Targeted Access to the Genomes of Low-Abundance Organisms in Complex Microbial Communities

@article{citeulike:2678898, abstract = {Current metagenomic approaches to the study of complex microbial consortia provide a glimpse into the community metabolism and occasionally allow genomic assemblies for the most abundant organisms. However, little information is gained for the members of the community present at low frequencies, especially those representing yet-uncultured taxa, which include the bulk of the diversity present in most environments. Here we used phylogenetically directed cell separation by fluorescence in situ hybridization and flow cytometry, followed by amplification and sequencing of a fraction of the genomic DNA of several bacterial cells that belong to the TM7 phylum. Partial genomic assembly allowed, for the first time, a look into the evolution and potential metabolism of a soil representative from this group of organisms for which there are no species in stable laboratory cultures. Genomic reconstruction from targeted cells of uncultured organisms isolated directly from the environment represents a powerful approach to access any specific members of a community and an alternative way to assess the community's metabolic potential. 10.1128/AEM.02985-06}, author = {Podar, Mircea and Abulencia, Carl B. and Walcher, Marion and Hutchison, Don and Zengler, Karsten and Garcia, Joseph A. and Holland, Trevin and Cotton, David and Hauser, Loren and Keller, Martin }, citeulike-article-id = {2678898}, doi = {http://dx.doi.org/10.1128/AEM.02985-06}, journal = {Appl. Environ. Microbiol.}, keywords = {16s, bacteria, fish, genome, wga}, month = {May}, number = {10}, pages = {3205--3214}, posted-at = {2008-05-25 07:25:01}, priority = {3}, title = {Targeted Access to the Genomes of Low-Abundance Organisms in Complex Microbial Communities}, url = {http://dx.doi.org/10.1128/AEM.02985-06}, volume = {73}, year = {2007} }

TY - JOUR ID - citeulike:2678898 L3 - citeulike-article-id:2678898 N2 - Current metagenomic approaches to the study of complex microbial consortia provide a glimpse into the community metabolism and occasionally allow genomic assemblies for the most abundant organisms. However, little information is gained for the members of the community present at low frequencies, especially those representing yet-uncultured taxa, which include the bulk of the diversity present in most environments. Here we used phylogenetically directed cell separation by fluorescence in situ hybridization and flow cytometry, followed by amplification and sequencing of a fraction of the genomic DNA of several bacterial cells that belong to the TM7 phylum. Partial genomic assembly allowed, for the first time, a look into the evolution and potential metabolism of a soil representative from this group of organisms for which there are no species in stable laboratory cultures. Genomic reconstruction from targeted cells of uncultured organisms isolated directly from the environment represents a powerful approach to access any specific members of a community and an alternative way to assess the community's metabolic potential. 10.1128/AEM.02985-06 IS - 10 JF - Appl. Environ. Microbiol. EP - 3214 TI - Targeted Access to the Genomes of Low-Abundance Organisms in Complex Microbial Communities VL - 73 SP - 3205 KW - 16s KW - bacteria KW - fish KW - genome KW - wga AU - Podar, Mircea AU - Abulencia, Carl AU - Walcher, Marion AU - Hutchison, Don AU - Zengler, Karsten AU - Garcia, Joseph AU - Holland, Trevin AU - Cotton, David AU - Hauser, Loren AU - Keller, Martin PY - 2007/05/15/ UR - http://dx.doi.org/10.1128/AEM.02985-06 ER -