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Phylogenetic Analyses of a Combined Data Set Suggest that the Attheya Lineage is the Closest Living Relative of the Pennate Diatoms (Bacillariophyceae)

A Bayesian analysis of a seven gene data set was conducted to reconstruct phylogenetic relationships among a sample of centric and pennate diatoms and to test alternative hypotheses about the closest living relative of Bacillariophyceae. A lineage, composed of two Attheya species, was inferred to sh... Full description

Journal Title: Protist 2012-03, Vol.163 (2), p.252-262
Main Author: Sorhannus, Ulf
Other Authors: Fox, Martin G
Format: Electronic Article Electronic Article
Language: English
Subjects:
Quelle: Alma/SFX Local Collection
Publisher: Germany: Elsevier GmbH
ID: ISSN: 1434-4610
Link: https://www.ncbi.nlm.nih.gov/pubmed/21723193
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title: Phylogenetic Analyses of a Combined Data Set Suggest that the Attheya Lineage is the Closest Living Relative of the Pennate Diatoms (Bacillariophyceae)
format: Article
creator:
  • Sorhannus, Ulf
  • Fox, Martin G
subjects:
  • Analysis
  • Attheya
  • Bacillariophyceae
  • Base Sequence
  • Bayes Theorem
  • Bayesian phylogenetics
  • Bremer support
  • cladistics
  • combined data
  • Databases, Genetic
  • Diatoms - classification
  • Diatoms - genetics
  • Evolution, Molecular
  • Genes
  • Markov Chains
  • Markov processes
  • Monte Carlo method
  • partitioned Bremer support
  • Phylogeny
  • Plastids - genetics
  • Ribosomes - genetics
  • Ribulose-Bisphosphate Carboxylase - genetics
  • RNA, Ribosomal, 16S - genetics
  • RNA, Ribosomal, 5.8S - genetics
  • Sequence Alignment
  • Sequence Analysis, DNA
  • Toxarium
ispartof: Protist, 2012-03, Vol.163 (2), p.252-262
description: A Bayesian analysis of a seven gene data set was conducted to reconstruct phylogenetic relationships among a sample of centric and pennate diatoms and to test alternative hypotheses about the closest living relative of Bacillariophyceae. A lineage, composed of two Attheya species, was inferred to share the most recent common ancestor with Bacillariophyceae – a relationship that was also corroborated by the combined parsimony analysis. All competing hypotheses about the closest living relative of Bacillariophyceae were rejected because 100% of the trees in the post-burn-in sample in the Bayesian analysis supported the Attheya-Bacillariophyceae clade. According to a partitioned Bremer support analysis, the majority of the genes in the combined data matrix supported the Attheya – Bacillariophyceae relationship. The global topology of the phylogenetic tree indicated that a monophyletic group consisting of Thalassiosirales and Toxarium undulatum formed the deepest branch followed by a node uniting a clade composed of Bacillariophyceae/Attheya species and a lineage made up of Eucampia zoodiacus, Chaetocerotales, Lithodesmiales, Triceratiales, Biddulphiales and Cymatosirales. Except for the phylogenetic positions of Lithodesmiales, Thalassiosira sp and Skeletonema costatum, the optimal tree obtained from the combined parsimony analysis showed the same branching order of taxa as those seen in the consensus tree inferred from three independent Markov chain Monte Carlo analyses. Noteworthy findings are that Toxarium undulatum shares a strongly supported node with Thalassiosirales and that the genus Attheya is not a member of the Chaetocerotales lineage.
language: eng
source: Alma/SFX Local Collection
identifier: ISSN: 1434-4610
fulltext: fulltext
issn:
  • 1434-4610
  • 1618-0941
url: Link


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titlePhylogenetic Analyses of a Combined Data Set Suggest that the Attheya Lineage is the Closest Living Relative of the Pennate Diatoms (Bacillariophyceae)
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descriptionA Bayesian analysis of a seven gene data set was conducted to reconstruct phylogenetic relationships among a sample of centric and pennate diatoms and to test alternative hypotheses about the closest living relative of Bacillariophyceae. A lineage, composed of two Attheya species, was inferred to share the most recent common ancestor with Bacillariophyceae – a relationship that was also corroborated by the combined parsimony analysis. All competing hypotheses about the closest living relative of Bacillariophyceae were rejected because 100% of the trees in the post-burn-in sample in the Bayesian analysis supported the Attheya-Bacillariophyceae clade. According to a partitioned Bremer support analysis, the majority of the genes in the combined data matrix supported the Attheya – Bacillariophyceae relationship. The global topology of the phylogenetic tree indicated that a monophyletic group consisting of Thalassiosirales and Toxarium undulatum formed the deepest branch followed by a node uniting a clade composed of Bacillariophyceae/Attheya species and a lineage made up of Eucampia zoodiacus, Chaetocerotales, Lithodesmiales, Triceratiales, Biddulphiales and Cymatosirales. Except for the phylogenetic positions of Lithodesmiales, Thalassiosira sp and Skeletonema costatum, the optimal tree obtained from the combined parsimony analysis showed the same branching order of taxa as those seen in the consensus tree inferred from three independent Markov chain Monte Carlo analyses. Noteworthy findings are that Toxarium undulatum shares a strongly supported node with Thalassiosirales and that the genus Attheya is not a member of the Chaetocerotales lineage.
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subjectAnalysis ; Attheya ; Bacillariophyceae ; Base Sequence ; Bayes Theorem ; Bayesian phylogenetics ; Bremer support ; cladistics ; combined data ; Databases, Genetic ; Diatoms - classification ; Diatoms - genetics ; Evolution, Molecular ; Genes ; Markov Chains ; Markov processes ; Monte Carlo method ; partitioned Bremer support ; Phylogeny ; Plastids - genetics ; Ribosomes - genetics ; Ribulose-Bisphosphate Carboxylase - genetics ; RNA, Ribosomal, 16S - genetics ; RNA, Ribosomal, 5.8S - genetics ; Sequence Alignment ; Sequence Analysis, DNA ; Toxarium
ispartofProtist, 2012-03, Vol.163 (2), p.252-262
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descriptionA Bayesian analysis of a seven gene data set was conducted to reconstruct phylogenetic relationships among a sample of centric and pennate diatoms and to test alternative hypotheses about the closest living relative of Bacillariophyceae. A lineage, composed of two Attheya species, was inferred to share the most recent common ancestor with Bacillariophyceae – a relationship that was also corroborated by the combined parsimony analysis. All competing hypotheses about the closest living relative of Bacillariophyceae were rejected because 100% of the trees in the post-burn-in sample in the Bayesian analysis supported the Attheya-Bacillariophyceae clade. According to a partitioned Bremer support analysis, the majority of the genes in the combined data matrix supported the Attheya – Bacillariophyceae relationship. The global topology of the phylogenetic tree indicated that a monophyletic group consisting of Thalassiosirales and Toxarium undulatum formed the deepest branch followed by a node uniting a clade composed of Bacillariophyceae/Attheya species and a lineage made up of Eucampia zoodiacus, Chaetocerotales, Lithodesmiales, Triceratiales, Biddulphiales and Cymatosirales. Except for the phylogenetic positions of Lithodesmiales, Thalassiosira sp and Skeletonema costatum, the optimal tree obtained from the combined parsimony analysis showed the same branching order of taxa as those seen in the consensus tree inferred from three independent Markov chain Monte Carlo analyses. Noteworthy findings are that Toxarium undulatum shares a strongly supported node with Thalassiosirales and that the genus Attheya is not a member of the Chaetocerotales lineage.
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21Ribulose-Bisphosphate Carboxylase - genetics
22RNA, Ribosomal, 16S - genetics
23RNA, Ribosomal, 5.8S - genetics
24Sequence Alignment
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26Toxarium
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abstractA Bayesian analysis of a seven gene data set was conducted to reconstruct phylogenetic relationships among a sample of centric and pennate diatoms and to test alternative hypotheses about the closest living relative of Bacillariophyceae. A lineage, composed of two Attheya species, was inferred to share the most recent common ancestor with Bacillariophyceae – a relationship that was also corroborated by the combined parsimony analysis. All competing hypotheses about the closest living relative of Bacillariophyceae were rejected because 100% of the trees in the post-burn-in sample in the Bayesian analysis supported the Attheya-Bacillariophyceae clade. According to a partitioned Bremer support analysis, the majority of the genes in the combined data matrix supported the Attheya – Bacillariophyceae relationship. The global topology of the phylogenetic tree indicated that a monophyletic group consisting of Thalassiosirales and Toxarium undulatum formed the deepest branch followed by a node uniting a clade composed of Bacillariophyceae/Attheya species and a lineage made up of Eucampia zoodiacus, Chaetocerotales, Lithodesmiales, Triceratiales, Biddulphiales and Cymatosirales. Except for the phylogenetic positions of Lithodesmiales, Thalassiosira sp and Skeletonema costatum, the optimal tree obtained from the combined parsimony analysis showed the same branching order of taxa as those seen in the consensus tree inferred from three independent Markov chain Monte Carlo analyses. Noteworthy findings are that Toxarium undulatum shares a strongly supported node with Thalassiosirales and that the genus Attheya is not a member of the Chaetocerotales lineage.
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