Abstract
RNA editing, the processing that generates functional mRNAs in trypanosome mitochondria, involves cycles of protein catalyzed reactions that specifically insert or delete U residues. We recently reported purification from Trypanosoma brucei mitochondria of a complex showing seven major polypeptides which exhibits the enzymatic activities inferred in editing and that a pool of fractions of the complex catalyzed U deletion, the minor form of RNA editing in vivo . We now show that U insertion activity, the major form of RNA editing in vivo , chromatographically co-purifies with both U deletion activity and the protein complex. Furthermore, these editing activities co-sediment at approximately 20 S. U insertion does not require a larger, less characterized complex, as has been suggested and could have implied that the editing machinery would not function in a processive manner. We also show that U insertion is optimized at rather different and more exacting reaction conditions than U deletion. By markedly reducing ATP and carrier RNA and increasing UTP and carrier protein relative to standard editing conditions, U insertion activity of the purified fraction is enhanced approximately 100-fold.
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Selected References
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- Alfonzo J. D., Thiemann O., Simpson L. The mechanism of U insertion/deletion RNA editing in kinetoplastid mitochondria. Nucleic Acids Res. 1997 Oct 1;25(19):3751–3759. doi: 10.1093/nar/25.19.3751. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Arts G. J., Benne R. Mechanism and evolution of RNA editing in kinetoplastida. Biochim Biophys Acta. 1996 Jun 3;1307(1):39–54. doi: 10.1016/0167-4781(96)00021-8. [DOI] [PubMed] [Google Scholar]
- Blum B., Bakalara N., Simpson L. A model for RNA editing in kinetoplastid mitochondria: "guide" RNA molecules transcribed from maxicircle DNA provide the edited information. Cell. 1990 Jan 26;60(2):189–198. doi: 10.1016/0092-8674(90)90735-w. [DOI] [PubMed] [Google Scholar]
- Blum B., Sturm N. R., Simpson A. M., Simpson L. Chimeric gRNA-mRNA molecules with oligo(U) tails covalently linked at sites of RNA editing suggest that U addition occurs by transesterification. Cell. 1991 May 17;65(4):543–550. doi: 10.1016/0092-8674(91)90087-f. [DOI] [PubMed] [Google Scholar]
- Byrne E. M., Connell G. J., Simpson L. Guide RNA-directed uridine insertion RNA editing in vitro. EMBO J. 1996 Dec 2;15(23):6758–6765. [PMC free article] [PubMed] [Google Scholar]
- Cech T. R. RNA editing: world's smallest introns? Cell. 1991 Feb 22;64(4):667–669. doi: 10.1016/0092-8674(91)90494-j. [DOI] [PubMed] [Google Scholar]
- Connell G. J., Byrne E. M., Simpson L. Guide RNA-independent and guide RNA-dependent uridine insertion into cytochrome b mRNA in a mitochondrial lysate from Leishmania tarentolae. Role of RNA secondary structure. J Biol Chem. 1997 Feb 14;272(7):4212–4218. doi: 10.1074/jbc.272.7.4212. [DOI] [PubMed] [Google Scholar]
- Corell R. A., Read L. K., Riley G. R., Nellissery J. K., Allen T. E., Kable M. L., Wachal M. D., Seiwert S. D., Myler P. J., Stuart K. D. Complexes from Trypanosoma brucei that exhibit deletion editing and other editing-associated properties. Mol Cell Biol. 1996 Apr;16(4):1410–1418. doi: 10.1128/mcb.16.4.1410. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Cruz-Reyes J., Piller K. J., Rusché L. N., Mukherjee M., Sollner-Webb B. Unexpected electrophoretic migration of RNA with different 3' termini causes a RNA sizing ambiguity that can be resolved using nuclease P1-generated sequencing ladders. Biochemistry. 1998 Apr 28;37(17):6059–6064. doi: 10.1021/bi972868g. [DOI] [PubMed] [Google Scholar]
- Cruz-Reyes J., Rusché L. N., Piller K. J., Sollner-Webb B. T. brucei RNA editing: adenosine nucleotides inversely affect U-deletion and U-insertion reactions at mRNA cleavage. Mol Cell. 1998 Feb;1(3):401–409. doi: 10.1016/s1097-2765(00)80040-4. [DOI] [PubMed] [Google Scholar]
- Cruz-Reyes J., Sollner-Webb B. Trypanosome U-deletional RNA editing involves guide RNA-directed endonuclease cleavage, terminal U exonuclease, and RNA ligase activities. Proc Natl Acad Sci U S A. 1996 Aug 20;93(17):8901–8906. doi: 10.1073/pnas.93.17.8901. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Decker C. J., Sollner-Webb B. RNA editing involves indiscriminate U changes throughout precisely defined editing domains. Cell. 1990 Jun 15;61(6):1001–1011. doi: 10.1016/0092-8674(90)90065-m. [DOI] [PubMed] [Google Scholar]
- Kable M. L., Seiwert S. D., Heidmann S., Stuart K. RNA editing: a mechanism for gRNA-specified uridylate insertion into precursor mRNA. Science. 1996 Aug 30;273(5279):1189–1195. doi: 10.1126/science.273.5279.1189. [DOI] [PubMed] [Google Scholar]
- Koslowsky D. J., Bhat G. J., Read L. K., Stuart K. Cycles of progressive realignment of gRNA with mRNA in RNA editing. Cell. 1991 Nov 1;67(3):537–546. doi: 10.1016/0092-8674(91)90528-7. [DOI] [PubMed] [Google Scholar]
- Piller K. J., Rusché L. N., Cruz-Reyes J., Sollner-Webb B. Resolution of the RNA editing gRNA-directed endonuclease from two other endonucleases of Trypanosoma brucei mitochondria. RNA. 1997 Mar;3(3):279–290. [PMC free article] [PubMed] [Google Scholar]
- Pollard V. W., Harris M. E., Hajduk S. L. Native mRNA editing complexes from Trypanosoma brucei mitochondria. EMBO J. 1992 Dec;11(12):4429–4438. doi: 10.1002/j.1460-2075.1992.tb05543.x. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Rusché L. N., Cruz-Reyes J., Piller K. J., Sollner-Webb B. Purification of a functional enzymatic editing complex from Trypanosoma brucei mitochondria. EMBO J. 1997 Jul 1;16(13):4069–4081. doi: 10.1093/emboj/16.13.4069. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Seiwert S. D., Heidmann S., Stuart K. Direct visualization of uridylate deletion in vitro suggests a mechanism for kinetoplastid RNA editing. Cell. 1996 Mar 22;84(6):831–841. doi: 10.1016/s0092-8674(00)81062-4. [DOI] [PubMed] [Google Scholar]
- Seiwert S. D., Stuart K. RNA editing: transfer of genetic information from gRNA to precursor mRNA in vitro. Science. 1994 Oct 7;266(5182):114–117. doi: 10.1126/science.7524149. [DOI] [PubMed] [Google Scholar]
- Smith H. C., Gott J. M., Hanson M. R. A guide to RNA editing. RNA. 1997 Oct;3(10):1105–1123. [PMC free article] [PubMed] [Google Scholar]
- Sollner-Webb B. RNA editing. Guides to experiments. Nature. 1992 Apr 30;356(6372):743–744. doi: 10.1038/356743a0. [DOI] [PubMed] [Google Scholar]
- Sollner-Webb B. RNA editing. Curr Opin Cell Biol. 1991 Dec;3(6):1056–1061. doi: 10.1016/0955-0674(91)90129-m. [DOI] [PubMed] [Google Scholar]
- Sollner-Webb B. Trypanosome RNA editing: resolved. Science. 1996 Aug 30;273(5279):1182–1183. doi: 10.1126/science.273.5279.1182. [DOI] [PubMed] [Google Scholar]
- Stuart K., Allen T. E., Heidmann S., Seiwert S. D. RNA editing in kinetoplastid protozoa. Microbiol Mol Biol Rev. 1997 Mar;61(1):105–120. doi: 10.1128/mmbr.61.1.105-120.1997. [DOI] [PMC free article] [PubMed] [Google Scholar]