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DNASU Plasmid Repository


NAR Molecular Biology Database Collection entry number 1295
Catherine Y. Seiler1, Jin Park1, Amit Sharma1, Preston Hunter1, Padmini Surapaneni1, Casey Sedillo1, James Field2, Rhys Algar2, Andrea Price1, Jason Steel1, Andrea Throop1, Michael Fiacco1, and Joshua LaBaer1
1 Virginia G. Piper Center for Personalized Diagnostics, Biodesign Institute, Arizona State University, 1001 S. McAllister Dr. Tempe, AZ 85287-6401 2 LabGenius, 20-22 Bedford Row, London, United Kingdom, WC1R 4JS.

Database Description

The mission of the DNASU Plasmid Repository is to accelerate research by providing high-quality, annotated plasmid samples and online plasmid resources to the research community through the curated DNASU database, website and repository (http://dnasu.asu.edu or http://dnasu.org). The collection includes plasmids from grant-funded, high-throughput cloning projects performed in our laboratory, plasmids from external researchers, and large collections from consortia such as the ORFeome Collaboration and the NIGMS-funded Protein Structure Initiative: Biology (PSI:Biology). Through DNASU, researchers can search for and access detailed information about each plasmid such as the full length gene sequence, vector information, associated publications, and links to external resources that provide additional protein annotations and experimental protocols. Plasmids can be requested directly through the DNASU website. Overall, these plasmid resources continue to enable research with the goal of elucidating the role of proteins in both normal biological processes and disease

Recent Developments

Since the first report in 2010 (1,2), the number of clones stored and distributed through DNASU has nearly doubled to 197,000 plasmids containing gene inserts from over 700 species. Over 74,000 of these plasmids contain human genes, representing ~15,000 unique human genes. In addition to adding new plasmids to DNASU, we have considerably updated the website annotations and search capabilities. DNASU’s five search options have been improved and six new browse features were created to provide flexibility in finding plasmids within the database. The clone annotations page was also overhauled to provide detailed, well-annotated information about each plasmid on a single easy-to-navigate page that can be accessed directly from the search results. Plasmid information is now organized into three tabs containing information about the gene insert, the vector, and annotations. This information includes the new Dynamic (DyNA) Vector Map widget was created in collaboration with LabGenius. We continue to distribute plasmids to researchers worldwide with the added convenience of handling the Material Transfer Agreement through our Expedited MTA Network. Finally, DNASU openly encourages researchers to deposit plasmids in the repository, which functions as a secure archive site and alleviates the researcher’s burden of storage, maintenance, and distribution of plasmids.

Acknowledgements

DNASU and PSI:Biology-Materials Repository would like to thank all plasmid depositors, outreach partners and collaborators. Most especially, we want to thank the PSI:Biology centers, the PSI:Biology Structural Biology Knowledgebase, and the NIGMS staff for their continued support and input in all aspects of this project. The authors would like to thank Christina Smith for her graphic design skills in designing the DNASU website, and Randle Kuehner for his help developing the PDB viewer. This work was supported by the National Institute of General Medical Sciences [grant number U01 GM098912] and the Virginia G. Piper Charitable Trust.

References

1.Cormier, C.Y., Mohr, S.E., Zuo, D., Hu, Y., Rolfs, A., Kramer, J., Taycher, E., Kelley, F., Fiacco, M., Turnbull, G. et al. (2010) Protein Structure Initiative Material Repository: an open shared public resource of structural genomics plasmids for the biological community. Nucleic acids research, 38, D743-749. 2. Cormier, C.Y., Park, J.G., Fiacco, M., Steel, J., Hunter, P., Kramer, J., Singla, R. and LaBaer, J. (2011) PSI:Biology-materials repository: a biologist's resource for protein expression plasmids. Journal of structural and functional genomics, 12, 55-62.


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