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Microsatellite analysis to rationalize grape germplasm in India and development of a molecular database

Published online by Cambridge University Press:  01 May 2013

Anuradha Upadhyay ,
Lalitkumar B. Aher ,
Manisha P. Shinde ,
Kavita Y. Mundankar ,
Anuj Datre  and
G. S. Karibasappa
Anuradha Upadhyay*
Affiliation:
National Research Centre for Grapes, Manjri Farm Post, Solapur Road, Pune412 307, Maharashtra, India
Lalitkumar B. Aher
Affiliation:
National Research Centre for Grapes, Manjri Farm Post, Solapur Road, Pune412 307, Maharashtra, India
Manisha P. Shinde
Affiliation:
National Research Centre for Grapes, Manjri Farm Post, Solapur Road, Pune412 307, Maharashtra, India
Kavita Y. Mundankar
Affiliation:
National Research Centre for Grapes, Manjri Farm Post, Solapur Road, Pune412 307, Maharashtra, India
Anuj Datre
Affiliation:
National Research Centre for Grapes, Manjri Farm Post, Solapur Road, Pune412 307, Maharashtra, India
G. S. Karibasappa
Affiliation:
National Research Centre for Grapes, Manjri Farm Post, Solapur Road, Pune412 307, Maharashtra, India
*
* E-mail: [email protected]
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Abstract

Three hundred and seventeen grape accessions from the National Active Grape Germplasm Site in India were analysed with 25 microsatellite markers. A total of 411 alleles were detected, of which 42% were rare alleles. Unique alleles for 56 genotypes were also identified. The analysis of microsatellite data identified 63 duplicate accessions and only 254 accessions were unique genotypes. Several cases of misnomers, synonymy and homonymy were identified. Parental genotype for a few clonal selections was ascertained. Population structure analysis grouped 254 unique genotypes into four major clusters. The analysis also revealed the presence of admixtures with only 79% of pure ancestry. A core collection comprising 80 genotypes was identified, which represented all the alleles and genetic diversity. A user-friendly and interactive computer application software was developed for storage and the retrieval of molecular data. A molecular database for the 254 genotypes was created. This analysis will help in the rationalization and better management of germplasm. Information on genetic diversity and population structure will form the basis for varietal improvement programmes.

Keywords

core collectiongenetic diversitygrapemicrosatellitemolecular database
Type
Research Article
Information
Plant Genetic Resources , Volume 11 , Issue 3 , December 2013 , pp. 225 - 233
Copyright
Copyright © NIAB 2013 

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