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Genetics. Mar 1992; 130(3): 399–410.
PMCID: PMC1204860

Sequence Heterogeneity between the Two Genes Encoding 16s Rrna from the Halophilic Archaebacterium Haloarcula Marismortui


The halophilic archaebacterium, Haloarcula marismortui, contains two nonadjacent ribosomal RNA operons, designated rrnA and rrnB, in its genome. The 16S rRNA genes within these operons are 1472 nucleotides in length and differ by nucleotide substitutions at 74 positions. The substitutions are not uniformly distributed but rather are localized within three domains of 16S rRNA; more than two-thirds of the differences occur within the domain bounded by nucleotides 508 and 823. This domain is known to be important for P site binding of aminoacylated tRNA and for 30-50S subunit association. Using S1 nuclease protection, it has been shown that the 16S rRNAs transcribed from both operons are equally represented in the functional 70S ribosome population. Comparison of these two H. marismortui sequences to the 16S gene sequences from related halophilic genera suggests that (i) in diverging genera, mutational differences in 16S gene sequences are not clustered but rather are more generally distributed throughout the length of the 16S sequence, and (ii) the rrnB sequence, particularly within the 508-823 domain, is more different from the out group sequences than is the rrnA sequence. Several possible explanations for the evolutionary origin and maintenance of this sequence heterogeneity within 16S rRNA of H. marismortui are discussed.

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Selected References

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  • Arndt E, Scholzen T, Krömer W, Hatakeyama T, Kimura M. Primary structures of ribosomal proteins from the archaebacterium Halobacterium marismortui and the eubacterium Bacillus stearothermophilus. Biochimie. 1991 Jun;73(6):657–668. [PubMed]
  • Branlant C, Krol A, Machatt MA, Pouyet J, Ebel JP, Edwards K, Kössel H. Primary and secondary structures of Escherichia coli MRE 600 23S ribosomal RNA. Comparison with models of secondary structure for maize chloroplast 23S rRNA and for large portions of mouse and human 16S mitochondrial rRNAs. Nucleic Acids Res. 1981 Sep 11;9(17):4303–4324. [PMC free article] [PubMed]
  • Brombach M, Specht T, Erdmann VA, Ulbrich N. Complete nucleotide sequence of a 23S ribosomal RNA gene from Halobacterium marismortui. Nucleic Acids Res. 1989 Apr 25;17(8):3293–3293. [PMC free article] [PubMed]
  • Chant J, Dennis P. Archaebacteria: transcription and processing of ribosomal RNA sequences in Halobacterium cutirubrum. EMBO J. 1986 May;5(5):1091–1097. [PMC free article] [PubMed]
  • Dover G. Molecular drive: a cohesive mode of species evolution. Nature. 1982 Sep 9;299(5879):111–117. [PubMed]
  • Dryden SC, Kaplan S. Localization and structural analysis of the ribosomal RNA operons of Rhodobacter sphaeroides. Nucleic Acids Res. 1990 Dec 25;18(24):7267–7277. [PMC free article] [PubMed]
  • Gunderson JH, Sogin ML, Wollett G, Hollingdale M, de la Cruz VF, Waters AP, McCutchan TF. Structurally distinct, stage-specific ribosomes occur in Plasmodium. Science. 1987 Nov 13;238(4829):933–937. [PubMed]
  • Gupta R, Lanter JM, Woese CR. Sequence of the 16S Ribosomal RNA from Halobacterium volcanii, an Archaebacterium. Science. 1983 Aug 12;221(4611):656–659. [PubMed]
  • Heinonen TY, Schnare MN, Gray MW. Sequence heterogeneity in the duplicate large subunit ribosomal RNA genes of Tetrahymena pyriformis mitochondrial DNA. J Biol Chem. 1990 Dec 25;265(36):22336–22341. [PubMed]
  • Hui I, Dennis PP. Characterization of the ribosomal RNA gene clusters in Halobacterium cutirubrum. J Biol Chem. 1985 Jan 25;260(2):899–906. [PubMed]
  • McCutchan TF, de la Cruz VF, Lal AA, Gunderson JH, Elwood HJ, Sogin ML. Primary sequences of two small subunit ribosomal RNA genes from Plasmodium falciparum. Mol Biochem Parasitol. 1988 Feb;28(1):63–68. [PubMed]
  • Mevarech M, Hirsch-Twizer S, Goldman S, Yakobson E, Eisenberg H, Dennis PP. Isolation and characterization of the rRNA gene clusters of Halobacterium marismortui. J Bacteriol. 1989 Jun;171(6):3479–3485. [PMC free article] [PubMed]
  • Moazed D, Noller HF. Intermediate states in the movement of transfer RNA in the ribosome. Nature. 1989 Nov 9;342(6246):142–148. [PubMed]
  • Oren A, Lau PP, Fox GE. The taxonomic status of "Halobacterium marismortui" from the Dead Sea: a comparison with Halobacterium vallismortis. Syst Appl Microbiol. 1988;10(3):251–258. [PubMed]
  • Rosenshine I, Tchelet R, Mevarech M. The mechanism of DNA transfer in the mating system of an archaebacterium. Science. 1989 Sep 22;245(4924):1387–1389. [PubMed]
  • Sanger F, Nicklen S, Coulson AR. DNA sequencing with chain-terminating inhibitors. Proc Natl Acad Sci U S A. 1977 Dec;74(12):5463–5467. [PMC free article] [PubMed]
  • Sarich VM, Wilson AC. Generation time and genomic evolution in primates. Science. 1973 Mar 16;179(4078):1144–1147. [PubMed]
  • Scholzen T, Arndt E. Organization and nucleotide sequence of ten ribosomal protein genes from the region equivalent to the spectinomycin operon in the archaebacterium Halobacterium marismortui. Mol Gen Genet. 1991 Aug;228(1-2):70–80. [PubMed]
  • Woese CR, Gutell R, Gupta R, Noller HF. Detailed analysis of the higher-order structure of 16S-like ribosomal ribonucleic acids. Microbiol Rev. 1983 Dec;47(4):621–669. [PMC free article] [PubMed]

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