Construction of customized sub-databases from NCBI-nr database for rapid annotation of huge metagenomic datasets using a combined BLAST and MEGAN approach.

ABSTRACT: We developed a fast method to construct local sub-databases from the NCBI-nr database for the quick similarity search and annotation of huge metagenomic datasets based on BLAST-MEGAN approach. A three-step sub-database annotation pipeline (SAP) was further proposed to conduct the annotation in a much more time-efficient way which required far less computational capacity than the direct NCBI-nr database BLAST-MEGAN approach. The 1(st) BLAST of SAP was conducted using the original metagenomic dataset against the constructed sub-database for a quick screening of candidate target sequences. Then, the candidate target sequences identified in the 1(st) BLAST were subjected to the 2(nd) BLAST against the whole NCBI-nr database. The BLAST results were finally annotated using MEGAN to filter out th

SUBMITTER: Yu K 

PROVIDER: S-EPMC3613424 | biostudies-literature | 2013

REPOSITORIES: biostudies-literature