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. 1987 Dec;169(12):5782–5788. doi: 10.1128/jb.169.12.5782-5788.1987

Reiterated DNA sequences in Rhizobium and Agrobacterium spp.

M Flores 1, V González 1, S Brom 1, E Martínez 1, D Piñero 1, D Romero 1, G Dávila 1, R Palacios 1
PMCID: PMC214138  PMID: 3450286

Abstract

Repeated DNA sequences are a general characteristic of eucaryotic genomes. Although several examples of DNA reiteration have been found in procaryotic organisms, only in the case of the archaebacteria Halobacterium halobium and Halobacterium volcanii [C. Sapienza and W. F. Doolittle, Nature (London) 295:384-389, 1982], has DNA reiteration been reported as a common genomic feature. The genomes of two Rhizobium phaseoli strains, one Rhizobium meliloti strain, and one Agrobacterium tumefaciens strain were analyzed for the presence of repetitive DNA. Rhizobium and Agrobacterium spp. are closely related soil bacteria that interact with plants and that belong to the taxonomical family Rhizobiaceae. Rhizobium species establish a nitrogen-fixing symbiosis in the roots of legumes, whereas Agrobacterium species is a pathogen in different plants. The four strains revealed a large number of repeated DNA sequences. The family size was usually small, from 2 to 5 elements, but some presented more than 10 elements. Rhizobium and Agrobacterium spp. contain large plasmids in addition to the chromosomes. Analysis of the two Rhizobium strains indicated that DNA reiteration is not confined to the chromosome or to some plasmids but is a property of the whole genome.

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Selected References

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  1. Altenbuchner J., Cullum J. DNA amplification and an unstable arginine gene in Streptomyces lividans 66. Mol Gen Genet. 1984;195(1-2):134–138. doi: 10.1007/BF00332735. [DOI] [PubMed] [Google Scholar]
  2. Better M., Lewis B., Corbin D., Ditta G., Helinski D. R. Structural relationships among Rhizobium meliloti symbiotic promoters. Cell. 1983 Dec;35(2 Pt 1):479–485. doi: 10.1016/0092-8674(83)90181-2. [DOI] [PubMed] [Google Scholar]
  3. Casadaban M. J., Cohen S. N. Analysis of gene control signals by DNA fusion and cloning in Escherichia coli. J Mol Biol. 1980 Apr;138(2):179–207. doi: 10.1016/0022-2836(80)90283-1. [DOI] [PubMed] [Google Scholar]
  4. Chen K. C., Chen J. S., Johnson J. L. Structural features of multiple nifH-like sequences and very biased codon usage in nitrogenase genes of Clostridium pasteurianum. J Bacteriol. 1986 Apr;166(1):162–172. doi: 10.1128/jb.166.1.162-172.1986. [DOI] [PMC free article] [PubMed] [Google Scholar]
  5. Covarrubias L., Bolivar F. Construction and characterization of new cloning vehicles. VI. Plasmid pBR329, a new derivative of pBR328 lacking the 482-base-pair inverted duplication. Gene. 1982 Jan;17(1):79–89. doi: 10.1016/0378-1119(82)90103-2. [DOI] [PubMed] [Google Scholar]
  6. Donald R. G., Nees D. W., Raymond C. K., Loroch A. I., Ludwig R. A. Characterization of three genomic loci encoding Rhizobium sp. strain ORS571 N2 fixation genes. J Bacteriol. 1986 Jan;165(1):72–81. doi: 10.1128/jb.165.1.72-81.1986. [DOI] [PMC free article] [PubMed] [Google Scholar]
  7. Dykhuizen D. E., Sawyer S. A., Green L., Miller R. D., Hartl D. L. Joint distribution of insertion elements IS4 and IS5 in natural isolates of Escherichia coli. Genetics. 1985 Oct;111(2):219–231. doi: 10.1093/genetics/111.2.219. [DOI] [PMC free article] [PubMed] [Google Scholar]
  8. Eckhardt T. A rapid method for the identification of plasmid desoxyribonucleic acid in bacteria. Plasmid. 1978 Sep;1(4):584–588. doi: 10.1016/0147-619x(78)90016-1. [DOI] [PubMed] [Google Scholar]
  9. Fliss E. R., Loshon C. A., Setlow P. Genes for Bacillus megaterium small, acid-soluble spore proteins: cloning and nucleotide sequence of three additional genes from this multigene family. J Bacteriol. 1986 Feb;165(2):467–473. doi: 10.1128/jb.165.2.467-473.1986. [DOI] [PMC free article] [PubMed] [Google Scholar]
  10. Furano A. V. Direct demonstration of duplicate tuf genes in enteric bacteria. Proc Natl Acad Sci U S A. 1978 Jul;75(7):3104–3108. doi: 10.1073/pnas.75.7.3104. [DOI] [PMC free article] [PubMed] [Google Scholar]
  11. Göttfert M., Horvath B., Kondorosi E., Putnoky P., Rodriguez-Quiñones F., Kondorosi A. At least two nodD genes are necessary for efficient nodulation of alfalfa by Rhizobium meliloti. J Mol Biol. 1986 Oct 5;191(3):411–420. doi: 10.1016/0022-2836(86)90136-1. [DOI] [PubMed] [Google Scholar]
  12. Hamilton R. H., Fall M. Z. The loss of tumor-initiating ability in Agrobacterium tumefaciens by incubation at high temperature. Experientia. 1971 Feb 15;27(2):229–230. doi: 10.1007/BF02145913. [DOI] [PubMed] [Google Scholar]
  13. Hasegawa M., Hintermann G., Simonet J. M., Crameri R., Piret J., Hütter R. Certain chromosomal regions in Streptomyces glaucescens tend to carry amplifications and deletions. Mol Gen Genet. 1985;200(3):375–384. doi: 10.1007/BF00425720. [DOI] [PubMed] [Google Scholar]
  14. Jacobson M. R., Premakumar R., Bishop P. E. Transcriptional regulation of nitrogen fixation by molybdenum in Azotobacter vinelandii. J Bacteriol. 1986 Aug;167(2):480–486. doi: 10.1128/jb.167.2.480-486.1986. [DOI] [PMC free article] [PubMed] [Google Scholar]
  15. Kallas T., Rebière M. C., Rippka R., Tandeau de Marsac N. The structural nif genes of the cyanobacteria Gloeothece sp. and Calothrix sp. share homology with those of Anabaena sp., but the Gloeothece genes have a different arrangement. J Bacteriol. 1983 Jul;155(1):427–431. doi: 10.1128/jb.155.1.427-431.1983. [DOI] [PMC free article] [PubMed] [Google Scholar]
  16. Kaluza K., Hahn M., Hennecke H. Repeated sequences similar to insertion elements clustered around the nif region of the Rhizobium japonicum genome. J Bacteriol. 1985 May;162(2):535–542. doi: 10.1128/jb.162.2.535-542.1985. [DOI] [PMC free article] [PubMed] [Google Scholar]
  17. Kikuchi A., Gorini L. Similarity of genes argF and argI. Nature. 1975 Aug 21;256(5519):621–624. doi: 10.1038/256621a0. [DOI] [PubMed] [Google Scholar]
  18. Legrain C., Stalon V., Glansdorff N. Escherichia coli ornithine carbamolytransferase isoenzymes: evolutionary significance and the isolation of lambdaargF and lambdaargI transducing bacteriophages. J Bacteriol. 1976 Oct;128(1):35–38. doi: 10.1128/jb.128.1.35-38.1976. [DOI] [PMC free article] [PubMed] [Google Scholar]
  19. Masterson R. V., Atherly A. G. The presence of repeated DNA sequences and a partial restriction map of the pSym of Rhizobium fredii USDA193. Plasmid. 1986 Jul;16(1):37–44. doi: 10.1016/0147-619x(86)90077-6. [DOI] [PubMed] [Google Scholar]
  20. Morrison N. A., Hau C. Y., Trinick M. J., Shine J., Rolfe B. G. Heat curing of a sym plasmid in a fast-growing Rhizobium sp. that is able to nodulate legumes and the nonlegume Parasponia sp. J Bacteriol. 1983 Jan;153(1):527–531. doi: 10.1128/jb.153.1.527-531.1983. [DOI] [PMC free article] [PubMed] [Google Scholar]
  21. Ono H., Hintermann G., Crameri R., Wallis G., Hütter R. Reiterated DNA sequences in a mutant strain of Streptomyces glaucescens and cloning of the sequence in Escherichia coli. Mol Gen Genet. 1982;186(1):106–110. doi: 10.1007/BF00422920. [DOI] [PubMed] [Google Scholar]
  22. Prakash R. K., Atherly A. G. Reiteration of genes involved in symbiotic nitrogen fixation by fast-growing Rhizobium japonicum. J Bacteriol. 1984 Nov;160(2):785–787. doi: 10.1128/jb.160.2.785-787.1984. [DOI] [PMC free article] [PubMed] [Google Scholar]
  23. Prakash R. K., Schilperoort R. A., Nuti M. P. Large plasmids of fast-growing rhizobia: homology studies and location of structural nitrogen fixation (nif) genes. J Bacteriol. 1981 Mar;145(3):1129–1136. doi: 10.1128/jb.145.3.1129-1136.1981. [DOI] [PMC free article] [PubMed] [Google Scholar]
  24. Quinto C., De La Vega H., Flores M., Leemans J., Cevallos M. A., Pardo M. A., Azpiroz R., De Lourdes Girard M., Calva E., Palacios R. Nitrogenase reductase: A functional multigene family in Rhizobium phaseoli. Proc Natl Acad Sci U S A. 1985 Feb;82(4):1170–1174. doi: 10.1073/pnas.82.4.1170. [DOI] [PMC free article] [PubMed] [Google Scholar]
  25. Rice D., Mazur B. J., Haselkorn R. Isolation and physical mapping of nitrogen fixation genes from the cyanobacterium Anabaena 7120. J Biol Chem. 1982 Nov 10;257(21):13157–13163. [PubMed] [Google Scholar]
  26. Rosenberg C., Boistard P., Dénarié J., Casse-Delbart F. Genes controlling early and late functions in symbiosis are located on a megaplasmid in Rhizobium meliloti. Mol Gen Genet. 1981;184(2):326–333. doi: 10.1007/BF00272926. [DOI] [PubMed] [Google Scholar]
  27. Rossi J. J., Landy A. Structure and organization of the two tRNATyr gene clusters on the E. coli chromosome. Cell. 1979 Mar;16(3):523–534. doi: 10.1016/0092-8674(79)90027-8. [DOI] [PubMed] [Google Scholar]
  28. Rostas K., Kondorosi E., Horvath B., Simoncsits A., Kondorosi A. Conservation of extended promoter regions of nodulation genes in Rhizobium. Proc Natl Acad Sci U S A. 1986 Mar;83(6):1757–1761. doi: 10.1073/pnas.83.6.1757. [DOI] [PMC free article] [PubMed] [Google Scholar]
  29. Ruvkun G. B., Long S. R., Meade H. M., van den Bos R. C., Ausubel F. M. ISRm1: A Rhizobium meliloti insertion sequence that transposes preferentially into nitrogen fixation genes. J Mol Appl Genet. 1982;1(5):405–418. [PubMed] [Google Scholar]
  30. Sapienza C., Doolittle W. F. Unusual physical organization of the Halobacterium genome. Nature. 1982 Feb 4;295(5848):384–389. doi: 10.1038/295384a0. [DOI] [PubMed] [Google Scholar]
  31. Sapienza C., Rose M. R., Doolittle W. F. High-frequency genomic rearrangements involving archaebacterial repeat sequence elements. Nature. 1982 Sep 9;299(5879):182–185. doi: 10.1038/299182a0. [DOI] [PubMed] [Google Scholar]
  32. Scolnik P. A., Haselkorn R. Activation of extra copies of genes coding for nitrogenase in Rhodopseudomonas capsulata. Nature. 1984 Jan 19;307(5948):289–292. doi: 10.1038/307289a0. [DOI] [PubMed] [Google Scholar]
  33. Soberón-Chávez G., Nájera R., Olivera H., Segovia L. Genetic rearrangements of a Rhizobium phaseoli symbiotic plasmid. J Bacteriol. 1986 Aug;167(2):487–491. doi: 10.1128/jb.167.2.487-491.1986. [DOI] [PMC free article] [PubMed] [Google Scholar]
  34. Southern E. M. Detection of specific sequences among DNA fragments separated by gel electrophoresis. J Mol Biol. 1975 Nov 5;98(3):503–517. doi: 10.1016/s0022-2836(75)80083-0. [DOI] [PubMed] [Google Scholar]
  35. Szabo L. J., Mills D. Integration and excision of pMC7105 in Pseudomonas syringae pv. phaseolicola: involvement of repetitive sequences. J Bacteriol. 1984 Mar;157(3):821–827. doi: 10.1128/jb.157.3.821-827.1984. [DOI] [PMC free article] [PubMed] [Google Scholar]
  36. Van Larebeke N., Genetello C., Schell J., Schilperoort R. A., Hermans A. K., Van Montagu M., Hernalsteens J. P. Acquisition of tumour-inducing ability by non-oncogenic agrobacteria as a result of plasmid transfer. Nature. 1975 Jun 26;255(5511):742–743. doi: 10.1038/255742a0. [DOI] [PubMed] [Google Scholar]

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