Comparison of microbial diversity determined with the same variable tag sequence extracted from two different PCR amplicons.

ABSTRACT:

Background

Deep sequencing of the variable region of 16S rRNA genes has become the predominant tool for studying microbial ecology. As sequencing datasets have accumulated, meta-analysis of sequences obtained with different variable 16S rRNA gene targets and by different sequencing methods has become an intriguing prospect that remains to be evaluated experimentally.

Results

We amplified a group of fecal samples using both V4F-V6R and V6F-V6R primer sets, excised the same V6 fragment from the two sets of Illumina sequencing data, and compared the resulting data in terms of the α-diversity, β-diversity, and community structure. Principal component analysis (PCA) comparing the microbial community structures of different datasets, including those with simulated sequencing error

SUBMITTER: He Y 

PROVIDER: S-EPMC3848352 | biostudies-literature | 2013 Sep

REPOSITORIES: biostudies-literature