PTIGS-IdIt, a system for species identification by DNA sequences of the psbA-trnH intergenic spacer region.

ABSTRACT:

Background

DNA barcoding technology, which uses a short piece of DNA sequence to identify species, has wide ranges of applications. Until today, a universal DNA barcode marker for plants remains elusive. The rbcL and matK regions have been proposed as the "core barcode" for plants and the ITS2 and psbA-trnH intergenic spacer (PTIGS) regions were later added as supplemental barcodes. The use of PTIGS region as a supplemental barcode has been limited by the lack of computational tools that can handle significant insertions and deletions in the PTIGS sequences. Here, we compared the most commonly used alignment-based and alignment-free methods and developed a web server to allow the biologists to carry out PTIGS-based DNA barcoding analyses.

Results

First, we compared several a

SUBMITTER: Liu C 

PROVIDER: S-EPMC3278844 | biostudies-literature | 2011

REPOSITORIES: biostudies-literature