SpicEST
-Spices EST Annotation Database is consist of
two spice like turmeric and ginger EST database
and SNP database. It can be accessible through
online. EST Data records were downloaded from
NCBI open source database. All EST records for
curcuma longa and zingiber officinale were mined
and stored in MYSQL database. These ESTs were
assembled using sequence assembly programme
like CAP3. Contigs results were provided in
the database. This EST records were separated
as a tissue based EST libraries and furthur
analysed and the results were stored in the
databases. By searching and navigating the menus
we can reterive the results of identified SSRs
from EST with five different SSR identification
tools - MISA, ETRA,SSR PRIMER, SSRIT and WEB
TROLL (for both curcuma and Zingiber). Using
this SSRepeat target primers were desingned
by PRIMER3 software and primer quality were
checked using FAST PCR. These primers results
can be reterived from the database. Primers
are being validated in wetlab. All ESTs of both
spices were annotated using ESTPASS server.
These results were used to find the putative
gene and metabolic pathway.
SpiceSNIP
database is developed for both spices turmeric
and ginger or else this database can be called
as Mined SNPs from EST libraries of curcuma
longa and zingiber officinale. In this database
two programs like CAP3 and AUTOSNP are used
for analysis. SNP results can be retrieved by
clicking the list of contigs, which is derived
from curcuma leaves and rhizomes ESTs provided
with transition, transversion and indel polymorphism.
This
'SpicEST' database would help
the scientific community those who are working
on turmeric and ginger. The result of this study
has many practical implications for curcuma
and Zingiber breeders.