Comparative sequence analyses of the ribonuclease P (RNase P) RNA genes from LL-2,6-diaminopimelic acid-containing actinomycetes

Int J Syst Evol Microbiol. 2000 Nov;50 Pt 6:2021-2029. doi: 10.1099/00207713-50-6-2021.

Abstract

Ribonuclease P (RNase P) RNA genes of LL-2,6-diaminopimelic acid (LL-A2pm)-containing actinomycetes, except Streptomyces species, were sequenced after PCR-amplification and cloning. By using the sequence data, the relationships between species within genera and the relationships between taxa above genus level were investigated and the usefulness of the RNase P RNA gene as another phylogenetic marker was evaluated. RNase P RNA gene sequences of all strains used in this study contained relatively conserved regions along with highly variable regions. The mean RNase P RNA gene similarity value was approximately 82 +/- 18% and the mean RNase P RNA gene similarity value when gaps were included was approximately 76 +/- 24%. The nucleotide similarities between the RNase P RNA genes of different strains were mostly fewer than the 16S rDNA similarities. The RNase P RNA gene was more useful than 16S rDNA for clearly differentiating the relationships between species belonging to a genus and the relationships between some genera. However, nucleotide sequences of RNase P RNA genes were not necessarily appropriate for comparisons at all taxonomic levels (such as those between species, between genera and between families).

Publication types

  • Comparative Study
  • Evaluation Study
  • Research Support, Non-U.S. Gov't

MeSH terms

  • Actinomycetales / chemistry
  • Actinomycetales / classification*
  • Actinomycetales / genetics
  • Actinomycetales / growth & development
  • Cloning, Molecular
  • DNA, Ribosomal / analysis
  • Diaminopimelic Acid* / metabolism
  • Endoribonucleases / genetics*
  • Endoribonucleases / metabolism
  • Genes, rRNA / genetics*
  • Molecular Sequence Data
  • Phylogeny
  • RNA, Catalytic / genetics*
  • RNA, Catalytic / metabolism
  • RNA, Ribosomal / genetics
  • Ribonuclease P
  • Sequence Analysis, DNA

Substances

  • DNA, Ribosomal
  • RNA, Catalytic
  • RNA, Ribosomal
  • Diaminopimelic Acid
  • Endoribonucleases
  • Ribonuclease P

Associated data

  • GENBANK/AF110036
  • GENBANK/AF110037
  • GENBANK/AF110038
  • GENBANK/AF110039
  • GENBANK/AF110040
  • GENBANK/AF110041
  • GENBANK/AF110042
  • GENBANK/AF110043
  • GENBANK/AF110044
  • GENBANK/AF110045
  • GENBANK/AF110046
  • GENBANK/AF110047
  • GENBANK/AF110048
  • GENBANK/AF110049
  • GENBANK/AF110050
  • GENBANK/AF110051
  • GENBANK/AF110052
  • GENBANK/AF110053
  • GENBANK/AF110054
  • GENBANK/AF110055
  • GENBANK/AF110056
  • GENBANK/AF110057
  • GENBANK/AF110058