title: Cloning and mapping of human chromosome 6q26-q27 deleted in B-cell non-Hodgkin lymphoma and multiple tumor types.
abstract: Frequent deletions of the distal region on the long arm of chromosome 6 have been reported in multiple human tumors including B-cell non-Hodgkin lymphoma (B-NHL), suggesting the presence of one or more tumor suppressor genes (TSGs) at this locus. Previously, we identified a region of minimal molecular deletion at 6q25-q27 (RMD-1) in B-NHL cases. To facilitate positional cloning efforts to identify the RMD-1 TSG(s), a yeast artificial chromosome (YAC) contig consisting of 110 clones was constructed across 6q26-q27 by sequence-tagged site/probe content mapping. The contig integrates 79 ordered markers including restriction fragment length polymorphisms, minisatellites, microsatellites, YAC-insert termini, expressed sequence tags, and known genes. It spans 34 cM and has a minimal tiling path of approximately 12 clones, covering an estimated 9-14 Mb with nearly every marker on the map showing at least double linkage to its adjacent markers. Dual-color fluorescence in situ hybridization of selected marker pairs on normal pachytene chromosome 6 further confirmed the YAC-based mappings. Utilizing a loss of constitutional heterozygosity assay in the B-NHL tumor panel, 24 additional 6q26-q27 polymorphic markers (21 mapping to the contig) further defined RMD-1 between markers D6S186 proximally and D6S227 distally. The minimal tiling path of the B-NHL RMD-1 consists of approximately 8 YAC clones, providing a size estimate of 5-9 Mb. This interval contains, in their entirety, several smaller candidate TSG critical regions previously delimited in other tumor systems. The AF-6 gene, mapping within RMD-1, revealed no mutations in a small subset of B-NHL. The deletion and physical maps presented herein provide a framework for the identification of the gene(s) involved in B-NHL as well as other malignancies and diseases mapped to this region and provide the initial reagents for large-scale genomic sequencing.
authors.affiliation: Department of Pathology, College of Physicians and Surgeons, Columbia University, New York, New York 10032, USA.
authors.forename: R S
authors.initials: RS
authors.lastname: Hauptschein
authors.forename: B
authors.initials: B
authors.lastname: Gamberi
authors.forename: P H
authors.initials: PH
authors.lastname: Rao
authors.forename: F
authors.initials: F
authors.lastname: Frigeri
authors.forename: L
authors.initials: L
authors.lastname: Scotto
authors.forename: V S
authors.initials: VS
authors.lastname: Venkatraj
authors.forename: G
authors.initials: G
authors.lastname: Gaidano
authors.forename: T
authors.initials: T
authors.lastname: Rutner
authors.forename: Y H
authors.initials: YH
authors.lastname: Edwards
authors.forename: R S
authors.initials: RS
authors.lastname: Chaganti
authors.forename: R
authors.initials: R
authors.lastname: Dalla-Favera
mesh_terms: D002872:Chromosome Deletion; D002874:Chromosome Mapping; D018244:Chromosomes, Artificial, Yeast; D002896:Chromosomes, Human, Pair 6; D003001:Cloning, Molecular; D016521:Electrophoresis, Gel, Pulsed-Field; D016147:Genes, Tumor Suppressor / Q000235:genetics; D006801:Humans; D017404:In Situ Hybridization, Fluorescence; D016547:Kinesins / Q000235:genetics; D019656:Loss of Heterozygosity; D016393:Lymphoma, B-Cell / Q000235:genetics*; D018598:Minisatellite Repeats; D015336:Molecular Probe Techniques; D009154:Mutation; D009218:Myosins / Q000235:genetics; D009369:Neoplasms / Q000235:genetics*; D012150:Polymorphism, Restriction Fragment Length; D016324:Sequence Tagged Sites
chemical_list: C095516:AFDN protein, human; D009218:Myosins; D016547:Kinesins