Detecting sRNAs by Northern Blotting

Methods in Molecular Biology

Volumn 732, Issue , 2011, Pages 25-38

  López Gomollón, Sara ^a  

^a UNIVERSITY OF EAST ANGLIA   (United Kingdom)

Author keywords

Gene expression regulation; Gene silencing; Hybridisation; MicroRNAs; Northern blot; Nucleic acid detection; RNA silencing; RNAi; Short RNAs; Transference

Indexed keywords

SMALL UNTRANSLATED RNA;

ANIMAL; ARTICLE; CELLS; CHEMISTRY; NORTHERN BLOTTING; NUCLEIC ACID HYBRIDIZATION; PLANT; PLANT CELL; POLYACRYLAMIDE GEL ELECTROPHORESIS; YEAST;

ANIMALS; BLOTTING, NORTHERN; CELLS; ELECTROPHORESIS, POLYACRYLAMIDE GEL; NUCLEIC ACID HYBRIDIZATION; PLANT CELLS; PLANTS; RNA, SMALL UNTRANSLATED; YEASTS;

MLCS; MLOWN;

EID: 84855510415     PISSN: 10643745     EISSN: 19406029     Source Type: Book Series    
DOI: 10.1007/978-1-61779-083-6_3     Document Type: Chapter

References (14)

1. Phillips, J. R., Dalmay, T., and Bartels, D. (2007) The role of small RNAs in abiotic stress, FEBS Lett 581, 3592–3597.
2. Lee, Y., Ahn, C., Han, J., Choi, H., Kim, J., Yim, J., Lee, J., Provost, P., Radmark, O., Kim, S., and Kim, V. N. (2003) The nuclear RNase III Drosha initiates microRNA processing, Nature 425, 415–419.
3. Tomari, Y., and Zamore, P. D. (2005) Perspective: machines for RNAi, Genes Dev 19, 517–529.
4. Reinhart, B. J., Weinstein, E. G., Rhoades, M. W., Bartel, B., and Bartel, D. P. (2002) MicroRNAs in plants, Genes Dev 16, 1616–1626.
5. Peragine, A., Yoshikawa, M., Wu, G., Albrecht, H. L., and Poethig, R. S. (2004) SGS3 and SGS2/SDE1/RDR6 are required for juvenile development and the production of trans-acting siRNAs in Arabidopsis, Genes Dev 18, 2368–2379.
6. Vazquez, F., Vaucheret, H., Rajagopalan, R., Lepers, C., Gasciolli, V., Mallory, A. C., Hilbert, J. L., Bartel, D. P., and Crete, P. (2004) Endogenous trans-acting siRNAs regulate the accumulation of Arabidopsis mRNAs, Mol Cell 16, 69–79.
7. Lu, C., Kulkarni, K., Souret, F. F., MuthuValliappan, R., Tej, S. S., Poethig, R. S.,
8. Borsani, O., Zhu, J., Verslues, P. E., Sunkar, R., and Zhu, J. K. (2005) Endogenous siR-NAs derived from a pair of natural cis-antisense transcripts regulate salt tolerance in Arabidopsis, Cell 123, 1279–1291. Henderson, I. R., Jacobsen, S. E., Wang, W., Green, P. J., and Meyers, B. C. (2006) MicroRNAs and other small RNAs enriched in the Arabidopsis RNA-dependent RNA poly-merase-2 mutant, Genome Res 16, 1276–1288.
9. Chomczynski, P., and Sacchi, N. (1987) Single-step method of RNA isolation by acid guanidinium thiocyanate-phenol-chloroform extraction, Anal Biochem 162, 156–159.
10. Kumar, G. N., Iyer, S., and Knowles, N. R. (2007) Extraction of RNA from fresh, frozen, and lyophilized tuber and root tissues, J Agric Food Chem 55, 1674–1678.
11. Southern, E. M. (1975) Detection of specific sequences among DNA fragments separated by gel electrophoresis, J Mol Biol 98, 503–517.
12. Pall, G. S., Codony-Servat, C., Byrne, J., Ritchie, L., and Hamilton, A. (2007) Carbodiimide-mediated cross-linking of RNA to nylon membranes improves the detection of siRNA, miRNA and piRNA by Northern blot, Nucleic Acids Res 35, e60.
13. Vester, B., and Wengel, J. (2004) LNA (locked nucleic acid): high-affinity targeting of complementary RNA and DNA, Biochemistry 43, 13233–13241.
14. Valoczi, A., Hornyik, C., Varga, N., Burgyan, J., Kauppinen, S., and Havelda, Z. (2004) Sensitive and specific detection of microRNAs by Northern blot analysis using LNA-modified oligonucleotide probes, Nucleic Acids Res 32, e175.