Systematic mapping of genetic interactions in Caenorhabditis elegans identifies common modifiers of diverse signaling pathways

Nature Genetics

Volumn 38, Issue 8, 2006, Pages 896-903

  Lehner, Ben ^a,b   Crombie, Catriona ^a   Tischler, Julia ^a   Fortunato, Angelo ^a,c   Fraser, Andrew G ^a  

^a WELLCOME TRUST SANGER INSTITUTE   (United Kingdom)

^b CENTRE FOR GENOMIC REGULATION CRG   (Spain)

^c UNIVERSITY OF SIENA   (Italy)

Author keywords

[No Author keywords available]

Indexed keywords

EPIDERMAL GROWTH FACTOR; NOTCH RECEPTOR; RAS PROTEIN; WNT PROTEIN;

ARTICLE; CAENORHABDITIS ELEGANS; CHROMATIN ASSEMBLY AND DISASSEMBLY; CHROMATIN STRUCTURE; DISEASE PREDISPOSITION; GENE FUNCTION; GENE IDENTIFICATION; GENE INTERACTION; GENE MAPPING; GENE MUTATION; GENETIC ANALYSIS; GENETIC DISORDER; GENETIC TRAIT; GENOTYPE PHENOTYPE CORRELATION; HERITABILITY; MICROBIAL GENETICS; NONHUMAN; PHENOTYPE; PRIORITY JOURNAL; REGULATOR GENE; RNA INTERFERENCE; SIGNAL TRANSDUCTION;

ANIMALS; CAENORHABDITIS ELEGANS; CHROMOSOME MAPPING; ENHANCER ELEMENTS (GENETICS); EPIDERMAL GROWTH FACTOR; FEMALE; GENES, HELMINTH; HUMANS; MUTATION; PHENOTYPE; RNA INTERFERENCE; SIGNAL TRANSDUCTION; VULVA;

ANIMALIA; CAENORHABDITIS ELEGANS;

EID: 33746525415     PISSN: 10614036     EISSN: 15461718     Source Type: Journal    
DOI: 10.1038/ng1844     Document Type: Article

References (48)

1. Badano, J.L. & Katsanis, N. Beyond Mendel: an evolving view of human genetic disease transmission. Nat. Rev. Genet. 3, 779-789 (2002).
2. Fearon, E.R. & Vogelstein, B. A genetic model for colorectal tumorigenesis. Cell 61, 759-767 (1990).
3. Hartman, J.L.t., Garvik, B. & Hartwell, L. Principles for the buffering of genetic variation. Science 291, 1001-1004 (2001).
4. Tong, A.H. et al. Systematic genetic analysis with ordered arrays of yeast deletion mutants. Science 294, 2364-2368 (2001).
5. Tong, A.H. et al. Global mapping of the yeast genetic interaction network. Science 303, 808-813 (2004).
6. Davierwala, A.P. et al. The synthetic genetic interaction spectrum of essential genes. Nat. Genet. 37, 1147-1152 (2005).
7. van Haaften, G., Vastenhouw, N.L., Nollen, E.A., Plasterk, R.H. & Tijsterman, M. Gene interactions in the DNA damage-response pathway identified by genome-wide RNA-interference analysis of synthetic lethality. Proc. Natl. Acad. Sci. USA 101, 12992-12996 (2004).
8. Baugh, L.R. et al. Synthetic lethal analysis of Caenorhabditis elegans posterior embryonic patterning genes identifies conserved genetic interactions. Genome Biol. 6, R45 (2005).
9. Timmons, L. & Fire, A. Specific interference by ingested dsRNA. Nature 395, 854 (1998).
10. Kamath, R.S. et al. Systematic functional analysis of the Caenorhabditis elegans genome using RNAi. Nature 421, 231-237 (2003).
11. Sundaram, M.V. RTK/Ras/MAP kinase signaling. WormBook [online] 〈http://www.wormbook.org〉, published online 11 February 2006 (doi/10.1895/wormbook.1.80.1).
12. Wang, D. et al. Somatic misexpression of germline P granules and enhanced RNA interference in retinoblastoma pathway mutants. Nature 436, 593-597 (2005).
13. Lehner, B. et al. Loss of LIN-35, the Caenorhabditis elegans ortholog of the tumor suppressor p105Rb, results in enhanced RNA interference. Genome Biol. 7, R4 (2006).
14. Kinchen, J.M. & Hengartner, M.O. Tales of cannibalism, suicide, and murder: programmed cell death in C. elegans. Curr. Top. Dev. Biol. 65, 1-45 (2005).
15. Howard, R.M. & Sundaram, M.V. C. elegans EOR-1/PLZF and EOR-2 positively regulate Ras and Wnt signaling and function redundantly with LIN-25 and the SUR-2 Mediator component. Genes Dev. 16, 1815-1827 (2002).
16. Kokel, M., Borland, C.Z., DeLong, L., Horvitz, H.R. & Stern, M.J. clr-1 encodes a receptor tyrosine phosphatase that negatively regulates an FGF receptor signaling pathway in Caenorhabditis elegans. Genes Dev. 12, 1425-1437 (1998).
17. Bergman, A. & Siegal, M.L. Evolutionary capacitance as a general feature of complex gene networks. Nature 424, 549-552 (2003).
18. Rutherford, S.L. & Lindquist, S. Hsp90 as a capacitor for morphological evolution. Nature 396, 336-342 (1998).
19. Queitsch, C., Sangster, T.A. & Lindquist, S. Hsp90 as a capacitor of phenotypic variation. Nature 417, 618-624 (2002).
20. Ceol, C.J. & Horvitz, H.R. A new class of C. elegans synMuv genes implicates a Tip60/NuA4-like HAT complex as a negative regulator of Ras signaling. Dev. Cell 6, 563-576 (2004).
21. Moghal, N. & Sternberg, P.W. A component of the transcriptional mediator complex inhibits RAS-dependent vulval fate specification in C. elegans. Development 130, 57-69 (2003).
22. Jiang, L.I. & Sternberg, P.W. An HMG1-like protein facilitates Wnt signaling in Caenorhabditis elegans. Genes Dev. 13, 877-889 (1999).
23. Ludewig, A.H. et al. A novel nuclear receptor/coregulator complex controls C. elegans lipid metabolism, larval development, and aging. Genes Dev. 18, 2120-2133 (2004).
24. Herman, M.A. et al. EGL-27 is similar to a metastasis-associated factor and controls cell polarity and cell migration in C. elegans. Development 126, 1055-1064 (1999).
25. Sollars, V. et al. Evidence for an epigenetic mechanism by which Hsp90 acts as a capacitor for morphological evolution. Nat. Genet. 33, 70-74 (2003).
26. George, S.E., Simokat, K., Hardin, J. & Chisholm, A.D. The VAB-1 Eph receptor tyrosine kinase functions in neural and epithelial morphogenesis in C. elegans. Cell 92, 633-643 (1998).
27. Clark, D.V., Suleman, D.S., Beckenbach, K.A., Gilchrist, E.J. & Baillie, D.L. Molecular cloning and characterization of the dpy-20 gene of Caenorhabditis elegans. Mol. Gen. Genet. 247, 367-378 (1995).
28. Zhang, H. & Emmons, S.W. The novel C. elegans gene sop-3 modulates Wnt signaling to regulate Hox gene expression. Development 128, 767-777 (2001).
29. Solari, F. & Ahringer, J. NURD-complex genes antagonise Ras-induced vulval development in Caenorhabditis elegans. Curr. Biol. 10, 223-226 (2000).
30. Ch'ng, Q. & Kenyon, C. egl-27 generates anteroposterior patterns of cell fusion in C. elegans by regulating Hox gene expression and Hox protein function. Development 126, 3303-3312 (1999).
31. Rebay, I. et al. A genetic screen for novel components of the Ras/Mitogen-activated protein kinase signaling pathway that interact with the yan gene of Drosophila identifies split ends, a new RNA recognition motif-containing protein. Genetics 154, 695-712 (2000).
32. Chen, F. & Rebay, I. split ends, a new component of the Drosophila EGF receptor pathway, regulates development of midline glial cells. Curr. Biol. 10, 943-946 (2000).
33. Lin, H.V. et al. Splits ends is a tissue/promoter specific regulator of Wingless signaling. Development 130, 3125-3135 (2003).
34. Staehling-Hampton, K., Ciampa, P.J., Brook, A. & Dyson, N. A genetic screen for modifiers of E2F in Drosophila melanogaster. Genetics 153, 275-287 (1999).
35. Wiellette, E.L. et al. spen encodes an RNP motif protein that interacts with Hox pathways to repress the development of head-like sclerites in the Drosophila trunk. Development 126, 5373-5385 (1999).
36. Kuang, B., Wu, S.C., Shin, Y., Luo, L. & Kolodziej, P. split ends encodes large nuclear proteins that regulate neuronal cell fate and axon extension in the Drosophila embryo. Development 127, 1517-1529 (2000).
37. Kuroda, K. et al. Regulation of marginal zone B cell development by MINT, a suppressor of Notch/RBP-J signaling pathway. Immunity 18, 301-312 (2003).
38. Oswald, F. et al. SHARP is a novel component of the Notch/RBP-Jkappa signalling pathway. EMBO J. 21, 5417-5426 (2002).
39. Shi, Y. et al. Sharp, an inducible cofactor that integrates nuclear receptor repression and activation. Genes Dev. 15, 1140-1151 (2001).
40. Bach, E.A., Vincent, S., Zeidler, M.P. & Perrimon, N. A sensitized genetic screen to identify novel regulators and components of the Drosophila janus kinase/signal transducer and activator of transcription pathway. Genetics 165, 1149-1166 (2003).
41. Janody, F., Benlali, A., Martirosyan, Z. & Treisman, J. Blind spot and Kohtalo, two components of the Drosophila mediator complex, act together to control a subset of Hedgehog and Wingless target genes. A. Dros. Res. Conf. 43, 90 (2002).
42. Carrera, I., Janody, F., Martirosyan, Z. & Treisman, J. Two subunits of the mediator complex act as adaptors for Notch and Wingless signaling. A. Dros. Res. Conf. 44, 346A (2003).
43. Gause, M. et al. Nipped-A, the Tra1/TRRAP subunit of the Drosophila SAGA and Tip60 complexes, has multiple roles in Notch signaling during wing development. Mol. Cell. Biol. 26, 2347-2359 (2006).
44. Xiao, H., Chung, J., Kao, H.Y. & Yang, Y.C. Tip60 is a co-repressor for STAT3. J. Biol. Chem. 278, 11197-11204 (2003).
45. Feng, Y., Lee, N. & Fearon, E.R. TIP49 regulates beta-catenin- mediated neoplastic transformation and T-cell factor target gene induction via effects on chromatin remodeling. Cancer Res. 63, 8726-8734 (2003).
46. Taubert, S. et al. E2F-dependent histone acetylation and recruitment of the Tip60 acetyltransferase complex to chromatin in late G1. Mol. Cell. Biol. 24, 4546-4556 (2004).
47. Berns, K. et al. A large-scale RNAi screen in human cells identifies new components of the p53 pathway. Nature 428, 431-437 (2004).
48. Inoue, T. et al. Gene expression markers for Caenorhabditis elegans vulval cells. Mech. Dev. 119 (Suppl.), S203-S209 (2002).