Characterization of in vivo developmental chromosome fragmentation intermediates in E. crassus

Molecular Cell

Volumn 4, Issue 5, 1999, Pages 695-704

  Klobutcher, Lawrence A ^a  

^a UNIVERSITY OF CONNECTICUT HEALTH CENTER   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

DNA FRAGMENT;

ARTICLE; CHROMOSOME ANALYSIS; CHROMOSOME BREAKAGE; DINUCLEOTIDE REPEAT; DNA SEQUENCE; NONHUMAN; POLYMENOPHOREA; POLYMERASE CHAIN REACTION; RETROPOSON; TELOMERE;

EID: 0033231612     PISSN: 10972765     EISSN: None     Source Type: Journal    
DOI: 10.1016/S1097-2765(00)80380-9     Document Type: Article

References (42)

1. Ausubel, F.M., Brent, R., Kingston, R.E., Moore, D.D., Seidman, J.G., Smith, J.A., and Struhl, K. (1999). Current Protocols in Molecular Biology (New York: John Wiley and Sons, Inc.).
2. Baird, S.E., and Klobutcher, L.A. (1989). Characterization of chromosome fragmentation in two protozoans and identification of a candidate fragmentation sequence in Euplotes crassus. Genes Dev. 3, 585-597.
3. Baird, S.E., Fino, G.M., Tausta, S.L., and Klobutcher, L.A. (1989). Micronuclear genome organization in Euplotes crassus: a transposonlike element is removed during macronuclear development. Mol. Cell. Biol. 9, 3793-3807.
4. Barany, F. (1991). Genetic disease detection and DNA amplification using cloned thermostable ligase. Proc. Natl. Acad. Sci. USA 88, 189-193.
5. Bednenko, J., Melek, M., Greene, E.C., and Shippen, D.E. (1997). Developmentally regulated initiation of DNA synthesis by telomerase: evidence for factor-assisted de novo telomere formation. EMBO J. 16, 2507-2518.
6. Blackburn, E.H. (1995). Developmentally programmed healing of chromosomes. In Telomeres, E.H. Blackburn and C. W. Greider, eds. (Cold Spring Harbor, NY: Cold Spring Harbor Laboratory Press), pp. 193-218.
7. Blackburn, E.H., and Greider, C.W. (1995). Telomeres (Cold Spring Harbor, NY: Cold Spring Harbor Laboratory Press), pp. 396.
8. Collins, K., and Greider, C.W. (1993). Tetrahymena telomerase catalyzes nucleolytic cleavage and nonprocessive elongation. Genes Dev. 1, 1364-1376.
9. Coyne, R.S., Chalker, D.L., and Yao, M.-C. (1996). Genome downsizing during ciliate development: nuclear division of labor through chromosome restructuring. Annu. Rev. Genet. 30, 557-578.
10. Eickbush, T.H. (1997). Telomerase and retrotransposons: which came first? Science 277, 911-912.
11. Fan, X., and Price, C.M. (1997). Coordinate regulation of G-and C-strand length during new telomere synthesis. Mol. Biol. Cell 8, 2145-2155.
12. Frels, J.S., and Jahn, C.L. (1995). DNA rearrangements in Euplotes crassus coincide with discrete periods of DNA replication during the polytene chromosome stage of macronuclear development. Mol. Cell. Biol. 15, 6488-6495.
13. Greider, C.W. (1995). Telomerase biochemistry and regulation. In Telomeres, E.H. Blackburn and C. W. Greider, eds. (Cold Spring Harbor, NY: Cold Spring Harbor Laboratory Press), pp. 35-68.
14. Greider, C.W., and Blackburn, E.H. (1989). A telomeric sequence in the RNA of Tetrahymena telomerase required for telomere repeat synthesis. Nature 337, 331-337.
15. Herrick, G. (1994). Germline-soma relationships in ciliated protozoa: the inception and evolution of nuclear dimorhism in one-celled animals. Semin. Dev. Biol. 5, 3-12.
16. Jacobs, M.E., and Klobutcher, L.A. (1996). The long and the short of developmental DNA deletion in Euplotes crassus. J. Eukaryot. Microbiol. 43, 442-452.
17. Jonsson, F., Wen, J.P., Fetzer, C.P., and Lipps, H.J. (1999). A subtelomeric sequence is required for correct processing of the macronuclear DNA sequences during macronuclear development in the hypotrichous ciliate Stylonychia lemnae. Nucleic Acids Res. 27, 2832-2841.
18. Klobutcher, L.A., Gygax, S.E., Podoloff, J.D., Vermeesch, J.R., Price, C.M., Tebeau, C.M., and Jahn, C.L. (1998). Conserved DNA sequences adjacent to chromosome fragmentation sites in Euplotes crassus. Nucleic Acids Res. 26, 4230-4240.
19. Knoll, A.H. (1992). The early evolution of eukaryotes: a geological perspective. Science 256, 622-627.
20. Maercker, C., and Lipps, H.J. (1993). Analysis of the subtelomeric regions of macronuclear gene-sized DNA molecules of the hypotrichous ciliate Stylonychia lemnae: implications for the fragmentation process during macronuclear development? Dev. Genet. 14, 378-384.
21. McClintock, B. (1941). The stability of broken ends of chromosomes in Zea mays. Genetics 26, 234-282.
22. Melek, M., Greene, E.C., and Shippen, D.E. (1996). Processing of nontelomeric 3′ ends by telomerase: default template alignment and endonucleolytic cleavage. Mol. Cell. Biol. 16, 3437-3445.
23. Mueller, P.R., and Wold, B. (1991). Ligation-mediated PCR: applications to genomic footpronting. PCR Methods 2, 20-31.
24. Muller, F., Wicky, A., Spicher, A., and Tobler, H. (1991). Newtelomere formation after developmentally regulated chromosomal breakage during the process of chromatin diminution in Ascaris lumbricoides. Cell 67, 815-822.
25. Nakamura, T.M., Morin, G.B., Chapman, K.B., Weinrich, S.L., Andrews, W.H., Lingner, J., Harley, C.B., and Cech, T.R. (1997). Telomerase catalytic subunit homologs from fission yeast and human. Science 277, 955-959.
26. Orias, E. (1991). Evolution of amitosis of the ciliate macronucleus: gain of the capacity to divide. J. Protozool. 38, 217-221.
27. Pheiffer, B.H., and Zimmerman, S.B. (1983). Polymer-stimulated ligation: enhanced blunt-or cohesive-end ligation of DNA or deoxyribooligonucleotides by T4 DNA ligase in polymer solutions. Nucleic Acids Res. 11, 7853-7871.
28. Prescott, D.M. (1994). The DNA of ciliated protozoa. Microbiol. Rev. 58, 233-267.
29. Qian, L, and Wilkinson, M. (1991). DNA fragment purification. Biotechniques 10, 736-737.
30. Roberts, R.J., and Macelis, D. (1999). REBASE-restriction enzymes and methylases. Nucleic Acids Res. 27, 312-313.
31. Roth, M., and Prescott, D.M. (1985). DNA intermediates and telomere addition during genome reorganization in Euplotes crassus. Cell 41, 411-417.
32. Roth, M., Lin, M., and Prescott, D.M. (1985). Large scale synchronous mating and the study of macronuclear development in Euplotes crassus. J. Cell Biol. 101, 79-84.
33. Roth, D.B., Zhu, C., and Gellert, M. (1993). Characterization of broken DNA molecules associated with V(D)J recombination. Proc. Natl. Acad. Sci. USA 90, 10788-10792.
34. Saveliev, S.V., and Cox, M.M. (1995). Transient DNA breaks associated with programmed genomic deletion events in conjugating cells of Tetrahymena thermophila. Genes Dev. 9, 248-255.
35. Saveliev, S.V., and Cox, M.M. (1996). Developmentally programmed DNA deletion in Tetrahymena thermophila by a transposon-like reaction pathway. EMBO J. 15, 2858-2869.
36. Tausta, S.L., and Klobutcher, L.A. (1990). Internal eliminated sequences are removed prior to chromosome fragmentation during development in Euplotes crassus. Nucleic Acids Res. 18, 845-853.
37. Vermeesch, J.R., and Price, C.M. (1993). Telomeric DNA sequence and structure following de novotelomere synthesis in Euplotes crassus. Mol. Cell. Biol. 14, 554-566.
38. Vermeesch, J.R., Williams, D., and Price, C.M. (1993). Telomere processing in Euplotes. Nucleic Acids Res. 21, 5366-5371.
39. Wang, H., and Blackburn, E.H. (1997). De novo telomere addition by Tetrahymena telomerase in vitro. EMBO J. 16, 866-879.
40. Wright, A.-D.G. (1993). Phylogenetic relationships within the oligohymenophorea (ciliophora) inferred from 18S ribosomal RNA sequences. Ph.D. thesis, University of Guelph, Guelph, Ontario, Canada.
41. Yang, J., and Eickbush, T.H. (1998). RNA-induced changes in the activity of the endonuclease encoded by the R2 retrotransposable element. Mol. Cell. Biol. 18, 3455-3465.
42. Yu, G.L., and Blackburn, E.H. (1991). Developmentally programmed healing of chromosomes by telomerase in Tetrahymena. Cell 67, 823-832.