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Titolo:
DNA-DEPENDENT RNA-POLYMERASE SUBUNIT-B AS A TOOL FOR PHYLOGENETIC RECONSTRUCTIONS - BRANCHING TOPOLOGY OF THE ARCHAEAL DOMAIN
Autore:
KLENK HP; ZILLIG W;
Indirizzi:
MAX PLANCK INST BIOCHEM,KLOPFERSPITZ 18 D-82152 MARTINSRIED GERMANY
Titolo Testata:
Journal of molecular evolution
fascicolo: 4, volume: 38, anno: 1994,
pagine: 420 - 432
SICI:
0022-2844(1994)38:4<420:DRSAAT>2.0.ZU;2-V
Fonte:
ISI
Lingua:
ENG
Soggetto:
MAXIMUM-LIKELIHOOD METHOD; NUCLEOTIDE-SEQUENCE; EVOLUTIONARY PARSIMONY; ACID SEQUENCES; CORE SUBUNITS; ARCHAEBACTERIA; GENES; HYBRIDIZATION; ORGANIZATION; COMPONENTS;
Keywords:
DNA-DEPENDENT RNA POLYMERASE; ARCHAEA (ARCHAEOBACTERIA); PHYLOGENY; SEQUENCE COMPARISON; EFFECTIVE VALUES; CODON POSITION INEQUALITY; BRANCHING TOPOLOGY; DECISION MATRIX; STATISTICAL TESTING; MOLECULAR EVOLUTIONARY CLOCK;
Tipo documento:
Article
Natura:
Periodico
Settore Disciplinare:
Science Citation Index Expanded
Science Citation Index Expanded
Citazioni:
46
Recensione:
Indirizzi per estratti:
Citazione:
H.P. Klenk e W. Zillig, "DNA-DEPENDENT RNA-POLYMERASE SUBUNIT-B AS A TOOL FOR PHYLOGENETIC RECONSTRUCTIONS - BRANCHING TOPOLOGY OF THE ARCHAEAL DOMAIN", Journal of molecular evolution, 38(4), 1994, pp. 420-432

Abstract

The branching topology of the archaeal (archaebacterial) domain was inferred from sequence comparisons of the largest subunit (B) of DNA-dependent RNA polymerases (RNAP). Both the nucleic acid sequences of thegenes coding for RNAP subunit B and the amino acid sequences of the derived gene products were used for phylogenetic reconstructions. Individual analysis of the three nucleotide positions of codons revealed significant inequalities with respect to guanosine and cytosine (GC) content and evolutionary rates. Only the nucleotides at the second codon positions were found to be unbiased by varied GC contents and sufficiently conserved for reliable phylogenetic reconstructions. A decision matrix was used for the combination of the results of distance matrix, maximum parsimony, and maximum likelihood methods. For this purpose the original results (sums of squares, steps, and logarithms of likelihoods) were transformed into comparable effective values and analyzed with methods known from the theory of statistical decisions. Phylogenetic invariants and statistical analysis with resampling techniques (bootstrap and jackknife) confirmed the preferred branching topology, whichis significantly different from the topology known from phylogenetic trees based on 16S rRNA sequences. The preferred topology reconstructed by this analysis shows a common stem for the Methanococcales and Methanobacteriales and a separation of the thermophilic sulfur archaea from the methanogens and halophiles. The latter coincides with a unique phylogenetic location of a characteristic splitting event replacing the largest RNAP subunit of thermophilic sulfur archaea by two fragmentsin methanogens and halophiles. This topology is in good agreement with physiological and structural differences between the various archaeaand demonstrates RNAP to be a suitable phylogenetic marker molecule.

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Documento generato il 18/09/20 alle ore 16:37:15