Opening options for material transfer

Kahl, Linda J.; Molloy, Jenny; Patron, Nicola J.; Matthewman, Colette; Haseloff, Jim; Grewal, David Singh; Johnson, Richard A.; Endy, Drew

doi:10.1038/nbt.4263

Cited by 44 publications

(39 citation statements)

References 12 publications

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“…Finally, the work described here was conducted in several laboratories around the globe, where the simplicity of the method facilitated its rapid implementation and experimental work. A key element for rapid and wide distribution of the uLoop vector kits in the future is the Open Material Transfer Agreement, a legal tool that enables seamless sharing and use of biological materials (15). Open access to materials and freedom to operate will be crucial to maximise interoperability and enable the growth of distributed uLoop libraries and toolkits in different countries around the world.…”

Section: Use Of Uloop Vectors Across Biological Kingdomsmentioning

confidence: 99%

“…This has led to a vast library of domesticated DNA parts available for use. As a consequence of the increased need for sharing and exchange, the universal biological material transfer agreement has been revised (14) and an open material transfer agreement is being proposed to facilitate and expedite the sharing and exchange of plasmids (15). Further, the need for IP-free DNA assembly systems to enable open access to DNA fabrication has been addressed, as in the case of the Loop assembly method developed previously by the authors (10).…”

Section: Introductionmentioning

confidence: 99%

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Universal Loop assembly (uLoop): open, efficient, and species-agnostic DNA fabrication

Pollak

Matute

Núñez

et al. 2019

Preprint

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Standardised Type IIS DNA assembly methods are becoming essential for biological engineering and research. Although a 'common syntax' has been proposed to enable higher interoperability between DNA libraries, Golden Gate (GG) -based assembly systems remain specific to target organisms. Furthermore, these GG assembly systems become laborious and unnecessarily complicated beyond the assembly of 4 transcriptional units. Here, we describe "universal Loop" (uLoop) assembly, a simple system based on Loop assembly that enables hierarchical fabrication of large DNA constructs (> 30 kb) for any organism of choice. uLoop comprises two sets of four plasmids that are iteratively used as odd and even levels to compile DNA elements in an exponential manner (4 n-1 ). The elements required for transformation/maintenance in target organisms are also assembled as standardised parts, enabling customisation of host-specific plasmids. Thus, this species-agnostic method decouples efficiency of assembly from the stability of vectors in the target organism. As a proof-of-concept, we show the engineering of multi-gene expression vectors in diatoms, yeast, plants and bacteria. These resources will become available through the OpenMTA for unrestricted sharing and open-access. !

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Section: Use Of Uloop Vectors Across Biological Kingdomsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Universal Loop assembly (uLoop): open, efficient, and species-agnostic DNA fabrication

Pollak

Matute

Núñez

et al. 2019

Preprint

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“…The Addgene public DNA repository uses this agreement, which is widely supported by universities and enables many legal transactions to be automated, although not for commercial uses. Broader and more compatible MTA systems have been developed by the Science Commons project [106], and more recently by the OpenMTA [107]. No publicly available system yet supports automation for management of protections for proprietary genetic materials and reagents, however, and there are also significant considerations to be managed regarding compliance with local regulatory and legal systems, particularly when materials cross international borders.…”

Section: Laws and Contractsmentioning

confidence: 99%

Organizing genome engineering for the gigabase scale

et al. 2020

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Engineering the entire genome of an organism enables large-scale changes in organization, function, and external interactions, with significant implications for industry, medicine, and the environment. Improvements to DNA synthesis and organism engineering are already enabling substantial changes to organisms with megabase genomes, such as Escherichia coli and Saccharomyces cerevisiae. Simultaneously, recent advances in genome-scale modeling are increasingly informing the design of metabolic networks. However, major challenges remain for integrating these and other relevant technologies into workflows that can scale to the engineering of gigabase genomes.In particular, we find that a major under-recognized challenge is coordinating the flow of models, designs, constructs, and measurements across the large teams and complex technological systems that will likely be required for gigabase genome engineering. We recommend that the community address these challenges by 1) adopting and extending existing standards and technologies for representing and exchanging information at the gigabase genomic scale, 2) developing new technologies to address major open questions around data curation and quality control, 3) conducting fundamental research on the integration of modeling and design at the genomic scale, and 4) developing new legal and contractual infrastructure to better enable collaboration across multiple institutions.

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“…The Alliance will be an essential enabler for creating and codifying international norms, well before they get to a United Nations' negotiating table. This, of course, includes material transfer agreements in both the real and the digital worlds [9] to enable biofoundry collaboration that mimics astronomy's Square Kilometre Array (SKA). In both the SKA and GBA, one can identify a decentralised infrastructure entity built from modular parts across multiple continents and enabled by high volume data transfer.…”

Section: Global Biofoundries Alliancementioning

confidence: 99%