Open Access Research article

Analysis of BAC-end sequences (BESs) and development of BES-SSR markers for genetic mapping and hybrid purity assessment in pigeonpea (Cajanus spp.)

Abhishek Bohra12, Anuja Dubey13, Rachit K Saxena12, R Varma Penmetsa4, KN Poornima15, Naresh Kumar16, Andrew D Farmer7, Gudipati Srivani1, Hari D Upadhyaya1, Ragini Gothalwal3, S Ramesh5, Dhiraj Singh6, Kulbhushan Saxena1, PB Kavi Kishor2, Nagendra K Singh8, Christopher D Town9, Gregory D May7, Douglas R Cook4* and Rajeev K Varshney110*

Author Affiliations

1 International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Patancheru, Hyderabad, 502324, India

2 Department of Genetics, Osmania University, Hyderabad 500007, India

3 Department of Biotechnology and Bioinformatics Centre, Barkatullah University, Bhopal 462026, India

4 Department of Plant Pathology, University of California, Davis, CA 95616, USA

5 Department of Biotechnology, University of Agricultural Sciences (UAS), Bangalore 560065, India

6 Department of Plant Breeding and Genetics, CCS Haryana Agricultural University (CCSHAU), Hisar 125004, India

7 National Center for Genome Resources (NCGR), Santa Fe, N M 87505, USA

8 National Research Center on Plant Biotechnology (NRCPB), New Delhi 110012, India

9 J. Craig Venter Institute (JCVI), Rockville, MD 20850, USA

10 Generation Challenge Programme (GCP), c/o CIMMYT, 06600 Mexico DF, Mexico

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BMC Plant Biology 2011, 11:56  doi:10.1186/1471-2229-11-56

Published: 29 March 2011

Additional files

Additional file 1:

List of newly developed SSR markers isolated from BESs of pigeonpea. List of newly developed BES-SSRs providing details on corresponding GenBank ID, SSR motif, primer sequences, product size and amplification status.

Format: XLS Size: 594KB Download file

This file can be viewed with: Microsoft Excel Viewer

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Additional file 2:

Polymorphism status of SSR markers tested on 22 parental genotypes. Detailed information on markers, exhibiting polymorphism in at least one parental combination, along with their SSR motifs, number of alleles and PIC values.

Format: XLS Size: 166KB Download file

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Additional file 3:

Purity index of polymorphic SSR markers on pigeonpea hybrid ICPH 2671 individuals. List of polymorphic markers between parental lines (ICPA 2043 and ICPR 2671) and corresponding purity percentage of designated hybrid.

Format: XLS Size: 25KB Download file

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Open Data

Additional file 4:

Purity index of polymorphic SSR markers on pigeonpea hybrid ICPH 2438 individuals. List of polymorphic markers between hybrid parents (ICPA 2039 and ICPR 2438) and percentage of purity assessed by these markers in designated hybrids.

Format: XLS Size: 25KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data