CMSD: A Database of Microsatellite Markers Genotyped in Indigenous Coconut Accessions

Abstract

The increased use of molecular markers in varietal identification has led to the need for an appropriate storage
place and this has paved way for the development of a marker database containing allelic data of coconut accessions
as revealed by microsatellite markers. The main features of the information system are a SSR database, SSR analysis
tool, variety identification tool, data submission form and brief information about microsatellites. The database
contains details of 11200 allelic data of 400 palms comprising 62 indigenous coconut accessions analyzed using
14 microsatellite primer pairs. Variety identification tool contains a display of 14 pairs of allelic entry corresponding
to the 14 microsatellite primers. The result pages display the information about the query sample matches to a reference
sample in the database and the score values they attain. Based upon the maximum score value, it can be concluded
that the unknown sample is genetically related to the particular reference sample. The SSR allelic size data have
been used for creating a DNA barcode system too, providing a more convenient handling of numerical data. This
identification system with data warehouse can be accessed from the home page of Bioinformatics Centre, Central
Plantation Crops Research Institute (ICAR), Kasaragod (http://www.bioinfcpcri.org/cmsd/home.php).