Novel Microarray Design Strategy To Study Complex Bacterial Communities

@article{citeulike:2803642, abstract = {Assessing bacterial flora composition appears to be of increasing importance to fields as diverse as physiology, development, medicine, epidemiology, the environment, and the food industry. We report here the development and validation of an original microarray strategy that allows analysis of the phylogenic composition of complex bacterial mixtures. The microarray contains [~]9,500 feature elements targeting 16S rRNA gene-specific regions. Probe design was performed by selecting oligonucleotide sequences specific to each node of the seven levels of the bacterial phylogenetic tree (domain, phylum, class, order, family, genus, and species). This approach, based on sequence information, allows analysis of the bacterial contents of complex bacterial mixtures to detect both known and unknown microorganisms. The presence of unknown organisms can be suspected and mapped on the phylogenetic tree, indicating where to refine analysis. Initial proof-of-concept experiments were performed on oral bacterial communities. Our results show that this hierarchical approach can reveal minor changes ([\≤]1\%) in gingival flora content when samples collected in individuals from similar geographical origins are compared. 10.1128/AEM.01722-07}, author = {Huyghe, Antoine and Francois, Patrice and Charbonnier, Yvan and Tangomo-Bento, Manuela and Bonetti, Eve-Julie and Paster, Bruce J. and Bolivar, Ignacio and Baratti-Mayer, Denise and Pittet, Didier and Schrenzel, Jacques and And}, citeulike-article-id = {2803642}, doi = {10.1128/AEM.01722-07}, journal = {Appl. Environ. Microbiol.}, keywords = {phylochip}, month = {March}, number = {6}, pages = {1876--1885}, posted-at = {2008-07-16 01:28:35}, priority = {2}, title = {Novel Microarray Design Strategy To Study Complex Bacterial Communities}, url = {http://dx.doi.org/10.1128/AEM.01722-07}, volume = {74}, year = {2008} }

TY - JOUR ID - citeulike:2803642 L3 - citeulike-article-id:2803642 TI - Novel Microarray Design Strategy To Study Complex Bacterial Communities JF - Appl. Environ. Microbiol. VL - 74 IS - 6 SP - 1876 EP - 1885 N2 - Assessing bacterial flora composition appears to be of increasing importance to fields as diverse as physiology, development, medicine, epidemiology, the environment, and the food industry. We report here the development and validation of an original microarray strategy that allows analysis of the phylogenic composition of complex bacterial mixtures. The microarray contains [~]9,500 feature elements targeting 16S rRNA gene-specific regions. Probe design was performed by selecting oligonucleotide sequences specific to each node of the seven levels of the bacterial phylogenetic tree (domain, phylum, class, order, family, genus, and species). This approach, based on sequence information, allows analysis of the bacterial contents of complex bacterial mixtures to detect both known and unknown microorganisms. The presence of unknown organisms can be suspected and mapped on the phylogenetic tree, indicating where to refine analysis. Initial proof-of-concept experiments were performed on oral bacterial communities. Our results show that this hierarchical approach can reveal minor changes ([≤]1%) in gingival flora content when samples collected in individuals from similar geographical origins are compared. 10.1128/AEM.01722-07 KW - phylochip AU - Huyghe, Antoine AU - Francois, Patrice AU - Charbonnier, Yvan AU - Tangomo-Bento, Manuela AU - Bonetti, Eve-Julie AU - Paster, Bruce AU - Bolivar, Ignacio AU - Baratti-Mayer, Denise AU - Pittet, Didier AU - Schrenzel, Jacques AU - And PY - 2008/03/15/ UR - http://dx.doi.org/10.1128/AEM.01722-07 ER -