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 Reinbold & 12 others Tom 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

18 Citations (Scopus)

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 - 2001
Externally publishedYes

Fingerprint

Clone Cells
Sequence Tagged Sites
Inborn Genetic Diseases
X Chromosome
Genes
Libraries
Genome
Databases
Polymerase Chain Reaction
Familial Prostate cancer

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

Cite this

Stephan, D. A., Howell, G. R., Teslovich, T. M., Coffey, A. J., Smith, L., Bailey-Wilson, J. E., ... Trent, J. M. (2001). 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

Physical and transcript map of the hereditary prostate cancer region at Xq27. / Stephan, Dietrich A.; Howell, Gareth R.; Teslovich, Tanya M.; Coffey, Alison J.; Smith, Lorie; Bailey-Wilson, Joan E.; Malechek, Lindsay; Gildea, Derek; Smith, Jeffrey R.; Gillanders, Elizabeth M.; Schleutker, Johanna; Hu, Ping; Steingruber, Helen E.; Dhami, Pawandeep; Robbins, Christiane M.; Makalowska, Izabela; Carpten, John D.; Sood, Raman; Mumm, Steve; Reinbold, Rolland; Bonner, Tom I.; Baffoe-Bonnie, Agnes; Bubendorf, Lukas; Heiskanen, Mervi; Kallioneimi, Olli P.; Baxevanis, Andreas D.; Joseph, Shirin S.; Zucchi, Ileana; Burk, Robert D.; Isaacs, William; Ross, Mark T.; Trent, Jeffrey M.

In: Genomics, Vol. 79, No. 1, 2001, p. 41-50.

Research output: Contribution to journalArticle

Stephan, DA, Howell, GR, Teslovich, TM, Coffey, AJ, Smith, L, Bailey-Wilson, JE, Malechek, L, Gildea, D, Smith, JR, Gillanders, EM, Schleutker, J, Hu, P, Steingruber, HE, Dhami, P, Robbins, CM, Makalowska, I, Carpten, JD, Sood, R, Mumm, S, Reinbold, R, Bonner, TI, Baffoe-Bonnie, A, Bubendorf, L, Heiskanen, M, Kallioneimi, OP, Baxevanis, AD, Joseph, SS, Zucchi, I, Burk, RD, Isaacs, W, Ross, MT & Trent, JM 2001, 'Physical and transcript map of the hereditary prostate cancer region at Xq27', Genomics, vol. 79, no. 1, pp. 41-50. https://doi.org/10.1006/geno.2001.6681
Stephan DA, Howell GR, Teslovich TM, Coffey AJ, Smith L, Bailey-Wilson JE et al. Physical and transcript map of the hereditary prostate cancer region at Xq27. Genomics. 2001;79(1):41-50. https://doi.org/10.1006/geno.2001.6681
Stephan, Dietrich A. ; Howell, Gareth R. ; Teslovich, Tanya M. ; Coffey, Alison J. ; Smith, Lorie ; Bailey-Wilson, Joan E. ; Malechek, Lindsay ; Gildea, Derek ; Smith, Jeffrey R. ; Gillanders, Elizabeth M. ; Schleutker, Johanna ; Hu, Ping ; Steingruber, Helen E. ; Dhami, Pawandeep ; Robbins, Christiane M. ; Makalowska, Izabela ; Carpten, John D. ; Sood, Raman ; Mumm, Steve ; Reinbold, Rolland ; Bonner, Tom I. ; Baffoe-Bonnie, Agnes ; Bubendorf, Lukas ; Heiskanen, Mervi ; Kallioneimi, Olli P. ; Baxevanis, Andreas D. ; Joseph, Shirin S. ; Zucchi, Ileana ; Burk, Robert D. ; Isaacs, William ; Ross, Mark T. ; Trent, Jeffrey M. / Physical and transcript map of the hereditary prostate cancer region at Xq27. In: Genomics. 2001 ; Vol. 79, No. 1. pp. 41-50.
@article{2bd29bca07a34885aaa92e62472b41fc,
title = "Physical and transcript map of the hereditary prostate cancer region at Xq27",
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.",
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",
author = "Stephan, {Dietrich A.} and Howell, {Gareth R.} and Teslovich, {Tanya M.} and Coffey, {Alison J.} and Lorie Smith and Bailey-Wilson, {Joan E.} and Lindsay Malechek and Derek Gildea and Smith, {Jeffrey R.} and Gillanders, {Elizabeth M.} and Johanna Schleutker and Ping Hu and Steingruber, {Helen E.} and Pawandeep Dhami and Robbins, {Christiane M.} and Izabela Makalowska and Carpten, {John D.} and Raman Sood and Steve Mumm and Rolland Reinbold and Bonner, {Tom I.} and Agnes Baffoe-Bonnie and Lukas Bubendorf and Mervi Heiskanen and Kallioneimi, {Olli P.} and Baxevanis, {Andreas D.} and Joseph, {Shirin S.} and Ileana Zucchi and Burk, {Robert D.} and William Isaacs and Ross, {Mark T.} and Trent, {Jeffrey M.}",
year = "2001",
doi = "10.1006/geno.2001.6681",
language = "English (US)",
volume = "79",
pages = "41--50",
journal = "Genomics",
issn = "0888-7543",
publisher = "Academic Press Inc.",
number = "1",

}

TY - JOUR

T1 - Physical and transcript map of the hereditary prostate cancer region at Xq27

AU - Stephan, Dietrich A.

AU - Howell, Gareth R.

AU - Teslovich, Tanya M.

AU - Coffey, Alison J.

AU - Smith, Lorie

AU - Bailey-Wilson, Joan E.

AU - Malechek, Lindsay

AU - Gildea, Derek

AU - Smith, Jeffrey R.

AU - Gillanders, Elizabeth M.

AU - Schleutker, Johanna

AU - Hu, Ping

AU - Steingruber, Helen E.

AU - Dhami, Pawandeep

AU - Robbins, Christiane M.

AU - Makalowska, Izabela

AU - Carpten, John D.

AU - Sood, Raman

AU - Mumm, Steve

AU - Reinbold, Rolland

AU - Bonner, Tom I.

AU - Baffoe-Bonnie, Agnes

AU - Bubendorf, Lukas

AU - Heiskanen, Mervi

AU - Kallioneimi, Olli P.

AU - Baxevanis, Andreas D.

AU - Joseph, Shirin S.

AU - Zucchi, Ileana

AU - Burk, Robert D.

AU - Isaacs, William

AU - Ross, Mark T.

AU - Trent, Jeffrey M.

PY - 2001

Y1 - 2001

N2 - 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.

AB - 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.

KW - Bacterial artificial chromosomes

KW - Contig mapping

KW - Genome mapping

KW - Genome sequencing

KW - P1 artificial chromosomes

KW - Physical mapping

KW - Prostate cancer

KW - Repetitive elements

KW - Sequence annotation

KW - Xq26.3-q27.3

UR - http://www.scopus.com/inward/record.url?scp=0035701501&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=0035701501&partnerID=8YFLogxK

U2 - 10.1006/geno.2001.6681

DO - 10.1006/geno.2001.6681

M3 - Article

VL - 79

SP - 41

EP - 50

JO - Genomics

JF - Genomics

SN - 0888-7543

IS - 1

ER -