Flanking regulatory sequences of the Tetrahymena R deletion element determine the boundaries of DNA rearrangement

Molecular and Cellular Biology

Volumn 19, Issue 8, 1999, Pages 5631-5641

  Chalker, Douglas L ^a   La Terza, Antonietta ^a,b   Wilson, Allison ^a   Kroenke, Christopher D ^a,c   Yao, Meng Chao ^a  

^a Fred Hutchinson Cancer Research Center   (United States)

^b UNIVERSITY OF CAMERINO   (Italy)

^c Och Spine at New York Presbyterian Hospitals   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

DNA; OLIGONUCLEOTIDE;

ARTICLE; CONTROLLED STUDY; DNA FLANKING REGION; GENE CONSTRUCT; GENE CONTROL; GENE DELETION; GENE LOCUS; GENE MUTATION; GENE REARRANGEMENT; GENE SEQUENCE; GENETIC ORGANIZATION; NONHUMAN; NUCLEIC ACID BASE SUBSTITUTION; PRIORITY JOURNAL; REGULATOR GENE; TETRAHYMENA THERMOPHILA;

CILIOPHORA; INVERTEBRATA; PROTOZOA; TETRAHYMENA; TETRAHYMENA THERMOPHILA;

EID: 0032778872     PISSN: 02707306     EISSN: None     Source Type: Journal    
DOI: 10.1128/mcb.19.8.5631     Document Type: Article

References (50)

1. Altschuler, M. I., and M. C. Yao. 1985. Macronuclear DNA of Tetrahymena thermophila exists as defined subchromosomal-sized molecules. Nucleic Acids Res. 13:5817-5831.
2. Austerberry, C. F., C. D. Allis, and M. C. Yao. 1984. Specific DNA rearrangements in synchronously developing nuclei of Tetrahymena. Proc. Natl. Acad. Sci. USA 81:7383-7387.
3. Austerberry, C. F., R. O. Snyder, and M. C. Yao. 1989. Sequence microheterogeneity is generated at junctions of programmed DNA deletions in Tetrahymena thermophila. Nucleic Acids Res. 17:7263-7272.
4. Austerberry, C. F., and M. C. Yao. 1987. Nucleotide sequence structure and consistency of a developmentally regulated DNA deletion in Tetrahymena themophila. Mol. Cell. Biol. 7:435-443.
5. Austerberry, C. F., and M. C. Yao. 1988. Sequence structures of two developmentally regulated, alternative DNA deletion junctions in Tetrahymena thermophila. Mol. Cell. Biol. 8:3947-3950.
6. Beerman, S. 1977. The diminution of heterochromatic chromosomal segments in Cyclops (Crustacea, Copepoda). Chromosoma 60:297-344.
7. Boveri, T. 1887. Uber Differenzierung der Zellkerne wahrend der Furchung des Eies von Ascaris megalocephala. Anat. Anz. 2:688-693.
8. Bruns, P. J., A. L., Katzen, L. Martin, and E. H. Blackburn. 1985. A drug resistant mutation maps in the ribosomal DNA of Tetrahymena. Proc. Natl. Acad. Sci. USA 82:2844-2846.
9. Cassidy-Hanley, D., M. C. Yao, and P. J. Bruns. 1994. A method for mapping germ line sequences in Tetrahymena thermophila using the polymerase chain reaction. Genetics 137:95-106.
10. Chalker, D. L., J. G. Ward, C. Randolph, and M.-C. Yao. 1999. Microinjection of Tetrahymena thermophila. Methods Cell Biol. 62:469-484.
11. Chalker, D. L., and M.-C. Yao. 1996. Non-Mendelian, heritable blocks to DNA rearrangement are induced by loading the somatic nucleus of Tetrahymena thermophila with germ line-limited DNA. Mol. Cell. Biol. 16:3658-3667.
12. Chau, M.-F., and E. Orias. 1996. Developmentally programmed DNA rearrangement in Tetrahymena thermophila: isolation and sequence characterization of three new alternative deletion systems. Biol. Cell 86:111-120.
13. Conover, R. K., and C. F. Brunk. 1986. Macronuclear DNA molecules of Tetrahymena thermophila. Mol. Cell. Biol. 6:900-905.
14. Coyne, R. S., D. L. Chalker, and M.-C. Yao. 1996. Genome downsizing during ciliate development: nuclear division of labor through chromosome restructuring. Annu. Rev. Genet. 30:557-578.
15. Doak, T. G., F. P. Doerder, C. L. Jahn, and G. Herrick. 1994. A proposed superfamily of transposase genes: transposon-like elements in ciliated protozoa and a common D35E motif. Proc. Natl. Acad. Sci. USA 91:942-946.
16. Feinberg, A. P., and B. Vogelstein. 1984. Addendum - a technique for radiolabeling DNA restriction endonuclease fragments to high specific activity. Anal. Biochem. 137:266-267.
17. Feinberg, A. P., and B. Vogelstein. 1983. A technique for radiolabeling DNA restriction endonuclease fragments to high specific activity. Anal. Biochem. 132:6-13.
18. Gaertig, J., and M. A. Gorovsky. 1992. Efficient mass transformation of Tetrahymena thermophila by electroporation of conjugants. Proc. Natl. Acad. Sci. USA 89:9196-9200.
19. Godiska, R., C. James, and M. C. Yao. 1993. A distant 10-bp sequence specifies the boundaries of a programmed DNA deletion in Tetrahymena. Genes Dev. 7:2357-2365.
20. Godiska, R., and M. C. Yao. 1990. A programmed site-specific DNA rearrangement in Tetrahymena thermophila requires flanking polypurine tracts. Cell 61:1237-1246.
21. Gorovsky, M. A., M. C. Yao, J. B. Keevert, and G. L. Pleger. 1975. Isolation of micro- and macronuclei of Tetrahymena pyriformis. Methods Cell Biol. 9:311-327.
22. Heinonen, T. Y., and R. E. Pearlman. 1994. A germ line-specific sequence element in an intron in Tetrahymena thermophila. J. Biol. Chem. 269:17428-17433.
23. Hiom, K., and M. Gellert. 1998. Assembly of a 12/23 paired signal complex: a critical control point in V(D)J recombination. Mol. Cell 1:1011-1019.
24. Jahn, C. L., S. Z. Doktor, J. S. Frels, J. W. Jaraczewski, and M. F. Krikau. 1993. Structures of the Euplotes crassus Tec1 and Tec2 elements: identification of putative transposase coding regions. Gene 133:71-78.
25. Katoh, M., M. Hirono, T. Takemasa, M. Kimura, and Y. Watanabe. 1993. A micronucleus-specific sequence exists in the 5′-upstream region of calmodulin gene in Tetrahymena thermophila. Nucleic Acids Res. 21:2409-2414.
26. Klobutcher, L. A., and G. Herrick. 1997. Developmental genome reorganization in ciliated protozoa: the transposon link. Prog. Nucleic Acid Res. Mol. Biol. 56:1-62.
27. Korsmeyer, S. J. 1992. Chromosomal translocations in lymphoid malignancies reveal novel proto-oncogenes. Annu. Rev. Immunol. 10:785-807.
28. Kubota, S., M. Kuro-O, S. Mizuno, and S. Kohno. 1993. Germ-line restricted, highly repeated DNA sequences and their chromosomal localization in a Japanese hagfish (Eptatretus okinoseanus). Chromosoma 102:163-173.
29. Li, J., and R. E. Pearlman. 1996. Programmed DNA rearrangement from an intron during nuclear development in Tetrahymena thermophila: molecular analysis and identification of potential cis-acting sequences. Nucleic Acids Res. 24:1943-1949.
30. Nakai, Y., S. Kubota, and S. Kohno. 1991. Chromatin diminution and chromosome elimination in four Japanese hagfish species. Cytogenet. Cell Genet. 65:196-198.
31. Patil, N. S., P. M. Hempen, R. A. Udani, and K. M. Karrer. 1997. Alternate junctions and microheterogeneity of Tlr1, a developmentally regulated DNA rearrangement in Tetrahymena thermophila. J. Eukaryot. Microbiol. 44:518-522.
32. Prescott, D. M. 1994. The DNA of ciliated protozoa. Microbiol. Rev. 58: 233-267.
33. Sambrook, J., E. T. Fritsch, and T. Maniatis. 1989. Molecular cloning: a laboratory manual, 2nd ed. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y.
34. Saveliev, S. V., and M. M. Cox. 1996. Developmentally programmed DNA deletion in Tetrahymena thermophila by a transposition-like reaction pathway. EMBO J. 15:2858-2869.
35. Saveliev, S. V., and M. M. Cox. 1995. Transient DNA breaks associated with programmed genomic deletion events in conjugating cells of Tetrahymena thermophila. Genes Dev. 9:248-255.
36. Schatz, D. G., M. A. Oettinger, and M. S. Schlissel. 1992. V(D)J recombination: molecular biology and regulation. Annu. Rev. Immunol. 10:359-383.
37. Seifert, H. S., E. Y. Chen, M. So, and F. Hefron. 1986. Shuttle mutagenesis: a method of transposon mutagenesis for Saccharomyces cerevisiae. Proc. Natl. Acad. Sci. USA 83:735-739.
38. Tondravi, M. M., and M. C. Yao. 1986. Transformation of Tetrahymena thermophila by microinjection of ribosomal RNA genes. Proc. Natl. Acad. Sci. USA 83:4369-4373.
39. Tycko, B., and J. Sklar. 1990. Chromosomal translocations in lymphoid neoplasia: a reappraisal of the recombinase model. Cancer Cells 2:1-8.
40. Wells, J. M., J. L. Ellingson, D. M. Catt, P. J. Berger, and K. M. Karrer. 1994. A small family of elements with long inverted repeats is located near sites of developmentally regulated DNA rearrangement in Tetrahymena thermophila. Mol. Cell. Biol. 14:5939-5949.
41. Yanisch-Perron, C., J. Vieira, and J. Messing. 1985. Improved M13 phage cloning vectors and host strains: nucleotide sequences of the M13mp18 and pUC19 vectors. Gene 33:103-119.
42. Yao, M.-C. 1982. Amplification of ribosomal RNA gene in Tetrahymena, p. 127-153. In H. Busch and L. Rothblum (ed.), The cell nucleus, vol. 12. Academic Press, Inc., New York, N.Y.
43. Yao, M.-C. 1996. Programmed DNA deletions in Tetrahymena: mechanisms and implications. Trends Genet. 12:26-30.
44. Yao, M.-C., R. Godiska, R. C. Callahan, and C.-H. Yao. Unpublished data.
45. Yao, M.-C., C.-H. Yao, and B. Monks. 1990. The controlling sequence for site-specific chromosome breakage in Tetrahymena. Cell 63:763-772.
46. Yao, M. C., J. Choi, S. Yokoyama, C. F. Austerberry, and C. H. Yao. 1984. DNA elimination in Tetrahymena: a developmental process involving extensive breakage and rejoining of DNA at defined sites. Cell 36:433-440.
47. Yao, M. C., and M. A. Gorovsky. 1974. Comparison of the sequences of macro- and micronuclear DNA of Tetrahymena pyriformis. Chromosoma 48:1-18.
48. Yao, M. C., A. R. Kimmel, and M. A. Gorovsky. 1974. A small number of cistrons for ribosomal RNA in the germinal nucleus of a eukaryote, Tetrahymena pyriformis. Proc. Natl. Acad. Sci. USA 71:3082-3086.
49. Yao, M. C., and C. H. Yao. 1989. Accurate processing and amplification of cloned germ line copies of ribosomal DNA injected into developing nuclei of Tetrahymena thermophila. Mol. Cell. Biol. 9:1092-1099.
50. Yao, M. C., K. Zheng, and C. H. Yao. 1987. A conserved nucleotide sequence at the sites of developmentally regulated chromosomal breakage in Tetrahymena. Cell 48:779-788.