Abstract
We describe a method of global PCR amplification of cDNA such that the strand sense is maintained. The products of this process are random primed fragments ranging in size from 100 to 500 bp which facilitates uniform PCR amplification of total cDNA. Directional incorporation of a T7 RNA polymerase initiator/promoter sequence allows efficient synthesis of total sense RNA from this material and the use of a biotinylated primer permits the separation of single-stranded cDNA. Isolation of these products from different cell types provides a renewable source of target single-stranded cDNA and driver RNA from limited cell numbers and we demonstrate their use for subtractive hybridisation cloning of differentially expressed cDNAs.
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- Bertioli D. J., Schlichter U. H., Adams M. J., Burrows P. R., Steinbiss H. H., Antoniw J. F. An analysis of differential display shows a strong bias towards high copy number mRNAs. Nucleic Acids Res. 1995 Nov 11;23(21):4520–4523. doi: 10.1093/nar/23.21.4520. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Chomczynski P., Sacchi N. Single-step method of RNA isolation by acid guanidinium thiocyanate-phenol-chloroform extraction. Anal Biochem. 1987 Apr;162(1):156–159. doi: 10.1006/abio.1987.9999. [DOI] [PubMed] [Google Scholar]
- Church G. M., Gilbert W. The genomic sequencing technique. Prog Clin Biol Res. 1985;177:17–21. [PubMed] [Google Scholar]
- Diatchenko L., Lau Y. F., Campbell A. P., Chenchik A., Moqadam F., Huang B., Lukyanov S., Lukyanov K., Gurskaya N., Sverdlov E. D. Suppression subtractive hybridization: a method for generating differentially regulated or tissue-specific cDNA probes and libraries. Proc Natl Acad Sci U S A. 1996 Jun 11;93(12):6025–6030. doi: 10.1073/pnas.93.12.6025. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Hampson I. N., Cross M. A., Heyworth C. M., Fairbairn L., Spooncer E., Cowling G. J., Dexter T. M. Expression and downregulation of cytotoxic cell protease 1 or Granzyme 'B' transcripts during myeloid differentiation of interleukin-3-dependent murine stem cell lines. Blood. 1992 Dec 15;80(12):3097–3105. [PubMed] [Google Scholar]
- Hampson I. N., Pope L., Cowling G. J., Dexter T. M. Chemical cross linking subtraction (CCLS): a new method for the generation of subtractive hybridisation probes. Nucleic Acids Res. 1992 Jun 11;20(11):2899–2899. doi: 10.1093/nar/20.11.2899. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Hara E., Kato T., Nakada S., Sekiya S., Oda K. Subtractive cDNA cloning using oligo(dT)30-latex and PCR: isolation of cDNA clones specific to undifferentiated human embryonal carcinoma cells. Nucleic Acids Res. 1991 Dec;19(25):7097–7104. doi: 10.1093/nar/19.25.7097. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Heyworth C. M., Dexter T. M., Kan O., Whetton A. D. The role of hemopoietic growth factors in self-renewal and differentiation of IL-3-dependent multipotential stem cells. Growth Factors. 1990;2(2-3):197–211. doi: 10.3109/08977199009071506. [DOI] [PubMed] [Google Scholar]
- Lehrach H., Diamond D., Wozney J. M., Boedtker H. RNA molecular weight determinations by gel electrophoresis under denaturing conditions, a critical reexamination. Biochemistry. 1977 Oct 18;16(21):4743–4751. doi: 10.1021/bi00640a033. [DOI] [PubMed] [Google Scholar]
- Liang P., Pardee A. B. Differential display of eukaryotic messenger RNA by means of the polymerase chain reaction. Science. 1992 Aug 14;257(5072):967–971. doi: 10.1126/science.1354393. [DOI] [PubMed] [Google Scholar]
- Minty A. J., Caravatti M., Robert B., Cohen A., Daubas P., Weydert A., Gros F., Buckingham M. E. Mouse actin messenger RNAs. Construction and characterization of a recombinant plasmid molecule containing a complementary DNA transcript of mouse alpha-actin mRNA. J Biol Chem. 1981 Jan 25;256(2):1008–1014. [PubMed] [Google Scholar]
- Patanjali S. R., Parimoo S., Weissman S. M. Construction of a uniform-abundance (normalized) cDNA library. Proc Natl Acad Sci U S A. 1991 Mar 1;88(5):1943–1947. doi: 10.1073/pnas.88.5.1943. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Raineri I., Moroni C., Senn H. P. Improved efficiency for single-sided PCR by creating a reusable pool of first-strand cDNA coupled to a solid phase. Nucleic Acids Res. 1991 Jul 25;19(14):4010–4010. doi: 10.1093/nar/19.14.4010. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Spooncer E., Heyworth C. M., Dunn A., Dexter T. M. Self-renewal and differentiation of interleukin-3-dependent multipotent stem cells are modulated by stromal cells and serum factors. Differentiation. 1986;31(2):111–118. doi: 10.1111/j.1432-0436.1986.tb00391.x. [DOI] [PubMed] [Google Scholar]
- Straus D., Ausubel F. M. Genomic subtraction for cloning DNA corresponding to deletion mutations. Proc Natl Acad Sci U S A. 1990 Mar;87(5):1889–1893. doi: 10.1073/pnas.87.5.1889. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Telenius H., Carter N. P., Bebb C. E., Nordenskjöld M., Ponder B. A., Tunnacliffe A. Degenerate oligonucleotide-primed PCR: general amplification of target DNA by a single degenerate primer. Genomics. 1992 Jul;13(3):718–725. doi: 10.1016/0888-7543(92)90147-k. [DOI] [PubMed] [Google Scholar]
- Timblin C., Battey J., Kuehl W. M. Application for PCR technology to subtractive cDNA cloning: identification of genes expressed specifically in murine plasmacytoma cells. Nucleic Acids Res. 1990 Mar 25;18(6):1587–1593. doi: 10.1093/nar/18.6.1587. [DOI] [PMC free article] [PubMed] [Google Scholar]
- el-Deiry W. S., Tokino T., Velculescu V. E., Levy D. B., Parsons R., Trent J. M., Lin D., Mercer W. E., Kinzler K. W., Vogelstein B. WAF1, a potential mediator of p53 tumor suppression. Cell. 1993 Nov 19;75(4):817–825. doi: 10.1016/0092-8674(93)90500-p. [DOI] [PubMed] [Google Scholar]