Comparative analysis of somitogenesis related genes of the hairy/Enhancer of split class in Fugu and zebrafish

BMC Genomics

Volumn 3, Issue , 2002, Pages

  Gajewski, Martin ^a   Voolstra, Chris ^a  

^a UNIVERSITY OF COLOGNE   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

ENHANCER OF SPLIT PROTEIN; EPIDERMAL GROWTH FACTOR RECEPTOR; GENE PRODUCT; HAIRY PROTEIN; UNCLASSIFIED DRUG;

ARTICLE; BINDING SITE; COMPARATIVE STUDY; CONTROLLED STUDY; EMBRYO DEVELOPMENT; ENHANCER REGION; GENE DUPLICATION; GENE SEQUENCE; GENETIC ANALYSIS; GENETIC DATABASE; GENETIC IDENTIFICATION; GENETIC SCREENING; HUMAN; HUMAN GENOME; NONHUMAN; NUCLEOTIDE SEQUENCE; ORTHOLOGY; PHYLOGENY; PROTEIN MOTIF; PUFFER FISH; SOMITE; TETRAODONTIFORMES; UNINDEXED SEQUENCE; ZEBRA FISH;

DANIO RERIO; TAKIFUGU; TAKIFUGU RUBRIPES; TETRAODON; TETRAODONTIDAE; VERTEBRATA;

EID: 0043174820     PISSN: 14712164     EISSN: None     Source Type: Journal    
DOI: 10.1186/1471-2164-3-21     Document Type: Article

References (47)

1. Meinhardt H: Models of segmentation. In: Somites in developing embryos (Edited by: Bellairs R, Ede DA, Lash JW) Plenum New York 1986, 179-189
2. Cooke J, Zeeman EC: A clock and wavefront model for control of the number of repeated structures during animal morphogenesis J Theor Biol 1976, 58: 455-476
3. Palmeirim I, Henrique D, Ish-Horowicz D, Pourquie O: Avian hairy gene expression identifies a molecular clock linked to vertebrate segmentation and somitogenesis. Cell 1997, 91: 639-648
4. Jouve C, Palmeirim I, Henrique D, Beckers J, Gossler A, Ish-Horowicz D, Pourquie O: Notch signalling is required for cyclic expression of the hairy-like gene HES1 in the presomitic mesoderm. Development 2000, 127: 1421-1429
5. Leimeister C, Dale K, Fischer A, Klamt B, Hrabe de Angelis M, Radtke F, McGrew MJ, Pourquie O, Gessler M: Oscillating expression of c-Hey2 in the presomitic mesoderm suggests that the segmentation clock may use combinatorial signaling through multiple interacting bHLH factors. Dev Biol 2000, 227: 91-103
6. Bessho Y, Miyoshi G, Sakata R, Kageyama R: Hes7: a bHLH-type repressor gene regulated by Notch and expressed in the presomitic mesoderm. Genes Cells 2001, 6: 175-185
7. Bessho Y, Sakata R, Komatsu S, Shiota K, Yamada S, Kageyama R: Dynamic expression and essential functions of Hes7 in somite segmentation. Genes Dev 2001, 15: 2642-2647
8. Saga Y, Takeda H: The making of the somite: molecular events in vertebrate segmentation. Nat Rev Genet 2001, 2: 835-845
9. Maroto M, Pourquie O: A molecular clock involved in somite segmentation. Curr Top Dev Biol 2001, 51: 221-248
10. v Weizsäcker E: Molekulargenetische Untersuchungen an sechs Zebrafisch-Genen mit Homologie zur Enhancer of split Gen-Familie von Drosophila. Universität zu Köln, Inaugural-Dissertation 1994
11. Müller M, v. Weizsäcker E, Campos-Ortega JA: Expression domains of a zebrafish homologue of the Drosophila pair-rule gene hairy correspond to primordia of alternating somites. Development 1996, 122: 2071-2078
12. Leve C, Gajewski M, Rohr KB, Tautz D: Homologues of c-hairy1 (her9) and lunatic fringe in zebrafish are expressed in the developing central nervous system, but not in the presomitic mesoderm. Dev Genes Evol 2001, 211: 493-500
13. Zhong TP, Rosenberg M, Mohideen MA, Weinstein B, Fishman MC: Gridlock, an HLH gene required for assembly of the aorta in zebrafish Science 2000, 287: 1820-1824
14. Takke C, Campos-Ortega JA: her1, a zebrafish pair-rule like gene, acts downstream of notch signalling to control somite development. Development 1999, 126: 3005-3014
15. Holley SA, Geisler R, Nüsslein-Volhard C: Control of her1 expression during zebrafish somitogenesis by a Delta dependent oscillator and an independent wave-front activity. Genes Dev 2000, 14: 1678-1690
16. Stickney HL, Barresi MJF, Devoto SH: Somite development in zebrafish. Dev Dyn 2000, 219: 287-303
17. Pasini A, Henrique D, Wilkinson DG: The zebrafish Hairy/Enhancer-of-split-related gene her6 is segmentally expressed during the early development of hindbrain and somites. Mech Dev 2001, 100: 317-321
18. Sawada A, Fritz A, Jiang Y, Yamamoto A, Yamasu K, Kuroiwa A, Saga Y, Takeda H: Zebrafish Mesp family genes, mesp-a and mesp-b are segmentally expressed in the presomitic mesoderm, and Mesp-b confers the anterior identity to the developing somites. Development 2000, 127: 1691-1702
19. Elgar G, Clark MS, Meek S, Smith S, Warner S, Edwards YJK, Bouchireb N, Cottage A, Yeo GSH, Umrania Y, Williams G, Brenner S: Generation and analysis of 25 Mb of genomic DNA from the pufferfish Fugu rubripes by sequence scanning. Genome Res 1999, 9: 960-971
20. Powers DA: Evolutionary genetics of fish. Adv Genet 1991, 29: 119-228
21. Hinegardner R: Evolution of cellular DNA content in Teleost fishes. The American Naturalist 1968, 102: 517-523
22. Brenner S, Elgar G, Sandford R, Macrae A, Venkatesh B, Aparicio S: Characterization of the pufferfish (Fugu) genome as a compact model vertebrate genome. Nature 1993, 366: 265-268
23. Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ: Basic local alignment search tool. J Mol Biol 1990, 215: 403-410
24. Klämbt C, Knust E, Tietze K, Campos-Ortega JA: Closely related transcripts encoded by the neurogenic gene complex enhancer of split of Drosophila melanogaster. Embo J 1989, 8: 203-210
25. Leimeister C, Externbrink A, Klamt B, Gessler M: Hey genes: a novel subfamily of hairy- and Enhancer of split related genes specifically expressed during mouse embryogenesis. Mech Dev 1999, 85: 173-177
26. Steidl C, Leimeister C, Klamt B, Maier M, Nanda I, Dixon M, Clarke R, Schmid M, Gessler M: Characterization of the human and mouse HEY1, HEY2, and HEYL genes: cloning, mapping, and mutation screening of a new bHLH gene family. Genomics 2000, 66: 195-203
27. Nakagawa O, Nakagawa M, Richardson JA, Olson EN, Srivastava D: HRT1, HRT2, and HRT3 : a new subclass of bHLH transcription factors marking specific cardiac, somitic, and pharyngeal arch segments. Dev Biol 1999, 216: 72-84
28. Kurosawa G, Yamada K, Ishiguro H, Hori H: Hox gene complexity in Medaka fish may be similar to that in pufferfish rather than zebrafish. Biochem Biophys Res Commun 1999, 260: 66-70
29. Takke C, Dornseifer P, v. Weizsäcker E, Campos-Ortega JA: her4, a zebrafish homologue of the Drosophila neurogenic gene E(spl), is a target of NOTCH signalling. Development 1999, 126: 1811-1821
30. Dawson SR, Turner DL, Weintraub H, Parkhurst SM: Specificity for the hairy/enhancer of split basic helix-loop-helix (bHLH) proteins maps outside the bHLH domain and suggests two separable modes of transcriptional repression. Mol Cell Biol 1995, 15: 6923-6931
31. Sasai Y, Kageyama R, Tagawa Y, Shigemoto R, Nakanishi S: Two mammalian helix-loop-helix factors structurally related to Drosophila hairy and Enhancer of split. Genes Dev 1992, 6: 2620-2634
32. Bae S-K, Yasumasa B, Hojo M, Kageyama R: The bHLH gene Hes6, an inhibitor of Hes1, promotes neuronal differentiation Development 2000, 127: 2933-2943
33. Davis RL, Turner DL, Evans LM, Kirschner MW: Molecular targets of vertebrate segmentation: two mechanisms control segmental expression of Xenopus hairy2 during somite formation. Dev Cell 2001, 1: 553-565
34. Nellesen DT, Lai EC, Posakony JW: Discrete enhancer elements mediate selective responsiveness of Enhancer of split complex genes to common transcriptional activators. Dev Biol 1999, 213: 33-53
35. Takahashi H, Mitani Y, Satoh G, Satoh N: Evolutionary alterations of the minimal promoter for notochord-specific Brachyury expression in ascidian embryos. Development 1999, 126: 3725-3734
36. Quandt K, Frech K, Karas H, Wingender E, Werner T: MatInd and MatInspector: new fast and versatile tools for detection of consensus matches in nucleotide sequence data. Nucleic Acids Res 1995, 23: 4878-4884
37. Pasquinelli AE: MicroRNAs: deviants no longer. Trends Genet 2002, 18: 171-173
38. Gish W, States DJ: Identification of protein coding regions by database similarity search. Nat Genet 1993, 3: 266-272
39. Hall T: BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucl Acids Symp Se 1999, 41: 95-98
40. Thompson JD, Higgins DG, Gibson TJ: CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 1994, 22: 4673-4680
41. Devereux J, Haeberli P, Smithies O: A comprehensive set of sequence analysis programs for the VAX. Nucleic Acids Res 1984, 12: 387-395
42. Senger M, Flores T, Glatting K, Ernst P, Hotz-Wagenblatt A, Suhai S: W2H: WWW interface to the GCG sequence analysis package. Bioinformatics 1998, 14: 452-457
43. Saitou N, Nei M: The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 1987, 4: 406-425
44. Felsenstein J: PHYLIP (Phylogeny Inference Package). Seattle, University of Washington (distributed by the author) 1991
45. Page RDM: TreeView: an application to display phylogenetic trees on personal computers. Comput Appl Biosci 1996, 12: 357-358
46. Nicholas KB, Nicholas HB, Deerfield DW II: GeneDoc: Analysis and viualization of genetic variation. EMBNEW NEWS 1997, 4: 14
47. Morgenstern B, Frech K, Dress A, Werner T: DIALIGN: finding local similarities by multiple sequence alignment. Bioinformatics 1998, 14: 290-294