A 2-MB sequence-ready contig map and a novel immunoglobulin superfamily gene IGSF4 in the LOH region of chromosome 11q23.2

Hiroki Gomyo, Yasuhito Arai, Akira Tanigami, Yoshinori Murakami, Masahira Hattori, Fumie Hosoda, Kyoko Arai, Yukiko Aikawa, Hitoshi Tsuda, Setsuo Hirohashi, Shuichi Asakawa, Nobuyoshi Shimizu, Eiichi Soeda, Yoshiyuki Sakaki, Misao Ohki

Research output: Contribution to journalArticle

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Abstract

Human chromosome 11q23.2 has been proposed to contain a tumor suppressor gene(s) whose deletion has been associated with cancer of the lung and breast and with neuroblastoma. To analyze the genomic structure and to isolate a candidate tumor suppressor gene from this region, we constructed a 2-Mb sequence-ready contig map using bacteriophage P1 (P1), bacterial artificial chromosome (BAC), and P1-derived artificial chromosome (PAC). The map comprises a contig of 24 overlapping P1, BAC, and PAC clones. To isolate gene fragments from the region, we performed direct cDNA library screening, exon trapping, EST mapping, and genomic sequencing using the P1, BAC, and PAC clones. Sequence analysis of 5 clones, which spans 23% (458,738 bp) of the region, and extensive gene scanning along the entire region revealed that the region is extraordinarily scarce in genes, but we identified one ubiquitously expressed novel gene and one testis-specific gene fragment. The novel gene, which we call IGSF4 (immunoglobulin superfamily 4), is transcribed into a 1.6- or 4.4-kb RNA encoding a 442-amino-acid protein. It shares strong homology with mouse IGSF-B12 and cell adhesion molecules NCAM1 and NCAM2 within their Ig-like C2-type domains. The IGSF4 gene, a novel gene that is shown to be located in the common loss of heterozygosity region, possesses a number of interesting features and may be good candidate for a tumor suppressor gene.

Original languageEnglish
Pages (from-to)139-146
Number of pages8
JournalGenomics
Volume62
Issue number2
DOIs
Publication statusPublished - 1999 Dec 1
Externally publishedYes

Fingerprint

Immunoglobulin Genes
Immunoglobulins
Chromosomes
P1 Bacteriophage Artificial Chromosomes
Bacterial Artificial Chromosomes
Genes
Tumor Suppressor Genes
Clone Cells
Bacteriophage P1
S-(beta-p-methoxypropiophenone)thiamine
Loss of Heterozygosity
Expressed Sequence Tags
Cell Adhesion Molecules
Human Chromosomes
Neuroblastoma
Gene Library
Sequence Analysis
Testis
Exons
Lung Neoplasms

ASJC Scopus subject areas

  • Genetics

Cite this

A 2-MB sequence-ready contig map and a novel immunoglobulin superfamily gene IGSF4 in the LOH region of chromosome 11q23.2. / Gomyo, Hiroki; Arai, Yasuhito; Tanigami, Akira; Murakami, Yoshinori; Hattori, Masahira; Hosoda, Fumie; Arai, Kyoko; Aikawa, Yukiko; Tsuda, Hitoshi; Hirohashi, Setsuo; Asakawa, Shuichi; Shimizu, Nobuyoshi; Soeda, Eiichi; Sakaki, Yoshiyuki; Ohki, Misao.

In: Genomics, Vol. 62, No. 2, 01.12.1999, p. 139-146.

Research output: Contribution to journalArticle

Gomyo, H, Arai, Y, Tanigami, A, Murakami, Y, Hattori, M, Hosoda, F, Arai, K, Aikawa, Y, Tsuda, H, Hirohashi, S, Asakawa, S, Shimizu, N, Soeda, E, Sakaki, Y & Ohki, M 1999, 'A 2-MB sequence-ready contig map and a novel immunoglobulin superfamily gene IGSF4 in the LOH region of chromosome 11q23.2', Genomics, vol. 62, no. 2, pp. 139-146. https://doi.org/10.1006/geno.1999.6001
Gomyo, Hiroki ; Arai, Yasuhito ; Tanigami, Akira ; Murakami, Yoshinori ; Hattori, Masahira ; Hosoda, Fumie ; Arai, Kyoko ; Aikawa, Yukiko ; Tsuda, Hitoshi ; Hirohashi, Setsuo ; Asakawa, Shuichi ; Shimizu, Nobuyoshi ; Soeda, Eiichi ; Sakaki, Yoshiyuki ; Ohki, Misao. / A 2-MB sequence-ready contig map and a novel immunoglobulin superfamily gene IGSF4 in the LOH region of chromosome 11q23.2. In: Genomics. 1999 ; Vol. 62, No. 2. pp. 139-146.
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