RNA interference for analysis of gene function in trypanosomatids

Current Opinion in Microbiology

Volumn 7, Issue 4, 2004, Pages 362-368

  Motyka, Shawn A ^a   Englund, Paul T ^a  

^a JOHNS HOPKINS UNIVERSITY SCHOOL OF MEDICINE   (United States)

Author keywords

conA; concanavalin A; double stranded RNA; dsRNA; kDNA; kinetoplast DNA; RNA interference; RNAi; siRNA; small interfering RNA

Indexed keywords

ALLELE; BIOACCUMULATION; CAENORHABDITIS ELEGANS; COMPLEX FORMATION; CORRELATION ANALYSIS; DNA LIBRARY; DNA SCREENING; GENE EXPRESSION; GENE FUNCTION; GENE OVEREXPRESSION; GENE SILENCING; GENE VECTOR; GENETIC ANALYSIS; KNOCKOUT GENE; LEISHMANIA; MOLECULAR EVOLUTION; NONHUMAN; PROMOTER REGION; PROTOZOON; REVIEW; RNA INTERFERENCE; TECHNIQUE; TRYPANOSOMA BRUCEI;

ANIMALS; GENE SILENCING; GENES, PROTOZOAN; GENETIC TECHNIQUES; PROTOZOAN PROTEINS; RNA INTERFERENCE; TRYPANOSOMA BRUCEI BRUCEI;

PROTOZOA; TRYPANOSOMA; TRYPANOSOMA BRUCEI;

EID: 4143079140     PISSN: 13695274     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.mib.2004.06.004     Document Type: Review

References (45)

1. Barrett M.P., Burchmore R.J., Stich A., Lazzari J.O., Frasch A.C., Cazzulo J.J., Krishna S. The trypanosomiases. Lancet. 362:2003;1469-1480
2. Berman J. Current treatment approaches to leishmaniasis. Curr Opin Infect Dis. 16:2003;397-401
3. Ngo H., Tschudi C., Gull K., Ullu E. Double-stranded RNA induces mRNA degradation in Trypanosoma brucei. Proc Natl Acad Sci USA. 95:1998;14687-14692
4. Fire A., Xu S., Montgomery M.K., Kostas S.A., Driver S.E., Mello C.C. Potent and specific genetic interference by double-stranded RNA in Caenorhabditis elegans. Nature. 391:1998;806-811
5. Shi H., Djikeng A., Mark T., Wirtz E., Tschudi C., Ullu E. Genetic interference in Trypanosoma brucei by heritable and inducible double-stranded RNA. RNA. 6:2000;1069-1076
6. Wang Z., Morris J.C., Drew M.E., Englund P.T. Inhibition of Trypanosoma brucei gene expression by RNA interference using an integratable vector with opposing T7 promoters. J Biol Chem. 275:2000;40174-40179
7. LaCount D.J., Barrett B., Donelson J.E. Trypanosoma brucei FLA1 is required for flagellum attachment and cytokinesis. J Biol Chem. 277:2002;17580-17588 This paper describes the creation of a second RNAi vector that uses opposing tetracycline-inducible T7 promoters for expression of dsRNA.
8. Wirtz E., Clayton C. Inducible gene expression in trypanosomes mediated by a prokaryotic repressor. Science. 268:1995;1179-1183
9. Wirtz E., Hoek M., Cross G.A. Regulated processive transcription of chromatin by T7 RNA polymerase in Trypanosoma brucei. Nucleic Acids Res. 26:1998;4626-4634
10. Morris J.C., Wang Z., Drew M.E., Paul K.S., Englund P.T. Inhibition of bloodstream form Trypanosoma brucei gene expression by RNA interference using the pZJM dual T7 vector. Mol Biochem Parasitol. 117:2001;111-113
11. Drew M.E., Morris J.C., Wang Z., Wells L., Sanchez M., Landfear S.M., Englund P.T. The adenosine analog tubercidin inhibits glycolysis in Trypanosoma brucei as revealed by an RNA interference library. J Biol Chem. 278:2003;46596-46600
12. Durand-Dubief M., Kohl L., Bastin P. Efficiency and specificity of RNA interference generated by intra- and intermolecular double stranded RNA in Trypanosoma brucei. Mol Biochem Parasitol. 129:2003;11-21 This paper provides an in-depth comparison of the efficacy of stem-loop and linear dsRNA in triggering RNAi. The effects of silencing a gene involved in motility are observed at the RNA, protein and phenotype levels in both populations and single cells. The results indicate that stem-loop RNA is slightly more efficient at silencing and considerably less leaky.
13. Chen Y., Hung C.H., Burderer T., Lee G.S. Development of RNA interference revertants in Trypanosoma brucei cell lines generated with a double stranded RNA expression construct driven by two opposing promoters. Mol Biochem Parasitol. 126:2003;275-279
14. Shi H., Djikeng A., Tschudi C., Ullu E. Argonaute protein in the early divergent eukaryote Trypanosoma brucei: control of small interfering RNA accumulation and retroposon transcript abundance. Mol Cell Biol. 24:2004;420-427
15. Durand-Dubief M., Bastin P. TbAGO1, an Argonaute protein required for RNA interference, is involved in mitosis and chromosome segregation in Trypanosoma brucei. BMC Biol. 1:2003;2
16. Robinson K.A., Beverley S.M. Improvements in transfection efficiency and tests of RNA interference (RNAi) approaches in the protozoan parasite Leishmania. Mol Biochem Parasitol. 128:2003;217-228 The authors make a comprehensive yet unsuccessful attempt to demonstrate RNAi in Leishmania using both stem-loop and linear dsRNA to α-tubulin and GFP. The results indicate that a conventional RNAi pathway may not exist in this organism.
17. Djikeng A., Shi H., Tschudi C., Ullu E. RNA interference in Trypanosoma brucei: cloning of small interfering RNAs provides evidence for retroposon-derived 24-26-nucleotide RNAs. RNA. 7:2001;1522-1530
18. DaRocha W.D., Otsu K., Teixeira S.M., Donelson J.E. Tests of cytoplasmic RNA interference (RNAi) and construction of a tetracycline-inducible T7 promoter system in Trypanosoma cruzi. Mol Biochem Parasitol. 133:2004;175-186
19. Wang Z., Englund P.T. RNA interference of a trypanosome topoisomerase II causes progressive loss of mitochondrial DNA. EMBO J. 20:2001;4674-4683
20. Liu L., Liang X.H., Uliel S., Unger R., Ullu E., Michaeli S. RNA interference of signal peptide-binding protein SRP54 elicits deleterious effects and protein sorting defects in trypanosomes. J Biol Chem. 277:2002;47348-47357
21. 2/M, indicating that proteasome degradation of certain proteins may be required for normal cell cycle progression.
22. Rusche L.N., Cruz-Reyes J., Piller K.J., Sollner-Webb B. Purification of a functional enzymatic editing complex from Trypanosoma brucei mitochondria. EMBO J. 16:1997;4069-4081
23. Madison-Antenucci S., Sabatini R.S., Pollard V.W., Hajduk S.L. Kinetoplastid RNA-editing-associated protein 1 (REAP-1): a novel editing complex protein with repetitive domains. EMBO J. 17:1998;6368-6376
24. Panigrahi A.K., Gygi S.P., Ernst N.L., Igo R.P. Jr., Palazzo S.S., Schnaufer A., Weston D.S., Carmean N., Salavati R., Aebersold R., et al. Association of two novel proteins, TbMP52 and TbMP48, with the Trypanosoma brucei RNA editing complex. Mol Cell Biol. 21:2001;380-389
25. Schnaufer A., Ernst N.L., Palazzo S.S., O'Rear J., Salavati R., Stuart K. Separate insertion and deletion subcomplexes of the Trypanosoma brucei RNA editing complex. Mol Cell. 12:2003;307-319
26. Huang C.E., O'Hearn S.F., Sollner-Webb B. Assembly and function of the RNA editing complex in Trypanosoma brucei requires band III protein. Mol Cell Biol. 22:2002;3194-3203
27. O'Hearn S.F., Huang C.E., Hemann M., Zhelonkina A., Sollner-Webb B. Trypanosoma brucei RNA editing complex: band II is structurally critical and maintains band V ligase, which is nonessential. Mol Cell Biol. 23:2003;7909-7919
28. Gao G., Simpson L. Is the Trypanosoma brucei REL1 RNA ligase specific for U-deletion RNA editing, and is the REL2 RNA ligase specific for U-insertion editing? J Biol Chem. 278:2003;27570-27574
29. Aphasizhev R., Aphasizheva I., Simpson L. A tale of two TUTases. Proc Natl Acad Sci USA. 100:2003;10617-10622
30. McKean P.G. Coordination of cell cycle and cytokinesis in Trypanosoma brucei. Curr Opin Microbiol. 6:2003;600-607
31. Hammarton T.C., Mottram J.C., Doerig C. The cell cycle of parasitic protozoa: potential for chemotherapeutic exploitation. Prog Cell Cycle Res. 5:2003;91-101
32. Li Z., Wang C.C. A PHO80-like cyclin and a B-type cyclin control the cell cycle of the procyclic form of Trypanosoma brucei. J Biol Chem. 278:2003;20652-20658
33. Hammarton T.C., Clark J., Douglas F., Boshart M., Mottram J.C. Stage-specific differences in cell cycle control in Trypanosoma brucei revealed by RNA interference of a mitotic cyclin. J Biol Chem. 278:2003;22877-22886
34. Zhang K., Showalter M., Revollo J., Hsu F.F., Turk J., Beverley S.M. Sphingolipids are essential for differentiation but not growth in Leishmania. EMBO J. 22:2003;6016-6026
35. Biebinger S., Wirtz L.E., Lorenz P., Clayton C. Vectors for inducible expression of toxic gene products in bloodstream and procyclic Trypanosoma brucei. Mol Biochem Parasitol. 85:1997;99-112
36. Krieger S., Schwarz W., Ariyanayagam M.R., Fairlamb A.H., Krauth-Siegel R.L., Clayton C. Trypanosomes lacking trypanothione reductase are avirulent and show increased sensitivity to oxidative stress. Mol Microbiol. 35:2000;542-552
37. Morris J.C., Wang Z., Drew M.E., Englund P.T. Glycolysis modulates trypanosome glycoprotein expression as revealed by an RNAi library. EMBO J. 21:2002;4429-4438 This paper describes the creation of an RNAi-based genomic library for forward genetics in T. brucei, the first of its kind in any organism.
38. ter Kuile B.H. Adaptation of metabolic enzyme activities of Trypanosoma brucei promastigotes to growth rate and carbon regimen. J Bacteriol. 179:1997;4699-4705
39. Motyka S.A., Zhao Z., Gull K., Englund P.T. Integration of pZJM library plasmids into unexpected locations in the Trypanosoma brucei genome. Mol Biochem Parasitol. 134:2004;163-167
40. Hendriks E.F., Robinson D.R., Hinkins M., Matthews K.R. A novel CCCH protein which modulates differentiation of Trypanosoma brucei to its procyclic form. EMBO J. 20:2001;6700-6711
41. Leal S, Acosta-Serrano A, Morris J, Cross GA: Transposon mutagenesis of Trypanosoma brucei identifies glycosylation mutants resistant to concanavalin A. J Biol Chem 2004. (epub ahead of print).
42. Wirtz E., Leal S., Ochatt C., Cross G.A. A tightly regulated inducible expression system for conditional gene knock-outs and dominant-negative genetics in Trypanosoma brucei. Mol Biochem Parasitol. 99:1999;89-101
43. Timmons L., Fire A. Specific interference by ingested dsRNA. Nature. 395:1998;854
44. Ryan K.A., Garraway L.A., Descoteaux A., Turco S.J., Beverley S.M. Isolation of virulence genes directing surface glycosyl-phosphatidylinositol synthesis by functional complementation of Leishmania. Proc Natl Acad Sci USA. 90:1993;8609-8613
45. Gueiros-Filho F.J., Beverley S.M. Trans-kingdom transposition of the Drosophila element mariner within the protozoan Leishmania. Science. 276:1997;1716-1719