A growing molecular toolbox for the functional analysis of microRNAs in Caenorhabditis elegans

Briefings in Functional Genomics

Volumn 10, Issue 4, 2011, Pages 175-180

  Jo, Jeanyoung ^a   Esquela Kerscher, Aurora ^b  

^a WELLESLEY COLLEGE   (United States)

^b WASHINGTON UNIVERSITY   (United States)

Author keywords

Antisense 2 O methyl oligoribonucleotides; Caenorhabditis elegans; MicroRNA; miRNA inhibitors

Indexed keywords

ANTISENSE OLIGONUCLEOTIDE; MICRORNA;

ARTICLE; BIOLOGICAL PHENOMENA AND FUNCTIONS CONCERNING THE ENTIRE ORGANISM; CAENORHABDITIS ELEGANS; DNA SYNTHESIS INHIBITION; GENE EXPRESSION; GENE MUTATION; GENETIC CODE; HUMAN; IN VIVO STUDY; MOLECULAR GENETICS; NONHUMAN; PHENOTYPE; RNA ANALYSIS;

ANIMALS; CAENORHABDITIS ELEGANS; GENES, HELMINTH; GENETIC TECHNIQUES; GENOME; MICRORNAS; OLIGONUCLEOTIDES, ANTISENSE;

ANIMALIA; CAENORHABDITIS ELEGANS; NEMATODA;

EID: 80051875339     PISSN: 20412649     EISSN: 20412657     Source Type: Journal    
DOI: 10.1093/bfgp/elr012     Document Type: Article

References (36)

1. Stefani G, Slack FJ. Small non-coding RNAs in animal development. Nat Rev Mol Cell Biol 2008;9:219-30.
2. Esquela-Kerscher A, Slack FJ. Oncomirs - microRNAs with a role in cancer. Nat Rev Cancer 2006;6:259-69.
3. Kim VN, Han J, Siomi MC. Biogenesis of small RNAs in animals. Nat Rev Mol Cell Biol 2009;10:126-39.
4. Filipowicz W, Bhattacharyya SN, Sonenberg N. Mechanisms of post-transcriptional regulation by microRNAs: are the answers in sight? Nat Rev Genet 2008; 9:102-14.
5. Ambros V, Horvitz HR. Heterochronic mutants of the nematode Caenorhabditis elegans. Science 1984;226:409-16.
6. Lee RC, Feinbaum RL, Ambros V. The C. elegans heterochronic gene lin-4 encodes small RNAs with antisense complementarity to lin-14. Cell 1993;75:843-54.
7. Reinhart B, Slack F, Basson M, et al. The 21 nucleotide let-7 RNA regulates C. elegans developmental timing. Nature 2000;403:901-6.
8. Griffiths-Jones S, Saini HK, van Dongen S, et al. miRBase: tools for microRNA genomics. Nucleic Acids Res 2008;36: D154-8.
9. Grosshans H, Johnson T, Reinert KL, et al. The temporal patterning microRNA let-7 regulates several transcription factors at the larval to adult transition in C. elegans. Dev Cell 2005;8:321-30.
10. Chi SW, Zang JB, Mele A, et al. Argonaute HITS-CLIP decodes microRNA-mRNA interaction maps. Nature 2009; 460:479-86.
11. Zisoulis DG, Lovci MT, Wilbert ML, et al. Comprehensive discovery of endogenous Argonaute binding sites in Caenorhabditis elegans. Nat Struct Mol Biol 2010;17:173-9.
12. Johnston RJ, Hobert O. A microRNA controlling left/right neuronal asymmetry in Caenorhabditis elegans. Nature 2003; 426:845-9.
13. Isik M, Korswagen HC, Berezikov E. Expression patterns of intronic microRNAs in Caenorhabditis elegans. Silence 2010;1:5.
14. Martinez NJ, Ow MC, Reece-Hoyes JS, et al. Genomescale spatiotemporal analysis of Caenorhabditis elegans microRNA promoter activity. Genome Res 2008;18: 2005-15.
15. Johnson SM, Lin SY, Slack FJ. The time of appearance of the C. elegans let-7 microRNA is transcriptionally controlled utilizing a temporal regulatory element in its promoter. Dev Biol 2003;259:364-79.
16. Esquela-Kerscher A, Johnson SM, Bai L, et al. Post-embryonic expression of C. elegans microRNAs belonging to the lin-4 and let-7 families in the hypodermis and the reproductive system. Dev Dyn 2005;234:868-77.
17. Boehm M, Slack F. A developmental timing microRNA and its target regulate life span in C. elegans. Science 2005;310: 1954-7.
18. Feinbaum R, Ambros V. The timing of lin-4 RNA accumulation controls the timing of postembryonic developmental events in Caenorhabditis elegans. Dev Biol 1999;210: 87-95.
19. Johnson SM, Grosshans H, Shingara J, etal. RAS is regulated by the let-7 microRNA family. Cell 2005;120:635-47.
20. Li M, Jones-Rhoades MW, Lau NC, et al. Regulatory mutations of mir-48, a C. elegans let-7 family MicroRNA, cause developmental timing defects. Dev Cell 2005;9: 415-22.
21. Yoo AS, Bais C, Greenwald I. Crosstalk between the EGFR and LIN-12/Notch pathways in C. elegans vulval development. Science 2004;303:663-6.
22. Merritt, C., et al. Transgenic solutions for the germline (February 8, 2010). In Wormbook (ed). The C. elegans Research Community, WormBook, doi:10.1895/wormbook.1.148.1, http://www.wormbook.org.
23. Frokjaer-Jensen C, Davis MW, Hopkins CE, et al. Single-copy insertion of transgenes in Caenorhabditis elegans. Nat Genet 2008;40:1375-83.
24. Simon DJ, Madison JM, Conery AL, et al. The microRNA miR-1 regulates a MEF-2-dependent retrograde signal at neuromuscular junctions. Cell 2008;133:903-15.
25. Miska EA, Alvarez-Saavedra E, Abbott AL, et al. Most Caenorhabditis elegans microRNAs are individually not essential for development or viability. PLoS Genet 2007;3: e215.
26. Alvarez-Saavedra E, Horvitz HR. Many families of C. elegans microRNAs are not essential for development or viability. Curr Biol 2010;20:367-73.
27. Abbott AL, Alvarez-Saavedra E, Miska EA, et al. The let-7 MicroRNA family members mir-48, mir-84, and mir-241 function together to regulate developmental timing in Caenorhabditis elegans. Dev Cell 2005;9:403-14.
28. Shaw WR, Armisen J, Lehrbach NJ, et al. The Conserved miR-51 microRNA family is redundantly required for embryonic development and pharynx attachment in Caenorhabditis elegans. Genetics 2010;185:897-905.
29. Brenner JL, Jasiewicz KL, Fahley AF, et al. Loss of individual microRNAs causes mutant phenotypes in sensitized genetic backgrounds in C. elegans. Curr Biol 2010;20: 1321-5.
30. Zheng G, Ambros V, Li WH. Inhibiting miRNA in Caenorhabditis elegans using a potent and selective antisense reagent. Silence 2010;1:9.
31. Hutvagner G, Simard MJ, Mello CC, et al. Sequencespecific inhibition of small RNA function. PLoS Biol 2004;2:E98.
32. Ebert MS, Neilson JR, Sharp PA. MicroRNA sponges: competitive inhibitors of small RNAs in mammalian cells. Nat Methods 2007;4:721-6.
33. Calixto A, Ma C, Chalfie M. Conditional gene expression and RNAi using MEC-8-dependent splicing in C. elegans. Nat Methods 2010;7:407-11.
34. Macosko EZ, Pokala N, Feinberg EH, et al. A hub-and-spoke circuit drives pheromone attraction and social behaviour in C. elegans. Nature 2009;458:1171-5.
35. Voutev R, Hubbard EJ. A "FLP-Out" system for controlled gene expression in Caenorhabditis elegans. Genetics 2008;180: 103-19.
36. Davis MW, Morton JJ, Carroll D, et al. Gene activation using FLP recombinase in C. elegans. PLoS Genet 2008;4: e1000028.