Inducible Knockdown of Plasmodium Gene Expression Using the glmS Ribozyme

PLoS ONE

Volumn 8, Issue 8, 2013, Pages

  Prommana, Parichat ^a   Uthaipibull, Chairat ^a   Wongsombat, Chayaphat ^a   Kamchonwongpaisan, Sumalee ^a   Yuthavong, Yongyuth ^a   Knuepfer, Ellen ^b   Holder, Anthony A ^b   Shaw, Philip J ^a  

^a NATIONAL SCIENCE AND TECHNOLOGY DEVELOPMENT AGENCY   (Thailand)

^b NATIONAL INSTITUTE FOR MEDICAL RESEARCH   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

CHLOROQUINE; DIHYDROFOLATE REDUCTASE; FOLIC ACID ANTAGONIST; GLUCOSAMINE; MESSENGER RNA; PYRIMETHAMINE; RIBOZYME; THYMIDYLATE SYNTHASE;

3' UNTRANSLATED REGION; ADULT; ANTIMALARIAL DRUG SUSCEPTIBILITY; ARTICLE; CONTROLLED STUDY; ENZYME ACTIVATION; ESSENTIAL GENE; GENE EXPRESSION; GENE FUNCTION; GENE SILENCING; GENETIC TRANSFECTION; HUMAN; HUMAN CELL; HUMAN TISSUE; IN VIVO STUDY; MUTANT; NONHUMAN; PHENOTYPE; PLASMODIUM FALCIPARUM; REPORTER GENE; REVERSE GENETICS; RNA CLEAVAGE; TRANSGENIC ORGANISM;

BACTERIAL PROTEINS; GENE EXPRESSION REGULATION; GENE KNOCKDOWN TECHNIQUES; GLUCOSAMINE; HUMANS; MULTIENZYME COMPLEXES; PHENOTYPE; PLASMODIUM FALCIPARUM; REVERSE GENETICS; RNA, CATALYTIC; RNA, MESSENGER; TETRAHYDROFOLATE DEHYDROGENASE; THYMIDYLATE SYNTHASE;

EID: 84883435578     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0073783     Document Type: Article

References (37)

1. Technologies E, (2011) A research agenda for malaria eradication: basic science and enabling technologies. PLoS Med 8: e1000399.
2. El Bissati K, Zufferey R, Witola WH, Carter NS, Ullman B, et al. (2006) The plasma membrane permease PfNT1 is essential for purine salvage in the human malaria parasite Plasmodium falciparum. Proc Natl Acad Sci U S A 103: 9286-9291.
3. Combe A, Giovannini D, Carvalho TG, Spath S, Boisson B, et al. (2009) Clonal conditional mutagenesis in malaria parasites. Cell Host Microbe 5: 386-396.
4. Collins CR, Das S, Wong EH, Andenmatten N, Stallmach R, et al. (2013) Robust inducible Cre recombinase activity in the human malaria parasite Plasmodium falciparum enables efficient gene deletion within a single asexual erythrocytic growth cycle. Mol Microbiol 88: 687-701.
5. Andenmatten N, Egarter S, Jackson AJ, Jullien N, Herman J-P, et al. (2013) Conditional genome engineering in Toxoplasma gondii uncovers alternative invasion mechanisms. Nat Methods 10: 125-127.
6. Ecker A, Lewis RE, Ekland EH, Jayabalasingham B, Fidock DA, (2012) Tricks in Plasmodium's molecular repertoire-escaping 3'-UTR excision-based conditional silencing of the chloroquine resistance transporter gene. Int J Parasitol 42: 969-974.
7. Baum J, Papenfuss AT, Mair GR, Janse CJ, Vlachou D, et al. (2009) Molecular genetics and comparative genomics reveal RNAi is not functional in malaria parasites. Nucleic Acids Res 37: 3788-3798.
8. Pino P, Sebastian S, Kim EA, Bush E, Brochet M, et al. (2012) A tetracycline-repressible transactivator system to study essential genes in malaria parasites. Cell Host Microbe 12: 824-834.
9. Meissner M, Krejany E, Gilson PR, De Koning-Ward TF, Soldati D, et al. (2005) Tetracycline analogue-regulated transgene expression in Plasmodium falciparum blood stages using Toxoplasma gondii transactivators. Proc Natl Acad Sci U S A 102: 2980-2985.
10. Duraisingh MT, Triglia T, Cowman AF, (2002) Negative selection of Plasmodium falciparum reveals targeted gene deletion by double crossover recombination. Int J Parasitol 32: 81-89.
11. Epp C, Raskolnikov D, Deitsch KW, (2008) A regulatable transgene expression system for cultured Plasmodium falciparum parasites. Malaria J 7: 86.
12. Armstrong CM, Goldberg DE, (2007) An FKBP destabilization domain modulates protein levels in Plasmodium falciparum. Nat Methods 4: 1007-1009.
13. Russo I, Oksman A, Vaupel B, Goldberg DE, (2009) A calpain unique to alveolates is essential in Plasmodium falciparum and its knockdown reveals an involvement in pre-S-phase development. Proc Natl Acad Sci U S A 106: 1554-1559.
14. Dvorin JD, Martyn DC, Patel SD, Grimley JS, Collins CR, et al. (2011) A Plant-Like Kinase in Plasmodium Egress from Erythrocytes. Science 328: 10-13.
15. Farrell A, Thirugnanam S, Lorestani A, Dvorin JD, Eidell KP, et al. (2012) A DOC2 protein identified by mutational profiling is essential for apicomplexan parasite exocytosis. Science 335: 218-221.
16. De Azevedo MF, Gilson PR, Gabriel HB, Simões RF, Angrisano F, et al. (2012) Systematic analysis of FKBP inducible degradation domain tagging strategies for the human malaria parasite Plasmodium falciparum. PLoS One 7: e40981.
17. Muralidharan V, Oksman A, Iwamoto M, Wandless TJ, Goldberg DE, (2011) Asparagine repeat function in a Plasmodium falciparum protein assessed via a regulatable fluorescent affinity tag. Proc Natl Acad Sci U S A 108: 4411-4416.
18. Augagneur Y, Wesolowski D, Tae HS, Altman S, Ben Mamoun C, (2012) Gene selective mRNA cleavage inhibits the development of Plasmodium falciparum. Proc Natl Acad Sci U S A 109: 6235-6240.
19. Win MN, Smolke CD, (2007) A modular and extensible RNA-based gene-regulatory platform for engineering cellular function. Proc Natl Acad Sci U S A 104: 14283-14288.
20. Agop-Nersesian C, Pfahler J, Lanzer M, Meissner M, (2008) Functional expression of ribozymes in Apicomplexa: towards exogenous control of gene expression by inducible RNA-cleavage. Int J Parasitol 38: 673-681.
21. Winkler WC, Nahvi A, Roth A, Collins JA, Breaker RR, (2004) Control of gene expression by a natural metabolite-responsive ribozyme. Nature 428: 281-286.
22. Watson PY, Fedor MJ, (2011) The glmS riboswitch integrates signals from activating and inhibitory metabolites in vivo. Nat Struct Mol Biol 18: 359-363.
23. Pornthanakasem W, Kongkasuriyachai D, Uthaipibull C, Yuthavong Y, Leartsakulpanich U, (2012) Plasmodium serine hydroxymethyltransferase: indispensability and display of distinct localization. Malaria J 11: 387.
24. Chitnumsub P, Yuvaniyama J, Yavaniyama J, Vanichtanankul J, Kamchonwongpaisan S, et al. (2004) Characterization, crystallization and preliminary X-ray analysis of bifunctional dihydrofolate reductase-thymidylate synthase from Plasmodium falciparum. Acta Crystallogr D Biol Crystallogr 60: 780-783.
25. Trager W, Jensen JB, (1976) Human malaria parasites in continuous culture. Science 193: 673-675.
26. Lambros C, Vanderberg JP, (1979) Synchronization of Plasmodium falciparum erythrocytic stages in culture. J Parasitol 65: 418-420.
27. Crabb BS, Cowman AF, (1996) Characterization of promoters and stable transfection by homologous and nonhomologous recombination in Plasmodium falciparum. Proc Natl Acad Sci U S A 93: 7289-7294.
28. Livak KJ, Schmittgen TD, (2001) Analysis of relative gene expression data using real-time quantitative PCR and the 2(-Delta Delta C(T)) Method. Methods 25: 402-408.
29. Li R, Yu C, Li Y, Lam T-W, Yiu S-M, et al. (2009) SOAP2: an improved ultrafast tool for short read alignment. Bioinformatics 25: 1966-1967.
30. Shen S, Park JW, Huang J, Dittmar KA, Lu Z, et al. (2012) MATS: a Bayesian framework for flexible detection of differential alternative splicing from RNA-Seq data. Nucleic Acids Res 40: e61.
31. Robinson MD, Oshlack A, (2010) A scaling normalization method for differential expression analysis of RNA-seq data. Genome Biol 11: R25.
32. Yuthavong Y, Tarnchompoo B, Vilaivan T, Chitnumsub P, Kamchonwongpaisan S, et al. (2012) Malarial dihydrofolate reductase as a paradigm for drug development against a resistance-compromised target. Proc Natl Acad Sci U S A 109: 16823-16828.
33. Meaux S, Hoof A (2006) Yeast transcripts cleaved by an internal ribozyme provide new insight into the role of the cap and poly (A) tail in translation and mRNA decay: 1323-1337.
34. Naik RS, Krishnegowda G, Gowda DC, (2003) Glucosamine inhibits inositol acylation of the glycosylphosphatidylinositol anchors in intraerythrocytic Plasmodium falciparum. J Biol Chem 278: 2036-2042.
35. Carothers JM, Goler JA, Juminaga D, Keasling JD, (2011) Model-driven engineering of RNA devices to quantitatively program gene expression. Science 334: 1716-1719.
36. Ganesan K, Ponmee N, Jiang L, Fowble JW, White J, et al. (2008) A genetically hard-wired metabolic transcriptome in Plasmodium falciparum fails to mount protective responses to lethal antifolates. PLoS Pathog 4: e1000214.
37. Giaever G, Flaherty P, Kumm J, Proctor M, Nislow C, et al. (2004) Chemogenomic profiling: identifying the functional interactions of small molecules in yeast. Proc Natl Acad Sci U S A 101: 793-798.