Sequence analysis of 16S rRNA genes amplified from two ribosomal RNA gene clusters of Bifidobacterium bifidum

Antonie van Leeuwenhoek, International Journal of General and Molecular Microbiology

Volumn 75, Issue 4, 1999, Pages 329-333

  Yoon, Jung Hoon ^a   Yim, Dong Koo ^a   Goodfellow, Michael ^b   Park, Yong Ha ^a  

^a Korea Research Institute of Bioscience and Biotechnology (KRIBB)   (South Korea)

^b NEWCASTLE UNIVERSITY   (United Kingdom)

Author keywords

16S rDNA; Bifidobacterium bifidum; rRNA operon

Indexed keywords

RIBOSOME DNA; RIBOSOME RNA; RNA 16S;

ARTICLE; GENE AMPLIFICATION; GENE CLUSTER; GENE SEQUENCE; LACTOBACILLUS BIFIDUS; NONHUMAN; NUCLEOTIDE SEQUENCE; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; RNA SEQUENCE; SOUTHERN BLOTTING;

BIFIDOBACTERIUM BIFIDUM; LACTOBACILLUS; POSIBACTERIA; PROKARYOTA;

EID: 0032874559     PISSN: 00036072     EISSN: None     Source Type: Journal    
DOI: 10.1023/A:1002025100444     Document Type: Article

References (29)

1. Baylis HA & Bibb MJ (1987) The nucleotide sequence of a 16S rRNA gene from Streptomyces coelicolor A3(2). Nucleic Acids Res. 15: 7176
2. Baylis HA & Bibb MJ (1988) Organization of the ribosomal RNA genes in Streptomyces coelicolor A3(2). Mol. Gen. Genet. 211: 191-196
3. Bercovier H, Kazri O & Sala S (1986) Mycobacteria posses a surprisingly small number of ribosomal RNA genes in relation to the size of their genome. Biochem. Biophys. Res. Comm. 136: 1136-1141
4. Boros I, Kiss A & Venetianer P (1979) Physical map of the seven ribosomal RNA genes of E. coli. Nucleic Acids Res. 6: 1817-1830
5. Dryden SC & Kaplan S (1990) Localization and structural analysis of the ribosomal RNA operons of Rhodobacter sphaeroides. Nucleic Acids Res. 18: 7267-7277
6. Edwards U, Rogall T, Blocker H, Emde M & Böttger EC (1989) Isolation and direct nucleotide determination of entire genes. Characterization of a gene coding for 16S ribosomal RNA. Nucleic Acids Res. 17: 7843-7853
7. Gottlieb P, LaFauci G & Rudner R (1985) Alterations in the number of rRNA operons within the Bacillus subtilis genome. Gene 33: 259-268
8. Gürtler V & Stanisich VA (1996) New approaches to typing and identification of bacteria using the 16S-23S rDNA spacer region. Microbiology 142: 3-16
9. Hain T, Ward-Rainey N, Kroppenstedt RM, Stackebrandt E & Rainey FA (1997) Discrimination of Streptomyces albidoflavus strains based on the size and number of 16S-23S ribosomal DNA intergenic spacers. Int. J. Syst. Bacteriol. 47: 202-206.
10. Jarry B & Rosset R (1971) Heterogeneity of 5S RNA in Escherichia coli. Mol. Gen. Genet. 113: 43-50
11. Kim E, Kim H, Hong S-P, Kang KH, Kho YH & Park Y-H (1993) Gene organization and primary structure of a ribosomal RNA gene cluster from Streptomyces griseus subsp. griseus. Gene 132: 21-31
12. Kim S-B, Yoon J-H, Kim H, Lee ST, Park Y-H & Goodfellow M (1995) A phylogenetic analysis of the genus Saccharomonospora conducted with 16S rRNA gene sequences. Int. J. Syst. Bacteriol. 45: 351-356
13. Kiss A, Sain B & Venetianer P (1977) The number of rRNA genes in E. coli. FEBS Lett. 79: 77-79
14. Kobayashi H & Osawa S (1982) The number of 5S rRNA genes in Bacillus subtilis. FEBS Lett. 141: 161-163
15. Linton D, Dewhirst FE, Clewley JP, Owen RJ, Burnens AP & Stanley J (1994) Two types of 16S rRNA gene are found in Campylobacter helveticus: analysis, applications and characterization of the intervening sequence found in some strains. Microbiology 140: 847-855
16. Mylvaganam S & Dennis PP (1992) Sequence heterogeneity between the two genes encoding 16S rRNA from the halophilic archaebacterium Haloarcula marismortui. Genetics 130: 399-410
17. Nübel U, Engelen B, Felske A, Snaidr J, Wieshuber A, Amann RI, Ludwig W & Backhaus H (1996) Sequence heterogeneities of genes encoding 16S rRNAs in Paenibacillus polymyxa detected by temperature gradient gel electrophoresis. J. Bacteriol. 178: 5636-5643
18. T contains multiple 16S rRNA genes with heterogeneous intervening sequences. Microbiology 142: 2087-2095
19. Raue HA, Heerscham A & Planta RJ (1976) Occurrence in Bacillus licheniformis of two species of 5-S RNA with multiple differences in primary structure. Eur. J. Biochem. 68: 169-176
20. Sambrook J, Fritsch EF & Maniatis T (1989) In vitro amplification of DNA by the polymerase chain reaction. In: Molecular cloning, A laboratory manual, 2nd ed., vol. 1. Cold Spring Harbor, New York
21. Stackebrandt E & Liesack W (1993) Nucleic acids and classification. In: Goodfellow M & O'Donnell AG (Eds) Handbook of new bacterial systematics (pp 152-189) Academic Press, London
22. Stackebrandt E, Witt D, Kemmerling C, Kroppenstedt RM & Liesack W (1991) Designation of streptomycete 16S and 23S rRNA-based target regions for oligonucleotide probes. Appl. Environ. Microbiol. 57: 1468-1477
23. Thompson JD, Higgins DG & Gibson TJ (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
24. Weisburg WG, Barns SM, Pelletier DA & Lane DJ (1991) 16S ribosomal DNA amplification for phylogenetic study. J. Bacteriol. 173: 697-703
25. Wezel GP van, Vijgenboom E & Bosch L (1991) A comparative study of the ribosomal RNA operons of Streptomyces coelicolor A3(2) and sequence analysis of rrnA. Nucleic Acids Res. 19: 4399-4403
26. Woese CR (1987) Bacterial evolution. Microbiol. Rev. 51: 221-271
27. Yoon J-H, Kim H, Kim S-B, Kim H-J, Kim WY, Lee ST, Goodfellow M & Park Y-H (1996) Identification of Saccharomonospora strains by the use of genomic DNA fragments and rRNA gene probes. Int. J. Syst. Bacteriol. 46: 502-505
28. Yoon J-H, Lee J-S, Shin YK, Park Y-H & Lee ST (1997a) Reclassification of Nocardioides simplex ATCC 13260, ATCC 19565, and ATCC 19566 as Rhodococcus erythropolis. Int. J. Syst. Bacteriol. 47: 904-907
29. Yoon J-H, Lee ST, Kim S-B, Goodfellow M & Park Y-H (1997b) Inter- and intraspecific genetic analysis of the genus Saccharomonospora with 16S to 23S ribosomal DNA (rDNA) and 23S to 5S rDNA internally transcribed spacer sequences. Int. J. Syst. Bacteriol. 47: 661-669