Methods for Studying Programmed Cell Death in C. elegans

Methods in Cell Biology

Volumn 107, Issue , 2012, Pages 295-320

  Wu, Yi Chun ^a,b   Wang, Xiaochen ^c   Xue, Ding ^d  

^a NATIONAL TAIWAN UNIVERSITY   (Taiwan)

^b INSTITUTE OF ATOMIC AND MOLECULAR SCIENCES   (Taiwan)

^c NATIONAL INSTITUTE OF BIOLOGICAL SCIENCES   (China)

^d UNIVERSITY OF COLORADO   (United States)

Author keywords

Apoptotic; Corpse; Cosmid; Engulfment; Plasmid; Programmed cell death

Indexed keywords

EID: 84855435415     PISSN: 0091679X     EISSN: None     Source Type: Book Series    
DOI: 10.1016/B978-0-12-394620-1.00010-2     Document Type: Chapter

References (65)

1. Albertson D.G., Thomson J.N. The pharynx of Caenorhabditis elegans. Phil. Trans. R. Soc. Lond. 1976, 275:299-325.
2. Alnemri E.S., Livingston D.J., Nicholson D.W., Salvesen G., Thornberry N.A., Wong W.W., Yuan J. Human ICE/CED-3 protease nomenclature. Cell 1996, 87:171.
3. Bloss T.A., Witze E.S., Rothman J.H. Suppression of CED-3-independent apoptosis by mitochondrial betaNAC in Caenorhabditis elegans. Nature 2003, 424:1066-1071.
4. Chalfie M., Au M. Genetic control of differentiation of the Caenorhabditis elegans touch receptor neurons. Science 1989, 243:1027-1033.
5. Chalfie M., Tu Y., Euskirchen G., Ward W.W., Prasher D.C. Green fluorescent protein as a marker for gene expression. Science 1994, 263:802-805.
6. C. elegans Sequencing Consortium, (1998). Genome sequence of the nematode C. elegans: a platform for investigating biology. Science 282, 2012-2018.
7. Coulson A., Sulston J., Brenner S., Karn J. Toward a physical map of the genome of the nematode Caenorhabditis elegans. Proc. Natl Acad. Sci. USA 1986, 83:7821-7825.
8. Darland-Ransom M., Wu Y.C., Xue D. Programmed cell death in C. elegans. Essentials of Apoptosis: Guide for Basic and Clinical Research 2009, 355-374. Humana Press, New York. 2nd Ed. X.-M. Yin, Z. Dong (Eds.).
9. Eisenhut R.J., Knox D., Hermann G.J. Characterization of a conserved apoptotic marker expressed in Caenorhabditis elegans phagocytic cells. Biochem. Biophys. Res. Commun. 2005, 335:1231-1238.
10. Ellis H.M., Horvitz H.R. Genetic control of programmed cell death in the nematode C. elegans. Cell 1986, 44:817-829.
11. Ellis R.E., Horvitz H.R. Two C. elegans genes control the programmed deaths of specific cells in the pharynx. Development 1991, 112:591-603.
12. Ellis R., Jacobson D.M., Horvitz H.R. Genes required for the engulfment of cell corpses during programmed cell death in C. elegans. Genetics 1991, 129:79-94.
13. Ellis R.E., Yuan J., Horvitz H.R. Mechanisms and functions of cell death. Annu. Rev. Cell Biol. 1991, 7:663-698.
14. Evans, T. C., ed. (2006). Transformation and microinjection. In " WormBook" , ed. The C. elegans Research Community, WormBook, doi/10.1895/wormbook.1.108.1, http://www.wormbook.org/.
15. Fadeel B., Xue D. The ins and outs of phospholipid asymmetry in the plasma membrane: roles in health and disease. Crit. Rev. Biochem. Mol. Biol. 2009, 44:264-277.
16. Fire A., Xu S., Montgomery M.K., Kostas S.A., Driver S.E., Mello C.C. Potent and specific genetic interference by double-stranded RNA in Caenorhabditis elegans (see comments). Nature 1998, 391:806-811.
17. Freyd G., Kim S.K., Horvitz H.R. Novel cysteine-rich motif and homeodomain in the product of the Caenorhabditis elegans cell lineage gene lin-11. Nature 1990, 344:876-879.
18. Gartner et al. (2008). Germline survival and apoptosis. In WormBook, ed. The C. elegans Research Community, WormBook, doi/10.1895/wormbook.1.145.1, http://www.wormbook.org/.
19. Gavrieli Y., Sherman Y., Ben-Sasson S.A. Identification of programmed cell death in situ via specific labeling of nuclear DNA fragmentation. J. Cell Biol. 1992, 119:493-501.
20. Glucksmann A. Biol. Rev. Cambridge Philos. Soc. 1950, 26:59.
21. Gumienny T.L., Lambie E., Hartwieg E., Horvitz H.R., Hengartner M.O. Genetic control of programmed cell death in the Caenorhabditis elegans hermaphrodite germline. Development 1999, 126:1011-1022.
22. Hamelin M., Scott I.M., Way J.C., Culotti J.G. The mec-7 beta-tubulin gene of Caenorhabditis elegans is expressed primarily in the touch receptor neurons. EMBO J. 1992, 11:2885-2893.
23. Hedgecock E., Sulston J., Thomson J.N. Mutations affecting programmed cell deaths in the nematode Caenorhabditis elegans. Science 1983, 220:1277-1279.
24. Hengartner M.O., Ellis R.E., Horvitz H.R. Caenorhabditis elegans gene ced-9 protects cells from programmed cell death. Nature 1992, 356:494-499.
25. Hengartner M.O., Horvitz H.R. C. elegans cell survival gene ced-9 encodes a functional homolog of the mammalian proto-oncogene bcl-2. Cell 1994, 76:665-676.
26. Horvitz H.R., Shaham S., Hengartner M. The genetics of programmed cell death in the nematode Caenorhabditis elegans, Cold Spring Harbor Symp. Quant. Biol. 1994, 59:377-385.
27. Horvitz H.R. Genetic control of programmed cell death in the nematode Caenorhabditis elegans. Cancer Res. 1999, 59:1701s-1706s.
28. Hsu D.R., Meyer B.J. The dpy-30 gene encodes an essential component of the Caenorhabditis elegans dosage compensation machinery. Genetics 1994, 137:999-1018.
29. Jagasia R., Grote P., Westermann B., Conradt B. DRP-1-mediated mitochondrial fragmentation during EGL-1-induced cell death in C. elegans. Nature 2005, 433:754-760.
30. Jansen G., Hazendonk E., Thijssen K.L., Plasterk R.H. Reverse genetics by chemical mutagenesis in Caenorhabditis elegans. Nat. Genet. 1997, 17:119-121.
31. Jin Y., Hoskins R., Horvitz H.R. Control of type-D GABAergic neuron differentiation by C. elegans UNC-30 homeodomain protein. Nature 1994, 372:780-783.
32. Kimble J., Hirsh D. The postembryonic cell lineages of the hermaphrodite and male gonads in Caenorhabditis elegans. Dev. Biol. 1979, 70:396-417.
33. Kinchen J.M., Cabello J., Klingele D., Wong K., Feichtinger R., Schnabel H., Schnabel R., Hengartner M.O. Two pathways converge at CED-10 to mediate actin rearrangement and corpse removal in C. elegans. Nature 2005, 434:93-99.
34. Koopman G., Reutelingsperger C.P., Kuijten G.A., Keehnen R.M., Pals S.T., van Oers M.H. Annexin V for flow cytometric detection of phosphatidylserine expression on B cells undergoing apoptosis. Blood 1994, 84:1415-1420.
35. Lints R., Jia L., Kim K., Li C., Emmons S.W. Axial patterning of C. elegans male sensilla identities by selector genes. Dev. Biol. 2004, 269:137-151.
36. Mello C.C., Kramer J.M., Stinchcomb D., Ambros V. Efficient gene transfer in C.elegans: extrachromosomal maintenance and integration of transforming sequences. EMBO J. 1991, 10:3959-3970.
37. Metzstein M.M., Stanfield G.M., Horvitz H.R. Genetics of programmed cell death in C. elegans: past, present and future. Trends Genet. 1998, 14:410-416.
38. Oberhammer F., Wilson J.W., Dive C., Morris I.D., Hickman J.A., Wakeling A.E., Walker P.R., Sikorska M. Apoptotic death in epithelial cells: cleavage of DNA to 300 and/or 50kb fragments prior to or in the absence of internucleosomal fragmentation. EMBO J. 1993, 12:3679-3684.
39. Parrish J., Li L., Klotz K., Ledwich D., Wang X., Xue D. Mitochondrial endonuclease G is important for apoptosis in C. elegans. Nature 2001, 412:90-94.
40. Parrish J.Z., Xue D. Functional genomic analysis of apoptotic DNA degradation in C. elegans. Mol. Cell. 2003, 11:987-996.
41. Reddien P.W., Cameron S., Horvitz H.R. Phagocytosis promotes programmed cell death in C. elegans. Nature 2001, 412:198-202.
42. Riddle D.L., Blumenthal T., Meyer B.J., et al. " C. Elegans" II 1997, Cold Spring Harbor Laboratory Press, New York, pp. 405-408.
43. Schwartz H. The protocol describing pharynx counts and a review of other assays of apoptotic cell death in the nematode worm Caenorhabditis elegans. Nature Protocols 2007, 2:705-714.
44. Shaham S., Horvitz H.R. An alternatively spliced C. elegans ced-4 RNA encodes a novel cell death inhibitor. Cell 1996, 86:201-208.
45. Shaham S., Horvitz H.R. Developing Caenorhabditis elegans neurons may contain both cell-death protective and killer activities. Genes Dev 1996, 10:578-591.
46. Shaham S., Reddien P.W., Davies B., Horvitz H.R. Mutational analysis of the Caenorhabditis elegans cell-death gene ced-3. Genetics 1999, 153:1655-1671.
47. Stanfield G.M., Horvitz H.R. The ced-8 gene controls the timing of programmed cell deaths in C. elegans. Mol. Cell 2000, 5:423-433.
48. Stringham E.G., Dixon D.K., Jones D., Candido E.P. Temporal and spatial expression patterns of the small heat shock (hsp16) genes in transgenic Caenorhabditis elegans. Mol. Biol. Cell 1992, 3:221-233.
49. Sugimoto A., Friesen P.D., Rothman J.H. Baculovirus p35 prevents developmentally programmed cell death and rescues a ced-9 mutant in the nematode Caenorhabditis elegans. EMBO J. 1994, 13:2023-2028.
50. Sulston J.E. Post-embryonic development in the ventral cord of Caenorhabditis elegans. Philos. Trans. R. Soc. Lond B Biol. Sci. 1976, 275:287-297.
51. Sulston J.E., Horvitz H.R. Post-embryonic cell lineages of the nematode. Caenorhabditis elegans. Dev. Biol. 1977, 56:110-156.
52. Sulston J.E., Albertson D.G., Thomson J.N. The Caenorhabditis elegans male: postembryonic development of nongonadal structures. Dev. Biol. 1980, 78:542-576.
53. Sulston J.E., Schierenberg E., White J.G., Thomson J.N. The embryonic cell lineage of the nematode Caenorhabditis elegans. Dev. Biol. 1983, 100:64-119.
54. Vaux D.L., Weissman I.L., Kim S.K. Prevention of programmed cell death in Caenorhabditis elegans by human bcl-2. Science 1992, 258:1955-1957.
55. Wang X., Wu Y.C., Fadok V.A., Lee M.C., Gengyo-Ando K., Cheng L.C., Ledwich D., Hsu P.K., Chen J.Y., Chou B.K., et al. Cell corpse engulfment mediated by C. elegans phosphatidylserine receptor through CED-5 and CED-12. Science 2003, 302:1563-1566.
56. Wang X., Wang J., Gengyo-Ando K., Gu L., Sun C.L., Yang C., Shi Y., Kobayashi T., Shi Y., Mitani S., Xie X.S., Xue D. C. elegans mitochondrial factor WAH-1 promotes phosphatidylserine externalization in apoptotic cells through phospholipid scramblase SCRM-1. Nat. Cell Biol. 2007, 9:541-549.
57. Wang X., Yang C., Chai J., Shi Y., Xue D. Mechanisms of AIF-mediated apoptotic DNA degradation in Caenorhabditis elegans. Science 2002, 298:1587-1592.
58. Waterston R., Sulston J. The genome of Caenorhabditis elegans. Proc. Natl Acad. Sci. USA 1995, 92:10836-10840.
59. Wood W.B. The Nematode Caenorhabditis Elegans 1988, Cold Spring Harbor Laboratory Press, New York, pp. 587-606.
60. Wu Y.C., Horvitz H.R. The C. elegans cell corpse engulfment gene ced-7 encodes a protein similar to ABC transporters. Cell 1998, 93:951-960.
61. Wu Y.C., Stanfield G.M., Horvitz H.R. NUC-1, a Caenorhabditis elegans DNase II homolog, functions in an intermediate step of DNA degradation during apoptosis. Genes Dev. 2000, 14:536-548.
62. Wyllie A.H. Glucocorticoid-induced thymocyte apoptosis is associated with endogenous endonuclease activation. Nature 1980, 284:555-556.
63. Xue D., Horvitz H.R. Inhibition of the Caenorhabditis elegans cell-death protease CED-3 by a CED-3 cleavage site in baculovirus p35 protein. Nature 1995, 377:248-251.
64. Xue D., Shaham S., Horvitz H.R. The Caenorhabditis elegans cell-death protein CED-3 is a cysteine protease with substrate specificities similar to those of the human CPP32 protease. Genes Dev. 1996, 10:1073-1083.
65. Xue D., Horvitz H.R. Caenorhabditis elegans CED-9 protein is a bifunctional cell-death inhibitor. Nature 1997, 390:305-308.