Abstract
BackgroundMarker gene surveys have a wide variety of applications in species identification, population genetics, and molecular epidemiology. As these methods expand to new types of organisms and additional markers beyond 16S and 18S rRNA genes, comprehensive databases are a critical requirement for proper analysis of these data.ResultsHere we present an ITS2 rDNA database for marker gene surveys of both free-living and parasitic nematode populations and the software used to build the database. This is currently the most complete and up-to-date ITS2 database for nematodes and is able to reproduce previous analysis that used a smaller database.ConclusionsThis database is an important resource for researchers working on nematodes and also provides a tool to create ITS2 databases for any given taxonomy.
Highlights
Marker gene surveys have a wide variety of applications in species identification, population genetics, and molecular epidemiology
The internal transcribed spacer 2 (ITS2) ribosomal DNA (rDNA) locus has been widely used as a marker for species identification in both free-living and parasitic nematodes for many years [1,2,3]
We describe the development of a nematode ITS2 rDNA database and the software to create ITS2 databases for any taxonomy
Summary
We present an ITS2 rDNA database for marker gene surveys of both free-living and parasitic nematode populations and the software used to build the database. This is currently the most complete and up-to-date ITS2 database for nematodes and is able to reproduce previous analysis that used a smaller database
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