Internal eliminated sequences interrupting the Oxytricha 81 locus: Allelic divergence, conservation, conversions, and possible transposon origins

Molecular Biology and Evolution

Volumn 13, Issue 10, 1996, Pages 1351-1362

  Seegmiller, Adam ^a   Williams, Kevin R ^a   Hammersmith, Robert L ^b   Doak, Thomas G ^a   Witherspoon, David ^a   Messick, Troy ^a,c   Storjohann, Laura L ^a,d   Herrick, Glenn ^a  

^a UNIVERSITY OF UTAH SCHOOL OF MEDICINE   (United States)

^b BALL STATE UNIVERSITY   (United States)

^c Howard Hughes Medical Institute Cold Spring Harbor Laboratory Cold Spring Harbor   (United States)

^d NPS Pharmaceutical Inc   (United States)

Author keywords

ciliated protozoa; gene conversion; IESs; intron; TA IES; transposon TBEI

Indexed keywords

CELL DNA;

ALLELE; ARTICLE; CILIATE; CONSENSUS SEQUENCE; DNA SEQUENCE; DNA STRAND BREAKAGE; DNA TRANSPOSITION; EVOLUTION; GENE CONVERSION; GENE LOCUS; GENETIC CONSERVATION; MACRONUCLEUS; NONHUMAN; NUCLEOTIDE REPEAT; NUCLEOTIDE SEQUENCE; PHYLOGENY; POLYMERASE CHAIN REACTION; TRANSPOSON;

CILIOPHORA; FALLAX; MYXOZOA; OXYTRICHA; OXYTRICHA FALLAX; PARAMECIUM; PROTOZOA; STERKIELLA HISTRIOMUSCORUM;

EID: 0029857126     PISSN: 07374038     EISSN: None     Source Type: Journal    
DOI: 10.1093/oxfordjournals.molbev.a025581     Document Type: Article

References (30)

1. BIERBAUM, P., T. DONHOFF, and A. KLEIN. 1991. Macronuclear and micronuclear configurations of a gene encoding the protein synthesis elongation factor EF 1α in Stylonychia lemnae. Mol. Microbiol. 5:1567-1575.
2. CARTINHOUR, S., and G. HERRICK. 1984. Three different macronuclear DNAs in Oxytricha fallax share a common sequence block. Mol. Cell. Biol. 4:931-938.
3. DAVIS, M. C., J. G. WARD, G. HERRICK, and C. D. ALLIS. 1992. Programmed nuclear death: apoptotic-like degradation of specific nuclei in conjugating Tetrahymena. Dev. Biol. 154:419-432.
4. DAWSON, D., and G. HERRICK. 1982. Micronuclear DNA sequences of Oxytricha fallax homologous to the macronuclear inverted terminal repeat. Nucleic Acids Res. 10:2911-2924.
5. DOAK, T. G., F. P. DOERDER, C. JAHN, and G. HERRICK. 1994. A family of transposases genes in transposons found in prokaryotes, multicellular eukaryotes and ciliated protozoans. Proc. Natl. Acad. Sci. USA 91:942-946.
6. ENGELS, W. R., D. M. JOHNSON-SCHLITZ, W. B. EGGLESTON, and J. SVED. 1990. High-frequency P element loss in Drosophila is homolog dependent. Cell 62:515-525.
7. FELSENSTEIN, J. 1989. PHYLIP - phylogeny inference package. Cladistics 5:164-166.
8. GODISKA, R., C. JAMES, M.-C. YAO. 1993. A distant 10-bp sequence specifies the boundaries of a programmed DNA deletion in Tetrahymena. Genes Dev. 7:2357-2365.
9. HERRICK. G. 1994. Germline-soma relationships in ciliated protozoa: the inception and evolution of nuclear dimorphism in one-celled animals. Semin. Dev. Biol. 5:3-12.
10. 4 telomeric repeats in Oxytricha fallax. Cell 43:759-768.
11. HERRICK, G., S. W. CARTINHOUR, K. R. WILLIAMS, and K. P. KOTTER. 1987a. Multiple sequence versions of the Oxytricha fallax 81-MAC alternate processing family. J. Protozool. 34:429-434.
12. HERRICK, G., D. HUNTER, K. WILLIAMS, and K. KOTTER. 1987b. Alternative processing during development of a macronuclear chromosome family in Oxytricha fallax. Genes Dev. 1:1047-1058.
13. HUNTER, D. J., K. WILLIAMS, S. CARTINHOUR, and G. HERRICK. 1989. Precise excision of telomere-bearing transposons during macronuclear development in Oxytricha fallax. Genes Dev. 3:2101-2112.
14. JARACZEWSKI, J. W., and C. L. JAHN. 1993. Elimination of Tec elements involves a novel excision process. Genes Dev. 7: 95-105.
15. KLOBUTCHER, L. A., and G. HERRICK. 1995. Consensus inverted terminal repeat sequence of Paramecium IESs: resemblance to termini of Tc1-related and Euplotes Tec transposons. Nucleic Acids Res. 23:2006-2013.
16. _. 1996. Developmental genome reorganization in ciliated protozoa: the transposon link. Prog. Nucleic Acid Res. Mol. Biol. 56.
17. KLOBUTCHER, L. A., M. E. HUFF, and G. E. GONYE. 1988. Alternative use of chromosome fragmentation sites in the ciliated protozoan Oxytricha nova. Nucleic Acids Res. 16: 251-264.
18. KLOBUTCHER, L. A., and C. L. JAHN. 1991. Developmentally controlled genomic rearrangements in ciliated protozoa. Curr. Opin. Genet. Dev. 1:397-403.
19. KLOBUTCHER, L. A., C. L. JAHN, and D. M. PRESCOTT. 1984. Internal sequences are eliminated from genes during macronuclear development in the ciliated protozoan Oxytricha nova. Cell 36:1045-1055.
20. KLOBUTCHER, L. A., L. R. TURNER, and J. LAPLANTE. 1993. Circular forms of developmentally excised DNA in Euplotes crassus have heteroduplex junction. Genes Dev. 7:84-94.
21. LI, W.-H., and D. GRAUR. 1991. Fundamentals of molecular evolution. Sinauer, Sunderland, Mass.
22. MADDISON, W. P., and D. R. MADDISON. 1992. MacClade. Version 3. Sinauer, Sunderland, Mass.
23. MATTICK, J. S. 1994. Introns: evolution and function. Curr. Opin. Genet. Dev. 4:823-831.
24. NEI, M., and T. GOJOBORI. 1986. Simple methods for estimating the numbers of synonymous and nonsynonymous nucleotide substitutions. Mol. Biol. Evol. 3:418-426.
25. PRESCOTT, D. M. 1994. The DNA of ciliated protozoa. Microbiol. Rev. 58:233-267.
26. RIBAS-APARICIO, R. M., J. J. SPARKOWSKI, A. E. PROULX, J. D. MITCHELL, and L. A. KLOBUTCHER. 1987. Nucleic acid splicing events occur frequently during macronuclear development in the protozoan Oxytricha nova and involve the elimination of unique DNA. Genes Dev. 1:323-336.
27. SWOFFORD, D. L. 1991. PAUP: phylogenetic analysis using parsimony. Version 3.1. Illinois Natural History Survey, Champaign, Ill.
28. SZOSTAK, J. W., T. L. ORR-WEAVER, and R. J. ROTHSTEIN. 1983. The double-strand-break repair model for recombination. Cell 33:25-35.
29. WILLIAMS, K., T. G. DOAK, and G. HERRICK. 1993. Precise excision of Oxytricha trifallax telomere-bearing elements and formation of circles closed by a copy of the flanking target duplication. EMBO J. 12:4593-4601.
30. WILLIAMS, K. R., and G. HERRICK. 1991. Expression of the gene encoded by a family of macronuclear chromosomes generated by alternative DNA processing in Oxytricha fallax. Nucleic Acids Res. 19:4717-4724.