About the Bioinformatics Centre
|
 |
| |
| The Bioinformatics
centre at Central Sericultural Research and Training
Institute(CSRTI), Mysore was established as a sub node
of the BTISnet in 1999 primarily to support the biotechnology
research in sericulture in the country. India with a
production of 23,679 MT/year of raw silk annually is
the second largest producer of silk in the world. Improvement
in quality and quantity of silk production through classical
approaches of breeding, genetics and disease control
is widely practiced. In recent years, this has been
supplemented with the application of biotechnology and
recombinant DNA techniques. Significant information
on the genome of mulberry silk moth, Bombyx mori L.
is presently available. Data mining and analysis of
the sequence data from the B mori genome and genomes
of other silkworm moths and their wild relatives are
likely to provide important breakthroughs for improving
productivity of silk through biotechnological approaches.
The centre is contemplated with such objectives in mind.
|
Area of specialization: The main thrust area of this
center is Seri-biotechnology and Seri-bioinformatics.
|
| |
Objectives |
|
|
Maintain information repository
of silkworm and mulberry genotypes and breeds. |
|
|
Develop and maintain the databases related
to mulberry and silkworm genomes with structural
information. |
|
|
To conduct training/workshops to create
awareness and in sight in the field of Bioinformatics
in general and seri-bioinformatics in particular. |
|
|
To provide online support information
in the field of sericulture. |
|
|
Design of online course packages in bioinformatics
and allied areas. |
|
|
Maintain the centre’s website and
host the databases and other vital information
over the website of the centre. |
|
| |
Current
area of research |
| |
BioinfoLib |
Under this
Bioinformatics Library information system,
one can access specialized bioinformatics
centers as well as books, scientific journals,
manuals, newsletters and the information
on latest research & development in
those institutes on bioinformatics and
allied areas. This library will be accessible
over Internet through the URL of the centre
that can be used by all the scientists/research
students and the teachers of the research
institutes and universities. |
 |
Main
Page of Bioinfolib |
| |
SilkDis
- A Comprehensive Silkworm Disease and
Pest Database |
organism
specific database featuring the information
on the diseases and pests of the host
plant mulberry and the silkworm. The Database
provides detailed information on the diseases
and pests, place, mode of infection, biotic
and abiotic factors, and the cost-effective
and eco-friendly strategies adopted for
their effective management. |
 |
Main
Page of SilkDis database |
| |
MulDis:
A Comprehensive Mulberry Disease and Pest
Database |
MulDis an
organism specific database featuring the
information on the diseases and pests
of the host plant mulberry and the silkworm.
The Database provides detailed information
on the diseases and pests, place, mode
of infection, biotic and abiotic factors,
and the cost-effective and eco-friendly
strategies adopted for their effective
management. |
 |
Main
Page of MulDis database |
| |
|
Infrastructure facilities |
| The Bioinformatics
centre has Web server HP Compaq ML 150 Server,
intel core7 - 5 units, intel core3 - 2 units,
Lap top computer- 1 unit, Printers – 2 units,
UPS 5KV – 1 units and one Sony digital Video
camera. The internet access is through 2 Mbps
leased line from BSNL. |
| |
Recent
publications |
|
Sumathy, R., Ashwath, S.K., Chandrakanth
N and Gopalakrishnan V.K 2013. Prediction
of protein-protein interactions in the
mulberry silkworm, Bombyx mori. Jokull
63(6).
|
Ismail Shareef, M., Leelavathi S and
Anis Ahmed Shariff 2012. Inhibition
of In Vitro TNF-a Production by Anisomeles
malabarica R.Br. Reinforces Its Anti-
Rheumatic and Immunomodulatory Properties.
Proc. Natl. Acad. Sci., India, Sect.
B Biol. Sci., Springer 05.
|
| Sumathy,
R., Ashwath S.K and Gopalakrishnan V.K 2012.
Theoretical modeling and Docking studies
of silkworm serotonin receptor, J Proteomics
Bioinform 5(9):230-234 |
| Kantharaj,
H.M., Ashwath S.K and Qadri S.M.H 2012.
In silico Structural and Functional Analysis
of the P74 Protein Related to the (PDV)
Polyhedra Derived Virus Infection of BmNPV
into the Silkworm Adv Bio Tech:11(9):29-32 |
| Kantharaj,
H.M., Gnanavel, M., Ashwath S.K and Qadri
S.M.H 2011. In Silico Characterization of
Moricin – A novel antibacterial peptide
with reference to Bombyx mori L. Adv Bio
Tech.11(2): 31-35 |
| Sumathy,
R., Divya, N., Ashwath S.K and Qadri S.M.H
2011. An Evolutionary analysis of Mulatexin
among plant species. Adv Bio Tech. 11 (5):
19-24 |
| Sumathy,
R., Raghavendran, R., Ashwath S.K and Qadri
S.M.H 2011. InSilico Characterization of
morcin from the mulberry silkworm Bombyx
mori and target prediction in the bacterial
pathogen, Staphylococcus aureus. Adv Bio
Tech. 10(8): 6-8. |
|
| |
Faculty
members |
| Coordinator |
|
|
Dr. B.B.Bindroo
Director,
Central Sericultural Research and Training
Institute, Mysore.
Phone: (O) +91-821-2362757, 2362406
Fax : 091- 0821 -2362845
E-mail : csrtimys@csb.gov.in, csrtimys@gmail.com
|
|
|
| Co-cordinator |
|
|
Dr.S.K.Ashwath
Scientist-D,
Bioinformatics Centre,
Central Sericultural Research and Training
Institute, Mysore
Phone (O) +91- 0821 – 2362547,(M)
+91- 9845887081
Fax : 091- 0821 - 2362845
E-mail : csrti.btisnet@nic.in
|
|
|
|
| For more information Click here |
|
|
About the Institution
|
Central
Sericultural Research & Training Institute (CSRTI),
Mysore, the pioneer research institution in the field
of tropical sericulture, was established at Chennapattna
in 1961 under the administrative control of Central
Silk Board, Ministry of Textiles, Government of India
for the overall development of silk industry in the
country. During the course of development the Institute
was shifted to Mysore the princely city in the year
1963. Over the years the Institute has grown in to a
full pledged centre of excellence and provided commendable
support to enhance silk productivity and quality ensuring
generation of higher income for the farmers. The CSRTI
is located in the southern part of Mysore city on the
H.D.Kote - Manandavadi Road at about 8 km from Railway
Station. Mysore has a long illustrious history of being
one of the major seats of learning in southern India.
Apart from being the centre of advanced studies under
University of Mysore, the city also houses a number
of academic and research institutions of International
repute. |
 |
| |
| |
Achievements
at a glance |
| Bioinformatics Centre
of CSRTI, Mysore was exclusively setup to support
biotechnology research pertaining to sericulture
covering all the five types of natural silks produced
in the country. The center has worked like a catalyst
for bringing out the awareness and growth in Bioinformatics
among the students, professors, scientists and researchers
of various colleges, research institutes and biotechnology
industries in and around the region thus contributing
a lot for the Human Resource Development in the
field of Biotechnology and Bioinformatics. Six databases
and two softwares has been developed which are being
updated and maintained. Infrastructure facilities
and support through bioinformatics tools and techniques
were provided for the scientists of the Institute
for their projects and experiments. Till date 20
workshops on bioinformatics and its applications
have been organized by the centre and so far 696
persons were trained. The centre is equipped with
2 Mbps BSNL MLLN Internet connectivity which provides
internet facility to all the research laboratories
through LAN. The centre extends the infrastructure
facilities and software support to the scientists
working in the field of molecular biology &
seri-bioinformatics in CSRTI and its allied institutes.
Guidance is offered to the M.Sc./Btech/BE students
of various universities in India for their project
work /Traineeship /Studenship in the field of Bioinformatics
/Seri-Bioinformatics. |
| |
SILKPROT:
An Annotated Protein database for Silkworm
|
| SilkProt is a comprehensive,
fully annotated, organism specific database for
silkworm proteins. SilkProt was developed with MySQL
as back-end and PHP with HTML as front-end. The
new updated SilkProt database is modified and developed
with dynamic Graphical User Interface (GUI) and
its sequence content also is well organized. The
database structure will support users to perform
a BLAST search with highly specified and updated
latest version of NCBI-BLAST server and a simple
AMINO-REF tool, which are under development for
intensive amino acid sequence analysis. In future
this database will be extended for structure visualization
and pathway information of silkworm proteins. |
 |
Search
page of Silkprot database |
| SilkTF - Silkworm
Transcription Factor Database |
| Transcription factors(TF)
are the key regulatory proteins that enhance or
repress the transcriptional rate of their target
genes by binding to the promoter sequence i.e regulation
of gene expression.Identification and classification
of TFs provide important resources for researchers
especially in the comparative genomics and transcriptional
regulation.SilkTF provides the information on transcription
factors of silkworm such as domains,regions and
e-value detected using Pfam HMM models.All the data
are stored in MYSQl relational database on a linux
server.Queries to the database have been implemented
in PHP scripts.It has a simple interface to allow
users to browse the database by sequence ID and
domain name of the sequence which are having the
TFs. |
 |
Main
page of SilkTF |
| Mulberry Genome
Database: |
| Extensive Molecular
markers data on DNA fingerprints, binary scores,
similarity and dissimilarity index matrices, phylogenetic
relationship in terms of dendrogram and marker segregation
pattern has been compiled and stored using relational
database with Visual Basic Platform. The database
is also made available in the form of CD. |
 |
Search
page of morphology of Mulgenomedb |
| Soilinfo |
| This database provides
information about the different types of soils,
physical information, physico-chemical properties,
primary and secondary micronutrients etc..,of various
states like Karnataka, Tamil Nadu, Andra Pradesh,
Kerala, Maharashtra and Madhya Pradesh etc. The
Front end is developed by using the programming
language of HTML,PHP etc. PHP is used for connecting
the MySQL database and forms. The login ID and Password
has been created for the purpose of submitting the
data on line. This database can be updated only
by registered members of CSR&TI and its allied
units Regional Sericulture Research Stations and
Regional Extension Centres. |
 |
Main
page of Soilinfo database |
| SilkPPI- Silkworm
protein-protein interaction database
|
| The Domesticated silkworm,
Bombyx mori, an important economic insect has been
used as a lepidopteran molecular model insect after
the Drosophila melanogaster. The Silkworm, Bombyx
mori protein-protein interaction network were predicted
using the well recognized Interlog method. These
database contains 7736 protein-protein interactions
pairs among the 14623 silkworm proteins which include
2700 unique proteins of the silkworms. It can be
searched using the SilkDB accession id. |
 |
Main
page of SilkPPI |
| Database of
DNA sequences for important plant genes in mulberry |
| A database has been
developed for storing and retrieving DNA sequences
of important plant genes responsible for yield,
quality, diseases and pest resistance and also some
of the mulberry specific genes obtained from the
public domain. PCR primers for important plant gene
sequences has been designed. |
 |
Search
page of important plant genes |
| Construction
of growth indices in popular breeds/hybrids of silkworm
Bombyx mori L. in relation to nutritional conditions
|
| A software for estimating
the Growth Index in silkworm Bombyx mori has been
developed to compare the growth rate of different
silkworm breeds and hybrids under varying conditions
of nutrition. The application is developed using
Visual Basic and MS Access. It will help the scientists
of chawki rearing centres and farmers as a ready
reckoner to know the optimum growth of different
breeds and hybrids. |
 |
Main
page of Growth index software |
| |
|
|
