Home LiteratureArticle Details
PMID: 9096322 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't

In vitro evolution of terminal protein-containing genomes.

Proceedings of the National Academy of Sciences of the United States of America ·Vol. 94 ·No. 7 ·1997-04-01 ·Pages 2921-6

Esteban JA, Blanco L, Villar L, Salas M

Abstract

A new self-sustained terminal protein-primed DNA amplification system has been used to describe in vitro evolutionary changes affecting maintenance of the genome size of bacteriophage phi29. These changes involve generation and efficient amplification of short palindromic molecules containing an inverted duplication of one of the original DNA ends. A template-switching mechanism is proposed to account for the appearance of these molecules. After their formation, they would replicate by means of hairpin intermediates. Relevant kinetic information about this DNA replication system has been obtained from the competition between the input full-length phi29 DNA and its derived truncated versions. The physiological relevance of these molecules and the mechanisms to control their formation are discussed.

MeSH Terms
Bacillus Phages/genetics DNA, Viral/chemistry,genetics Genome, Viral Nucleic Acid Conformation Viral Proteins/genetics
Chemicals
DNA, Viral Viral Proteins
Authors & Affiliations
4 authors, click to expand affiliations / ORCID
Esteban J A
Centro de Biología Molecular Severo Ochoa, Universidad Autónoma, Canto Blanco, Madrid, Spain.
Blanco L
Villar L
Salas M
References (32)
32 references, click to expand
  1. The mutant distribution of an RNA species replicated by Q beta replicase.
    J Mol Biol. 1995 Jun 16;249(4):754-62 PMID: 7602587
  2. Sequence analysis of RNA species synthesized by Q beta replicase without template.
    Biochemistry. 1993 May 11;32(18):4848-54 PMID: 7683911
  3. Helix-destabilizing activity of phi 29 single-stranded DNA binding protein: effect on the elongation rate during strand displacement DNA replication.
    J Mol Biol. 1995 Nov 3;253(4):517-29 PMID: 7473731
  4. Template-directed and template-free RNA synthesis by Q beta replicase.
    J Mol Biol. 1993 May 20;231(2):175-9 PMID: 8510141
  5. Strand displacement amplification as an in vitro model for rolling-circle replication: deletion formation and evolution during serial transfer.
    Proc Natl Acad Sci U S A. 1994 Aug 16;91(17):7937-41 PMID: 8058737
  6. Hairpin structures are the primary amplification products: a novel mechanism for generation of inverted repeats during gene amplification.
    Mol Cell Biol. 1994 Dec;14(12):7782-91 PMID: 7969119
  7. Terminal protein-primed DNA amplification.
    Proc Natl Acad Sci U S A. 1994 Dec 6;91(25):12198-202 PMID: 7991606
  8. Modelling viral evolution in vitro using exo- Klenow polymerase: continuous selection of strand displacement amplified DNA that binds an oligodeoxynucleotide to form a triple-helix.
    J Mol Biol. 1995 Dec 15;254(5):856-68 PMID: 7500356
  9. Purification of bacteriophage phi 29 DNA polymerase.
    Methods Enzymol. 1995;262:42-9 PMID: 8594366
  10. Complications and implications of linear bacterial chromosomes.
    Trends Genet. 1996 May;12(5):192-6 PMID: 8984735
  11. An extracellular Darwinian experiment with a self-duplicating nucleic acid molecule.
    Proc Natl Acad Sci U S A. 1967 Jul;58(1):217-24 PMID: 5231602
  12. Enzymatic synthesis of deoxyribonucleic acid. XXV. Purification and properties of deoxyribonucleic acid polymerase induced by infection with phage T4.
    J Biol Chem. 1968 Feb 10;243(3):627-38 PMID: 4866523
  13. The cloning of a self-replicating RNA molecule.
    Proc Natl Acad Sci U S A. 1968 Jul;60(3):866-72 PMID: 5243928
  14. Further extracellular Darwinian experiments with replicating RNA molecules: diverse variants isolated under different selective conditions.
    Proc Natl Acad Sci U S A. 1969 Jul;63(3):805-11 PMID: 5259764
  15. Selforganization of matter and the evolution of biological macromolecules.
    Naturwissenschaften. 1971 Oct;58(10):465-523 PMID: 4942363
  16. Analysis of restriction fragments of T7 DNA and determination of molecular weights by electrophoresis in neutral and alkaline gels.
    J Mol Biol. 1977 Feb 15;110(1):119-46 PMID: 845942
  17. Initiation of phage phi 29 DNA replication in vitro: formation of a covalent complex between the terminal protein, p3, and 5'-dAMP.
    Proc Natl Acad Sci U S A. 1982 Sep;79(18):5522-6 PMID: 6813861
  18. Kinetics of RNA replication.
    Biochemistry. 1983 May 10;22(10):2544-59 PMID: 6860647
  19. Overproduction and purification of protein P6 of Bacillus subtilis phage phi 29: role in the initiation of DNA replication.
    Nucleic Acids Res. 1985 May 10;13(9):3083-100 PMID: 3158884
  20. Replication of phage phi 29 DNA with purified terminal protein and DNA polymerase: synthesis of full-length phi 29 DNA.
    Proc Natl Acad Sci U S A. 1985 Oct;82(19):6404-8 PMID: 3863101
  21. DNA amplification--deletion in a spontaneous mutation of the hamster aprt locus: structure and sequence of the novel joint.
    Nucleic Acids Res. 1986 Nov 11;14(21):8361-71 PMID: 3024103
  22. The multicopy appearance of a large inverted duplication and the sequence at the inversion joint suggest a new model for gene amplification.
    EMBO J. 1988 Feb;7(2):407-17 PMID: 3366118
  23. Characterization of the phage phi 29 protein p5 as a single-stranded DNA binding protein. Function in phi 29 DNA-protein p3 replication.
    Nucleic Acids Res. 1989 May 25;17(10):3663-72 PMID: 2499869
  24. Functional domains in the bacteriophage phi 29 terminal protein for interaction with the phi 29 DNA polymerase and with DNA.
    Nucleic Acids Res. 1989 Dec 25;17(24):10353-66 PMID: 2602154
  25. Direct and inverted DNA repeats associated with P-glycoprotein gene amplification in drug resistant Leishmania.
    EMBO J. 1991 Apr;10(4):1009-16 PMID: 1672636
  26. Protein-priming of DNA replication.
    Annu Rev Biochem. 1991;60:39-71 PMID: 1883199
  27. Analysis of replicative intermediates produced during bacteriophage phi 29 DNA replication in vitro.
    J Mol Biol. 1991 Dec 20;222(4):983-94 PMID: 1762160
  28. Isothermal in vitro amplification of DNA by a restriction enzyme/DNA polymerase system.
    Proc Natl Acad Sci U S A. 1992 Jan 1;89(1):392-6 PMID: 1309614
  29. Symmetrical adenovirus minichromosomes have hairpin replication intermediates.
    Gene. 1992 Jan 15;110(2):145-50 PMID: 1537551
  30. The conjugative plasmid SLP2 of Streptomyces lividans is a 50 kb linear molecule.
    Mol Microbiol. 1993 Mar;7(6):925-32 PMID: 8387146
  31. Images of evolution: origin of spontaneous RNA replication waves.
    Proc Natl Acad Sci U S A. 1993 May 1;90(9):4191-5 PMID: 7683426
  32. Physical map of the linear chromosome of Streptomyces griseus.
    J Bacteriol. 1995 Nov;177(22):6492-8 PMID: 7592425
Article Info
Journal
Proceedings of the National Academy of Sciences of the United States of America
Abbr.
Proc Natl Acad Sci U S A
ISSN
0027-8424
DOI
10.1073/pnas.94.7.2921
Published
1997-04-01
Pages
2921-6
Language
English
Region
United States
NLM ID
7505876
PMCID
PMC20298
Subset
IM
Grants
NIGMS NIH HHS · R01 GM027242 · United States
External Links
PubMed source DOI: 10.1073/pnas.94.7.2921 PMC Full Text View journal details
Analysis Services
Analysis Services

Contact

No. 2 Wenbo Road, Zhangqiu District, Jinan, Shandong

Qilu Normal University · Genelibs Bioinformatics Lab

750 Shunhua Rd, Jinan

2F, Bldg F, University Science Park

Tel: 0531-88819269

WeChat Official Account

Follow our WeChat subscription account for real-time updates and the latest in medical and biological research.


Business Email

E-mail: product@genelibs.com

Copyright © 2026.Genelibs Jinan Honghui Biotechnology Co., Ltd. 鲁ICP备20007159号-2