Open Access Research article

Physical mapping in highly heterozygous genomes: a physical contig map of the Pinot Noir grapevine cultivar

Simone Scalabrin12, Michela Troggio3, Marco Moroldo34, Massimo Pindo3, Nicoletta Felice24, Giuseppina Coppola3, Giacomo Prete4, Giulia Malacarne3, Raffaella Marconi4, Giorgia Faes34, Irena Jurman24, Stella Grando3, Taco Jesse5, Cinzia Segala36, Giorgio Valle6, Alberto Policriti12, Paolo Fontana3, Michele Morgante24* and Riccardo Velasco3

Author Affiliations

1 Dipartimento di Matematica e Informatica, Università di Udine, Via delle Scienze 206, 33100 Udine, Italy

2 Istituto di Genomica Applicata, Parco Scientifico e Tecnologico di Udine "Luigi Danieli", Via J Linussio 51, 33100 Udine, Italy

3 IASMA Research and Innovation Centre, Foundation Edmund Mach, Via E Mach 1, 38010 San Michele all'Adige (TN), Italy

4 Dipartimento di Scienze Agrarie ed Ambientali, Università degli Studi di Udine, Via delle Scienze 208, 33100 Udine, Italy

5 Keygene NV, PO Box 216, 6700 Wageningen, The Netherlands

6 Dipartimento di Biologia, Università degli Studi di Padova, Via Ugo Bassi 58b, 35121 Padova, Italy

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BMC Genomics 2010, 11:204  doi:10.1186/1471-2164-11-204

Published: 26 March 2010

Additional files

Additional file 1:

BAC-end alignment on the PN40024 sequence to disprove contaminations. contig 71 is apparently highly contaminated as 19 of its 38 clones originated from only 9 plates. To disprove this BAC-end sequencing and corresponding alignment on the PN40024 sequence[32] was carried out. Clones from plate 1070 are contaminated at the library level (they are identical) since corresponding BES align at the same positions. Only two BES hit (with low similarity percentage) on different locations but with their corresponding mate blast hit in the correct location.

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