Skip to main content

Cloning of Homologous Genes by Gene-Capture PCR

  • Protocol
PCR Cloning Protocols

Part of the book series: Methods in Molecular Biology™ ((MIMB,volume 192))

  • 3665 Accesses

Abstract

Conventional procedures to isolate a gene belonging to an ortholog family usually imply the use or the construction of double-stranded cDNA libraries derived from a specific mRNA source of interest (cells or tissues) (1). The double-stranded DNA library plated on various membranes is screened by filter hybridization with a radiolabeled probe (1) derived from the known homologous gene. Clones or plaques hybridizing with the probe are then isolated and sequenced to find the gene of interest. This approach is time-consuming and a large number of false positive clones might be obtained, given that no homology is a priori available, especially when the homologous probe contains a short and stable stretch of a sequence sharing clustered homology with both strands of the cDNA library. Alternatively, homologous genes may be isolated by PCR, but only when specific primers are available.

This is a preview of subscription content, log in via an institution to check access.

Access this chapter

Protocol
USD 49.95
Price excludes VAT (USA)
  • Available as PDF
  • Read on any device
  • Instant download
  • Own it forever
eBook
USD 129.00
Price excludes VAT (USA)
  • Available as EPUB and PDF
  • Read on any device
  • Instant download
  • Own it forever
Softcover Book
USD 169.00
Price excludes VAT (USA)
  • Compact, lightweight edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info
Hardcover Book
USD 169.99
Price excludes VAT (USA)
  • Durable hardcover edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info

Tax calculation will be finalised at checkout

Purchases are for personal use only

Institutional subscriptions

References

  1. Sambrook, J., Fritsh, E. F., Maniatis, T., and Irwin, N. (1989) Costruction and analysis of cDNA libraries, Preparation of radiolabeled DNA and RNA probes, Synthetic oligonucleotides probes, Screening expression libraries with antibodies and oligonucleotides, in Molecular Cloning, A Laboratory Manual, 2nd edition, (Nolan, C. ed.), Book 2. Chapters 8, 10, 11, and 12. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.

    Google Scholar 

  2. Goffeau, A., Barrell, B. G., Bussey, H., Davis, R. W., Dujon, B., Feldmann, H., et al. (1996) Life with 6000 genes. Science 274, 563–567.

    Article  Google Scholar 

  3. The C. elegans Sequencing Consortium. (1998) Genome sequence of the nematode C. elegans: a platform for investigating biology. Science 282, 2012–2018.

    Article  Google Scholar 

  4. Adams, M. D., et al. (2000) The genome sequence of Drosophila melanogaster. Science 287, 2185–2195.

    Article  PubMed  Google Scholar 

  5. The Arabidopsis Genome Initiative. (2000) Analysis of the genome sequence of the flowering plant Arabidopsis thaliana. Nature 408, 796–815.

    Article  Google Scholar 

  6. Venter, J.C., et al. (2001) The Sequence of the Human Genome. Science 291, 1304–1351.

    Article  CAS  PubMed  Google Scholar 

  7. Pennisi, E. (2000) Genomics. Rat genome off to an early start. Science 289, 1267–1269.

    Article  CAS  PubMed  Google Scholar 

  8. Gibbons, A. (2000) Genomics. Building a case for sequencing the chimp. Science 289, 1267.

    Article  CAS  PubMed  Google Scholar 

  9. Mastrangeli, R., Micangeli, E., and Donini, S. (1996) Cloning of murine LAG-3 by magnetic bead bound homologous probes and PCR (gene-capture PCR). Analyt. Biochem. 241, 93–102.

    Article  CAS  PubMed  Google Scholar 

  10. Liang, P., Zhu, W., Zhang, X., Guo, Z.,. O′Connell, R. P., Averboukh, L., Wang, F., and Pardee, A. B. (1994). Differential display using one-base anchored oligo-dT primers. Nucl. Acids Res. 22, 5763–5764.

    Article  CAS  PubMed  Google Scholar 

  11. Mastrangeli, R. and Donini, S. (1998) Gene-Capture PCR in BioTechniques Books: Gene Cloning and Analysis by RT-PCR, (Siebert, P.D., and Larrick, J. eds.), Eaton, Natick, MA. pp 271–288.

    Google Scholar 

  12. Frohman, M. A. (1993) Rapid amplification of complementary DNA ends for generation of full-length complementary DNAs: thermal RACE. Meth. Enzymol. 218, 340–356.

    Article  CAS  PubMed  Google Scholar 

  13. Edwards, J. B., Delort, J., and Mallet, J. (1991) Oligodeoxyribonucleotide ligation to single-stranded cDNAs: a new tool for cloning 5′ ends of mRNAs and for constructing cDNA libraries by in vitro amplification. Nucl. Acids Res. 19, 5227–5232.

    Article  CAS  PubMed  Google Scholar 

  14. Diatchenko, L., Lau, Y. F., Campbell, A. P., Chenchik, A., Moqadam, F., Huang, B., et al. (1996) Suppression subtractive hybridization: a method for generating differentially regulated or tissue-specific cDNA probes and libraries. Proc. Natl. Acad. Sci. USA 93, 6025–6030.

    Article  CAS  PubMed  Google Scholar 

  15. Chou, Q., Russell, M., Birch, D. E., Raymond, J., and Bloch, W. (1992) Prevention of prePCR mis-priming and primer dimerization improves low-copy-number amplifications. Nucl. Acids Res. 20, 1717–1723.

    Article  CAS  PubMed  Google Scholar 

Download references

Author information

Authors and Affiliations

Authors

Editor information

Editors and Affiliations

Rights and permissions

Reprints and permissions

Copyright information

© 2002 Humana Press Inc.

About this protocol

Cite this protocol

Mastrangeli, R., Donini, S. (2002). Cloning of Homologous Genes by Gene-Capture PCR. In: Chen, BY., Janes, H.W. (eds) PCR Cloning Protocols. Methods in Molecular Biology™, vol 192. Humana Press. https://doi.org/10.1385/1-59259-177-9:359

Download citation

  • DOI: https://doi.org/10.1385/1-59259-177-9:359

  • Publisher Name: Humana Press

  • Print ISBN: 978-0-89603-969-8

  • Online ISBN: 978-1-59259-177-0

  • eBook Packages: Springer Protocols

Publish with us

Policies and ethics