cDNA library construction from a small amount of RNA: Adaptor-ligation approach for two-round cRNA amplification using T7 and SP6 RNA polymerases

BioTechniques

Volumn 38, Issue 3, 2005, Pages 451-458

  Ohara, Reiko ^a   Kikuno, Reiko F ^a   Kitamura, Hiroshi ^b   Ohara, Osamu ^a,b,c  

^a KAZUSA DNA RESEARCH INSTITUTE   (Japan)

^b RIKEN   (Japan)

^c CHIBA UNIVERSITY   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

CELLS; CLONING; ENZYMES; RNA; SYNTHESIS (CHEMICAL);

CLONE REDUNDANCY; POLYMERASES; PROMOTER SEQUENCE; SIZE-BIAS EFFECTS;

DNA;

COMPLEMENTARY DNA; COMPLEMENTARY RNA; RNA; RNA POLYMERASE;

ARTICLE; BACTERIOPHAGE LAMBDA; COLONY FORMING UNIT; DNA LIBRARY; DNA SYNTHESIS; GENE AMPLIFICATION; GENETIC RECOMBINATION; MOLECULAR CLONING; PLASMID; PROMOTER REGION;

BACTERIOPHAGE LAMBDA;

EID: 15244351810     PISSN: 07366205     EISSN: None     Source Type: Journal    
DOI: 10.2144/05383RR01     Document Type: Article

References (24)

1. Carninci, P., C. Kvam, A. Kitamura, T. Ohsumi, Y. Okazaki, M. Itoh, M. Kamiya, K. Shibata, et al. 1996. High-efficiency full-length cDNA cloning by biotinylated CAP trapper. Genomics 37:321-336.
2. Ohara, O., T. Nagase, K. Ishikawa, D. Nakajima, M. Ohira, N. Seki, and N. Nomura, 1997. Construction and characterization of human brain cDNA libraries suitable for analysis of cDNA clones encoding relatively large proteins. DNA Res. 4:53-59.
3. Suzuki, Y., K. Yoshitomo-Nakagawa, K. Maruyama, A. Suyama, and S. Sugano. 1997. Construction and characterization of a full length-enriched and a 5′-end-enriched cDNA library. Gene 200:1149-1156.
4. Ohara, O. and G. Temple. 2001. Directional cDNA library construction assisted by the in vitro recombination reaction. Nucleic Acids Res. 29:e22.
5. Eberwine, J., H. Yeh, K. Miyashiro, Y. Cao, S. Nair, R. Finnel, M. Zettel, and P. Coleman. 1992. Analysis of gene expression in single live neurons. Proc. Natl. Acad. Sci. USA 89:3010-3014.
6. Wang, E., L.D. Miller, G.A. Ohnmacht, E.T. Liu, and F.M. Marincola. 2000. High-fidelity mRNA amplification for gene profiling. Nat. Biotechnol. 18:457-459.
7. Baugh, L.R., A.A. Hill, E.L. Brown, and C.P. Hunter. 2001. Quantitative analysis of mRNA amplification by in vitro transcription. Nucleic Acids Res. 29:e29.
8. Zhumabayeva, B., L. Diatchenko, A. Chenchik, and P.D. Siebert. 2001. Use of SMART™-generated cDNA for gene expression studies in multiple human tumors. Bio-Techniques 30:158-163.
9. Gomes, L., R. Silva, B.S. Stolf, E.B. Cristo, R. Hirata Jr., F.A. Soares, L. Reis, E.J. Neves, et al. 2003. Comparative analysis of amplified and nonamplified RNA for hybridization in cDNA microarray. Anal. Biochem. 321:244-251.
10. Huang, J., T. Lin, D. Chang, S. Lin, and S. Ying. 2003. Truncated Bcl-2, a potential premetastic marker in prostate cancer. Biochem. Biophys. Res. Commun. 306:912-917.
11. Lin, S.L. and S.Y. Ying. 2003. mRNA/cDNA library construction using RNA-polymerase cycling reaction. Methods Mol. Biol. 221:129-143.
12. Matz, M.V. 2003. Amplification of representative cDNA pools from microscopic amounts of animal tissue. Methods Mol. Biol. 221:103-116.
13. Petalidis, L., S. Bhattacharyya, G.A. Morris, V.P. Collins, T.C. Freeman, and P.A. Lyons. 2003. Global amplification of mRNA by template-switching PCR: linearity and application to microarray analysis. Nucleic Acids Res. 22:e142.
14. Polacek, D.C., A.G. Passerini, C. Shi, N.M. Francesco, E. Manduchi, G.R. Grant, S. Powell, H. Bischof, et al. 2003. Fidelity and enhanced sensitivity of differential transcription profiles following linear amplification of nanogram amounts of endothelial mRNA. Physiol. Genomics 13:147-156.
15. Wilson, C., S.D. Pepper, Y. Hey, and C.J. Miller. 2004. Amplification protocols introduce systematic but reproducible errors into gene expression studies. BioTechniques 56:498-506.
16. Ohara, O., T. Nagase, G. Mitsui, H. Kohga, R. Kikuno, S. Hiraoka, Y. Takahashi, S. Kitajima, et al. 2002. Characterization of size-fractionated cDNA library generated by the in vitro recombination-assisted method. DNA Res. 9:47-57.
17. Ohara, O. 2003. Construction of size-fractionated cDNA library assisted by an in vitro recombination reaction. Methods Mol. Biol. 227:59-71.
18. Gubler, U. and B.J. Hoffman. 1983. A simple and very efficient method for generating cDNA libraries. Gene 25:263-269.
19. Sambrook, J. and D.W. Russell. 2001. Preparation of plasmid DNA by alkaline lysis with SDS, p. 1.31-1.42. In Molecular Cloning (3rd edition). CSH Laboratory Press, Cold Spring Harbor, NY.
20. Church, G.M. and W. Gilbert. 1984. Genomic sequencing. Proc. Natl. Acad. Sci. USA 81: 1991-1995.
21. Beaudoing, E., S. Freier, J.R. Wyatt, J.M. Claverie, and D. Gautheret. 2000. Patterns of variant polyadenylation signal usage in human genes. Genome Res. 10:1001-1010.
22. Tanaka, T.S., S.A. Jaradat, M.K. Lim, G.J. Kargul, X. Wang, M.J. Grahovac, S. Pantano, Y. Sano, et al. 2000. Genome-wide expression profiling of mid-gestation placenta and embryo using a 15,000 mouse developmental cDNA microarray, Proc. Natl. Acad. Sci. USA 97:9127-9132.
23. Lukyanov, K., L. Diatchenko, A. Chenchik, A. Nanisetti, P. Siebert, N. Usman, M. Matz, and S. Lukyanov. 1997. Construction of cDNA libraries from small amounts of total RNA using the supression PCR effect. Biochem. Biophys. Res. Commun. 230:285-288.
24. Piao, Y., N.T. Ko, M.K. Lim, and M. Ko. 2001. Construction of long-transcripts enriched cDNA libraries from submicrogram amounts of total RNAs by a universal PCR amplification method. Genome Res. 11:1553-1558.