1887

Microbiology Society logo

Volume 142, Issue 11

Sequence analysis of a 50 kb region between and on the chromosome Free

Abstract

The 49630 bp region of the genome has been fully sequenced. The sequence contains one partial and 62 complete ORFs, one partial and three complete rRNA genes and a cluster of six tRNA genes. The direction of the transcription and translation of 61 ORFs is the same as that of the movement of the replication fork. A homology search of 40 ORFs in newly determined sequence revealed that 27 of them had significant similarity to known proteins such as elongation factor G, elongation factor Tu, pseudouridine synthase I and ribosomal proteins. Two adjacent genes, and , appeared to encode proteins belonging to the ATP-binding cassette (ABC) family.

  • Received:
  • Accepted:
  • Revised:
  • Published Online:
Keyword(s): Bacillus subtilis , genome sequencing and ribosomal protein gene cluster
Society for General Microbiology 1996
Loading

Article metrics loading...

/content/journal/micro/10.1099/13500872-142-11-3039
1996-11-01
2024-04-25
Loading full text...

Full text loading...

/deliver/fulltext/micro/142/11/mic-142-11-3039.html?itemId=/content/journal/micro/10.1099/13500872-142-11-3039&mimeType=html&fmt=ahah

References

  1. Anagnostopoulos C., Piggot P. J., Hoch J. A. 1993; The genetic map ofBacillus subtilis.. In Bacillus subtilis and Other Grampositive Bacteria: Biochemistry, Physiology and Molecular Genetics pp. 425–461 Sonenshein A. L., Hoch J. A., Losick R. Edited by Washington, DC: American Society for Microbiology;
     [Google Scholar]
  2. Berger D. K., Woods D. R., Rawlings D. E. 1990; Complementation ofEscherichia coli σ54(NtrA)-dependent formate hydrogen lyase activity by a clonedThiobacillusferrooxidans ntrAgene. J Bacteriol 172:4399–4406
     [Google Scholar]
  3. Boor K. J., Duncan M. L., Price C. W. 1995; Genetic and transcriptional organization of the region encoding the β subunit of Bacillus subtilis RNA polymerase. J Biol Chem 270:20329–20336
     [Google Scholar]
  4. Dardel F., Panvert M., Farat G. 1990; Transcription and regulation expression of the Escherichia coli methionil-tRNA synthetase gene. Mol Gen Genet 223:121–133
     [Google Scholar]
  5. Evrard J. L., Kuntz M., Weil J. H. 1990; The nucleotide sequence of five ribosomal protein genes from the cyanelles of Cyanophora paradoxa: implications concerning the phylogenetic relationship between cyanelles and chloroplasts. J Mol Evol 30:16–25
     [Google Scholar]
  6. Fukuzawa H., Kohchi T., Sano T., Shirai H., Umesono K., Inokuchi H., Ozeki H., Ohyama K. 1988; Structure and organization of Marchantia polymorpha chloroplast genome III. Gene organization of the large single copy region from rbcE to trnl(CAU). J Mol Biol 203:333–351
     [Google Scholar]
  7. Garland W. G., Louie K. A., Mathson A. T., Liljas A. 1987; The complete amino acid sequence of the ribosomal ‘A’ protein (LI2) from Bacillus stearothermophilus.. FEBS Lett 220:43–46
     [Google Scholar]
  8. Glaser P., Kunst F., Arnaud M., Coudart M. -P., Gonzales W., Hullo M. -F., lonescu M., Lubochinsky B., Marcelino L., Moszer I., Presecan E., Santana M., Schneider E., Schweizer J., Vertes A., Rapoport G., Danchin A. 1993; Bacillus subtilis genome project: cloning and sequencing of the 97 kb region from 325° to 333°. Mol Microbiol 10:371–384
     [Google Scholar]
  9. Green L. S., Laudenbach D. E., Grossman A. R. 1989; A region of a cyanobacterial genome required for sulfate transport. Proc Natl Acad Sci USA 861949–1953
     [Google Scholar]
  10. Gross U., Chen J. -H., Kono D. H., Lobo J. G., Yu D. T. Y. 1989; High degree of conservation between ribosomal proteins of Yersinia pseudotuberculosis and Escherichia coli.. Nucleic Acid Res 17:3601–3602
     [Google Scholar]
  11. Henkin T. K., Moon S. H., Mattheakis L. C., Nomura M. 1989; Cloning and analysis of the spc ribosomal protein operon of Bacillus subtilis: comparison with the spc operon of Escherichia coli.. Nucleic Acid Res 17:7469–7486
     [Google Scholar]
  12. Herwig S., Kruft V., Wittmann-Liebold B. 1992; Primary structures of ribosomal proteins L3 and L4 from Bacillus stearothermophilus. . Eur J Biochem 207:877–885
     [Google Scholar]
  13. Higo K., Itoh T., Kumazaki T., Osawa S. 1980; Ribosomal proteins from mesophilic and thermophilic bacteria. . In Genetics and Evolution of RNA Polymerase, tRNA and Ribosomes pp. 655–666 Osawa S., Ozeki H., Uchida H., Yura T. Edited by University of Tokyo: University of Tokyo Press;
     [Google Scholar]
  14. Honoré N., Berg S., Chanteau S., Doucet-Populaire F., Eiglmeier K., Garnier T., Georges C., Launois P., Limpaiboon T., Newton S., Niang K., del Portillo P., Ramesh G. R., Reddi P., Redel P. R., Sittisombut N., Wu-Hunter S., Cole S. T. 1993; Nucleotide sequence of the first cosmid from the Mycobacterium leprae genome project : structure and function of the Rif-Str region. Mol Microbiol 7:207–214
     [Google Scholar]
  15. Isono S., Thamm S., Kitakawa M., Isono K. 1985; Cloning and nucleotide sequencing of the genes for ribosomal proteins S9(rpsl)and LI3 (rplM)of Escherichia coli.. Mol Gen Genet 198:279–282
     [Google Scholar]
  16. Itoh T. 1981; Primary structure of an acidic ribosomal protein from Micrococcus lysodeikkticus. . FEBS Lett 127:67–70
     [Google Scholar]
  17. Jordan A., Gibert I., Barbé J. 1994; Cloning and sequencing of the genes from S. typhimurium encoding a new bacterial ribonucleotide reductase. J Bacteriol 176:3420–3427
     [Google Scholar]
  18. Kammen H. O., Marvel C. G., Hardy H., Penhoet E. E. 1988; Purification, structure, and properties of Escherichia coli tRNA pseudouridine synthase I. J Biol Chem 263:2255–2263
     [Google Scholar]
  19. Kenney T. J., Churchward G. 1994; Cloning and sequence analysis of the rpsL and rpsG genes of Mycobacterium smegmatis and characterization of mutations causing resistance to streptomycin. J Bacteriol 176:6153–6156
     [Google Scholar]
  20. Kimura J., Arndt E., Kimura M. 1987; Primary structures of three highly acidic ribosomal proteins S6, S12 and SI 5 from the archaebacterium Halobacterium marismortui.. FEBS Lett 224:65–70
     [Google Scholar]
  21. Kimura M. 1991; The nucleotide sequences of Bacillus stearothermophilus ribosomal protein S12 and S7 genes: comparison with the str operon of Escherichia coli.. Agrie Biol Chem 55:207–213
     [Google Scholar]
  22. Kimura M., Chow C. K. 1984; The complete amino acid sequences of ribosomal proteins LI7, L27 and S9 from Bacillus stearothermophilus.. Eur J Biochem 139:225–234
     [Google Scholar]
  23. Kimura M., Kimura J., Ashman K. 1985; The complete primary structure of ribosomal proteins LI, L14, LI 5, L23, L24 and L29 from Bacillus stearothermophilus.. Eur J Biochem 150:491–497
     [Google Scholar]
  24. Krömer W. J., Hatakeyama T., Kimura M. 1990; Nucleotide sequences of Bacillus stearothermophilus ribosomal protein genes: part of the ribosomal S10 operon. Biol Chem Hoppe-Seyler 371:631–636
     [Google Scholar]
  25. Kuberski S., Kasberg T., Distier J. 1994; The nusG gene of Streptomyces griseus:cloning of the gene and analysis of A-factor binding properties of the gene product. FEMS Microbiol Lett 119:33–39
     [Google Scholar]
  26. Lim P. O., Sears B. B. 1992; Evolutionary relationships of a plant-pathogenic mycoplasma-like organism and Acholeplasma laid- lawii deduced from two ribosomal protein gene sequences. J Bacteriol 174:2606–2611
     [Google Scholar]
  27. Ludwig W., Weizenegger M., Betzl D., Leidel E., Lenz T., Ludvigen A., Möllenhoff D., Wenzig P., Schleifer K. H. 1990; Complete nucleotide sequences of seven eubacterial genes coding for the elongation factor Tu: functional, structural and phylogenetic evaluations. Arch Microbiol 153:241–247
     [Google Scholar]
  28. Meng B. Y., Shinozaki K., Sugiura M. 1989; Genes for the ribosomal proteins S12 and S7 and elongation factors EF-G and EF-Tu of the cyanobacterium Anacystis nidulans:structural homology between 16S rRNA and S7 mRNA. Mol Gen Genet 216:25–30
     [Google Scholar]
  29. Michalowski C. B., Pfanzagl B., Loeffelhardt W., Bohnert H. J. 1990; The cyanelle S10spc ribosomal protein gene operon from Cyanophora paradoxa.. Mol Gen Genet 224:222–231
     [Google Scholar]
  30. Msadek T., Kunst F., Rapoport G. 1994; MecB of Bacillus subtilis,a member of the ClpC ATPase, is a pleiotropic regulator controlling competence gene expression and growth at high temperature. Proc Natl Acad Sci USA 915788–5792
     [Google Scholar]
  31. Ogawa K., Akagawa E., Nakamura K., Yamane K. 1995; Determination of a 21548 bp nucleotide sequence around the 24° region of the Bacillus subtilis chromosome. Microbiology 141:269–275
     [Google Scholar]
  32. Ohama T., Muto A., Osawa S. 1989; Spectinomycin operon of Micrococcus luteus:evolutionary implications of organization and novel codon usage. J Mol Evol 29:381–395
     [Google Scholar]
  33. Ohkubo S., Muto A., Kawauchi Y., Yamao F., Ogawa S. 1987; The ribosomal protein gene cluster of Mycoplasma capricolum.. Mol Gen Genet 210:314–322
     [Google Scholar]
  34. Ovchinnikov Yu. A., Monastyrskaya G. S., Gubanov V. V., Guryev S. O., Salomatina I. S., Shuvaeva T. M., Lipkin V. M., Sverdlov E. D. 1982; The primary structure of E. coli RNA polymerase. Nucleotide sequence of the rpoC gene and amino acid sequence of theβ̒;-subunit. Nucleic Acids Res 10:4035–4044
     [Google Scholar]
  35. Overhoff-Freundlieb B., Freudl R. 1991; Suppression of an Escherichia coli sec A ts mutant by a gene cloned from Staphylococcus carmsus.. FEMS Microbiol Lett 84:143–150
     [Google Scholar]
  36. Paton E. B., Zolotukhin S. B., Woodmaska M. I., Kroupskaya I. V., Zhyvoloup A. Z. 1990; The nucleotide sequence of gene rpl]encoding ribosomal protein L10 of Salmonella typhimurium.. Nucleic Acids Res 18:2824
     [Google Scholar]
  37. Pühler G., Lottspeich F., Zillig W. 1989; Organization and nucleotide sequence of the genes encoding the large subunits A, B and C of the DNA-dependent RNA polymerase of the archae- bacterium Sulfolobus acidocaldarius.. Nucleic Acids Res 17:4517–4534
     [Google Scholar]
  38. Ramakrishnan V., Gerchman S. E. 1991; Cloning, sequencing and overexpression of genes for ribosomal proteins from Bacillus stearothermophilus. . J Biol Chem 266:880–885
     [Google Scholar]
  39. Rossen L., Johnston A. W. B., Downie J. A. 1984; DNA sequence of the Rhizobium leguminosarum nodulation genes nodAB and C required for root hair curling. Nucleic Acids Res 12:9497–9508
     [Google Scholar]
  40. Roth J. R., Lawrence J. G., Rubenfield M., Kieffer-Higgins S., Church G. M. 1993; Characterization of the cobalamin (vitamin B12) biosynthetic genes of Salmonella typhimurium.. J Bacteriol 175:3303–3316
     [Google Scholar]
  41. Salles G., Créancier L., Claverys J.-P., Méjean V. 1992; The high level streptomycin resistance gene from Streptococcus pneumoniae is a homologue of the ribosomal protein SI 2 gene from Escherichia coli.. Nucleic Acids Res 20:6103
     [Google Scholar]
  42. Sanangelantoni A. M., Bocchetta M., Cammarano P., Tiboni O. 1994; Phylogenetic depth of S10 and spc oprons: cloning and sequencing of a ribosomal protein gene cluster from the extremely thermophilic bacterium Thermotoga maritima.. J Bacteriol 176:7703–7710
     [Google Scholar]
  43. Schofield P. R., Watson J. M. 1986; DNA sequence of Rhizobium trifolii nodulation genes reveals a reiterated and potentially regulatory sequence preceding nodABC and nodFE.. Nucleic Acids Res 14:2891–2903
     [Google Scholar]
  44. Sekiguchi J., Akeo K., Yamamoto H., Khasanov F. K., Alonso J. C., Kuroda A. 1995; Nucleotide sequence and regulation of a new putative cell wall hydrolase gene,cwlD, which affects germination in Bacillus subtilis.. J Bacteriol 177:5582–5589
     [Google Scholar]
  45. Sirko A., Hryniewicz M., Hulanicka D., Boeck A. 1990; Sulfate and thiosulfate transport in Escherichia coli K-12 nucleotide sequence and expression of the cysTWAM gene cluster. J Bacteriol 172:3351–3357
     [Google Scholar]
  46. Sofia H. J., Burland V., Daniels D. L., Plunkett G.III Blattner F. R. 1994; Analysis of the Escherichia coli genome. V. DNA sequence of the region from 76·0 to 81·5 minutes. Nucleic Acids Res 22:2576–2586
     [Google Scholar]
  47. Stigter J., Schneider M., de Brujin F. J. 1993; Azorhizobium caulinodans nitrogen fixation(nifffix)gene regulation: mutagenesis of the nifA−24/−12 promoter element, characterization of a ntrA (rpoN)gene, and derivation of a model. Mol Plant-Microbe Interact 6:238–252
     [Google Scholar]
  48. Wawrousek E. F., Hansen J. N. 1989; Structure and organization of a cluster of six tRNA genes in the space between tandem ribosomal RNA gene sets in Bacillus subtilis.. J Biol Chem 258:291–298
     [Google Scholar]
  49. Wu G., Williams H. D., Zamanian M., Gibson F., Poole R. K. 1992; Isolation and characterization of Escherichia coli mutants affected in aerobic respiration: the cloning and nucleotide sequence of ubiG.Identification of an i'-adenosylmethionine-binding motif in protein, RNA, and small-molecule methyltransferases. J Gen Microbiol 138:2101–2112
     [Google Scholar]
  50. Yakhnin A. V., Vorozheykina D. P., Matvienko N. I. 1989; Nucleotide sequence of the Thermus thermophilus HB8 gene coding for elongation factor G. Nucleic Acids Res 17:8863
     [Google Scholar]
  51. Yon J. R., Sammons R. L., Smith D. A. 1989; Cloning and sequencing of the gerD gene of Bacillus subtilis.. J Gen Microbiol 135:3431–3445
     [Google Scholar]
  52. Yoshida K., Sano H., Miwa Y., Ogasawara N., Fujita Y. 1994; Cloning and nucleotide sequencing of a 15 kb region of the Bacillus subtilis genome containing the iol operon. Microbiology 140:2289–2298
     [Google Scholar]
  53. Zeigler D. R., Dean D. H. 1990; Orientation of the genes in the Bacillus subtilis chromosome. Genetics 125:703–708
     [Google Scholar]
  54. Zurawski G., Zurawski S. M. 1985; Structure of the Escherichia coli S10 ribosomal protein operon. Nucleic Acids Res 13:4521–4526
     [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/micro/10.1099/13500872-142-11-3039
Loading
Sequence analysis of a 50 kb region between spoOH and rrnH on the Bacillus subtilis chromosome
Microbiology 142, 3039 (1996); https://doi.org/10.1099/13500872-142-11-3039
/content/journal/micro/10.1099/13500872-142-11-3039
/content/journal/micro/10.1099/13500872-142-11-3039
Loading

Data & Media loading...

Most cited Most Cited RSS feed

This is a required field
Please enter a valid email address
Approval was a Success
Invalid data
An Error Occurred
Approval was partially successful, following selected items could not be processed due to error