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The neurobeachin gene spans the common fragile site FRA13A

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Abstract

Common fragile sites are normal constituents of chromosomal structure prone to chromosomal breakage. In humans, the cytogenetic locations of more than 80 common fragile sites are known. The DNA at 11 of them has been defined and characterized at the molecular level. According to the Genome Database, the common fragile site FRA13A maps to chromosome band 13q13.2. Here, we identify the precise genomic position of FRA13A, and characterize the genetic complexity of the fragile DNA sequence. We show that FRA13A breaks are limited to a 650 kb region within the neurobeachin (NBEA) gene, which genomically spans approximately 730 kb. NBEA encodes a neuron-specific multidomain protein implicated in membrane trafficking that is predominantly expressed in the brain and during development.

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References

  • Arlt MF, Miller DE, Beer DG, Glover TW (2002) Molecular characterization of FRAXB and comparative common fragile site instability in cancer cells. Genes Chromosomes Cancer 33:82–92

    Article  PubMed  CAS  Google Scholar 

  • Arlt MF, Casper AM, Glover TW (2003) Common fragile sites. Cytogenet Genome Res 100:92–100

    Article  PubMed  CAS  Google Scholar 

  • Arlt MF, Xu B, Durkin SG, Casper AM, Kastan MB, Glover TW (2004) BRCA1 is required for common-fragile-site stability via its G2/M checkpoint function. Mol Cell Biol 24:6701–6709

    Article  PubMed  CAS  Google Scholar 

  • Barrett S, Beck JC, Bernier R, Bisson E, Braun TA, Casavant TL, Childress D, et al (1999) An autosomal genomic screen for autism. Collaborative linkage study of autism. Am J Med Genet 88:609–615

    Article  PubMed  CAS  Google Scholar 

  • Bednarek AK, Keck-Waggoner CL, Daniel RL, Laflin KJ, Bergsagel PL, Kiguchi K, Brenner AJ, Aldaz CM (2001) WWOX, the FRA16D gene, behaves as a suppressor of tumor growth. Cancer Res 61:8068–8073

    PubMed  CAS  Google Scholar 

  • Boldog FL, Waggoner B, Glover TW, Chumakov I, Le Paslier D, Cohen D, Gemmill RM, Drabkin HA (1994) Integrated YAC contig containing the 3p14.2 hereditary renal carcinoma 3;8 translocation breakpoint and the fragile site FRA3B. Genes Chromosomes Cancer 11:216–221

    Article  PubMed  CAS  Google Scholar 

  • Buttel I, Fechter A, Schwab M (2004) Common fragile sites and cancer: targeted cloning by insertional mutagenesis. Ann NY Acad Sci 1028:14–27

    Article  PubMed  Google Scholar 

  • Casper AM, Nghiem P, Arlt MF, Glover TW (2002) ATR regulates fragile site stability. Cell 111:779–789

    Article  PubMed  CAS  Google Scholar 

  • Castermans D, Wilquet V, Parthoens E, Huysmans C, Steyaert J, Swinnen L, Fryns JP, Van de Ven W, Devriendt K (2003) The neurobeachin gene is disrupted by a translocation in a patient with idiopathic autism. J Med Genet 40:352–356

    Article  PubMed  CAS  Google Scholar 

  • Cesari R, Martin ES, Calin GA, Pentimalli F, Bichi R, McAdams H, Trapasso F, Drusco A, Shimizu M, Masciullo V, D’Andrilli G, Scambia G, Picchio MC, Alder H, Godwin AK, Croce CM (2003) Parkin, a gene implicated in autosomal recessive juvenile parkinsonism, is a candidate tumor suppressor gene on chromosome 6q25–q27. Proc Natl Acad Sci USA 100:5956–5961

    Article  PubMed  CAS  Google Scholar 

  • Ciullo M, Debily MA, Rozier L, Autiero M, Billault A, Mayau V, El Marhomy S, Guardiola J, Bernheim A, Coullin P, Piatier-Tonneau D, Debatisse M (2002) Initiation of the breakage-fusion-bridge mechanism through common fragile site activation in human breast cancer cells: the model of PIP gene duplication from a break at FRA7I. Hum Mol Genet 23:2887–2894

    Article  Google Scholar 

  • Denison SR, Callahan G, Becker NA, Phillips LA, Smith DI (2003) Characterization of FRA6E and its potential role in autosomal recessive juvenile parkinsonism and ovarian cancer. Genes Chromosomes Cancer 38:40–52

    Article  PubMed  CAS  Google Scholar 

  • Glover TW, Berger C, Coyle J, Echo B (1984) DNA polymerase alpha inhibition by aphidicolin induces gaps and breaks at common fragile sites in human chromosomes. Hum Genet 67:136–142

    Article  PubMed  CAS  Google Scholar 

  • Hellman A, Rahat A, Scherer SW, Darvasi A, Tsui LC, Kerem B (2000) Replication delay along FRA7H, a common fragile site on human chromosome 7, leads to chromosomal instability. Mol Cell Biol 20:4420–4427

    Article  PubMed  CAS  Google Scholar 

  • Henegariu O, Bray-Ward P, Ward DC (2000) Custom fluorescent-nucleotide synthesis as an alternative method for nucleic acid labeling. Nat Biotechnol 18:345–348

    Article  PubMed  CAS  Google Scholar 

  • Huang H, Qian J, Proffit J, Wilber K, Jenkins R, Smith DI (1998) FRA7G extends over a broad region: coincidence of human endogenous retroviral sequences (HERV-H) and small polydispersed circular DNAs (spcDNA) and fragile sites. Oncogene 16:2311–2319

    Article  PubMed  CAS  Google Scholar 

  • Huebner K, Croce CM (2001) FRA3B and other common fragile sites: the weakest links. Nat Rev Cancer 1:214–221

    Article  PubMed  CAS  Google Scholar 

  • Le Beau MM, Rassool FV, Neilly ME, Espinosa R III, Glover TW, Smith DI, McKeithan TW (1998) Replication of a common fragile site, FRA3B, occurs late in S phase and is delayed further upon induction: implications for the mechanism of fragile site induction. Hum Mol Genet 7:755–761

    Article  PubMed  CAS  Google Scholar 

  • Limongi MZ, Pelliccia F, Rocchi A (2003) Characterization of the human common fragile site FRA2G. Genomics 81:93–97

    Article  PubMed  CAS  Google Scholar 

  • Mangelsdorf M, Ried K, Woollatt E, Dayan S, Eyre H, Finnis M, Hobson L, Nancarrow J, Venter D, Baker E, Richards RI (2000) Chromosomal fragile site FRA16D and DNA instability in cancer. Cancer Res 60:1683–1689

    PubMed  CAS  Google Scholar 

  • Margolis RL, Stine OC, McInnis MG, Ranen NG, Rubinsztein DC, Leggo J, Brando LV, Kidwai AS, Loev SJ, Breschel TS, Callahan C, Simpson SG, DePaulo JR, McMahon FJ, Jain S, Paykel ES, Walsh C, DeLisi LE, Crow TJ, Torrey EF, Ashworth RG, Macke JP, Nathans J, Ross CA (1996) cDNA cloning of a human homologue of the Caenorhabditis elegans cell fate-determining gene mab-21: expression, chromosomal localization and analysis of a highly polymorphic (CAG)n trinucleotide repeat. Hum Mol Genet 5:607–616

    Article  PubMed  CAS  Google Scholar 

  • Mariani M, Baldessari D, Francisconi S, Viggiano L, Rocchi M, Zappavigna V, Malgaretti N, Consalez GG (1999) Two murine and human homologs of mab-21, a cell fate determination gene involved in Caenorhabditis elegans neural development. Hum Mol Genet 8:2397–2406

    Article  PubMed  CAS  Google Scholar 

  • Matzner I, Savelyeva L, Schwab M (2003) Preferential integration of a transfected marker gene into spontaneously expressed fragile sites of a breast cancer cell line. Cancer Lett 189:207–219

    Article  PubMed  CAS  Google Scholar 

  • Mimori K, Druck T, Inoue H, Alder H, Berk L, Mori M, Huebner K, Croce CM (1999) Cancer-specific chromosome alterations in the constitutive fragile region FRA3B. Proc Natl Acad Sci USA 96:7456–7461

    Article  PubMed  CAS  Google Scholar 

  • Mishmar D, Rahat A, Scherer SW, Nyakatura G, Hinzmann B, Kohwi Y, Mandel-Gutfroind Y, Lee JR, Drescher B, Sas DE, Margalit H, Platzer M, Weiss A, Tsui LC, Rosenthal A, Kerem B (1998) Molecular characterization of a common fragile site (FRA7H) on human chromosome 7 by the cloning of a simian virus 40 integration site. Proc Natl Acad Sci USA 95:8141–8146

    Article  PubMed  CAS  Google Scholar 

  • Morelli C, Karayianni E, Magnanini C, Mungall AJ, Thorland E, Negrini M, Smith DI, Barbanti-Brodano G (2002) Cloning and characterization of the common fragile site FRA6F harboring a replicative senescence gene and frequently deleted in human tumors. Oncogene 21:7266–7276

    Article  PubMed  CAS  Google Scholar 

  • Munteanu MG, Vlahovicek K, Parthasarathy S, Simon I, Pongor S (1998) Rod models of DNA: sequence-dependent anisotropic elastic modelling of local bending phenomena. Trends Biochem Sci 23:341–347

    Article  PubMed  CAS  Google Scholar 

  • Ohta M, Inoue H, Cotticelli MG, Kastury K, Baffa R, Palazzo J, Siprashvili Z, Mori M, McCue P, Druck T, Croce CM, Huebner K (1996) The FHIT gene, spanning the chromosome 3p14.2 fragile site and renal carcinoma-associated t(3;8) breakpoint, is abnormal in digestive tract cancers. Cell 84:587–597

    Article  PubMed  CAS  Google Scholar 

  • Paradee W, Wilke CM, Wang L, Shridhar R, Mullins CM, Hoge A, Glover TW, Smith DI (1996) A 350-kb cosmid contig in 3p14.2 that crosses the t (3;8) hereditary renal cell carcinoma translocation breakpoint and 17 aphidicolin-induced FRA3B breakpoints. Genomics 35:87–93

    Article  PubMed  CAS  Google Scholar 

  • Rassool FV, Le Beau MM, Shen ML, Neilly ME, Espinosa R III, Ong ST, Boldog F, Drabkin H, McCarroll R, McKeithan TW (1996) Direct cloning of DNA sequences from the common fragile site region at chromosome band 3p14.2. Genomics 35:109–117

    Article  PubMed  CAS  Google Scholar 

  • Richards RI (2001) Fragile and unstable chromosomes in cancer: causes and consequences. Trends Genet 17:339–345

    Article  PubMed  CAS  Google Scholar 

  • Ried K, Finnis M, Hobson L, Mangelsdorf M, Dayan S, Nancarrow JK, Woollatt E, Kremmidiotis G, Gardner A, Venter D, Baker E, Richards RI (2000) Common chromosomal fragile site FRA16D sequence: identification of the FOR gene spanning FRA16D and homozygous deletions and translocation breakpoints in cancer cells. Hum Mol Genet 9:1651–1663

    Article  PubMed  CAS  Google Scholar 

  • Rozier L, El-Achkar E, Apiou F, Debatisse M (2004) Characterization of a conserved aphidicolin-sensitive common fragile site at human 4q22 and mouse 6C1: possible association with an inherited disease and cancer. Oncogene 23:6872–6880

    Article  PubMed  CAS  Google Scholar 

  • Smit AF (1999) Interspersed repeats and other mementos of transposable elements in mammalian genomes. Curr Opin Genet Dev 9:657–663

    Article  PubMed  CAS  Google Scholar 

  • Su Y, Balice-Gordon RJ, Hess DM, Landsman DS, Minarcik J, Golden J, Hurwitz I, Liebhaber SA, Cooke NE (2004) Neurobeachin is essential for neuromuscular synaptic transmission. J Neurosci 24:3627–3636

    Article  PubMed  CAS  Google Scholar 

  • Sutherland GR (2003) Rare fragile sites. Cytogenet Genome Res 100:77–84

    Article  PubMed  CAS  Google Scholar 

  • Sutherland GR, Baker E (2000) The clinical significance of fragile sites on human chromosomes. Clin Genet 58:157–161

    Article  PubMed  CAS  Google Scholar 

  • Wang L, Darling J, Zhang JS, Huang H, Liu W, Smith DI (1999) Allele-specific late replication and fragility of the most active common fragile site, FRA3B. Hum Mol Genet 8:431–437

    Article  PubMed  CAS  Google Scholar 

  • Wang X, Herberg FW, Laue MM, Wullner C, Hu B, Petrasch-Parwez E, Kilimann MW (2000) Neurobeachin: a protein kinase A-anchoring, beige/Chediak-higashi protein homolog implicated in neuronal membrane traffic. J Neurosci 20:8551–8565

    PubMed  CAS  Google Scholar 

  • Wilke CM, Guo SW, Hall BK, Boldog F, Gemmill RM, Chandrasekharappa SC, Barcroft CL, Drabkin HA, Glover TW (1994) Multicolour FISH mapping of YAC clones in 3p14 and identification of a YAC spanning both FRA3B and the t (3;8) associated with hereditary renal cell carcinoma. Genomics 22:319–326

    Article  PubMed  CAS  Google Scholar 

  • Zimonjic DB, Druck T, Ohta M, Kastury K, Croce CM, Popescu NC, Huebner K (1997) Positions of chromosome 3p14.2 fragile sites (FRA3B) within the FHIT gene. Cancer Res 57:1166–1170

    PubMed  CAS  Google Scholar 

  • Zlotorynski E, Rahat A, Skaug J, Ben-Porat N, Ozeri E, Hershberg R, Levi A, Scherer SW, Margalit H, Kerem B (2003) Molecular basis for expression of common and rare fragile sites. Mol Cell Biol 23:7143–7151

    Article  PubMed  CAS  Google Scholar 

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Acknowledgements

This work was supported by the Sander Stiftung and by the Cooperation Program in Cancer Research of the Deutsches Krebsforschungszentrum (DKFZ) and Israel’s Ministry of Science (MOS). The fruitful discussions with many colleagues during the FRAGILOME meeting in Heidelberg, February 17–19, 2005, organised through a Grant of COST B19, http://www.dkfz.de/tumour_genetics/fragilome.htm are highly appreciated.

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Correspondence to Manfred Schwab.

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Savelyeva, L., Sagulenko, E., Schmitt, J.G. et al. The neurobeachin gene spans the common fragile site FRA13A . Hum Genet 118, 551–558 (2006). https://doi.org/10.1007/s00439-005-0083-z

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  • DOI: https://doi.org/10.1007/s00439-005-0083-z

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