Abstract
Transcripts of both mitochondrial and nuclear DNA replication genes accumulate periodically during the cell cycle in Crithidia fasciculata. An octameric consensus sequence with a conserved hexameric core was found previously to be required for cycling of the TOP2 transcript, encoding the mitochondrial DNA topoisomerase. We show here that the rate of synthesis of the p51 protein, the large subunit of nuclear replication protein-A encoded by the RPA1 gene, varies during the cell cycle in parallel with RPA1 mRNA level. Plasmids expressing a truncated form of RPA1 (Delta RPA1 ) were used to identify cis elements required for cycling of the Delta RPA1 transcript. Sequences within the RPA1 5'-untranslated region (UTR) were found to be necessary for cycling of the Delta RPA1 transcript. These sequences also function when transposed 3'of the Delta RPA1 coding sequence. A 121 bp fragment of this sequence can confer cycling on a heterologous transcript, but is inactivated when two consensus octamers within the sequence are mutated. Mutation of these two octamers in the full-length 5'-UTR ofDelta RPA1 is insufficient to abolish cycling of the mRNA unless three additional octamers having single base changes within the hexameric core are also mutated. Thus, common octameric sequence elements are involved in periodic accumulation of both the TOP2 and RPA1 transcripts.
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- Agabian N. Trans splicing of nuclear pre-mRNAs. Cell. 1990 Jun 29;61(7):1157–1160. doi: 10.1016/0092-8674(90)90674-4. [DOI] [PubMed] [Google Scholar]
- Aiyar A., Leis J. Modification of the megaprimer method of PCR mutagenesis: improved amplification of the final product. Biotechniques. 1993 Mar;14(3):366–369. [PubMed] [Google Scholar]
- Bogenhagen D., Clayton D. A. Mouse L cell mitochondrial DNA molecules are selected randomly for replication throughout the cell cycle. Cell. 1977 Aug;11(4):719–727. doi: 10.1016/0092-8674(77)90286-0. [DOI] [PubMed] [Google Scholar]
- Bonen L. Trans-splicing of pre-mRNA in plants, animals, and protists. FASEB J. 1993 Jan;7(1):40–46. doi: 10.1096/fasebj.7.1.8422973. [DOI] [PubMed] [Google Scholar]
- Brown G. W., Hines J. C., Fisher P., Ray D. S. Isolation of the genes encoding the 51-kilodalton and 28-kilodalton subunits of Crithidia fasciculata replication protein A. Mol Biochem Parasitol. 1994 Jan;63(1):135–142. doi: 10.1016/0166-6851(94)90016-7. [DOI] [PubMed] [Google Scholar]
- Brown G. W., Melendy T. E., Ray D. S. Conservation of structure and function of DNA replication protein A in the trypanosomatid Crithidia fasciculata. Proc Natl Acad Sci U S A. 1992 Nov 1;89(21):10227–10231. doi: 10.1073/pnas.89.21.10227. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Brown G. W., Ray D. S. Purification and characterization of DNA ligase I from the trypanosomatid Crithidia fasciculata. Nucleic Acids Res. 1992 Aug 11;20(15):3905–3910. doi: 10.1093/nar/20.15.3905. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Campbell A. G., Ray D. S. Functional complementation of an Escherichia coli ribonuclease H mutation by a cloned genomic fragment from the trypanosomatid Crithidia fasciculata. Proc Natl Acad Sci U S A. 1993 Oct 15;90(20):9350–9354. doi: 10.1073/pnas.90.20.9350. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Clayton C. Developmental regulation of nuclear gene expression in Trypanosoma brucei. Prog Nucleic Acid Res Mol Biol. 1992;43:37–66. doi: 10.1016/s0079-6603(08)61043-0. [DOI] [PubMed] [Google Scholar]
- Collins K. L., Kelly T. J. Effects of T antigen and replication protein A on the initiation of DNA synthesis by DNA polymerase alpha-primase. Mol Cell Biol. 1991 Apr;11(4):2108–2115. doi: 10.1128/mcb.11.4.2108. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Cosgrove W. B., Skeen M. J. The cell cycle in Crithidia fasciculata. Temporal relationships between synthesis of deoxyribonucleic acid in the nucleus and in the kinetoplast. J Protozool. 1970 May;17(2):172–177. doi: 10.1111/j.1550-7408.1970.tb02350.x. [DOI] [PubMed] [Google Scholar]
- Cruz A., Coburn C. M., Beverley S. M. Double targeted gene replacement for creating null mutants. Proc Natl Acad Sci U S A. 1991 Aug 15;88(16):7170–7174. doi: 10.1073/pnas.88.16.7170. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Englund P. T. The replication of kinetoplast DNA networks in Crithidia fasciculata. Cell. 1978 May;14(1):157–168. doi: 10.1016/0092-8674(78)90310-0. [DOI] [PubMed] [Google Scholar]
- Fairman M. P., Stillman B. Cellular factors required for multiple stages of SV40 DNA replication in vitro. EMBO J. 1988 Apr;7(4):1211–1218. doi: 10.1002/j.1460-2075.1988.tb02933.x. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Ferguson M., Torri A. F., Ward D. C., Englund P. T. In situ hybridization to the Crithidia fasciculata kinetoplast reveals two antipodal sites involved in kinetoplast DNA replication. Cell. 1992 Aug 21;70(4):621–629. doi: 10.1016/0092-8674(92)90431-b. [DOI] [PubMed] [Google Scholar]
- Goswami P. C., Roti Roti J. L., Hunt C. R. The cell cycle-coupled expression of topoisomerase IIalpha during S phase is regulated by mRNA stability and is disrupted by heat shock or ionizing radiation. Mol Cell Biol. 1996 Apr;16(4):1500–1508. doi: 10.1128/mcb.16.4.1500. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Guttes E. W., Hanawalt P. C., Guttes S. Mitochondrial DNA synthesis and the mitotic cycle in Physarum polycephalum. Biochim Biophys Acta. 1967 Jun 20;142(1):181–194. doi: 10.1016/0005-2787(67)90526-6. [DOI] [PubMed] [Google Scholar]
- Hajduk S. L., Klein V. A., Englund P. T. Replication of kinetoplast DNA maxicircles. Cell. 1984 Feb;36(2):483–492. doi: 10.1016/0092-8674(84)90241-1. [DOI] [PubMed] [Google Scholar]
- Holmes A. M., Cheriathundam E., Kalinski A., Chang L. M. Isolation and partial characterization of DNA polymerases from Crithidia fasciculata. Mol Biochem Parasitol. 1984 Feb;10(2):195–205. doi: 10.1016/0166-6851(84)90007-0. [DOI] [PubMed] [Google Scholar]
- Horton R. M., Hunt H. D., Ho S. N., Pullen J. K., Pease L. R. Engineering hybrid genes without the use of restriction enzymes: gene splicing by overlap extension. Gene. 1989 Apr 15;77(1):61–68. doi: 10.1016/0378-1119(89)90359-4. [DOI] [PubMed] [Google Scholar]
- Huang J., Van der Ploeg L. H. Requirement of a polypyrimidine tract for trans-splicing in trypanosomes: discriminating the PARP promoter from the immediately adjacent 3' splice acceptor site. EMBO J. 1991 Dec;10(12):3877–3885. doi: 10.1002/j.1460-2075.1991.tb04957.x. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Hughes D. E., Shonekan O. A., Simpson L. Structure, genomic organization and transcription of the bifunctional dihydrofolate reductase-thymidylate synthase gene from Crithidia fasciculata. Mol Biochem Parasitol. 1989 May 1;34(2):155–166. doi: 10.1016/0166-6851(89)90007-8. [DOI] [PubMed] [Google Scholar]
- Johnson P. J., Kooter J. M., Borst P. Inactivation of transcription by UV irradiation of T. brucei provides evidence for a multicistronic transcription unit including a VSG gene. Cell. 1987 Oct 23;51(2):273–281. doi: 10.1016/0092-8674(87)90154-1. [DOI] [PubMed] [Google Scholar]
- KIDDER G. W., DUTTA B. N. The growth and nutrition of Crithidia fasciculata. J Gen Microbiol. 1958 Jun;18(3):621–638. doi: 10.1099/00221287-18-3-621. [DOI] [PubMed] [Google Scholar]
- Ke Y., Ash J., Johnson L. F. Splicing signals are required for S-phase regulation of the mouse thymidylate synthase gene. Mol Cell Biol. 1996 Jan;16(1):376–383. doi: 10.1128/mcb.16.1.376. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Kenny M. K., Schlegel U., Furneaux H., Hurwitz J. The role of human single-stranded DNA binding protein and its individual subunits in simian virus 40 DNA replication. J Biol Chem. 1990 May 5;265(13):7693–7700. [PubMed] [Google Scholar]
- LeBowitz J. H., Smith H. Q., Rusche L., Beverley S. M. Coupling of poly(A) site selection and trans-splicing in Leishmania. Genes Dev. 1993 Jun;7(6):996–1007. doi: 10.1101/gad.7.6.996. [DOI] [PubMed] [Google Scholar]
- Matthews K. R., Tschudi C., Ullu E. A common pyrimidine-rich motif governs trans-splicing and polyadenylation of tubulin polycistronic pre-mRNA in trypanosomes. Genes Dev. 1994 Feb 15;8(4):491–501. doi: 10.1101/gad.8.4.491. [DOI] [PubMed] [Google Scholar]
- McIntosh E. M. MCB elements and the regulation of DNA replication genes in yeast. Curr Genet. 1993 Sep;24(3):185–192. doi: 10.1007/BF00351790. [DOI] [PubMed] [Google Scholar]
- Melendy T., Ray D. S. Novobiocin affinity purification of a mitochondrial type II topoisomerase from the trypanosomatid Crithidia fasciculata. J Biol Chem. 1989 Jan 25;264(3):1870–1876. [PubMed] [Google Scholar]
- Melendy T., Ray D. S. Purification and nuclear localization of a type I topoisomerase from Crithidia fasciculata. Mol Biochem Parasitol. 1987 Jun;24(2):215–225. doi: 10.1016/0166-6851(87)90108-3. [DOI] [PubMed] [Google Scholar]
- Melendy T., Sheline C., Ray D. S. Localization of a type II DNA topoisomerase to two sites at the periphery of the kinetoplast DNA of Crithidia fasciculata. Cell. 1988 Dec 23;55(6):1083–1088. doi: 10.1016/0092-8674(88)90252-8. [DOI] [PubMed] [Google Scholar]
- Pasion S. G., Brown G. W., Brown L. M., Ray D. S. Periodic expression of nuclear and mitochondrial DNA replication genes during the trypanosomatid cell cycle. J Cell Sci. 1994 Dec;107(Pt 12):3515–3520. doi: 10.1242/jcs.107.12.3515. [DOI] [PubMed] [Google Scholar]
- Pasion S. G., Hines J. C., Aebersold R., Ray D. S. Molecular cloning and expression of the gene encoding the kinetoplast-associated type II DNA topoisomerase of Crithidia fasciculata. Mol Biochem Parasitol. 1992 Jan;50(1):57–67. doi: 10.1016/0166-6851(92)90244-e. [DOI] [PubMed] [Google Scholar]
- Pasion S. G., Hines J. C., Ou X., Mahmood R., Ray D. S. Sequences within the 5' untranslated region regulate the levels of a kinetoplast DNA topoisomerase mRNA during the cell cycle. Mol Cell Biol. 1996 Dec;16(12):6724–6735. doi: 10.1128/mcb.16.12.6724. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Pérez-Morga D. L., Englund P. T. The attachment of minicircles to kinetoplast DNA networks during replication. Cell. 1993 Aug 27;74(4):703–711. doi: 10.1016/0092-8674(93)90517-t. [DOI] [PubMed] [Google Scholar]
- Ross J. Control of messenger RNA stability in higher eukaryotes. Trends Genet. 1996 May;12(5):171–175. doi: 10.1016/0168-9525(96)10016-0. [DOI] [PubMed] [Google Scholar]
- Shapiro T. A., Englund P. T. The structure and replication of kinetoplast DNA. Annu Rev Microbiol. 1995;49:117–143. doi: 10.1146/annurev.mi.49.100195.001001. [DOI] [PubMed] [Google Scholar]
- Simpson L., Braly P. Synchronization of Leishmania tarentolae by hydroxyurea. J Protozool. 1970 Nov;17(4):511–517. doi: 10.1111/j.1550-7408.1970.tb04719.x. [DOI] [PubMed] [Google Scholar]
- Torri A. F., Kunkel T. A., Englund P. T. A beta-like DNA polymerase from the mitochondrion of the trypanosomatid Crithidia fasciculata. J Biol Chem. 1994 Mar 18;269(11):8165–8171. [PubMed] [Google Scholar]
- Tschudi C., Ullu E. Destruction of U2, U4, or U6 small nuclear RNA blocks trans splicing in trypanosome cells. Cell. 1990 May 4;61(3):459–466. doi: 10.1016/0092-8674(90)90527-l. [DOI] [PubMed] [Google Scholar]
- Tsurimoto T., Fairman M. P., Stillman B. Simian virus 40 DNA replication in vitro: identification of multiple stages of initiation. Mol Cell Biol. 1989 Sep;9(9):3839–3849. doi: 10.1128/mcb.9.9.3839. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Vonwirth H., Köck J., Büsen W. Class I and class II ribonuclease H activities in Crithidia fasciculata (Protozoa). Experientia. 1991 Jan 15;47(1):92–95. doi: 10.1007/BF02041264. [DOI] [PubMed] [Google Scholar]
- Welch P. J., Wang J. Y. Coordinated synthesis and degradation of cdc2 in the mammalian cell cycle. Proc Natl Acad Sci U S A. 1992 Apr 1;89(7):3093–3097. doi: 10.1073/pnas.89.7.3093. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Williamson D. H., Moustacchi E. The synthesis of mitochondrial DNA during the cell cycle in the yeast Saccharomyces cerevisiae. Biochem Biophys Res Commun. 1971 Jan 22;42(2):195–201. doi: 10.1016/0006-291x(71)90087-8. [DOI] [PubMed] [Google Scholar]
- Wobbe C. R., Weissbach L., Borowiec J. A., Dean F. B., Murakami Y., Bullock P., Hurwitz J. Replication of simian virus 40 origin-containing DNA in vitro with purified proteins. Proc Natl Acad Sci U S A. 1987 Apr;84(7):1834–1838. doi: 10.1073/pnas.84.7.1834. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Wold M. S., Kelly T. Purification and characterization of replication protein A, a cellular protein required for in vitro replication of simian virus 40 DNA. Proc Natl Acad Sci U S A. 1988 Apr;85(8):2523–2527. doi: 10.1073/pnas.85.8.2523. [DOI] [PMC free article] [PubMed] [Google Scholar]
