title: The complete mitochondrial genome of Pseudocellus pearsei (Chelicerata: Ricinulei) and a comparison of mitochondrial gene rearrangements in Arachnida.
abstract: BACKGROUND
  Mitochondrial genomes are widely utilized for phylogenetic and population genetic analyses among animals. In addition to sequence data the mitochondrial gene order and RNA secondary structure data are used in phylogenetic analyses. Arachnid phylogeny is still highly debated and there is a lack of sufficient sequence data for many taxa. Ricinulei (hooded tickspiders) are a morphologically distinct clade of arachnids with uncertain phylogenetic affinities.
  
  
  RESULTS
  The first complete mitochondrial DNA genome of a member of the Ricinulei, Pseudocellus pearsei (Arachnida: Ricinulei) was sequenced using a PCR-based approach. The mitochondrial genome is a typical circular duplex DNA molecule with a size of 15,099 bp, showing the complete set of genes usually present in bilaterian mitochondrial genomes. Five tRNA genes (trnW, trnY, trnN, trnL(CUN), trnV) show different relative positions compared to other Chelicerata (e.g. Limulus polyphemus, Ixodes spp.). We propose that two events led to this derived gene order: (1) a tandem duplication followed by random deletion and (2) an independent translocation of trnN. Most of the inferred tRNA secondary structures show the common cloverleaf pattern except tRNA-Glu where the TpsiC-arm is missing. In phylogenetic analyses (maximum likelihood, maximum parsimony, Bayesian inference) using concatenated amino acid and nucleotide sequences of protein-coding genes the basal relationships of arachnid orders remain unresolved.
  
  
  CONCLUSIONS
  Phylogenetic analyses (ML, MP, BI) of arachnid mitochondrial genomes fail to resolve interordinal relationships of Arachnida and remain in a preliminary stage because there is still a lack of mitogenomic data from important taxa such as Opiliones and Pseudoscorpiones. Gene order varies considerably within Arachnida - only eight out of 23 species have retained the putative arthropod ground pattern. Some gene order changes are valuable characters in phylogenetic analysis of intraordinal relationships, e.g. in Acari.
authors.affiliation: Institut für Biologie, Freie Universität Berlin, Germany. kathrin.fahrein@freenet.de
authors.forename: Kathrin
authors.initials: K
authors.lastname: Fahrein
authors.forename: Giovanni
authors.initials: G
authors.lastname: Talarico
authors.forename: Anke
authors.initials: A
authors.lastname: Braband
authors.forename: Lars
authors.initials: L
authors.lastname: Podsiadlowski
mesh_terms: D000818:Animals; D001097:Arachnida / Q000145:classification / Q000235:genetics*; D004272:DNA, Mitochondrial / Q000235:genetics; D023061:Gene Order; D008928:Mitochondria / Q000235:genetics*; D009690:Nucleic Acid Conformation; D010802:Phylogeny; D012343:RNA, Transfer / Q000737:chemistry / Q000235:genetics
chemical_list: D004272:DNA, Mitochondrial; D012343:RNA, Transfer