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In silico mapping of important genes and markers available in the public domain for efficient sorghum breeding

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Relation http://oar.icrisat.org/254/
http://dx.doi.org/10.1007/s11032-009-9365-9
 
Title In silico mapping of important genes and markers available in the public domain for efficient sorghum breeding
 
Creator Ramu, P
Deshpande, S P
Senthilvel, S
Jayashree, B
Billot, C
Deu, M
Reddy, L A
Hash, C T
 
Subject Sorghum
 
Description Crop genome sequencing projects generate massive amounts of genomic sequence information, and the utilization of this information in applied crop improvement programs has been augmented by the availability of sophisticated bioinformatics tools. Here, we present the possible direct utilization of sequence data from a sorghum genome sequencing project in applied crop breeding programs. Based on sequence homology, we aligned all publicly available simple sequence repeat markers on a sequencebased physical map for sorghum. Linking this physical map with already existing linkage map(s) provides better options for applied molecular breeding programs. When a new set of markers is made available, the new markers can be first aligned on a
sequence-based physical map, and those located near the quantitative trait locus (QTL) can be identified from this map, thereby reducing the number of markers to be tested in order to identify polymorphic flanking markers for the QTL for any given donor 9 recurrent parent combination. Polymorphic markers that are expected (on the basis of their position on the sequence-based physical map) to be closely
linked to the target can be used for foreground selection in marker-assisted breeding. This map facilitates the identification of a set of markers representing the entire genome, which would provide better resolution in diversity analyses and further linkage disequilibrium mapping. Filling the gaps in existing linkage maps and fine mapping can be
achieved more efficiently by targeting the specific genomic regions of interest. It also opens up new exciting opportunities for comparative mapping and for the development of new genomic resources in related crops, both of which are lagging behind in the current genomic revolution. This paper also presents a number of examples of potential applications of sequence-based physical map for sorghum.
 
Publisher Kluwer
 
Date 2010
 
Type Article
PeerReviewed
 
Format application/pdf
 
Language en
 
Rights —
 
Identifier http://oar.icrisat.org/254/1/n100.pdf
Ramu, P and Deshpande, S P and Senthilvel, S and Jayashree, B and Billot, C and Deu, M and Reddy, L A and Hash, C T (2010) In silico mapping of important genes and markers available in the public domain for efficient sorghum breeding. Molecular Breeding, 26. pp. 409-418.