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A Toolkit for bulk PCR-based marker design from next-generation sequence data: application for development of a framework linkage map in bulb onion (Allium cepa L.)

Samantha Baldwin1, Roopashree Revanna1, Susan Thomson1, Meeghan Pither-Joyce1, Kathryn Wright1, Ross Crowhurst1, Mark Fiers1, Leshi Chen2, Richard Macknight13 and John A McCallum1*

Author Affiliations

1 The New Zealand Institute for Plant & Food Research Limited, Private Bag 4704, Christchurch, New Zealand

2 Department of Applied Computing, Faculty of Environment, Society and Design, Lincoln University, PO Box 84, Lincoln, 7647, New Zealand

3 Biochemistry Department, University of Otago, P.O. Box 56, Dunedin, 9054, New Zealand

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BMC Genomics 2012, 13:637  doi:10.1186/1471-2164-13-637

Published: 19 November 2012

Additional files

Additional file 1:

Table S1. Genetic Marker assays and map locations. Genbank accessions denote accession number of contigs or read identifier for singleton reads in SRA accession SRX031645.

Format: XLSX Size: 24KB Download file

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Additional file 2:

Table S2. Bin mapped genetic marker assays targeting TF-like sequences and genomic SSR.

Format: XLSX Size: 10KB Download file

Open Data