Comparison of large-insert, small-insert and pyrosequencing libraries for metagenomic analysis.

ABSTRACT: The development of DNA sequencing methods for characterizing microbial communities has evolved rapidly over the past decades. To evaluate more traditional, as well as newer methodologies for DNA library preparation and sequencing, we compared fosmid, short-insert shotgun and 454 pyrosequencing libraries prepared from the same metagenomic DNA samples. GC content was elevated in all fosmid libraries, compared with shotgun and 454 libraries. Taxonomic composition of the different libraries suggested that this was caused by a relative underrepresentation of dominant taxonomic groups with low GC content, notably Prochlorales and the SAR11 cluster, in fosmid libraries. While these abundant taxa had a large impact on library representation, we also observed a positive correlation between taxon GC

SUBMITTER: Danhorn T 

PROVIDER: S-EPMC3475381 | biostudies-literature | 2012 Nov

REPOSITORIES: biostudies-literature