Physical and transcript map of the hereditary prostate cancer region at Xq27

Dietrich A. Stephan, Gareth R. Howell, Tanya M. Teslovich, Alison J. Coffey, Lorie Smith, Joan E. Bailey-Wilson, Lindsay Malechek, Derek Gildea, Jeffrey R. Smith, Elizabeth M. Gillanders, Johanna Schleutker, Ping Hu, Helen E. Steingruber, Pawandeep Dhami, Christiane M. Robbins, Izabela Makalowska, John D. Carpten, Raman Sood, Steve Mumm, Rolland ReinboldTom I. Bonner, Agnes Baffoe-Bonnie, Lukas Bubendorf, Mervi Heiskanen, Olli P. Kallioneimi, Andreas D. Baxevanis, Shirin S. Joseph, Ileana Zucchi, Robert D. Burk, William Isaacs, Mark T. Ross, Jeffrey M. Trent

Research output: Contribution to journalArticle

19 Scopus citations

Abstract

We have recently mapped a locus for hereditary prostate cancer (termed HPCX) to the long arm of the X chromosome (Xq25-q27) through a genome-wide linkage study. Here we report the construction of an ∼9-Mb sequence-ready bacterial clone contig map of Xq26.3-q27.3. The contig was constructed by screening BAC/PAC libraries with markers spaced at ∼85-kb intervals. We identified overlapping clones by end-sequencing framework clones to generate 407 new sequence-tagged sites, followed by PCR verification of overlaps. Contig assembly was based on clone restriction fingerprinting and the landmark information. We identified a minimal overlap contig for genomic sequencing, which has yielded 7.7 Mb of finished sequence and 1.5 Mb of draft sequence. The transcriptional mapping effort localized 57 known and predicted genes by database searching, STS content mapping, and sequencing, followed by sequence annotation. These transcriptional units represent candidate genes for HPCX and multiple other hereditary diseases at Xq26.3-q27.3.

Original languageEnglish (US)
Pages (from-to)41-50
Number of pages10
JournalGenomics
Volume79
Issue number1
DOIs
StatePublished - Jan 2002

Keywords

  • Bacterial artificial chromosomes
  • Contig mapping
  • Genome mapping
  • Genome sequencing
  • P1 artificial chromosomes
  • Physical mapping
  • Prostate cancer
  • Repetitive elements
  • Sequence annotation
  • Xq26.3-q27.3

ASJC Scopus subject areas

  • Genetics

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  • Cite this

    Stephan, D. A., Howell, G. R., Teslovich, T. M., Coffey, A. J., Smith, L., Bailey-Wilson, J. E., Malechek, L., Gildea, D., Smith, J. R., Gillanders, E. M., Schleutker, J., Hu, P., Steingruber, H. E., Dhami, P., Robbins, C. M., Makalowska, I., Carpten, J. D., Sood, R., Mumm, S., ... Trent, J. M. (2002). Physical and transcript map of the hereditary prostate cancer region at Xq27. Genomics, 79(1), 41-50. https://doi.org/10.1006/geno.2001.6681