up-to-date resource of plant triterpene biosynthesis |
title_full_unstemmed | The TriForC database: a comprehensive up-to-date resource of plant triterpene biosynthesis |
title_short | The TriForC database: a comprehensive up-to-date resource of plant triterpene biosynthesis |
title_sort | triforc database: a comprehensive up-to-date resource of plant triterpene biosynthesis |
topic | Database Issue |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5753214/ https://www.ncbi.nlm.nih.gov/pubmed/29045755 http://dx.doi.org/10.1093/nar/gkx925 |
work_keys_str_mv | AT miettinenkarel thetriforcdatabaseacomprehensiveuptodateresourceofplanttriterpenebiosynthesis AT inigosabrina thetriforcdatabaseacomprehensiveuptodateresourceofplanttriterpenebiosynthesis AT kreftlukasz thetriforcdatabaseacomprehensiveuptodateresourceofplanttriterpenebiosynthesis AT pollierjacob thetriforcdatabaseacomprehensiveuptodateresourceofplanttriterpenebiosynthesis AT debochristof thetriforcdatabaseacomprehensiveuptodateresourceofplanttriterpenebiosynthesis AT botzkialexander thetriforcdatabaseacomprehensiveuptodateresourceofplanttriterpenebiosynthesis AT coppensfrederik thetriforcdatabaseacomprehensiveuptodateresourceofplanttriterpenebiosynthesis AT baksøren thetriforcdatabaseacomprehensiveuptodateresourceofplanttriterpenebiosynthesis AT goossensalain thetriforcdatabaseacomprehensiveuptodateresourceofplanttriterpenebiosynthesis AT miettinenkarel triforcdatabaseacomprehensiveuptodateresourceofplanttriterpenebiosynthesis AT inigosabrina triforcdatabaseacomprehensiveuptodateresourceofplanttriterpenebiosynthesis AT kreftlukasz triforcdatabaseacomprehensiveuptodateresourceofplanttriterpenebiosynthesis AT pollierjacob triforcdatabaseacomprehensiveuptodateresourceofplanttriterpenebiosynthesis AT debochristof triforcdatabaseacomprehensiveuptodateresourceofplanttriterpenebiosynthesis AT botzkialexander triforcdatabaseacomprehensiveuptodateresourceofplanttriterpenebiosynthesis AT coppensfrederik triforcdatabaseacomprehensiveuptodateresourceofplanttriterpenebiosynthesis AT baksøren triforcdatabaseacomprehensiveuptodateresourceofplanttriterpenebiosynthesis AT goossensalain triforcdatabaseacomprehensiveuptodateresourceofplanttriterpenebiosynthesis |