Media.Player

Rapid Easy Computationally Optimized DNA Self-Asembly: A Method for Producing a Synthetic Gene or Other Long Optimized DNA Sequences

Technology Application

The method is imminently suited for automation of such applications as rapidly producing the entire proteomes of organisms, and offers opportunities for improved self-assembly of two- and three-dimensional DNA nanostructures. It is rapid (no more than a few hours) and demands no more than mixing, heating, and cooling in solution with no purification steps.

Detailed Technology Description

Researchers at the University of California, Irvine, have developed a method for the computational optimization of DNA sequences that encode their own correct self-assembly. Scores of short overlapping synthetic oligonucleotides are designed to hybridize correctly with great efficiency at a high temperature, while all competing nonproductive hybridization events are identified and disfavored. Sequence properties are optimized using a formal heuristic search. Long strings of mixed coding, regulatory, and intergenic regions may be hybridized into any plasmid expression vector and transformed into cells, or used directly as DNA templates to produce proteins in coupled in vitro transcription-translation systems.

Supplementary Information

Patent Number: US7262031B2
Application Number: US2004851383A
Inventor: Lathrop, Richard H. | Hatfield, G. Wesley
Priority Date: 22 May 2003
Priority Number: US7262031B2
Application Date: 21 May 2004
Publication Date: 28 Aug 2007
IPC Current: C12P001924 | C12N001510 | C12Q000168
US Class: 4350912
Assignee Applicant: The Regents of the University of California
Title: Method for producing a synthetic gene or other DNA sequence
Usefulness: Method for producing a synthetic gene or other DNA sequence
Summary: The method is useful for synthesizing a DNA sequence. The method is also useful for creating de novo designer proteins, coupling to automated expression and crystallization, building DNA sequences predicted to express novel protein folds for structural proteomics, building other DNA sequences that do not encode proteins, expressing proteins from a different species in a desired expression vector according to its own codon usage preference, or creating a small synthetic genome by specifying its desired protein sequences and regulatory protein binding sites.
Novelty: Synthesizing a DNA sequence for, e.g. creating de novo designer proteins, comprises allowing the pieces of DNA to self-assemble to form a DNA construct and producing the next-larger piece of DNA from the DNA construct

Industry

Biomedical

Sub Category

DNA/Gene Engineering

Application No.

7262031

Others

Background

It is often desirable to produce a synthetic gene that encodes a protein of interest and is optimized for desirable sequence properties, such as good translation kinetics for folding and expression in a target organism. However, most genes are far longer than the limits of accurate DNA synthesis.  Thus, the rapid creation of tailored genes has not been convenient.

Tech ID/UC Case

19282/2002-328-0

Related Cases

2002-328-0

*Abstract

Researchers at the University of California, Irvine, have developed a method for the computational optimization of DNA sequences that encode their own correct self-assembly.

*IP Issue Date

Aug 28, 2007

*Principal Investigator

Name: Gail Hatfield

Department:

Name: Liza Larsen

Department:

Name: Richard Lathrop

Department:

Name: Christopher Wassman

Department:

Country/Region

USA