Comparative phylogenetic analysis reveals multiple non-imprinted isoforms of opossum Dlk1 (original) (raw)

• Amarger V, Nguyen M, Van Laere AS, Braunschweig M, Nezer C, et al. (2002) Comparative sequence analysis of the INS-IGF2-H19 gene cluster in pigs. Mamm Genome 13: 388–398
  Article CAS PubMed Google Scholar
• Astuti D, Latif F, Wagner K, Gentle D, Cooper WN, et al. (2005) Epigenetic alteration at the DLK1-GTL2 imprinted domain in human neoplasia: analysis of neuroblastoma, phaeochromocytoma and Wilms’ tumour. Br J Cancer 92: 1574–1580
  Article CAS PubMed Google Scholar
• Baladron V, Ruiz-Hidalgo MJ, Nueda ML, Diaz-Guerra MJ, Garcia-Ramirez JJ, et al. (2005) dlk acts as a negative regulator of Notch 1 activation through interactions with specific EGF - like repeats. Exp cell Res 303, 343–359
  Article CAS PubMed Google Scholar
• Bushman F (2004) Gene regulation: selfish elements make a mark. Nature 429: 253–255
  Article CAS PubMed Google Scholar
• Carlsson C, Tornehave D, Lindberg K, Galante P, Billestrup N, et al. (1997) Growth hormone and prolactin stimulate the expression of rat preadipocyte factor-1/delta-like protein in pancreatic islets: molecular cloning and expression pattern during development and growth of the endocrine pancreas. Endocrinology 138: 3940–3948
  Article CAS PubMed Google Scholar
• Casavant NC, Scott L, Cantrell MA, Wiggins LE, Baker RJ, et al. (2000) The end of the LINE?: lack of recent L1 activity in a group of South American rodents. Genetics 154: 1809–1817
  CAS PubMed Google Scholar
• Charlier C, Segers K, Wagenaar D, Karim L, Berghmans S, et al. (2001) Human-ovine comparative sequencing of a 250-kb imprinted domain encompassing the callipyge (clpg) locus and identification of six imprinted transcripts: DLK1, DAT, GTL2, PEG11, antiPEG11, and MEG8. Genome Res 11: 850–862
  Article CAS PubMed Google Scholar
• Croteau S, Charron MC, Latham KE, Naumova AK (2003) Alternative splicing and imprinting control of the Meg3/Gtl2-Dlk1 locus in mouse embryos. Mamm Genome 14: 231–241
  Article CAS PubMed Google Scholar
• Davis E, Jensen CH, Schroder HD, Farnir F, Shay–Hadfield T, et al. (2004) Ectopic expression of DLK1 protein in skeletal muscle of padumnal heterozygotes causes the callipyge phenotype. Curr Biol 14: 1858–1862
  Article CAS PubMed Google Scholar
• Evans HK, Wylie AA, Murphy SK, Jirtle RL (2001) The neuronatin gene resides in a “micro-imprinted” domain on human chromosome 20q11.2. Genomics 77: 99–104
  Article CAS PubMed Google Scholar
• Evans HK, Weidman JR, Cowley DO, Jirtle RL (2005) Comparative phylogenetic analysis of Blcap/Nnat reveals eutherian-specific imprinted gene. Mol Biol Evol 22: 1740–1748
  CAS PubMed Google Scholar
• Falls JG, Pulford DJ, Wylie AA, Jirtle RL (1999) Genomic imprinting: implications for human disease. Am J Pathol 154: 635–647
  CAS PubMed Google Scholar
• Feng Q, Moran JV, Kazazian HH Jr, Boeke JD (1996) Human L1 retrotransposon encodes a conserved endonuclease required for retrotransposition. Cell 87: 905–916
  Article CAS PubMed Google Scholar
• Ferguson–Smith AC (2000) Genetic imprinting: silencing elements have their say. Curr Biol 10: R872–R875
  CAS PubMed Google Scholar
• Fleming RJ (1998) Structural conservation of Notch receptors and ligands. Semin Cell Dev Biol 9: 599–607
  Article CAS PubMed Google Scholar
• Freking BA, Murphy SK, Wylie AA, Rhodes SJ, Keele JW, et al. (2002) Identification of the single base change causing the callipyge muscle hypertrophy phenotype, the only known example of polar overdominance in mammals. Genome Res 12: 1496–1506
  Article CAS PubMed Google Scholar
• Garces C, Ruiz–Hidalgo MJ, Bonvini E, Goldstein J, Laborda J (1999) Adipocyte differentiation is modulated by secreted delta-like (dlk) variants and requires the expression of membrane-associated dlk. Differentiation 64: 103–114
  Article CAS PubMed Google Scholar
• Georgiades P, Chierakul C, Ferguson–Smith AC (1998) Parental origin effects in human trisomy for chromosome 14q: implications for genomic imprinting. J Med Genet 35: 821–824
  CAS PubMed Google Scholar
• Georgiades P, Watkins M, Surani MA, Ferguson–Smith AC (2000) Parental origin-specific developmental defects in mice with uniparental disomy for chromosome 12. Development 127: 4719–4728
  CAS PubMed Google Scholar
• Gray TA, Hernandez L, Carey AH, Schaldach MA, Smithwick MJ, et al. (2000) The ancient source of a distinct gene family encoding proteins featuring RING and C(3)H zinc-finger motifs with abundant expression in developing brain and nervous system. Genomics 66: 76–86
  Article CAS PubMed Google Scholar
• Haig D (1997) Parental antagonism, relatedness asymmetries, and genomic imprinting. Proc R Soc Lond B Biol Sci 264: 1657–1662
  CAS Google Scholar
• Haig D (2004) Genomic imprinting and kinship: how good is the evidence? Annu Rev Genet 38: 553–585
  Article CAS PubMed Google Scholar
• Haig D, Graham C (1991) Genomic imprinting and the strange case of the insulin-like growth factor II receptor. Cell 64: 1045–1046
  CAS PubMed Google Scholar
• Hansen LH, Madsen B, Teisner B, Nielsen JH, Billestrup N (1998) Characterization of the inhibitory effect of growth hormone on primary preadipocyte differentiation. Mol Endocrinol 12: 1140–1149
  Article CAS PubMed Google Scholar
• Hirotsune S, Yoshida N, Chen A, Garrett L, Sugiyama F, et al. (2003) An expressed pseudogene regulates the messenger-RNA stability of its homologous coding gene. Nature 423: 91–96
  Article CAS PubMed Google Scholar
• Horike S, Cai S, Miyano M, Cheng JF, Kohwi–Shigematsu T (2005) Loss of silent-chromatin looping and impaired imprinting of DLX5 in Rett syndrome. Nat Genet 37: 31–40
  CAS PubMed Google Scholar
• Iwashita S, Osada N, Itoh T, Sezaki M, Oshima K, et al. (2003) A transposable element-mediated gene divergence that directly produces a novel type bovine Bcnt protein including the endonuclease domain of RTE-1. Mol Bio Evol 20: 1556–1563
  CAS Google Scholar
• John RM, Aparicio SA, Ainscough JF, Arney KL, Khosla S, et al. (2001) Imprinted expression of neuronatin from modified BAC transgenes reveals regulation by distinct and distant enhancers. Dev Biol 236: 387–399
  Article CAS PubMed Google Scholar
• Kaneko–Ishino T, Kohda T, Ishino F (2003) The regulation and biological significance of genomic imprinting in mammals. J Biochem (Tokyo) 133: 699–711
  CAS Google Scholar
• Kaneta M, Osawa M, Sudo K, Nakauchi H, Farr AG, et al. (2000) A role for pref-1 and HES-1 in thymocyte development. J Immunol 164: 256–264
  CAS PubMed Google Scholar
• Killian JK, Byrd JC, Jirtle JV, Munday BL, Stoskopf MK, et al. (2000) M6P/IGF2R imprinting evolution in mammals. Mol Cell 5: 707–716
  Article CAS PubMed Google Scholar
• Killian JK, Nolan CM, Stewart N, Munday BL, Andersen NA, et al. (2001a) Monotreme IGF2 expression and ancestral origin of genomic imprinting. J Exp Zool 291: 205–212
  Article CAS Google Scholar
• Killian JK, Nolan CM, Wylie AA, Li T, Vu TH, et al. (2001b) Divergent evolution in M6P/IGF2R imprinting from the Jurassic to the Quaternary. Hum Mol Genet 10: 1721–1728
  Article CAS Google Scholar
• Kimura MI, Kazuki Y, Kashiwagi A, Kai Y, Abe S, et al. (2004) Dlx5, the mouse homologue of the human-imprinted DLX5 gene, is biallelically expressed in the mouse brain. J Hum Genet 49: 273–277
  Article CAS PubMed Google Scholar
• Kobayashi S, Wagatsuma H, Ono R, Ichikawa H, Yamazaki M, et al. (2000) Mouse Peg9/Dlk1 and human PEG9/DLK1 are paternally expressed imprinted genes closely located to the maternally expressed imprinted genes: mouse Meg3/Gtl2 and human MEG3. Genes Cells 5: 1029–1037
  CAS PubMed Google Scholar
• Laborda J (2000) The role of the epidermal growth factor-like protein dlk in cell differentiation. Histol Histopathol 15: 119–129
  CAS PubMed Google Scholar
• Li L, Forman SJ, Bhatia R (2005) Expression of DLK1 in hematopoietic cells results in inhibition of differentiation and proliferation. Oncogene 27: 4472–4476
  Google Scholar
• Lin SP, Youngson N, Takada S, Seitz H, Reik W, et al. (2003) Asymmetric regulation of imprinting on the maternal and paternal chromosomes at the Dlk1-Gtl2 imprinted cluster on mouse chromosome 12. Nat Genet 35: 97–102
  Article CAS PubMed Google Scholar
• Lyle R, Watanabe D, te Vruchte D, Lerchner W, Smrzka OW, et al. (2000) The imprinted antisense RNA at the Igf2r locus overlaps but does not imprint Mas1. Nat Genet 25: 19–21
  CAS PubMed Google Scholar
• Moon YS, Smas CM, Lee K, Villena JA, Kim KH, et al. (2002) Mice lacking paternally expressed Pref-1/Dlk1 display growth retardation and accelerated adiposity. Mol Cell Biol 22: 5585–5592
  Article CAS PubMed Google Scholar
• Murphy SK, Jirtle RL (2003) Imprinting evolution and the price of silence. Bioessays 25: 577–588
  Article CAS PubMed Google Scholar
• Murphy WJ, Eizirik E, Johnson WE, Zhang YP, Ryder OA, et al. (2001) Molecular phylogenetics and the origins of placental mammals. Nature 409: 614–618
  Article CAS PubMed Google Scholar
• Murphy SK, Freking BA, Smith TP, Leymaster K, Nolan CM, et al. (2005) Abnormal postnatal maintenance of elevated DLK1 transcript levels in callipyge sheep. Mamm Genome 16: 171–183
  Article CAS PubMed Google Scholar
• Nabetani A, Hatada I, Morisaki H, Oshimura M, Mukai T (1997) Mouse U2af1-rs1 is a neomorphic imprinted gene. Mol Cell Biol 17: 789–798
  CAS PubMed Google Scholar
• O’Neill MJ, Ingram RS, Vrana PB, Tilghman SM (2000) Allelic expression of IGF2 in marsupials and birds. Dev Genes Evol 210: 18–20
  CAS PubMed Google Scholar
• Okita C, Meguro M, Hoshiya H, Haruta M, Sakamoto YK, et al. (2003) A new imprinted cluster on the human chromosome 7q21-q31, identified by human-mouse monochromosomal hybrids. Genomics 81: 556–559
  Article CAS PubMed Google Scholar
• Onyango P, Miller W, Lehoczky J, Leung CT, Birren B, et al. (2000) Sequence and comparative analysis of the mouse 1-megabase region orthologous to the human 11p15 imprinted domain. Genome Res 10: 1697–1710
  Article CAS PubMed Google Scholar
• Paulsen M, Takada S, Youngson NA, Benchaib M, Charlier C, et al. (2001) Comparative sequence analysis of the imprinted Dlk1-Gtl2 locus in three mammalian species reveals highly conserved genomic elements and refines comparison with the Igf2-H19 region. Genome Res 11: 2085–2094
  Article CAS PubMed Google Scholar
• Reik W, Murrell A (2000) Genomic imprinting. silence across the border. Nature 405: 408–409
  Article CAS PubMed Google Scholar
• Reik W, Walter J (2001) Genomic imprinting: parental influence on the genome. Nat Rev Genet 2: 21–32
  Article CAS PubMed Google Scholar
• Schmidt JV, Matteson PG, Jones BK, Guan XJ, Tilghman SM (2000) The Dlk1 and Gtl2 genes are linked and reciprocally imprinted. Genes Dev 14: 1997–2002
  CAS PubMed Google Scholar
• Sleutels F, Zwart R, Barlow DP (2002) The non-coding Air RNA is required for silencing autosomal imprinted genes. Nature 415: 810–813
  CAS PubMed Google Scholar
• Smas CM, Sul HS (1993) Pref-1, a protein containing EGF-like repeats, inhibits adipocyte differentiation. Cell 73: 725–734
  Article CAS PubMed Google Scholar
• Smit M, Segers K, Carrascosa LG, Shay T, Baraldi F, et al. (2003) Mosaicism of Solid Gold supports the causality of a noncoding A-to-G transition in the determinism of the callipyge phenotype. Genetics 163: 453–456
  CAS PubMed Google Scholar
• Sutton VR, McAlister WH, Bertin TK, Kaffe S, Wang JC, et al. (2003) Skeletal defects in paternal uniparental disomy for chromosome 14 are re-capitulated in the mouse model (paternal uniparental disomy 12). Hum Genet 113: 447–451
  Article PubMed Google Scholar
• Suzuki S, Renfree MB, Pask AJ, Shaw G, Kobayashi S, Tet al. (2005) Genomic imprinting of IGF2, p57(KIP2) and PEG1/MEST in a marsupial, the tammar wallaby. Mech Dev 122: 213–222
  Article CAS PubMed Google Scholar
• Takada S, Tevendale M, Baker J, Georgiades P, Campbell E, et al. (2000) Delta-like and gtl2 are reciprocally expressed, differentially methylated linked imprinted genes on mouse chromosome 12. Curr Biol 10: 1135–1138
  Article CAS PubMed Google Scholar
• Takada S, Paulsen M, Tevendale M, Tsai CE, Kelsey G, et al. (2002) Epigenetic analysis of the Dlk1-Gtl2 imprinted domain on mouse chromosome 12: implications for imprinting control from comparison with Igf2-H19. Hum Mol Genet 11: 77–86
  Article CAS PubMed Google Scholar
• Vrana PB, Guan XJ, Ingram RS, Tilghman SM (1998) Genomic imprinting is disrupted in interspecific Peromyscus hybrids. Nat Genet 20: 362–365
  CAS PubMed Google Scholar
• Walter J, Paulsen M (2003) The potential role of gene duplications in the evolution of imprinting mechanisms. Hum Mol Genet 12 Spec No 2, R215–R220
  PubMed Google Scholar
• Weidman JR, Murphy SK, Nolan CM, Dietrich FS, Jirtle RL (2004) Phylogenetic footprint analysis of IGF2 in extant mammals. Genome Res 14: 1726–1732
  Article CAS PubMed Google Scholar
• Wylie AA, Murphy SK, Orton TC, Jirtle RL (2000) Novel imprinted DLK1/GTL2 domain on human chromosome 14 contains motifs that mimic those implicated in IGF2/H19 regulation. Genome Res 10: 1711–1718
  Article CAS PubMed Google Scholar