Rhodobacter capsulatus genes encoding form I ribulose-1,5-bisphosphate carboxylase/oxygenase (cbbLS) and neighbouring genes were acquired by a horizontal gene transfer

Microbiology

Volumn 144, Issue 1, 1998, Pages 219-227

  Paoli, George C ^a,c   Soyer, Ferda ^b   Shively, Jessup ^b   Tabita, F Robert ^a  

^a OHIO STATE UNIVERSITY   (United States)

^b CLEMSON UNIVERSITY   (United States)

^c AIR FORCE RESEARCH LABORATORY   (United States)

Author keywords

cbbQ; cbbR; Phylogeny; Rhodobacter capsulatus; RubisCO

Indexed keywords

PROTEIN SUBUNIT; RIBULOSEBISPHOSPHATE CARBOXYLASE; TRANSCRIPTION FACTOR;

AMINO ACID SEQUENCE; ARTICLE; BACTERIAL GENE; CYANOBACTERIUM; DNA SEQUENCE; GENE CLUSTER; GENE MAPPING; GENE TRANSFER; GENETIC TRANSCRIPTION; NONHUMAN; NUCLEOTIDE SEQUENCE; OPERON; PHYLOGENY; PRIORITY JOURNAL; RHODOBACTER CAPSULATUS;

BACTERIA (MICROORGANISMS); CYANOBACTERIA; PROKARYOTA; PROTEOBACTERIA; RHODOBACTER CAPSULATUS; RHODOBACTER SPHAEROIDES; RHODOPSEUDOMONAS;

EID: 0031962934     PISSN: 13500872     EISSN: None     Source Type: Journal    
DOI: 10.1099/00221287-144-1-219     Document Type: Article

References (37)

1. Arai, H., Igarashi, Y. & Kodama, T. (1994). Structure and ANR-dependent transcription of the nir genes for denitrification from Pseudomonas aeruginosa. Biosci Biotechnol Biochem 58, 1286-1291.
2. 2 fixation enzymes of Xanthobacter flavus. J Bacteriol 175, 6097-6104.
3. Blankenship, R. B. (1992). Origin and early evolution of photosynthesis. Photosynth Res 33, 91-111.
4. 1 Compounds, pp. 275-284. Edited by J. C. Murrell & D. P. Kelly. Andover: Intercept.
5. Delwiche, C. F. & Palmer, J. D. (1996). Rampant horizontal transfer and duplication of RubisCO genes in eubacteria and plastids. Mol Biol Evol 13, 873-882.
6. Dickerson, R. E. (1980). Evolution and gene transfer in purple photosynthetic bacteria. Nature 283, 210-212.
7. Felsenstein, J. (1989). PHYLIP - phylogeny inference package (version 3.2). Cladistics 5, 164-166.
8. Fonstein, M., Koshy, E. G., Nikolskaya, T., Mourachov, P. & Haselkorn, R. (1993). Refinement of the high resolution physical and genetic map of Rhodobacter capsulatus and genome surveys using blots of the cosmid encyclopedia. EMBO J 14, 1827-1841.
9. 2 fixation genes. In Anoxygenic Photosynthetic Bacteria, pp. 1107-1124. Edited by R. E. Blankenship, M. T. Madigan & C. E. Bauer. Dordrecht: Kluwer.
10. Gibson, J. L. & Tabita, F. R. (1977a). Different molecular forms of D-ribulose-1,5-bisphosphate carboxylase from Rhodopseudomonas sphaeroides. J Biol Chem 252, 943-949.
11. Gibson, J. L. & Tabita, F. R. (1977b). Isolation and preliminary characterization of two forms of ribulose 1,5-bisphosphate carboxylase from Rhodopseudomonas capsulata. J Bacteriol 132, 818-823.
12. Gibson, J. L. & Tabita, F. R. (1993). Nucleotide sequence and functional analysis of CbbR, a positive regulator of the Calvin cycle operons of Rhodobacter sphaeroides. J Bacteriol 175, 5778-5784.
13. Gibson, J. L. & Tabita, F. R. (1996). The molecular regulation of the reductive pentose phosphate pathway in proteobacteria and cyanobacteria. Arch Microbiol 166, 141-150.
14. Goethals, K., van Montagu, M. & Holsters, M. (1992). Conserved motifs in a divergent nod box of Azorhizobium caulinodans ORS571 reveal a common structure in promoters regulated by LysR-type proteins. Proc Natl Acad Sci USA 89, 1646-1650.
15. 1 Compounds, pp. 88-93. Edited by M. E. Lidstrom & F. R. Tabita. Dordrecht: Kluwer.
16. Imhoff, J. F., Truper, H. G. & Pfennig, N. (1984). Rearrangement of the species and genera of the phototrophic 'purple nonsulfur bacteria'. Int J Syst Bacteriol 34, 340-343.
17. Jungst, A. & Zumft, W. G. (1992). Interdependence of respiratory NO reduction and nitrite reduction revealed by mutagenesis of nirQ, a novel gene in the denitrification gene cluster of Pseudomonas stutzeri. FEBS Lett 314, 308-314.
18. Kusano, T. & Sugawara, K. (1993). Specific binding of Thiobacillus ferrooxidans RbcR to the intergenic sequence between the rbc operon and the rbcR gene. J Bacteriol 175, 1019-1025.
19. 54, and repressed by molybdenum. J Bacteriol 178, 2010-2017.
20. Larimer, F. W., Lu, T.-Y. S. & Buley, D. M. (1995). Sequence and expression of the form II ribulose bisphosphate carboxylase/ oxygenase (RUBISCO) gene from Rhodobacter capsulatus. FASEB J 9, A1275.
21. th General Meeting of the American Society for Microbiology, p. 528. Washington, DC: American Society for Microbiology.
22. Ludwig, W., Rosello-Mora, R., Aznar, R. & 14 other authors (1995). Comparative sequence analysis of 23S rRNA from proteobacteria. Syst Appl Microbiol 18, 164-188.
23. Meijer, W. G., van den Bergh, E. R. E. & Smith, L. M. (1996). Induction of the gap-pgk operon encoding glyceraldehyde-3-phosphate dehydrogenase and 3-phosphoglycerate kinase of Xanthobacter flavus requires the LysR-type transcriptional activator CbbR. J Bacteriol 178, 881-887.
24. Paoli, G. C., Strom-Morgan, N., Shively, J. M. & Tabita, F. R. (1995). Expression of the cbbLcbbS and cbbM genes and distinct organization of the cbb Calvin cycle structural genes of Rhodobacter capsulatus. Arch Microbiol 164, 396-405.
25. Pridmore, R. D. (1987). New and versatile cloning vectors with kanamycin-resistance marker. Gene 56, 309-312.
26. Schell, M. A. (1993). Molecular biology of the LysR family of transcriptional regulators. Annu Rev Microbiol 47, 597-626.
27. Scolnik, P. A. & Haselkorn, R. (1984). Activation of extra copies of genes coding for nitrogenase in Rhodopseudomonas capsulata. Nature 307, 289-292.
28. Strimmer, K. & von Haeseler, A. (1996). Quartet puzzling: a quartet maximum likelihood method for reconstructing tree topologies. Mol Biol Evol 13, 964-969.
29. Thompson, J. D., Higgins, D. G. & Gibson, T. J. (1994). CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 22, 4673-4680.
30. Viale, A. M., Kobayashi, H., Akazawa, T. & Henikoff, S. (1991). rbcR, a gene coding for a member of the LysR family of transcriptional regulators, is located upstream of the expressed set of ribulose 1,5-bisphosphate carboxylase/oxygenase genes in the photosynthetic bacterium Chromatium vinosum. J Bacteriol 173, 5224-5229.
31. Walker, J. E., Saraste, M., Runswick, M. J. & Gay, N. J. (1982). Distantly related sequences in the alpha- and beta-subunits of ATP synthase, myosin, kinases and other ATP-requiring enzymes and a common nucleotide binding fold. EMBO J 1, 945-951.
32. Watson, G. M. F. & Tabita, F. R. (1996). Regulation, unique organization, and unusual primary structure of carbon fixation genes from a marine phycoerythrin-containing cyanobacterium. Plant Mol Biol 32, 1103-1115.
33. Watson, G. M. F. & Tabita, F. R. (1997). Microbial ribulose 1,5-bisphosphate carboxylase/oxygenase: a molecule for phylogenetic and enzymological investigation. FEMS Microbiol Lett 146, 13-22.
34. 2 fixation in Alcaligenes eutrophus. Mol Microbiol 5, 2695-2705.
35. Woese, C. R., Gibson, J. & Fox, G. E. (1980). Do genealogical patterns in purple photosynthetic bacteria reflect interspecific gene transfer? Nature 283, 212-214.
36. Woese, C. R., Stackebrandt, E., Weisburg, W. G. & 8 other authors (1984). The phylogeny of purple bacteria: the alpha subdivision. Syst Appl Microbiol 5, 315-326.
37. Yokoyama, K., Hayashi, N. R., Arai, H., Chung, S. Y., Igarashi, Y. & Kodama, T. (1995). Genes encoding RubisCO in Pseudomonas hydrogenothermophila are followed by a novel cbbQ gene similar to nirQ of the denitrification gene cluster from Pseudomonas species. Gene 153, 75-79.