Further resolving the phylogeny of Myxogastria (slime molds) based on COI and SSU rRNA genes

Further resolving the phylogeny of Myxogastria (slime molds) based on COI and SSU rRNA genes To date, molecular systematics of Myxogastria has been based primarily on small subunit ribosomal RNA (SSU rRNA) and elongation factor 1-alpha (EF-1α) genes. To establish a natural classification system for the organisms, we examined phylogenetic relationships among myxogastrian species using cytochrome c oxidase subunit I (COI) and SSU rRNA genes. Twenty new sequences were obtained, including 10 COI and 10 SSU rRNA sequences, were compared with sequences of related species from GenBank in order to construct phylogenic trees. The analysis of the two data sets supported the modern phylogeny of myxogastria: orders Liceida and Trichiida formed a sister group at the most basal clade, while orders Stemonitida and Physarida formed a close group, and order Echinostelida was a sister group to Stemonitida and Physarida. However, the partial COI sequences were too conserved to resolve of the branches in Stemonitida and Physarida. In addition, we also deemed the specific edited mRNA events of COI sequences in myxogastrian species. http://www.deepdyve.com/assets/images/DeepDyve-Logo-lg.png Russian Journal of Genetics Springer Journals

Further resolving the phylogeny of Myxogastria (slime molds) based on COI and SSU rRNA genes

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Publisher
Springer Journals
Copyright
Copyright © 2015 by Pleiades Publishing, Inc.
Subject
Biomedicine; Human Genetics; Animal Genetics and Genomics; Microbial Genetics and Genomics
ISSN
1022-7954
eISSN
1608-3369
D.O.I.
10.1134/S1022795414110076
Publisher site
See Article on Publisher Site

Abstract

To date, molecular systematics of Myxogastria has been based primarily on small subunit ribosomal RNA (SSU rRNA) and elongation factor 1-alpha (EF-1α) genes. To establish a natural classification system for the organisms, we examined phylogenetic relationships among myxogastrian species using cytochrome c oxidase subunit I (COI) and SSU rRNA genes. Twenty new sequences were obtained, including 10 COI and 10 SSU rRNA sequences, were compared with sequences of related species from GenBank in order to construct phylogenic trees. The analysis of the two data sets supported the modern phylogeny of myxogastria: orders Liceida and Trichiida formed a sister group at the most basal clade, while orders Stemonitida and Physarida formed a close group, and order Echinostelida was a sister group to Stemonitida and Physarida. However, the partial COI sequences were too conserved to resolve of the branches in Stemonitida and Physarida. In addition, we also deemed the specific edited mRNA events of COI sequences in myxogastrian species.

Journal

Russian Journal of Genetics – Springer Journals

Published: Feb 1, 2015

References

  • From morphological to molecular: studies of myxomycetes since the publication of the Martin and Alexopoulos (1969) monograph
    Stephenson, SL
  • Introductory Mycology
    Alexopoulos, CJ; Blackwell, M; Mims, CW
  • Untangling the phylogeny of amoeboid protists
    Pawlowski, J; Burki, F
  • Deep phylogeny and evolution of slime moulds (Mycetozoa)
    Fiore-Donno, AM; Nikolaev, SI; Nelson, M
  • The Myxomycetes
    Martin, GW; Alexopoulos, CJ
  • The Stemonitomycetidae, a new subclass of myxomycetes
    Ross, IK
  • Myxomycete biosystematics: some recent developments and future research opportunities
    Collins, ONR
  • Higher-order phylogeny of plasmodial slime molds (Myxogastria) based on elongation factor 1-A and small subunit rRNA gene sequences
    Fiore-Donno, AM; Berney, CD; Pawlowski, J
  • Early evolution of eukaryote feeding modes, cell structural diversity, and classification of the protozoan phyla Loukozoa, Sulcozoa, and Choanozoa
    Cavalier-Smith, T
  • Two-gene phylogeny of bright-spored myxomycetes (slime moulds, superorder Lucisporidia)
    Fiore-Donno, AM; Clissmann, F; Meyer, M
  • Phylogenetic analysis of Altai osmans of the genus Oreoleuciscus (Pisces, Cyprinidae, Leuciscinae), based on the analysis of the cytochrome oxidase 1 gene (Co-1) sequence
    Batishcheva, N; Kartavtsev, YP; Bogutskaya, N
  • Analysis of nucleotide diversity at the cytochrome b and cytochrome oxidase 1 genes at the population, species, and genus levels
    Kartavtsev, YP; Lee, J-S
  • Molecular phylogeny and the time of divergence of minges (Chironomidae, Nematocera, Diptera) inferred from a partial nucleotide sequence of the cytochrome oxidase I gene (COI)
    Demin, A; Polukonova, N; Mugue, N
  • Barcoding animal life: cytochrome c oxidase subunit 1 divergences among closely related species
    Hebert, PP D; Ratnasingham, S; Waard, JR
  • Barcoding amoebae: comparison of SSU, ITS and COI genes as tools for molecular identification of naked lobose amoebae
    Nassonova, E; Smirnov, A; Fahrni, J
  • Exploring slime mould diversity in high-altitude forests and grasslands by environmental RNA analysis
    Kamono, A; Meyer, M; Cavalier-Smith, T
  • RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models
    Stamatakis, A
  • MrBayes 3: Bayesian phylogenetic inference under mixed models
    Ronquist, F; Huelsenbeck, J PP
  • Genetic variation and differentiation of wood mice from the genus Sylvaemus inferred from sequencing of the cytochrome oxidase subunit 1 gene fragment
    Bogdanov, A; Stakheev, V; Zykov, A
  • Polymorphism of the cox1 gene in bird schistosome cercaria isolates (Trematoda, Schistosomatidae) from ponds of Moscow and Moscow oblast
    Lopatkin, A; Khrisanfova, G; Voronin, M
  • Evolution of four types of RNA editing in myxomycetes
    Horton, TL; Landweber, LF
  • Substitutional and insertional RNA editing of the cytochrome c oxidase subunit 1 mRNA of Physarum polycephalum
    Gott, J; Visomirski, L; Hunter, J
  • RNA editing in eukaryotic genome expression
    Pankratova, EV; Stepchenko, AG
  • Discovery of new genes and deletion editing in Physarum mitochondria enabled by a novel algorithm for finding edited mRNA
    Gott, JM; Parimi, N; Bundschuh, R
  • Evolution of RNA editing sites in the mitochondrial small subunit rRNA of the Myxomycota
    Krishnan, U; Barsamian, A; Miller, DL
  • Biosystematics of the Didymium squamulosum complex
    El-Hage, N; Little, C; Clark, JD
  • Biosystematics of the myxomycetes Didymium squamulosum, Physarum compressum, and Physarum melleum: additional isolates
    Clark, J; Stephenson, SL
  • Using ITS sequences to assess intraspecific genetic relationships among geographically separated collections of the myxomycete Didymium squamulosum
    Winsett, KE; Stephenson, SL
  • Molecular analysis of Didymium squamulosum based on ribosomal gene sequences
    Li, S; Wang, Q; Li, Y
  • A Guide to Temperate Myxomycetes, Bristol: Biopress Bristol
    Nannenga-Bremekamp, N
  • Some new myxomycetes records for the neotropics and some taxonomic problems in the Myxomycetes
    Farr, ML

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