title: Discovery of frequent homozygous deletions in chromosome 3p21.3 LUCA and AP20 regions in renal, lung and breast carcinomas.
abstract: We searched for chromosome 3p homo- and hemizygous losses in 23 lung cancer cell lines, 53 renal cell and 22 breast carcinoma biopsies using 31 microsatellite markers located in frequently deleted 3p regions. In addition, two sequence-tagged site markers (NLJ-003 and NL3-001) located in the Alu-PCR clone 20 region (AP20) and lung cancer (LUCA) regions, respectively, were used for quantitative real-time PCR (QPCR). We found frequent (10-18%) homozygous deletions (HDs) in both 3p21.3 regions in the biopsies and lung cancer cell lines. In addition, we discovered that amplification of 3p is a very common (15-42.5%) event in these cancers and probably in other epithelial malignancies. QPCR showed that aberrations of either NLJ-003 or NL3-001 were detected in more than 90% of all studied cases. HDs were frequently detected simultaneously both in NLJ-003 or NL3-001 loci in the same tumour (P<3-10(-7)). This observation suggests that tumour suppressor genes (TSG) in these regions could have a synergistic effect. The exceptionally high frequency of chromosome aberrations in NLJ-003 and NL3-001 loci suggests that multiple TSG(s) involved in different malignancies are located very near to these markers. Precise mapping of 15 independent HDs in the LUCA region allowed us to establish the smallest HD region in 3p21.3C located between D3S1568 (CACNA2D2 gene) and D3S4604 (SEMA3F gene). This region contains 17 genes. Mapping of 19 HDs in the AP20 region resulted in the localization of the minimal region to the interval flanked by D3S1298 and D3S3623 markers. Only four genes were discovered in this interval, namely, APRG1, ITGA9, HYA22 and VILL.
authors.affiliation: Microbiology and Tumor Biology Center, Center for Genomics and Bioinformatics, Karolinska Institute, Stockholm 17177 Sweden.
authors.forename: Vera N
authors.initials: VN
authors.lastname: Senchenko
authors.forename: Jian
authors.initials: J
authors.lastname: Liu
authors.forename: Witaly
authors.initials: W
authors.lastname: Loginov
authors.forename: Igor
authors.initials: I
authors.lastname: Bazov
authors.forename: Debora
authors.initials: D
authors.lastname: Angeloni
authors.forename: Yury
authors.initials: Y
authors.lastname: Seryogin
authors.forename: Valeria
authors.initials: V
authors.lastname: Ermilova
authors.forename: Tatiana
authors.initials: T
authors.lastname: Kazubskaya
authors.forename: Raisa
authors.initials: R
authors.lastname: Garkavtseva
authors.forename: Veronika I
authors.initials: VI
authors.lastname: Zabarovska
authors.forename: Vladimir I
authors.initials: VI
authors.lastname: Kashuba
authors.forename: Lev L
authors.initials: LL
authors.lastname: Kisselev
authors.forename: John D
authors.initials: JD
authors.lastname: Minna
authors.forename: Michael I
authors.initials: MI
authors.lastname: Lerman
authors.forename: George
authors.initials: G
authors.lastname: Klein
authors.forename: Eleonora A
authors.initials: EA
authors.lastname: Braga
authors.forename: Eugene R
authors.initials: ER
authors.lastname: Zabarovsky
mesh_terms: D001943:Breast Neoplasms / Q000235:genetics*; D015220:Calcium Channels / Q000235:genetics; D002277:Carcinoma / Q000235:genetics*; D002292:Carcinoma, Renal Cell / Q000235:genetics; D018288:Carcinoma, Small Cell / Q000235:genetics; D002869:Chromosome Aberrations; D002893:Chromosomes, Human, Pair 3; D005260:Female; D015321:Gene Rearrangement; D005819:Genetic Markers; D006720:Homozygote; D006801:Humans; D007680:Kidney Neoplasms / Q000235:genetics*; D019656:Loss of Heterozygosity; D008175:Lung Neoplasms / Q000235:genetics*; D008562:Membrane Glycoproteins / Q000235:genetics; D008565:Membrane Proteins / Q000235:genetics; D009419:Nerve Tissue Proteins / Q000235:genetics; D016133:Polymerase Chain Reaction / Q000379:methods; D039961:Semaphorins; D017384:Sequence Deletion; D014407:Tumor Cells, Cultured
chemical_list: C425903:CACNA2D1 protein, human; C486058:Cacna2d2 protein, mouse; D015220:Calcium Channels; D005819:Genetic Markers; D008562:Membrane Glycoproteins; D008565:Membrane Proteins; D009419:Nerve Tissue Proteins; C409766:SEMA3B protein, human; C491230:SEMA3F protein, human; D039961:Semaphorins