Species-Specific Bacteria Identification Using Differential Mobility Spectrometry and Bioinformatics Pattern Recognition

@article{citeulike:2089980, abstract = {Abstract: As bacteria grow and proliferate, they release a variety of volatile compounds that can be profiled and used for speciation, providing an approach amenable to disease diagnosis through quick analysis of clinical cultures as well as patient breath analysis. As a practical alternative to mass spectrometry detection and whole cell pyrolysis approaches, we have developed methodology that involves detection via a sensitive, micromachined differential mobility spectrometer (microDMx), for sampling headspace gases produced by bacteria growing in liquid culture. We have applied pattern discovery/recognition algorithms (ProteomeQuest) to analyze headspace gas spectra generated by microDMx to reliably discern multiple species of bacteria in vitro: Escherichia coli, Bacillus subtilis, Bacillus thuringiensis, and Mycobacterium smegmatis. The overall accuracy for identifying volatile profiles of a species within the 95\% confidence interval for the two highest accuracy models evolved was between 70.4 and 89.3\% based upon the coordinated expression of between 5 and 11 features. These encouraging in vitro results suggest that the microDMx technology, coupled with bioinformatics data analysis, has potential for diagnosis of bacterial infections.}, address = {Mechanical and Instruments Division, Bioengineering Group, The Charles Stark Draper Laboratory, 555 Technology Square MS37, Cambridge, Massachusetts 02139, Correlogic Systems, Inc., 6701 Democracy Boulevard, Suite 300, Bethesda, Maryland 20817, Department of Immunology and Infectious Diseases, Tropical \& Geographic Medicine Center, Massachusetts General Hospital, 55 Fruit Street, Boston, Massachusetts 02114, Department of Pediatric Medicine, Massachusetts General Hospital for Children, 15 Parkman Street, Boston, Massachusetts 02114, Center for Integration of Medicine and Innovative Technology, Massachusetts General Hospital, 65 Landsdowne Street, Cambridge, Massachusetts 02139, Department of Emergency Medicine, Brigham and Women's Hospital, 75 Francis Street, Boston, Massachusetts 02115, and Center for International Health and Development, Boston University School of Public Health, 85 East Concord Street, Boston, Massachusetts 02118}, author = {Shnayderman, M. and Mansfield, B. and Yip, P. and Clark, H. A. and Krebs, M. D. and Cohen, S. J. and Zeskind, J. E. and Ryan, E. T. and Dorkin, H. L. and Callahan, M. V. and Stair, T. O. and Gelfand, J. A. and Gill, C. J. and Hitt, B. and Davis, C. E. }, citeulike-article-id = {2089980}, doi = {10.1021/ac050348i}, journal = {Anal. Chem.}, keywords = {mass-spectrometry, microorganism-identification}, month = {September}, number = {18}, pages = {5930--5937}, posted-at = {2007-12-11 15:01:05}, priority = {2}, title = {Species-Specific Bacteria Identification Using Differential Mobility Spectrometry and Bioinformatics Pattern Recognition}, url = {http://dx.doi.org/10.1021/ac050348i}, volume = {77}, year = {2005} }

TY - JOUR ID - citeulike:2089980 L3 - citeulike-article-id:2089980 TI - Species-Specific Bacteria Identification Using Differential Mobility Spectrometry and Bioinformatics Pattern Recognition JF - Anal. Chem. VL - 77 IS - 18 SP - 5930 EP - 5937 AD - Mechanical and Instruments Division, Bioengineering Group, The Charles Stark Draper Laboratory, 555 Technology Square MS37, Cambridge, Massachusetts 02139, Correlogic Systems, Inc., 6701 Democracy Boulevard, Suite 300, Bethesda, Maryland 20817, Department of Immunology and Infectious Diseases, Tropical & Geographic Medicine Center, Massachusetts General Hospital, 55 Fruit Street, Boston, Massachusetts 02114, Department of Pediatric Medicine, Massachusetts General Hospital for Children, 15 Parkman Street, Boston, Massachusetts 02114, Center for Integration of Medicine and Innovative Technology, Massachusetts General Hospital, 65 Landsdowne Street, Cambridge, Massachusetts 02139, Department of Emergency Medicine, Brigham and Women's Hospital, 75 Francis Street, Boston, Massachusetts 02115, and Center for International Health and Development, Boston University School of Public Health, 85 East Concord Street, Boston, Massachusetts 02118 N2 - Abstract: As bacteria grow and proliferate, they release a variety of volatile compounds that can be profiled and used for speciation, providing an approach amenable to disease diagnosis through quick analysis of clinical cultures as well as patient breath analysis. As a practical alternative to mass spectrometry detection and whole cell pyrolysis approaches, we have developed methodology that involves detection via a sensitive, micromachined differential mobility spectrometer (microDMx), for sampling headspace gases produced by bacteria growing in liquid culture. We have applied pattern discovery/recognition algorithms (ProteomeQuest) to analyze headspace gas spectra generated by microDMx to reliably discern multiple species of bacteria in vitro: Escherichia coli, Bacillus subtilis, Bacillus thuringiensis, and Mycobacterium smegmatis. The overall accuracy for identifying volatile profiles of a species within the 95% confidence interval for the two highest accuracy models evolved was between 70.4 and 89.3% based upon the coordinated expression of between 5 and 11 features. These encouraging in vitro results suggest that the microDMx technology, coupled with bioinformatics data analysis, has potential for diagnosis of bacterial infections. KW - mass-spectrometry KW - microorganism-identification AU - Shnayderman, M AU - Mansfield, B AU - Yip, P AU - Clark, HA AU - Krebs, MD AU - Cohen, SJ AU - Zeskind, JE AU - Ryan, ET AU - Dorkin, HL AU - Callahan, MV AU - Stair, TO AU - Gelfand, JA AU - Gill, CJ AU - Hitt, B AU - Davis, CE PY - 2005/09/15/ UR - http://dx.doi.org/10.1021/ac050348i ER -