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Ribosomal DNA ITS-1 and ITS-2 Sequence Comparisons As a Tool for Predicting Genetic Relatedness

Overview
Journal J Mol Evol
Specialty Biochemistry
Date 1997 Aug 1
PMID 9236277
Citations 37
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Abstract

The determination of the secondary structure of the internal transcribed spacer (ITS) regions separating nuclear ribosomal RNA genes of Chlorophytes has improved the fidelity of alignment of nuclear ribosomal ITS sequences from related organisms. Application of this information to sequences from green algae and plants suggested that a subset of the ITS-2 positions is relatively conserved. Organisms that can mate are identical at all of these 116 positions, or differ by at most, one nucleotide change. Here we sequenced and compared the ITS-1 and ITS-2 of 40 green flagellates in search of the nearest relative to Chlamydomonas reinhardtii. The analysis clearly revealed one unique candidate, C. incerta. Several ancillary benefits of the analysis included the identification of mislabelled cultures, the resolution of confusion concerning C. smithii, the discovery of misidentified sequences in GenBank derived from a green algal contaminant, and an overview of evolutionary relationships among the Volvocales, which is congruent with that derived from rDNA gene sequence comparisons but improves upon its resolution. The study further delineates the taxonomic level at which ITS sequences, in comparison to ribosomal gene sequences, are most useful in systematic and other studies.

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References
1.
Boudreau E, Turmel M . Extensive gene rearrangements in the chloroplast DNAs of Chlamydomonas species featuring multiple dispersed repeats. Mol Biol Evol. 1996; 13(1):233-43. DOI: 10.1093/oxfordjournals.molbev.a025560. View

2.
Buchheim M, Lemieux C, Otis C, Gutell R, Chapman R, Turmel M . Phylogeny of the Chlamydomonadales (Chlorophyceae): a comparison of ribosomal RNA gene sequences from the nucleus and the chloroplast. Mol Phylogenet Evol. 1996; 5(2):391-402. DOI: 10.1006/mpev.1996.0034. View

3.
Rausch H, Larsen N, Schmitt R . Phylogenetic relationships of the green alga Volvox carteri deduced from small-subunit ribosomal RNA comparisons. J Mol Evol. 1989; 29(3):255-65. DOI: 10.1007/BF02100209. View

4.
Gross C, Ranum L, Lefebvre P . Extensive restriction fragment length polymorphisms in a new isolate of Chlamydomonas reinhardtii. Curr Genet. 1988; 13(6):503-8. DOI: 10.1007/BF02427756. View

5.
Larson A, Kirk M, Kirk D . Molecular phylogeny of the volvocine flagellates. Mol Biol Evol. 1992; 9(1):85-105. DOI: 10.1093/oxfordjournals.molbev.a040710. View