Literature DB >> 6917153

A strategy for sequence phylogeny research.

D Sankoff, R J Cedergren, W McKay.   

Abstract

Minimal mutation trees, and almost minimal trees, are constructed from two data sets, one of phenylalanine tRNA sequences, and the other of 5S RNA sequences, from a diverse range of organisms. The two sets of results are mutually consistent. Trees representing previous evolutionary hypotheses are compared using a total weighted mutational distance criterion. The importance of sequence data from relatively little-studed phylogenetic lines is stressed. A procedure is illustrated which circumvents the computational difficulty of evaluating the astronomically large number of possible trees, without resorting to suboptimal methods.

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Year:  1982        PMID: 6917153      PMCID: PMC326143          DOI: 10.1093/nar/10.1.421

Source DB:  PubMed          Journal:  Nucleic Acids Res        ISSN: 0305-1048            Impact factor:   16.971


  9 in total

1.  Origins of prokaryotes, eukaryotes, mitochondria, and chloroplasts.

Authors:  R M Schwartz; M O Dayhoff
Journal:  Science       Date:  1978-01-27       Impact factor: 47.728

2.  Frequency of insertion-deletion, transversion, and transition in the evolution of 5S ribosomal RNA.

Authors:  D Sankoff; R J Cedergren; G Lapalme
Journal:  J Mol Evol       Date:  1976-03-29       Impact factor: 2.395

3.  Evolution of methionine initiator and phenylalanine transfer RNAs.

Authors:  B Larue; R J Cedergren; D Sankoff; H Grosjean
Journal:  J Mol Evol       Date:  1979-12       Impact factor: 2.395

4.  Evolutionary change in 5S RNA secondary structure and a phylogenic tree of 54 5S RNA species.

Authors:  H Hori; S Osawa
Journal:  Proc Natl Acad Sci U S A       Date:  1979-01       Impact factor: 11.205

5.  The phylogeny of prokaryotes.

Authors:  G E Fox; E Stackebrandt; R B Hespell; J Gibson; J Maniloff; T A Dyer; R S Wolfe; W E Balch; R S Tanner; L J Magrum; L B Zablen; R Blakemore; R Gupta; L Bonen; B J Lewis; D A Stahl; K R Luehrsen; K N Chen; C R Woese
Journal:  Science       Date:  1980-07-25       Impact factor: 47.728

6.  Phylogenetic tree derived from bacterial, cytosol and organelle 5S rRNA sequences.

Authors:  H Küntzel; M Heidrich; B Piechulla
Journal:  Nucleic Acids Res       Date:  1981-03-25       Impact factor: 16.971

Review 7.  The evolving tRNA molecule.

Authors:  R J Cedergren; D Sankoff; B LaRue; H Grosjean
Journal:  CRC Crit Rev Biochem       Date:  1981

Review 8.  Collection of published 5S and 5.8S RNA sequences and their precursors.

Authors:  V A Erdmann
Journal:  Nucleic Acids Res       Date:  1981-01-10       Impact factor: 16.971

9.  3' Terminal labelling of RNA of RNA with beta-32P-pyrophosphate group and its application to the sequence analysis of 5S RNA from Streptomyces griseus.

Authors:  A Simoncsits
Journal:  Nucleic Acids Res       Date:  1980-09-25       Impact factor: 16.971

  9 in total
  15 in total

1.  Stable tRNA-based phylogenies using only 76 nucleotides.

Authors:  Jeremy Widmann; J Kirk Harris; Catherine Lozupone; Alexey Wolfson; Rob Knight
Journal:  RNA       Date:  2010-06-17       Impact factor: 4.942

2.  A survey of multiple sequence comparison methods.

Authors:  S C Chan; A K Wong; D K Chiu
Journal:  Bull Math Biol       Date:  1992-07       Impact factor: 1.758

3.  A multiple sequence comparison method.

Authors:  A K Wong; S C Chan; D K Chiu
Journal:  Bull Math Biol       Date:  1993-03       Impact factor: 1.758

4.  Construction of the mycoplasma evolutionary tree from 5S rRNA sequence data.

Authors:  M J Rogers; J Simmons; R T Walker; W G Weisburg; C R Woese; R S Tanner; I M Robinson; D A Stahl; G Olsen; R H Leach
Journal:  Proc Natl Acad Sci U S A       Date:  1985-02       Impact factor: 11.205

5.  Progressive sequence alignment as a prerequisite to correct phylogenetic trees.

Authors:  D F Feng; R F Doolittle
Journal:  J Mol Evol       Date:  1987       Impact factor: 2.395

6.  Nonuniformity of nucleotide substitution rates in molecular evolution: computer simulation and analysis of 5S ribosomal RNA sequences.

Authors:  C L Manske; D J Chapman
Journal:  J Mol Evol       Date:  1987       Impact factor: 2.395

7.  Phylogeny reconstruction for protein sequences based on amino acid properties.

Authors:  W Schmidt
Journal:  J Mol Evol       Date:  1995-10       Impact factor: 2.395

8.  The alignment of sets of sequences and the construction of phyletic trees: an integrated method.

Authors:  P Hogeweg; B Hesper
Journal:  J Mol Evol       Date:  1984       Impact factor: 2.395

9.  Simplified computer programs for search of homology within nucleotide sequences.

Authors:  M Kröger; A Kröger-Block
Journal:  Nucleic Acids Res       Date:  1984-01-11       Impact factor: 16.971

10.  Unusual structural features of the 5S ribosomal RNA from Streptococcus cremoris.

Authors:  H Neimark; J Andersen; N Delihas
Journal:  Nucleic Acids Res       Date:  1983-11-11       Impact factor: 16.971

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