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CENTRAL SERICULTURAL RESEARCH AND TRAINING INSTITUTE, MYSORE


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
 
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