Abstract
The moderately halophilic bacterium Chromohalobacter marismortui contains a 17.5-kb narrow-host-range plasmid, pCM1, which shows interesting properties for the development of cloning vectors for the genetic manipulation of this important group of extremophiles. Plasmid pCM1 can stably replicate and is maintained in most gram-negative moderate halophiles tested. The replication origin has been identified and sequenced, and the minimal pCM1 replicon has been localized to a 1,600-bp region which includes two functionally discrete regions, the oriV region and the repA gene. oriV, located on a 700-bp fragment, contains four iterons 20 bp in length adjacent to a DnaA box that is dispensable but required for efficient replication of pCM1, and it requires trans-acting functions. The repA gene, which encodes a replication protein of 289 residues, is similar to the replication proteins of other gram-negative bacteria.
Full Text
The Full Text of this article is available as a PDF (379.1 KB).
Selected References
These references are in PubMed. This may not be the complete list of references from this article.
- Abeles A. L., Reaves L. D., Austin S. J. A single DnaA box is sufficient for initiation from the P1 plasmid origin. J Bacteriol. 1990 Aug;172(8):4386–4391. doi: 10.1128/jb.172.8.4386-4391.1990. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Biek D. P., Cohen S. N. Propagation of pSC101 plasmids defective in binding of integration host factor. J Bacteriol. 1992 Feb;174(3):785–792. doi: 10.1128/jb.174.3.785-792.1992. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Bramhill D., Kornberg A. Duplex opening by dnaA protein at novel sequences in initiation of replication at the origin of the E. coli chromosome. Cell. 1988 Mar 11;52(5):743–755. doi: 10.1016/0092-8674(88)90412-6. [DOI] [PubMed] [Google Scholar]
- Davison J. Mechanism of control of DNA replication and incompatibility in ColE1-type plasmids--a review. Gene. 1984 Apr;28(1):1–15. doi: 10.1016/0378-1119(84)90082-9. [DOI] [PubMed] [Google Scholar]
- Devereux J., Haeberli P., Smithies O. A comprehensive set of sequence analysis programs for the VAX. Nucleic Acids Res. 1984 Jan 11;12(1 Pt 1):387–395. doi: 10.1093/nar/12.1part1.387. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Ditta G., Stanfield S., Corbin D., Helinski D. R. Broad host range DNA cloning system for gram-negative bacteria: construction of a gene bank of Rhizobium meliloti. Proc Natl Acad Sci U S A. 1980 Dec;77(12):7347–7351. doi: 10.1073/pnas.77.12.7347. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Durland R. H., Helinski D. R. The sequence encoding the 43-kilodalton trfA protein is required for efficient replication or maintenance of minimal RK2 replicons in Pseudomonas aeruginosa. Plasmid. 1987 Sep;18(2):164–169. doi: 10.1016/0147-619x(87)90044-8. [DOI] [PubMed] [Google Scholar]
- Fernandez-Castillo R., Vargas C., Nieto J. J., Ventosa A., Ruiz-Berraquero F. Characterization of a plasmid from moderately halophilic eubacteria. J Gen Microbiol. 1992 Jun;138(6):1133–1137. doi: 10.1099/00221287-138-6-1133. [DOI] [PubMed] [Google Scholar]
- Figurski D. H., Helinski D. R. Replication of an origin-containing derivative of plasmid RK2 dependent on a plasmid function provided in trans. Proc Natl Acad Sci U S A. 1979 Apr;76(4):1648–1652. doi: 10.1073/pnas.76.4.1648. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Filutowicz M., Appelt K. The integration host factor of Escherichia coli binds to multiple sites at plasmid R6K gamma origin and is essential for replication. Nucleic Acids Res. 1988 May 11;16(9):3829–3843. doi: 10.1093/nar/16.9.3829. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Filutowicz M., McEachern M., Greener A., Mukhopadhyay P., Uhlenhopp E., Durland R., Helinski D. Role of the pi initiation protein and direct nucleotide sequence repeats in the regulation of plasmid R6K replication. Basic Life Sci. 1985;30:125–140. doi: 10.1007/978-1-4613-2447-8_13. [DOI] [PubMed] [Google Scholar]
- Friedman D. I. Integration host factor: a protein for all reasons. Cell. 1988 Nov 18;55(4):545–554. doi: 10.1016/0092-8674(88)90213-9. [DOI] [PubMed] [Google Scholar]
- Fuller R. S., Funnell B. E., Kornberg A. The dnaA protein complex with the E. coli chromosomal replication origin (oriC) and other DNA sites. Cell. 1984 Oct;38(3):889–900. doi: 10.1016/0092-8674(84)90284-8. [DOI] [PubMed] [Google Scholar]
- Gaylo P. J., Turjman N., Bastia D. DnaA protein is required for replication of the minimal replicon of the broad-host-range plasmid RK2 in Escherichia coli. J Bacteriol. 1987 Oct;169(10):4703–4709. doi: 10.1128/jb.169.10.4703-4709.1987. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Gennaro M. L., Novick R. P. cmp, a cis-acting plasmid locus that increases interaction between replication origin and initiator protein. J Bacteriol. 1986 Oct;168(1):160–166. doi: 10.1128/jb.168.1.160-166.1986. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Gilbride K. A., Brunton J. L. Identification and characterization of a new replication region in the Neisseria gonorrhoeae beta-lactamase plasmid pFA3. J Bacteriol. 1990 May;172(5):2439–2446. doi: 10.1128/jb.172.5.2439-2446.1990. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Hanahan D. Studies on transformation of Escherichia coli with plasmids. J Mol Biol. 1983 Jun 5;166(4):557–580. doi: 10.1016/s0022-2836(83)80284-8. [DOI] [PubMed] [Google Scholar]
- Hansen E. B., Yarmolinsky M. B. Host participation in plasmid maintenance: dependence upon dnaA of replicons derived from P1 and F. Proc Natl Acad Sci U S A. 1986 Jun;83(12):4423–4427. doi: 10.1073/pnas.83.12.4423. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Hasunuma K., Sekiguchi M. Replication of plasmid pSC101 in Escherichia coli K12: requirement for dnaA function. Mol Gen Genet. 1977 Sep 9;154(3):225–230. doi: 10.1007/BF00571277. [DOI] [PubMed] [Google Scholar]
- Henikoff S. Unidirectional digestion with exonuclease III creates targeted breakpoints for DNA sequencing. Gene. 1984 Jun;28(3):351–359. doi: 10.1016/0378-1119(84)90153-7. [DOI] [PubMed] [Google Scholar]
- Herrero M., de Lorenzo V., Timmis K. N. Transposon vectors containing non-antibiotic resistance selection markers for cloning and stable chromosomal insertion of foreign genes in gram-negative bacteria. J Bacteriol. 1990 Nov;172(11):6557–6567. doi: 10.1128/jb.172.11.6557-6567.1990. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Itoh Y., Terawaki Y. Replication properties of mini-Rts1 derivatives deleted for DnaA boxes in the replication origin. Plasmid. 1989 May;21(3):242–246. doi: 10.1016/0147-619x(89)90048-6. [DOI] [PubMed] [Google Scholar]
- Kessler B., de Lorenzo V., Timmis K. N. A general system to integrate lacZ fusions into the chromosomes of gram-negative eubacteria: regulation of the Pm promoter of the TOL plasmid studied with all controlling elements in monocopy. Mol Gen Genet. 1992 May;233(1-2):293–301. doi: 10.1007/BF00587591. [DOI] [PubMed] [Google Scholar]
- Kline B. C., Kogoma T., Tam J. E., Shields M. S. Requirement of the Escherichia coli dnaA gene product for plasmid F maintenance. J Bacteriol. 1986 Oct;168(1):440–443. doi: 10.1128/jb.168.1.440-443.1986. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Krishnan B. R., Fobert P. R., Seitzer U., Iyer V. N. Mutations within the replicon of the IncN plasmid pCU1 that affect its Escherichia coli polA-independence but not its autonomous replication ability. Gene. 1990 Jul 2;91(1):1–7. doi: 10.1016/0378-1119(90)90155-k. [DOI] [PubMed] [Google Scholar]
- Krishnan B. R., Iyer V. N. IncN plasmid replicon. A deletion and subcloning analysis. J Mol Biol. 1990 Jun 20;213(4):777–788. doi: 10.1016/S0022-2836(05)80263-3. [DOI] [PubMed] [Google Scholar]
- Kües U., Stahl U. Replication of plasmids in gram-negative bacteria. Microbiol Rev. 1989 Dec;53(4):491–516. doi: 10.1128/mr.53.4.491-516.1989. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Masson L., Ray D. S. Mechanism of autonomous control of the Escherichia coli F plasmid: different complexes of the initiator/repressor protein are bound to its operator and to an F plasmid replication origin. Nucleic Acids Res. 1986 Jul 25;14(14):5693–5711. doi: 10.1093/nar/14.14.5693. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Masson L., Ray D. S. Mechanism of autonomous control of the Escherichia coli F plasmid: purification and characterization of the repE gene product. Nucleic Acids Res. 1988 Jan 25;16(2):413–424. doi: 10.1093/nar/16.2.413. [DOI] [PMC free article] [PubMed] [Google Scholar]
- McEachern M. J., Filutowicz M., Helinski D. R. Mutations in direct repeat sequences and in a conserved sequence adjacent to the repeats result in a defective replication origin in plasmid R6K. Proc Natl Acad Sci U S A. 1985 Mar;82(5):1480–1484. doi: 10.1073/pnas.82.5.1480. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Miller V. L., Mekalanos J. J. A novel suicide vector and its use in construction of insertion mutations: osmoregulation of outer membrane proteins and virulence determinants in Vibrio cholerae requires toxR. J Bacteriol. 1988 Jun;170(6):2575–2583. doi: 10.1128/jb.170.6.2575-2583.1988. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Murakami Y., Ohmori H., Yura T., Nagata T. Requirement of the Escherichia coli dnaA gene function for ori-2-dependent mini-F plasmid replication. J Bacteriol. 1987 Apr;169(4):1724–1730. doi: 10.1128/jb.169.4.1724-1730.1987. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Murotsu T., Tsutsui H., Matsubara K. Identification of the minimal essential region for the replication origin of miniF plasmid. Mol Gen Genet. 1984;196(2):373–378. doi: 10.1007/BF00328075. [DOI] [PubMed] [Google Scholar]
- Nieto C., Giraldo R., Fernández-Tresguerres E., Díaz R. Genetic and functional analysis of the basic replicon of pPS10, a plasmid specific for Pseudomonas isolated from Pseudomonas syringae patovar savastanoi. J Mol Biol. 1992 Jan 20;223(2):415–426. doi: 10.1016/0022-2836(92)90661-3. [DOI] [PubMed] [Google Scholar]
- Prentki P., Chandler M., Galas D. J. Escherichia coli integration host factor bends the DNA at the ends of IS1 and in an insertion hotspot with multiple IHF binding sites. EMBO J. 1987 Aug;6(8):2479–2487. doi: 10.1002/j.1460-2075.1987.tb02529.x. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Robertson C. A., Nash H. A. Bending of the bacteriophage lambda attachment site by Escherichia coli integration host factor. J Biol Chem. 1988 Mar 15;263(8):3554–3557. [PubMed] [Google Scholar]
- Sanger F., Nicklen S., Coulson A. R. DNA sequencing with chain-terminating inhibitors. Proc Natl Acad Sci U S A. 1977 Dec;74(12):5463–5467. doi: 10.1073/pnas.74.12.5463. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Selvaraj G., Iyer V. N. Suicide plasmid vehicles for insertion mutagenesis in Rhizobium meliloti and related bacteria. J Bacteriol. 1983 Dec;156(3):1292–1300. doi: 10.1128/jb.156.3.1292-1300.1983. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Snyder U. K., Thompson J. F., Landy A. Phasing of protein-induced DNA bends in a recombination complex. Nature. 1989 Sep 21;341(6239):255–257. doi: 10.1038/341255a0. [DOI] [PubMed] [Google Scholar]
- Stenzel T. T., MacAllister T., Bastia D. Cooperativity at a distance promoted by the combined action of two replication initiator proteins and a DNA bending protein at the replication origin of pSC101. Genes Dev. 1991 Aug;5(8):1453–1463. doi: 10.1101/gad.5.8.1453. [DOI] [PubMed] [Google Scholar]
- Stenzel T. T., Patel P., Bastia D. The integration host factor of Escherichia coli binds to bent DNA at the origin of replication of the plasmid pSC101. Cell. 1987 Jun 5;49(5):709–717. doi: 10.1016/0092-8674(87)90547-2. [DOI] [PubMed] [Google Scholar]
- Sugiura S., Ohkubo S., Yamaguchi K. Minimal essential origin of plasmid pSC101 replication: requirement of a region downstream of iterons. J Bacteriol. 1993 Sep;175(18):5993–6001. doi: 10.1128/jb.175.18.5993-6001.1993. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Thomas C. M., Smith C. A. Incompatibility group P plasmids: genetics, evolution, and use in genetic manipulation. Annu Rev Microbiol. 1987;41:77–101. doi: 10.1146/annurev.mi.41.100187.000453. [DOI] [PubMed] [Google Scholar]
- Wickner S., Hoskins J., Chattoraj D., McKenney K. Deletion analysis of the mini-P1 plasmid origin of replication and the role of Escherichia coli DnaA protein. J Biol Chem. 1990 Jul 15;265(20):11622–11627. [PubMed] [Google Scholar]