A self-organizing system of repressor gradients establishes segmental oomplexity in Drosophila

Nature

Volumn 426, Issue 6968, 2003, Pages 849-853

  Clyde, Dorothy E ^a,b   Corado, Maria S G ^a   Wu, Xuelin ^a,c   Paré, Adam ^a   Papatsenko, Dmitri ^a   Small, Stephen ^a  

^a NEW YORK UNIVERSITY   (United States)

^b UNIVERSITY OF KENT   (United Kingdom)

^c SALK INSTITUTE FOR BIOLOGICAL STUDIES   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BIODIVERSITY; COMPUTATIONAL METHODS; DNA;

GENE EXPRESSIONS; REGULATORY FACTORS;

GENES;

GENOMIC DNA;

SELF ORGANIZATION;

ARTICLE; BINDING SITE; DEVELOPMENTAL BIOLOGY; DROSOPHILA; ENHANCER REGION; EVEN SKIPPED GENE; GENE EXPRESSION; HUNCHBACK GENE; IN VIVO STUDY; KNIRP GENE; MORPHOGENESIS; NONHUMAN; PRIORITY JOURNAL; PROTEIN BINDING; PROTEIN DOMAIN; REPRESSOR GENE;

ANIMALS; BODY PATTERNING; DNA-BINDING PROTEINS; DROSOPHILA MELANOGASTER; DROSOPHILA PROTEINS; ENHANCER ELEMENTS (GENETICS); GENE EXPRESSION REGULATION, DEVELOPMENTAL; HOMEODOMAIN PROTEINS; REPRESSOR PROTEINS; RESPONSE ELEMENTS; RNA, MESSENGER; TRANSCRIPTION FACTORS;

EID: 0347987855     PISSN: 00280836     EISSN: None     Source Type: Journal    
DOI: 10.1038/nature02189     Document Type: Article

References (31)

1. Driever, W., Thoma, G. & Nusslein-Volhard, C. Determination of spatial domains of zygotic gene expression in the Drosophila embryo by the affinity of binding sites for the bicoid morphogen. Nature 340, 363-367 (1989).
2. Struhl, G., Johnston, P. & Lawrence, P. A. Control of Drosophila body pattern by the hunchback morphogen gradient. Cell 69, 237-249 (1992).
3. Jiang, J. & Levine, M. Binding affinities and cooperative interactions with bHLH activators delimit threshold responses to the dorsal gradient morphogen. Cell 72, 741-752 (1993).
4. Goto, T., Macdonald, P. & Maniatis, T. Early and late periodic patterns of even skipped expression are controlled by distinct regulatory elements that respond to different spatial cues. Cell 57, 413-422 (1989).
5. Harding, K., Hoey, T., Warrior, R. & Levine, M. Autoregulatory and gap gene response elements of the even-skipped promoter of Drosophila. EMBO J. 8, 1205-1212 (1989).
6. Fujioka, M., Emi-Sarker, Y., Yusibova, G. L., Goto, T. & Jaynes, J. B. Analysis of an even-skipped rescue transgene reveals both composite and discrete neuronal and early blastoderm enhancers, and multi-stripe posidoning by gap gene repressor gradients. Development 126, 2527-2538 (1999).
7. Small, S., Blair, A. & Levine, M. Regulation of even-skipped stripe 2 in the Drosophila embryo. EMBO J. 11, 4047-4057 (1992).
8. Small, S., Blair, A. & Levine, M. Regulation of two pair-rule stripes by a single enhancer in the Drosophila embryo. Dev. Biol. 175, 314-324 (1996).
9. Small, S., Kraut, R., Hoey T., Warrior, R. & Levine, M. Transcriptional regulation of a pair-rule stripe in Drosophila. Genes Dev. 5, 827-839 (1991).
10. Stanojevic, D., Small, S. & Levine, M. Regulation of a segmentation stripe by overlapping activators and repressors in the Drosophila embryo. Science 254, 1385-1387 (1991).
11. Stanojevic, D., Hoey, T. & Levine, M. Sequence-specific DNA-binding activities of the gap proteins encoded by hunchback and Kruppel in Drosophila. Nature 341, 331-335 (1989).
12. Yan, R., Small, S., Desplan, C., Dearolf, C. R. & Darnell, J. E. Jr Identification of a Stat gene that functions in Drosophila development. Cell 84, 421-430 (1996).
13. Hou, X. S., Melnick, M. B. & Perrimon, N. Marelle acts downstream of the Drosophila HOP/JAK kinase and encodes a protein similar to the mammalian STATs. Cell 84, 411-419 (1996); erratum ibid. Cell 85, 290 (1996).
14. Hou, X. S., Melnick, M. B. & Perrimon, N. Marelle acts downstream of the Drosophila HOP/JAK kinase and encodes a protein similar to the mammalian STATs. Cell 84, 411-419 (1996); erratum ibid. Cell 85, 290 (1996).
15. Nambu, P. A. & Nambu, J. R. The Drosophila fish-hook gene encodes a HMG domain protein essential for segmentation and CNS development. Development 122, 3467-3475 (1996).
16. Ip, Y. T., Park, R. E., Kosman, D., Yazdanbakhsh, K. & Levine, M. dorsal-twist interactions establish snail expression in the presumptive mesoderm of the Drosophila embryo. Genes Dev. 6, 1518-1530 (1992).
17. Papatsenko, D. A. et al. Extraction of functional binding sites from unique regulatory regions: the Drosophila early developmental enhancers. Genome Res 12, 470-481 (2002).
18. Lifanov, A. P., Makeev, V. J., Nazina, A. G. & Papatsenko, D. A. Homotypic regulatory clusters in Drosophila. Genome Res. 13, 579-588 (2003).
19. Berman, B. P. et al. Exploiting transcription factor binding site clustering to identify cis-regulatory modules involved in pattern formation in the Drosophila genome. Proc. Natl Acad. Sci. USA 99, 757-762 (2002).
20. Kosman, D. & Small, S. Concentration-dependent patterning by an ectopic expression domain of the Drosophila gap gene knirps. Development 124, 1343-1354 (1997).
21. Hulskamp, M., Pfeifle, C. & Tautz, D. A morphogenetic gradient of hunchback protein organizes the expression of the gap genes Kruppel and knirps in the early Drosophila embryo. Nature 346, 577-580 (1990).
22. Kraut, R. & Levine, M. Mutually repressive interactions between the gap genes giant and Kruppel define middle body regions of the Drosophila embryo. Development 111, 611-621 (1991).
23. Struhl, G., Struhl, K. & Macdonald, P. M. The gradient morphogen bicoid is a concentration-dependent transcriptional activator. Cell 57, 1259-1273 (1989).
24. Driever, W. & Nusslein-Volhard, C. The bicoid protein determines position in the Drosophila embryo in a concentration-dependent manner. Cell 54, 95-104 (1988).
25. Langeland, J. A., Attai, S. F., Vorwerk, K. & Carroll, S. B. Positioning adjacent pair-rule stripes in the posterior Drosophila embryo. Development 120, 2945-2955 (1994).
26. Hanna-Rose, W. & Hansen, U. Active repression mechanisms of eukaryotic transcription repressors. Trends Genet. 12, 229-234 (1996).
27. Gray, S. & Levine, M. Transcriptional repression in development. Curr. Opin. Cell Biol. 8, 358-364 (1996).
28. Andrioli, L. P., Vasisht, V., Theodosopoulou, E., Oberstein, A. & Small, S. Anterior repression of a Drosophila stripe enhancer requires three position-specific mechanisms. Development 129, 4931-4940 (2002).
29. Small, S. In vivo analysis of lacZ fusion genes in transgenic Drosophila melanogaster. Methods Enzymol. 326, 146-159 (2000).
30. Struhl, G., Fitzgerald, K. & Greenwald, I. Intrinsic activity of the Lin-12 and Notch intracellular domains in vivo. Cell 74, 331-345 (1993).
31. Lawrence, P. A., Johnston, P., Macdonald, P. & Struhl, G. Borders of parasegments in Drosophila embryos are delimited by the fushi tarazu and even-skipped genes. Nature 328, 440-442 (1987).