In addition to identifying the most cost-effective strategies for DNA cloning, j5 also makes it possible to construct combinatorial libraries collections of hundreds to millions of related DNA assemblies, each with a different combination of genes or parts that perform similar functions in different organisms. Combinatorial libraries enable scientists to select the most effective genetic combination for achieving a desired result, e.g., the most efficient production of a biofuel or medication in a given host. No other automated DNA cloning software does this on the same scale and as fast and effectively as j5.
"Combinatorial libraries can be screened to identify the gene combination that, when transferred into a desirable host organism, results in the most productive enzyme pathway," says Hillson. "The j5 software is the only program that enables the combinatorial design of scarless DNA construction methods."
Traditional DNA construction methods result in scars - uncontrolled portions of the DNA sequence - at DNA fragment junctions that can adversely impact function. Says Hillson,
"The gold standard for combinatorial libraries is the ability to control the DNA sequence at every single base pair and this is what j5 allows you to do."
The j5 software package features a graphical interface that enables users to design a DNA construct or combinatorial libraries through the arrangement of individual part icons that abstractly represent underlying DNA sequences. Outputs are in the form of user-friendly spreadsheets that detail the resulting designed experimental protocols, providing instructions that can either be followed by a person in the laboratory or fed directly into a robotic platform for a machine to carry out.
"Our j5 software is already allowing a growing number of scientists to save financial resources and months of work that was previously devoted to constructing recombinant DNA, a
|Contact: Lynn Yarris|
DOE/Lawrence Berkeley National Laboratory