A reverse transcriptase-related protein mediates phage resistance and polymerizes untemplated DNA in vitro

Nucleic Acids Research

Volumn 39, Issue 17, 2011, Pages 7620-7629

  Wang, Chen ^a   Villion, Manuela ^b   Semper, Cameron ^a   Coros, Colin ^a   Moineau, Sylvain ^b   Zimmerly, Steven ^a  

^a UNIVERSITY OF CALGARY   (Canada)

^b UNIVERSITÉ LAVAL   (Canada)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL DNA; DNA POLYMERASE; PROTEIN ABIK; RNA DIRECTED DNA POLYMERASE; TRANSFERASE; UNCLASSIFIED DRUG;

AMINO ACID ANALYSIS; ANTIBIOTIC RESISTANCE; ARTICLE; BACTERIOPHAGE; BIOLOGICAL ACTIVITY; CONTROLLED STUDY; COVALENT BOND; DNA SEQUENCE; ENZYME ACTIVITY; IN VITRO STUDY; IN VIVO STUDY; LACTOCOCCUS LACTIS; MUTAGENESIS; NONHUMAN; PRIORITY JOURNAL; PROTEIN DNA BINDING; PROTEIN MOTIF; REVERSE TRANSCRIPTION; SEQUENCE HOMOLOGY;

AMINO ACID MOTIFS; AMINO ACID SEQUENCE; BACTERIAL PROTEINS; BACTERIOPHAGES; DNA; DNA-DIRECTED DNA POLYMERASE; LACTOCOCCUS LACTIS; MOLECULAR SEQUENCE DATA; MUTATION; PROTEIN STRUCTURE, TERTIARY; RNA-DIRECTED DNA POLYMERASE; SEQUENCE HOMOLOGY, AMINO ACID;

LACTOCOCCUS LACTIS; POSIBACTERIA;

EID: 80053182210     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkr397     Document Type: Article

References (43)

1. Eickbush, T.H. and Jamburuthugoda, V.K. (2008) The diversity of retrotransposons and the properties of their reverse transcriptases. Virus Res., 134, 221-234.
2. Engelman, A. (2010) Reverse transcription and integration. In Kurth, R. and Bannert, N. (eds), Retroviruses: Molecular Biology, Genomics and Pathogenesis. Caister Academic Press, Berlin, pp. 114-142.
3. Wang, G.H. and Seeger, C. (1992) The reverse transcriptase of hepatitis B virus acts as a protein primer for viral DNA synthesis. Cell, 71, 663-670.
4. Blackburn, E.H. (2006) Telomerase RNA. In Gesteland, R.F., Cech, T.R. and Atkins, J.F. (eds), The RNA World, 3 rd edn. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, New York, pp. 419-436.
5. Galligan, J.T. and Kennell, J.C. (2007) Retroplasmids: linear and circular plasmids that replicate via reverse transcription. In Meinhardt, F. and Klassen, R. (eds), Microbial Linear Plasmids, Vol. 7. Springer, Heidelberg, pp. 163-186.
6. Pardue, M.L. and DeBaryshe, P.G. (2003) Retrotransposons provide an evolutionarily robust non-telomerase mechanism to maintain telomeres. Annu. Rev. Genet., 37, 485-511.
7. Kojima, K.K. and Kanehisa, M. (2008) Systematic survey for novel types of prokaryotic retroelements based on gene neighborhood and protein architecture. Mol. Biol. Evol., 25, 1395-1404. (Pubitemid 351882011)
8. Simon, D.M. and Zimmerly, S. (2008) A diversity of uncharacterized reverse transcriptases in bacteria. Nucleic Acids Res., 36, 7219-7229.
9. Lambowitz, A.M. and Zimmerly, S. (2011) Group II introns: mobile ribozymes that invade DNA. In Gestland, R.F., Cech, T.R. and Atkins, J.F. (eds), RNA Worlds: From Life's Origins to Diversity in Gene Regulation. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, New York, pp. 103-122.
10. Beauregard, A., Curcio, M.J. and Belfort, M. (2008) The take and give between retrotransposable elements and their hosts. Annu. Rev. Genet., 42, 587-617.
11. Liu, M., Deora, R., Doulatov, S.R., Gingery, M., Eiserling, F.A., Preston, A., Maskell, D.J., Simons, R.W., Cotter, P.A., Parkhill, J. et al. (2002) Reverse transcriptase-mediated tropism switching in Bordetella bacteriophage. Science, 295, 2091-2094. (Pubitemid 34229474)
12. Medhekar, B. and Miller, J.F. (2007) Diversity-generating retroelements. Curr. Opin. Microbiol., 10, 388-395. (Pubitemid 47404952)
13. Lampson, B.C., Viswanathan, M., Inouye, M. and Inouye, S. (1990) Reverse transcriptase from Escherichia coli exists as a complex with msDNA and is able to synthesize double-stranded DNA. J. Biol. Chem., 265, 8490-8496.
14. Lampson, B.C., Inouye, M. and Inouye, S. (2005) Retrons, msDNA, and the bacterial genome. Cytogenet. Genome. Res., 110, 491-499.
15. Horvath, P. and Barrangou, R. (2010) CRISPR/Cas, the immune system of bacteria and archaea. Science, 327, 167-170.
16. Marraffini, L.A. and Sontheimer, E.J. (2010) CRISPR interference: RNA-directed adaptive immunity in bacteria and archaea. Nat. Rev. Genet., 11, 181-190.
17. Emond, E., Holler, B.J., Boucher, I., Vandenbergh, P.A., Vedamuthu, E.R., Kondo, J.K. and Moineau, S. (1997) Phenotypic and genetic characterization of the bacteriophage abortive infection mechanism AbiK from Lactococcus lactis. Appl. Environ. Microbiol., 63, 1274-1283. (Pubitemid 27174828)
18. Dinsmore, P.K. and Klaenhammer, T.R. (1994) Phenotypic consequences of altering the copy number of abiA, a gene responsible for aborting bacteriophage infections in Lactococcus lactis. Appl. Environ. Microbiol., 60, 1129-1136. (Pubitemid 24113926)
19. Odegrip, R., Nilsson, A.S. and Hagga? rd-Ljungquist, E. (2006) Identification of a gene encoding a functional reverse transcriptase within a highly variable locus in the P2-like coliphages. J. Bacteriol., 188, 1643-1647. (Pubitemid 43228699)
20. Chopin, M.C., Chopin, A. and Bidnenko, E. (2005) Phage abortive infection in lactococci: variations on a theme. Curr. Opin. Microbiol., 8, 473-479. (Pubitemid 41021910)
21. Labrie, S.J., Samson, J.E. and Moineau, S. (2010) Bacteriophage resistance mechanisms. Nat. Rev. Microbiol., 8, 317-327.
22. Fortier, L.C., Bouchard, J.D. and Moineau, S. (2005) Expression and site-directed mutagenesis of the lactococcal abortive phage infection protein AbiK. J. Bacteriol., 187, 3721-3730. (Pubitemid 40705576)
23. Sambrook, J. and Russell, D.W. (2001) Molecular Cloning: A Laboratory Manual, 3 rd edn. Cold Spring Harbor Laboratory, Cold Spring Harbor, NY.
24. Rohman, M. and Harrison-Lavoie, K.J. (2000) Separation of copurifying GroEL from glutathione-S-transferase fusion proteins. Protein Expr. Purif., 20, 45-47.
25. Blum, H., Beier, H. and Gross, H.J. (1987) Improved silver staining of plant proteins, RNA and DNA in polyacrylamide gels. Electrophoresis, 8, 93-99.
26. Zimmerly, S., Moran, J.V., Perlman, P.S. and Lambowitz, A.M. (1999) Group II intron reverse transcriptase in yeast mitochondria. Stabilization and regulation of reverse transcriptase activity by the intron RNA. J. Mol. Biol., 289, 473-490. (Pubitemid 29295118)
27. Holo, H. and Nes, I.F. (1989) High-frequency transformation, by electroporation, of Lactococcus lactis subsp. cremoris grown with glycine in osmotically stabilized media. Appl. Environ. Microbiol., 55, 3119-3123. (Pubitemid 20002122)
28. O'Sullivan, D.J. and Klaenhammer, T.R. (1993) Rapid mini-prep isolation of high-quality plasmid DNA from Lactococcus and Lactobacillus spp. Appl. Environ. Microbiol., 59, 2730-2733. (Pubitemid 23223024)
29. Jarvis, A.W. (1978) Serological studies of a host range mutant of a lactic streptococcal bacteriophage. Appl. Environ. Microbiol., 36, 785-789. (Pubitemid 9070694)
30. Kohlstaedt, L.A., Wang, J., Friedman, J.M., Rice, P.A. and Steitz, T.A. (1992) Crystal structure at 3.5A ? resolution of HIV-1 reverse transcriptase complexed with an inhibitor. Science, 256, 1783-1790.
31. Finn, R.D., Mistry, J., Tate, J., Coggill, P., Heger, A., Pollington, J.E., Gavin, O.L., Gunasekaran, P., Ceric, G., Forslund, K. et al. (2010) The pfam protein families database. Nucleic Acids Res., 38, D211-222.
32. Luan, D.D. and Eickbush, T.H. (1995) RNA template requirements for target DNA-primed reverse transcription by the R2 retrotransposable element. Mol. Cell. Biol., 15, 3882-3891.
33. Luan, D.D. and Eickbush, T.H. (1996) Downstream 28S gene sequences on the RNA template affect the choice of primer and the accuracy of initiation by the R2 reverse transcriptase. Mol. Cell. Biol., 16, 4726-4734. (Pubitemid 26272126)
34. Kennell, J.C., Wang, H. and Lambowitz, A.M. (1994) The Mauriceville plasmid of Neurospora spp. uses novel mechanisms for initiating reverse transcription in vivo. Mol. Cell. Biol., 14, 3094-3107.
35. Chiang, C.C., Kennell, J.C., Wanner, L.A. and Lambowitz, A.M. (1994) A mitochondrial retroplasmid integrates into mitochondrial DNA by a novel mechanism involving the synthesis of a hybrid cDNA and homologous recombination. Mol. Cell. Biol., 14, 6419-6432. (Pubitemid 24299711)
36. Chen, B. and Lambowitz, A.M. (1997) De novo and DNA primer-mediated initiation of cDNA synthesis by the Mauriceville retroplasmid reverse transcriptase involve recognition of a 30 CCA sequence. J. Mol. Biol., 271, 311-332. (Pubitemid 27348500)
37. Lue, N.F., Bosoy, D., Moriarty, T.J., Autexier, C., Altman, B. and Leng, S. (2005) Telomerase can act as a template-and RNAindependent terminal transferase. Proc. Natl Acad. Sci. USA, 102, 9778-9783. (Pubitemid 40993645)
38. Galligan, J.T., Marchetti, S.E. and Kennell, J.C. (2011) Reverse transcription of the pFOXC mitochondrial retroplasmids of Fusarium oxysporum is protein primed. Mobile DNA, 2, 1.
39. Lin, L., Wan, F. and Hu, J. (2008) Functional and structural dynamics of hepadnavirus reverse transcriptase during protein-primed initiation of reverse transcription: effects of metal ions. J. Virol., 82, 5703-5714. (Pubitemid 351822246)
40. Bouchard, J.D. and Moineau, S. (2004) Lactococcal phage genes involved in sensitivity to AbiK and their relation to single-strand annealing proteins. J. Bacteriol., 186, 3649-3652. (Pubitemid 38661563)
41. Lopes, A., Amarir-Bouhram, J., Faure, G., Petit, M.A. and Guerois, R. (2010) Detection of novel recombinases in bacteriophage genomes unveils Rad52, Rad51 and Gp2.5 remote homologs. Nucleic Acids Res., 38, 3952-3962.
42. Ploquin, M., Bransi, A., Paquet, E.R., Stasiak, A.Z., Stasiak, A., Yu, X., Cieslinska, A.M., Egelman, E.H., Moineau, S. and Masson, J.Y. (2008) Functional and structural basis for a bacteriophage homolog of human RAD52. Curr. Biol., 18, 1142-1146.
43. Scaltriti, E., Launay, H., Genois, M.-M., Bron, P., Rivetti, C., Grolli, S., Ploquin, M., Campanacci, V., Tegoni, M., Cambillau, C. et al. (2011) Lactococcal phage p2 ORF35-Sak3 is an ATPase involved in DNA recombination and AbiK mechanism. Mol. Microbiol., 80, 102-116.