title: Analysis of a new homozygous deletion in the tumor suppressor region at 3p12.3 reveals two novel intronic noncoding RNA genes.
abstract: Homozygous deletions or loss of heterozygosity (LOH) at human chromosome band 3p12 are consistent features of lung and other malignancies, suggesting the presence of a tumor suppressor gene(s) (TSG) at this location. Only one gene has been cloned thus far from the overlapping region deleted in lung and breast cancer cell lines U2020, NCI H2198, and HCC38. It is DUTT1 (Deleted in U Twenty Twenty), also known as ROBO1, FLJ21882, and SAX3, according to HUGO. DUTT1, the human ortholog of the fly gene ROBO, has homology with NCAM proteins. Extensive analyses of DUTT1 in lung cancer have not revealed any mutations, suggesting that another gene(s) at this location could be of importance in lung cancer initiation and progression. Here, we report the discovery of a new, small, homozygous deletion in the small cell lung cancer (SCLC) cell line GLC20, nested in the overlapping, critical region. The deletion was delineated using several polymorphic markers and three overlapping P1 phage clones. Fiber-FISH experiments revealed the deletion was approximately 130 kb. Comparative genomic sequence analysis uncovered short sequence elements highly conserved among mammalian genomes and the chicken genome. The discovery of two EST clusters within the deleted region led to the isolation of two noncoding RNA (ncRNA) genes. These were subsequently found differentially expressed in various tumors when compared to their normal tissues. The ncRNA and other highly conserved sequence elements in the deleted region may represent miRNA targets of importance in cancer initiation or progression.
authors.affiliation: Laboratory of Immunobiology, Center for Cancer Research, National Cancer Institute at Frederick, Frederick, MD, USA. angeloni@ifc.cnr.it
authors.forename: Debora
authors.initials: D
authors.lastname: Angeloni
authors.forename: Arja
authors.initials: A
authors.lastname: ter Elst
authors.forename: Ming Hui
authors.initials: MH
authors.lastname: Wei
authors.forename: Anneke Y
authors.initials: AY
authors.lastname: van der Veen
authors.forename: Eleonora A
authors.initials: EA
authors.lastname: Braga
authors.forename: Eugene A
authors.initials: EA
authors.lastname: Klimov
authors.forename: Tineke
authors.initials: T
authors.lastname: Timmer
authors.forename: Luba
authors.initials: L
authors.lastname: Korobeinikova
authors.forename: Michael I
authors.initials: MI
authors.lastname: Lerman
authors.forename: Charles H C M
authors.initials: CH
authors.lastname: Buys
mesh_terms: D000818:Animals; D001943:Breast Neoplasms / Q000235:genetics; D002292:Carcinoma, Renal Cell / Q000235:genetics; D018288:Carcinoma, Small Cell / Q000235:genetics; D045744:Cell Line, Tumor; D002645:Chickens; D002874:Chromosome Mapping; D002893:Chromosomes, Human, Pair 3; D017124:Conserved Sequence; D017353:Gene Deletion; D016147:Genes, Tumor Suppressor; D006720:Homozygote; D006801:Humans; D007438:Introns; D007680:Kidney Neoplasms / Q000235:genetics; D008175:Lung Neoplasms / Q000235:genetics; D005810:Multigene Family; D009419:Nerve Tissue Proteins / Q000235:genetics; D012334:RNA, Neoplasm / Q000235:genetics*; D022661:RNA, Untranslated / Q000235:genetics*; D011971:Receptors, Immunologic / Q000235:genetics; D000097905:Roundabout Proteins
chemical_list: D009419:Nerve Tissue Proteins; D012334:RNA, Neoplasm; D022661:RNA, Untranslated; D011971:Receptors, Immunologic; D000097905:Roundabout Proteins