Descriptive and functional characterization of variation in the Fundulus heteroclitus Ldh-B proximal promoter

Journal of Experimental Zoology

Volumn 275, Issue 5, 1996, Pages 355-364

  Segal, Jeff A ^a   Schulte, Patricia M ^b   Powers, Dennis A ^b   Crawford, Douglas L ^a,c  

^a UNIVERSITY OF CHICAGO   (United States)

^b STANFORD UNIVERSITY   (United States)

^c UNIVERSITY OF MISSOURI KANSAS CITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ISOENZYME; LACTATE DEHYDROGENASE;

ADAPTATION; ANIMAL; ARTICLE; CYPRINODONTIFORMES; DNA FOOTPRINTING; GENE EXPRESSION; GENETIC TRANSCRIPTION; GENETIC TRANSFECTION; GENETICS; METHODOLOGY; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE; PROMOTER REGION; SEQUENCE ANALYSIS;

ADAPTATION, PHYSIOLOGICAL; ANIMALS; BASE SEQUENCE; DNA FOOTPRINTING; GENE EXPRESSION; ISOENZYMES; KILLIFISHES; L-LACTATE DEHYDROGENASE; MOLECULAR SEQUENCE DATA; PROMOTER REGIONS (GENETICS); SEQUENCE ANALYSIS; TRANSCRIPTION, GENETIC; TRANSFECTION;

ANIMALIA; CYPRINODONTIFORMES; FUNDULUS HETEROCLITUS; TELEOSTEI;

EID: 0030217976     PISSN: 0022104X     EISSN: None     Source Type: Journal    
DOI: 10.1002/(SICI)1097-010X(19960801)275:5<355::AID-JEZ4>3.0.CO;2-O     Document Type: Article

References (55)

1. Aird, W.C., J.D. Parvin, P.A. Sharp, and R.D Rosenberg (1994) The interaction of GATA-binding proteins and basal transcription factors with GATA box-containing core promoters. A model of tissue-specific gene expression. J. Biol. Chem., 269:883-9.
2. Alexander-Bridges, M., L. Ercolani, X.F. Kong, and N. Nasrin (1992) Identification of a core motif that is recognized by three members of the HMG class of transcriptional regulators: IRE-ABP, SRY, and TCF-1 alpha. J. Cell. Biochem., 48:129-35.
3. Azizkhan, J.C., D.E. Jensen, A.J. Pierce, and M. Wade (1993) Transcription from TATA-less promoters: Dihydrofolate reductase as a model. Crit. Rev. Euk. Gene Exp., 3:229-54.
4. Babiss, L.E., R.S. Herbst, A.L. Bennett, and J.E. Darnell Jr. (1987) Factors that interact with the rat albumin promoter are present both in hepatocytes and other cell types. Genes Dev., 1:256-67.
5. Bancroft, J.D., S.A. McDowell, and S.J. Degen (1992) The human prothrombin gene: Transcriptional regulation in HepG2 cells. Biochemistry, 31:12469-76.
6. Bernardi, G., P. Sordino, and D.A. Powers (1993) Concordant mitochondrial and nuclear DNA phylogenies for populations of the teleost fish Fundulus heteroclitus. Proc. Natl. Acad. Sci. U.S.A., 90:9271-4.
7. Ciudad, C.J., A.E. Morris, C. Jeng, and L.A. Chasin (1992) Point mutational analysis of the hamster dihydrofolate reductase minimum promoter. J. Biol. Chem., 267:3650-6.
8. Clayton, D.F., A.L. Harrelson, and J.E. Darnell Jr. (1985) Dependence of liver-specific transcription on tissue organization. Mol. Cell. Biol., 5:2623-32.
9. Cooper, D.N. (1992) Regulatory mutations and human genetic disease. Ann. Med., 24:427-37.
10. Costa, R.H., D.R. Grayson, and J.E. Darnell Jr. (1989) Multiple hepatocyte-enriched nuclear factors function in the regulation of transthyretin and alpha 1-antitrypsin genes. Mol. Cell. Biol., 9:1415-25.
11. Crawford, D.L., and D.A. Powers (1989) Molecular basis of evolutionary adaptation at the lactate dehydrogenase-B locus in the fish Fundulus heteroclitus. Proc. Natl. Acad. Sci. U.S.A., 86:9365-9.
12. Crawford, D.L., and D.A. Powers (1992) Evolutionary adaptation to different thermal environments via transcriptional regulation. Mol. Biol. Evol., 9:806-13.
13. Dynan, W.S., and R. Tjian (1983) The promoter-specific transcription factor Sp1 binds to upstream sequences in the SV40 early promoter. Cell, 35:79-87.
14. Fang, X.M., and M.D. Brennan (1992) Multiple cis-acting sequences contribute to evolved regulatory variation for Drosophila Adh genes. Genetics, 131:333-43.
15. Friedenreich, H., and M. Schartl (1990) Transient expression directed by homologous and heterologous promoter and enhancer sequences in fish cells. Nucleic Acids Res., 18:3299-305.
16. Friedman, J.M., L.E. Babiss, M. Weiss, and J.E. Darnell Jr. (1987) Hepatoma variants (C2) are defective for transcriptional and post-transcriptional actions from both endogenous and viral genomes. EMBO J., 6:1727-31.
17. Geiser, A.G., K.J. Busam, S.J. Kim, R. Lafyatis, M.A. O'Reilly, R. Webbink, A.B. Roberts, and M.B. Sporn (1993) Regulation of the transforming growth factor-beta 1 and -beta 3 promoters by transcription factor Sp1. Gene, 129:223-8.
18. Grayson, D.R., R.H. Costa, K.G. Xanthopoulos, and J.E. Darnell Jr. (1988) A cell-specific enhancer of the mouse alpha 1-antitrypsin gene has multiple functional regions and corresponding protein-binding sites. Mol. Cell. Biol., 8:1055-66.
19. Gregori, C., A. Kahn, and A.L. Pichard (1993) Competition between transcription factors HNF1 and HNF3, and alternative cell-specific activation by DBP and C/EBP contribute to the regulation of the liver-specific aldolase B promoter. Nucleic Acids Res., 21:897-903.
20. Gumucio, D.L., D.A. Shelton, W.J. Bailey, J.L. Slightom, and M. Goodman (1993) Phylogenetic footprinting reveals unexpected complexity in trans factor binding upstream from the epsilon-globin gene. Proc. Natl. Acad. Sci. U.S.A., 90:6018-22.
21. Herbst, R.S., U. Nielsch, F. Sladek, E. Lai, L.E. Babiss, and J.E. Darnell Jr. (1991) Differential regulation of hepatocyte-enriched transcription factors explains changes in albumin and transthyretin gene expression among hepatoma cells. New Biol., 3:289-96.
22. Ishii, S., Y.H. Xu, R.H. Stratton, B.A. Roe, G.T. Merlino, and I. Pastan (1985) Characterization and sequence of the promoter region of the human epidermal growth factor receptor gene. Proc. Natl. Acad. Sci. U.S.A., 82:4920-4.
23. Jeang, K.T., R. Chun, N.H. Lin, A. Gatignol, C.G. Glabe, and H. Fan (1993) In vitro and in vivo binding of human immunodeficiency virus type 1 Tat protein and Sp1 transcription factor. J. Virol., 67:6224-33.
24. Johnson, A.C., S. Ishii, Y. Jinno, I. Pastan, and G.T. Merlino (1988) Epidermal growth factor receptor gene promoter. Deletion analysis and identification of nuclear protein binding sites. J. Biol. Chem., 263:5693-9.
25. Kraft, H.J., W. Hendriks, W.W. de Jong, N.H. Lubsen, and J.G. Schoenmakers (1993) Duck lactate dehydrogenase B/ epsilon-crystallin gene. Lens recruitment of a GC-promoter. J. Mol. Biol., 229:849-59.
26. Kreitman, M., and R.R. Hudson (1991) Inferring the evolutionary histories of the Adh and Adh-dup loci in Drosophila melanogaster from patterns of polymorphism and divergence. Genetics, 127:565-82.
27. Kuo, C.J., P.B. Conley, L. Chen, F.M. Sladek, J.E. Darnell Jr., and G.R. Crabtree (1992) A transcriptional hierarchy involved in mammalian cell-type specification. Nature, 355:457-61.
28. Kuo, F.C., and J.E. Darnell Jr. (1991) Evidence that interaction of hepatocytes with the collecting (hepatic) veins triggers position-specific transcription of the glutamine synthetase and ornithine aminotransferase genes in the mouse liver. Mol. Cell. Biol., 11:6050-8.
29. Lauerman, T. (1990) The Functional Significance of the Amino Acid Differences Between Allelic Isozymes of Heart Type Lactate Dehydrogenase in Fundulus heteroclitus. Ph.D. Thesis. Johns Hopkins University, Baltimore, MD.
30. Laurie-Ahlberg, C.C. (1985) Genetic variation affecting the expression of enzyme-coding genes in Drosophila: An evolutionary perspective. Isozymes. Curr. Top. Biol. Med. Res., 12:33-88.
31. Li, X.X., and W.S. Liao (1991) Expression of rat serum amyloid A1 gene involves both C/EBP-like and NF kappa B-like transcription factors. J. Biol. Chem., 266:15192-201.
32. Magoulas, C., A. Loverre-Chyurlia, S. Abukashawa, L. Bally-Cuif, and D.A. Hickey (1993) Functional conservation of a glucose-repressible amylase gene promoter from Drosophila virilis in Drosophila melanogaster. J. Mol. Evol., 36:234-42.
33. McKenzie, R.W., J. Hu, and M.D. Brennan (1994) Redundant cis-acting elements control expression of the Drosophila affinidisjuncta Adh gene in the larval fat body. Nucleic Acids Res., 22:1257-64.
34. McKeon, C., V. Moncada, T. Pham, P. Salvatore, T. Kadowaki, D. Accili, and S.I. Taylor (1990) Structural and functional analysis of the insulin receptor promoter. Mol. Endocrinol., 4:647-56.
35. Mirkovitch, J., and J.E. Darnell Jr. (1991) Rapid in vivo footprinting technique identifies proteins bound to the TTR gene in the mouse liver. Genes Dev., 5:83-93.
36. Mitchell, P.J., and R. Tjian (1989) Transcriptional regulation in mammalian cells by sequence-specific DNA binding proteins. Science, 245:371-8.
37. Mueller, P.R., and B. Wold (1989) In vivo footprinting of a muscle specific enhancer by ligation mediated PCR [published erratum appears in Science, May 18, 1990; 248:802]. Science, 246:780-6.
38. Nishiyori, A., H. Tashiro, A. Kimura, K. Akagi, K. Yamamura, M. Mori and M. Takiguchi (1994) Determination of tissue specificity of the enhancer by combinatorial operation of tissue-enriched transcription factors. Both HNF-4 and C/ EBP beta are required for liver-specific activity of the ornithine transcarbamylase enhancer. J. Biol. Chem., 269:1323-31.
39. O'Shea-Greenfield, A., and S.T. Smale (1992) Roles of TATA and initiator elements in determining the start site location and direction of RNA polymerase II transcription. J. Biol. Chem., 267:6450.
40. Platt, K.A., K.P. Claffey, W.O. Wilkison, B.M. Spiegelman and S.R. Ross (1994) Independent regulation of adipose tissue-specificity and obesity response of the adipsin promoter in transgenic mice. J. Biol. Chem., 269:28558-62.
41. Powers, D.A., M. Smith, I. Gonzalez-Villasenor, L. DiMichelle, D.L. Crawford, G. Bernardi, and T. Lauerman (1993) A multidisciplinary approach to the selectionist/neutralist controversy using the model teleost, Fundulus heteroclitus. In: Oxford Surveys in Evolutionary Biology. D. Futuyma and J. Antonovics, eds. Oxford University Press, New York, vol. 9, pp. 43-108.
42. Prestridge, D.S., and G. Stormo (1993) SIGNAL SCAN 3.0: New database and program features. Comput. Appl. Biosci., 9:113-5.
43. Reddy, P.M., G. Stamatoyannopoulos, T. Papayannopoulou, and C.K. Shen (1994) Genomic footprinting and sequencing of human beta-globin locus. Tissue specificity and cell line artifact. J. Biol. Chem., 269:8287-95.
44. Roeder, R.G. (1991) The complexities of eukaryotic transcription initiation: Regulation of preinitiation complex assembly. Trends Biochem. Sci., 16:402-8.
45. Sawadogo, M., and A. Sentenac (1990) RNA polymerase B (II) and general transcription factors. Annu. Rev. Biochem., 59:711-754.
46. Schmidt-Neilsen, K. (1990) Animal Physiology: Adaptation and Environment. Cambridge University Press, New York, pp. 218-222.
47. Schulte, P.M., J.A. Segal, D.L. Crawford, and D.A. Powers (1995) A rapid in vivo footprinting method for the detection of DNA-protein interactions in isolated nuclei. Mol. Marine Biol. Biotechnol., 4:200-205.
48. Smale, S.T., and D. Baltimore (1989) The "initiator" as a transcription control element. Cell, 57:103-13.
49. Smale, S.T., M.C. Schmidt, A.J. Berk, and D. Baltimore (1990) Transcriptional activation by Sp1 as directed through TATA or initiator: Specific requirement for mammalian transcription factor IID. Proc. Natl. Acad. Sci. U.S.A., 87:4509-13.
50. Takiguchi, M., and M. Mori (1991) In vitro analysis of the rat liver-type arginase promoter. J. Biol. Chem., 266:9186-93.
51. Treizenberg, S.J. (1992) Primer Extension. In: Current Protocols in Molecular Biology. F.M. Ausebel, ed. John Wiley and Sons, Inc., New York, vol. 1 pp. 4.8.1-4.8.5.
52. Vincent, K.A., and A.C. Wilson (1989) Evolution and transcription of old world monkey globin genes. J. Mol. Biol., 207:465-80.
53. Wang, Z.Y., Q.Q. Qiu, K.T. Enger, and T.F. Deuel (1993) A second transcriptionally active DNA-binding site for the Wilms tumor gene product, WT1. Proc. Natl. Acad. Sci. U.S.A., 90:8896-900.
54. Wilson, A.C. (1976) Molecular Evolution. F.J. Ayala, ed. Sinauer, MA, Sunderland, pp. 225-234.
55. Zenzie-Gregory, B., A. Khachi, I.P. Garraway, and S.T. Smale (1993) Mechanism of initiator-mediated transcription: Evidence for a functional interaction between the TATA-binding protein and DNA in the absence of a specific recognition sequence. Mol. Cell. Biol., 13:3841-9.