Characterization and chromosomal assignment of yeast artificial chromosomes containing human 3p13-p21-specific sequence tagged sites

Michaelis, S; Bardenheuer, Walter; Lux, Andreas; Schramm, Alexander; Göckel, Anja; Siebert, Reiner; Willers, Christoph; Schmidtke, Katja; Todt, Birgit; Hout, Annemarie H. van der; Buys, Charles H.C.M.; Heppell-Parton, A.; Rabbitts, Pamela; Ungar, Sylvia; Smith, Jeremy C.; Lepaslier, Denis; Cohen, Daniel; Opalka, Bertram; Schütte, J.

doi:10.1016/0165-4608(94)00208-8

Cited by 18 publications

(20 citation statements)

References 23 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…The 3pl4.1-specific YAC contig presented here, together with our previous report on a 3pl4.2-14.3-specific contig (Michaelis et al 1995) completes our efforts to construct a YAC contig of the entire putative tumor suppressor gene region 3p14. In particular, this contig completes the work of our group to obtain a highdensity STS map of HCR 3p14 as well as the availability of a large number of nonchimeric YACs for functional analyses and expression mapping.…”

Section: Discussionmentioning

confidence: 99%

“…Twenty-five of the 39 DNA probes used in this study for the isolation of YACs have been described previously (Michaelis et al 1995). In addition, seven microsatellite markers, three reference markers, two YAC end probes, one Alu-PCR product, and the gene for HPTP~/were included in the contig.…”

Section: Analysis Of 3pl4i-specific Yacsmentioning

confidence: 99%

“…Strategy and techniques for isolation of 3p13-p14.2-specific STSs from an HCR 3p14-specific microdissection library, mapping of STSs using a deletion hybrid panel, STS-based screening of the Centre d'Etude du Polymorphisme Humain (CEPH) YAC libraries, separation of yeast chromosomes by pulsed-field gel electrophoresis (PFGE), and isolation of YAC DNA were performed as described previously (Bardenheuer et al 1994;Michaelis et al 1995). Isolation of YAC end probes was performed according to Riley et al (1990), and the Alu-PCR probe was generated according to Lengauer et al (I992).…”

Section: Localization Of Stss and Isolation Of Yacsmentioning

confidence: 99%

“…DNA preparation, labeling of probe, suppression of repetitive sequences with Cot1 DNA, hybridization conditions, and image analyses were performed as described previously (Michaelis et al 1995).…”

Section: @ Genome Research Fluorescence In Situ Hybridization Analysimentioning

confidence: 99%

“…As the marker density increased and yeast artificial chromosome (YAC) libraries became available in recent years, a contig covering almost the entire human chromosome 3 , as well as subcontigs for HCR 3p14.2-p14.3 (Michaelis et al 1995) and the distal part of 3p14.1 (Boldog et al 1994) have been published. In this paper we describe the constuction of a YAC contig for HCR 3p14.1 by PCR-based analysis, Southern blot, and Alu-fingerprint analysis.…”

mentioning

confidence: 99%

See 4 more Smart Citations

Construction of a consistent YAC contig for human chromosome region 3p14.1.

et al. 1996

View full text Add to dashboard Cite

Chromosomal deletions and translocations of human chromosome region 3pl4 are observed in various human malignancies and suggest the existence of a tumor suppressor gene locus within this region. Tumors most frequently affected by these aberrations are small-cell lung cancer and renal-cell carcinoma. In continuation of our previously published YAC contig of chromosome region 3p14.2-p14.3, we report here on the construction of a YAC contig of at least II Mb that consisted of 171 YACs and covers the entire subregion 3pl4.1. This contig includes the t(3;8) breakpoint of a hereditary renal-cell carcinoma localized in 3pl4.2 and extends into human chromosome region 3p12-p13. it defines the order of 34 DNA probes in relation to reference markers D3S6 and D3S30 as well as the human protein tyrosine phosphatase-~ gene. For 31 DNA probes we identified nonchimeric YACs by fluorescence in situ hybridization. The minimal tiling pathway consists of 16 yeast artificial chromosomes. As a prerequisite for identification of a putative tumor suppressor gene within this region, this contig renders human chromosome region 3pl4.1 accessible to gene isolation.

show abstract

Section: Discussionmentioning

confidence: 99%

Section: Analysis Of 3pl4i-specific Yacsmentioning

confidence: 99%

Section: Localization Of Stss and Isolation Of Yacsmentioning

confidence: 99%

Section: @ Genome Research Fluorescence In Situ Hybridization Analysimentioning

confidence: 99%

mentioning

confidence: 99%

See 3 more Smart Citations

Construction of a consistent YAC contig for human chromosome region 3p14.1.

et al. 1996

View full text Add to dashboard Cite

show abstract

Minimal deletion of 3p13→14.2 associated with immortalization of human uroepithelial cells

Vieten

Belair²,

Savelieva³

et al. 1998

Genes Chromosom. Cancer

Self Cite

View full text Add to dashboard Cite

Immortalization and tumorigenic transformation of many human cell types, including human uroepithelial cells (HUCs), are frequently associated with loss of genetic material from the short arm of chromosome 3 (3p). In addition, losses of 3p have been observed in many human cancers including renal cell carcinoma, lung cancer, breast cancer, and bladder cancer. Genetic studies suggest that there are at least two regions on 3p in which tumor suppressor genes might be located, but the precise location of these genes is not known. We studied chromosome 3 losses that were specifically associated with immortalization of five independent human papilloma virus 16 (HPV16) E6‐ or E7‐transformed HUCs. Cytogenetic analysis showed that the smallest common region of deletion was 3p14.1→14.2. Fluorescence in situ hybridization using a 3p13→14‐specific yeast artificial chromosome (YAC) contig showed the precise localization of the breakpoints to be in 3p13 and 3p14.2, thus defining the smallest common overlap of 3p deletions in HPV16 E6‐ or E7‐immortalized HUCs. These results suggest the presence in this region of genes involved in the control of senescence in vitro and possibly tumorigenesis in vivo. Genes Chromosomes Cancer 21:39–48, 1998. © 1998 Wiley‐Liss, Inc.

show abstract

Loss of expression of theDRR 1 gene at chromosomal segment 3p21.1 in renal cell carcinoma

Wang

Darling

Zhang

et al. 2000

Genes Chromosom. Cancer

Self Cite

View full text Add to dashboard Cite

Consistent deletion of DNA sequences in chromosomal band 3p21 observed in a variety of human tumors suggests the presence of one or more tumor suppressor genes within this region. Previously, we reported on the construction of two distinct cosmid contigs and our identification of several new genes within 3p21.1. In our search for tumor suppressor genes from this region, we have cloned a gene that we have called DRR 1 (downregulated in renal cell carcinoma). The gene was first mapped to 3p21.1 by fluorescence in situ hybridization analysis. Further analysis of yeast artificial chromosome clones in 3p14.2–p21.1 refined its localization. DRR 1 spans about 10 Kb of genomic DNA with a 3.5‐Kb mature transcript. The putative protein encoded by this gene is 144 amino acids and includes a nuclear localization signal and a coiled domain. The gene showed loss of expression in eight of eight renal cell carcinoma cell lines, one of seven ovarian cancer cell lines, one of one cervical cancer cell line, one of one gastric cancer cell line, and one of one non–small‐cell lung cancer cell line. Southern blot analysis did not show any altered bands, indicating that gross structural changes or deletions did not cause the loss of expression. This gene was also found to have reduced expression in 23 of 34 paired primary renal cell carcinomas. Mutational analysis detected three polymorphic sites within the gene, but no point mutations were identified in the 34 primary tumors. However, we did detect base substitutions in 4 of 12 cell lines that had undetectable expression of the gene. We also transfected the gene into DRR 1–negative cell lines and observed clear growth retardation. Our results suggest that loss of expression of the DRR 1 gene may play an important role in the development of renal cell carcinoma and possibly other tumors. Genes Chromosomes Cancer 27:1–10, 2000. © 2000 Wiley‐Liss, Inc.

show abstract

Characterization and chromosomal assignment of yeast artificial chromosomes containing human 3p13-p21-specific sequence tagged sites

Cited by 18 publications

References 23 publications

Construction of a consistent YAC contig for human chromosome region 3p14.1.

Construction of a consistent YAC contig for human chromosome region 3p14.1.

Minimal deletion of 3p13→14.2 associated with immortalization of human uroepithelial cells

Loss of expression of theDRR 1 gene at chromosomal segment 3p21.1 in renal cell carcinoma

Contact Info

Product

Resources

About