Design and testing of genome-proxy microarrays to profile marine microbial communities

ABSTRACT: Microarrays are useful tools for detecting and quantifying specific functional and phylogenetic genes in natural microbial communities. In order to track uncultivated microbial genotypes and their close relatives in an environmental context, we designed and implemented a “genome proxy” microarray that targets microbial genome fragments recovered directly from the environment. Fragments consisted of sequenced clones from large-insert genomic libraries from microbial communities in Monterey Bay, the Hawaii Ocean Time-series station ALOHA, and Antarctic coastal waters. In a prototype array, we designed probe sets to thirteen of the sequenced genome fragments and to genomic regions of the cultivated cyanobacterium Prochlorococcus MED4. Each probe set consisted of multiple 70-mers, each tar

ORGANISM(S): marine metagenome

SUBMITTER: Edward DeLong 

PROVIDER: E-GEOD-9384 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress