Integrated and sequence-ordered BAC- and YAC-based physical maps for the rat genome.

As part of the effort to sequence the genome of Rattus norvegicus, we constructed a physical map comprised of fingerprinted bacterial artificial chromosome (BAC) clones from the CHORI-230 BAC library. These BAC clones provide approximately 13-fold redundant coverage of the genome and have been assembled into 376 fingerprint contigs. A yeast artificial chromosome (YAC) map was also constructed and aligned with the BAC map via fingerprinted BAC and P1 artificial chromosome clones (PACs) sharing interspersed repetitive sequence markers with the YAC-based physical map. We have annotated 95% of the fingerprint map clones in contigs with coordinates on the version 3.1 rat genome sequence assembly, using BAC-end sequences and in silico mapping methods. These coordinates have allowed anchoring 358 of the 376 fingerprint map contigs onto the sequence assembly. Of these, 324 contigs are anchored to rat genome sequences localized to chromosomes, and 34 contigs are anchored to unlocalized portions of the rat sequence assembly. The remaining 18 contigs, containing 54 clones, still require placement. The fingerprint map is a high-resolution integrative data resource that provides genome-ordered associations among BAC, YAC, and PAC clones and the assembled sequence of the rat genome.

Sarah Barber | Andre Marziali | Hans Lehrach | John D McPherson | Shaying Zhao | Martin Krzywinski | Marco Marra | Elaine Mardis | Readman Chiu | Heesun Shin | Kazutoyo Osoegawa | George Yang | Thomas Kreitler | Heinz Himmelbauer | Pawan Pandoh | Norbert Hübner | Alison Cloutier | Jennifer Asano | Mabel Brown-John | Steven Jones | Ian Bosdet | T. Graves | E. Mardis | J. McPherson | M. Krzywinski | J. Wallis | J. Schein | Shaying Zhao | P. D. de Jong | H. Himmelbauer | K. Osoegawa | L. Hillier | M. Marra | B. Zhu | H. Lehrach | A. Siddiqui | Jason R. Walker | Steven P. Jones | Readman Chiu | Susanna Y. Chan | Darlene Lee | Michael Mayo | N. Wye | W. Warren | D. Layman | I. Bosdet | C. Fjell | Carrie A. Mathewson | N. Hübner | D. Ganten | O. Hummel | T. Kreitler | H. Zimdahl | Jonathon Davito | A. Prabhu | Kelly Mead | M. Sekhon | T. Gaige | J. Asano | Noreen Girn | P. Pandoh | M. Tsai | George S. Yang | Heesun Shin | Richard Wilson | Alison Cloutier | A. Marziali | Sarah A. Barber | Oliver Hummel | Jacqueline Schein | Mandeep Sekhon | John Wallis | Tony Gaige | Dan Layman | Kelly Mead | Susanna Chan | Chris Fjell | Noreen Girn | Carrie Mathewson | Anna-Liisa Prabhu | Miranda Tsai | Natasja Wye | Asim Siddiqui | Claudia Gösele | Tina Graves | Baoli Zhu | Derek Albracht | Steve Chand | Jonathon Davito | Detlev Ganten | Kurtis Guggenheimer | Stephen Leach | Darlene Lee | Michael Mayo | Teika Olson | Simone Tänzer | Jason Thompson | Jason Walker | LaDeana Hillier | Heike Zimdahl | Pieter J de Jong | Wes Warren | Richard Wilson | Simone Tänzer | Mabel Brown-John | T. Olson | S. Chand | S. Leach | Jason D. Thompson | C. Gösele | Kurtis Guggenheimer | Derek Albracht | A. Cloutier | Daniel Layman | Tina Graves

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