Miniaturized DNA Sequencer for Identification of Microbial Pathogens

Award Information
Agency: Department of Health and Human Services
Branch: N/A
Contract: 2R44HG005186-02
Agency Tracking Number: R44HG005186
Amount: $1,454,210.00
Phase: Phase II
Program: SBIR
Awards Year: 2011
Solicitation Year: 2011
Solicitation Topic Code: NHGRI
Solicitation Number: PA11-096
Small Business Information
ADVANCED LIQUID LOGIC
615 Davis Dr., Suite 800, RESEARCH TRIANGLE PARK, NC, -
DUNS: 140695474
HUBZone Owned: N
Woman Owned: N
Socially and Economically Disadvantaged: N
Principal Investigator
 MICHAEL POLLACK
 (919) 287-9010
 mgp@liquid-logic.com
Business Contact
 RICHARD WEST
Phone: (919) 287-9010
Email: rwest@liquid-logic.com
Research Institution
 Stub
Abstract
DESCRIPTION (provided by applicant): The ultimate goal of this project is to develop an extremely compact and inexpensive DNA sequence for applications in laboratory and clinical settings. The device will implement pyrosequencing on a disposable droplet based digital microfluidic cartridge and will be capable of sequencing 10's to 100's of nucleotides at a very low cost per run and at a low initial equipment investment. This platform will also integrate sample preparation, including DNA amplification, with sequencing to provide the integration and ease-of-use demanded of clinicians and other non-specialists who require DNA sequence data. The initial application for this capability will be microbial pathogen identification. In Phase I, a prototype was developed and the microfluidic protocols and biochemical reaction conditions for pyrosequencing were optimized. As a feasibility demonstration 20-40 base pairs within the ITS2 genetic region were sequenced for 13 different molds and yeasts which provided unambiguous identification of each isolate. In Phase II, this success will be built upon by integrating sample preparation steps including DNA concentration, DNA amplification, and template preparation into the system. The integrated system will be evaluated andcompared to other commercially available solutions in terms of speed, cost and accuracy of fungal identification. Further optimization of the pyrosequencing biochemistry will be performed to enable longer read lengths on shorter time scales while retaining high accuracy. Finally, a data analysis tool will be developed to automate base calling and database queries. The final product will represent a streamlined approach to fungal species identification, integrating a number of components of the contemporarypathogen identification workflow. PUBLIC HEALTH RELEVANCE: A compact and inexpensive instrument which can automatically identify fungal isolates by sequencing a small region of their DNA will be developed and tested. This product would greatly improve the ability of clinicians to treat infectious disease.

* information listed above is at the time of submission.

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