Continuation and Enhancement of the PSI: Biology-Materials Repository

Project: Research project

Description

Collections of plasmids, including empty vectors and those with gene inserts, are an invaluable resource to the research community, saving researchers time and money and thus expediting a variety of biological and biomedical experimental applications. The successful distribution of these plasmid collections requires the plasmid clones to be stored in a regulated environment, to be easily retrieved from the collection, and to maintain an accurate electronic record of all transactions. For the past five years at the Harvard Medical School Institute of Proteomics ..HIP.., we have built a collection of 270,000 plasmids with genes from more than 200 organisms that includes clones created at HIP, human and mouse genes from the ORFeome collaboration, various clones from outside researchers and, most recently, clones created by researchers in the NIGMS]funded Protein Structure Initiative ..PSI.. after we became the PSI Material Repository ..PSI]MR.. in 2006. We currently store these clones in a prototype version of the Thermo Scientific BioBank that has storage capacity for 160,000 samples with integrated tube picking capability. Researchers can search our database of plasmids and order any of the plasmids in our collection through a website developed in our laboratory ..PlasmID; http://plasmid.med.harvard.edu/PLASMID... We have distributed over 200,000 plasmids to researchers from over 550 laboratories across the US and around the world at a lower cost than comparable profit and not]forprofit resources. The BioBank has been essential for our operations thus far; however, as a prototype it has a number of technical problems. The instrument at Harvard will continue to store plasmids and will provide essential off site storage for our valuable collection. However, the repository at ASU requires a state]of]the]art instrument to effectively store, maintain and distribute its growing collection of plasmids created by the PSI, by our laboratory, and by researchers from institutions in the Southwestern United States. To continue providing this service to the scientific community, we are requesting funding for a third generation BioBank from Thermo Scientific to function as our new Automated Storage/Retrieval System ..ASRS.. for the ]80..C storage of plasmids as glycerol stocks.

Description

The Protein Structure Initiative:Biology-Materials Repository (PSI:Biology-MR), funded by the NIGMS, has the mission of archiving, sequencing, and distributing plasmids created by researchers as part of the PSI. We are requesting a supplement to this grant to complete cloning the remainder of protein-coding genes in the human ORFeome, which comprises all protein coding genes in the human genome. This project was initiated in 2005 by the ORFeome Collaboration, and in the past 10 years, this self-funded effort of up to a dozen international bioscience laboratories and commercial groups has resulted in a collection of plasmids representing nearly 14,000 out of 20,203 human genes listed in RefSeq. These human genes are of great interest to the biological community. To complete the cloning of the remaining 30% of the ORFeome, we will use two parallel approaches. First, we are using internal funding sources to transfer any non-Gateway human gene templates that we have available in DNASU into the Gateway vector. The remaining 4,036 genes for which we cannot find any readily-available template will be completed through a public-private partnership with an innovative gene synthesis company, Gen9, who will optimize the open reading frame (ORF) sequence and synthesize these ORFs at the lowest cost per base that is currently available. This project is within the scope of PSI:Biology, which is to further the understanding of biology through structural biology, and increases the overall impact of the PSI:Biology-MR within the research community by providing additional human templates that can be used for protein expression, purification and biological studies. This collection will also facilitate global biomedical research by creating a one-stop shop to find human genes for any possible research project including direct production of human proteins for biological, biochemical and biophysical studies and screens using the full human gene complement. Moreover, the completion of the first full ORF set will provide researchers with access to all human genes with targeted biological functions, such as acetylases, kinases, phosphatases, or GPCRs. These plasmids will be available for the global research community through DNASU and all other ORFeome Collaboration distributors.
StatusFinished
Effective start/end date9/1/118/31/17

Funding

  • HHS-NIH: National Institute of General Medical Sciences (NIGMS): $7,139,819.00

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Plasmids
Research Personnel
Genes
Clone Cells
National Institute of General Medical Sciences (U.S.)
Proteins
Open Reading Frames
Research
Organism Cloning
Southwestern United States
Public-Private Sector Partnerships
Acetylesterase
Costs and Cost Analysis
Biota
Organized Financing
Human Genome
Medical Schools
Phosphoric Monoester Hydrolases
Proteomics
Glycerol