SEVA 3.0: an update of the Standard European Vector Architecture for enabling portability of genetic constructs among diverse bacterial hosts

Abstract The Standard European Vector Architecture 3.0 database (SEVA-DB 3.0, http://seva.cnb.csic.es) is the update of the platform launched in 2013 both as a web-based resource and as a material repository of formatted genetic tools (mostly plasmids) for analysis, construction and deployment of co...

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Veröffentlicht in:Nucleic acids research 2020-01, Vol.48 (D1), p.D1164-D1170
Hauptverfasser: Martínez-García, Esteban, Goñi-Moreno, Angel, Bartley, Bryan, McLaughlin, James, Sánchez-Sampedro, Lucas, Pascual del Pozo, Héctor, Prieto Hernández, Clara, Marletta, Ada Serena, De Lucrezia, Davide, Sánchez-Fernández, Guzmán, Fraile, Sofía, de Lorenzo, Víctor
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Sprache:eng
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Zusammenfassung:Abstract The Standard European Vector Architecture 3.0 database (SEVA-DB 3.0, http://seva.cnb.csic.es) is the update of the platform launched in 2013 both as a web-based resource and as a material repository of formatted genetic tools (mostly plasmids) for analysis, construction and deployment of complex bacterial phenotypes. The period between the first version of SEVA-DB and the present time has witnessed several technical, computational and conceptual advances in genetic/genomic engineering of prokaryotes that have enabled upgrading of the utilities of the updated database. Novelties include not only a more user-friendly web interface and many more plasmid vectors, but also new links of the plasmids to advanced bioinformatic tools. These provide an intuitive visualization of the constructs at stake and a range of virtual manipulations of DNA segments that were not possible before. Finally, the list of canonical SEVA plasmids is available in machine-readable SBOL (Synthetic Biology Open Language) format. This ensures interoperability with other platforms and affords simulations of their behaviour under different in vivo conditions. We argue that the SEVA-DB will remain a useful resource for extending Synthetic Biology approaches towards non-standard bacterial species as well as genetically programming new prokaryotic chassis for a suite of fundamental and biotechnological endeavours.
ISSN:0305-1048
1362-4962
DOI:10.1093/nar/gkz1024