The HTS barcode checker pipeline, a tool for automated detection of illegally traded species from high-throughput sequencing data.

ABSTRACT:

Background

Mixtures of internationally traded organic substances can contain parts of species protected by the Convention on International Trade in Endangered Species of Wild Fauna and Flora (CITES). These mixtures often raise the suspicion of border control and customs offices, which can lead to confiscation, for example in the case of Traditional Chinese medicines (TCMs). High-throughput sequencing of DNA barcoding markers obtained from such samples provides insight into species constituents of mixtures, but manual cross-referencing of results against the CITES appendices is labor intensive. Matching DNA barcodes against NCBI GenBank using BLAST may yield misleading results both as false positives, due to incorrectly annotated sequences, and false negatives, due to spurious taxon

SUBMITTER: Lammers Y 

PROVIDER: S-EPMC3922334 | biostudies-literature | 2014 Feb

REPOSITORIES: biostudies-literature