Graduate students Jeffrey Dietrich, Howard Chou, and Eric Steen from the Keasling lab, as well as Angela Won from the Lim lab, participated in the 2009 Idea to IPO class offered by the Center for BioEntrepreneurship at the University of California San Francisco.

In the August 2009 edition of Nature Biotechnology, SynBERC researcher John Dueber and company show how they engineered synthetic protein scaffolds to recruit metabolic enzymes in a manner that greatly improves production of an end-product while lowering the overall metabolic load on the chassis organism. The principle behind such metabolic pipelines is simple: Assemble enzyme complexes so that active sites are close together in order to prevent loss of intermediates and competition from other pathways.

On the path toward sophisticated cellular computation, synthetic biologists are constantly seeking better ways to program logic into cells. One way to do this is using DNA segments known as inversion recombination elements. In essence, these inversion elements act like binary switches that can write ones and zeroes directly into DNA. In the July 30, 2008, issue of PLOS, SynBERC researchers Timothy Ham, Sung Kuk Lee, Jay Keasling and Adam Arkin demonstrate how engineers can combine two or more such elements together to design complex logical systems in DNA.

A central tenet of synthetic biology is that by “black-boxing” the complexity of biology, engineers will ultimately be able to manufacture many easy-to-use genetic devices that function as expected. SynBERC researchers reported a major step towards to this goal by publishing the first formalized datasheet for a standard biological device, as well as a generic process for developing many such devices and their accompanying datasheets.

In the March 14 2008 issue of Science, a team of UC San Francisco scientists led by SynBERC Deputy Director Wendell Lim show how a toolkit of modular molecular components and circuit boards can be used to engineer a wide variety of biochemical circuits in living cells, much as the old Heathkit electronic kits of the 1950s enabled students and hobbyists to assemble modular electronic parts into working radios and computers.

Leader: George Church

The goal of this thrust is to develop a limited number of chassis that should serve a wide range of activities (testbeds). More specifically, we are working toward the following goals:

Leader: Christopher Voigt

Leader: Tanja Kortemme

The most basic unit in the design of synthetic biological systems are parts – pieces of DNA, RNA, or protein that encode and/or can carry out a defined biological function(s) – binding to another molecule or catalyzing a reaction. Parts can be assembled in combination to make devices that carry out more complex functions. Thus, a core thrust of SynBERC is the design and manipulation of standard biological parts. Over the last year, researchers in the Parts Thrust have focused on:

The goal of our research program is to develop the foundational understanding and technologies that will allow us to routinely build large numbers of useful biological systems from standard interchangeable parts. Our specific aims are:

Synthetic biology is the design and construction of new biological entities such as enzymes, genetic circuits, and cells or the redesign of existing biological systems. Synthetic biology builds on the advances in molecular, cell, and systems biology and seeks to transform biology in the same way that synthesis transformed chemistry and integrated circuit design transformed computing.