Complete Sequence of the Mitochondrial Genome of the Tapeworm Hymenolepis diminuta: Gene Arrangements Indicate that Platyhelminths Are Eutrochozoans

Nickisch‐Rosenegk, Markus von; Brown, Wesley M.; Boore, Jeffrey L.

doi:10.1093/oxfordjournals.molbev.a003854

Cited by 130 publications

(87 citation statements)

References 37 publications

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“…Using a similar approach, we have inferred that the initiation codon of cox1 in the cestode H. diminuta is GTT (Le et al, 2002b) (Table 1) thus agreeing with von Nickisch-Rosenegk et al (2001). In the latter paper, the initiation codon for nad4 is stated to be ATT.…”

Section: Discussionsupporting

confidence: 57%

Codon usage and bias in mitochondrial genomes of parasitic platyhelminthes

McManus

Blair

2004

Korean J Parasitol

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Sequences of the complete protein-coding portions of the mitochondrial (mt) genome were analysed for 6 species of cestodes (including hydatid tapeworms and the pork tapeworm) and 5 species of trematodes (blood flukes and liver-and lung-flukes). A near-complete sequence was also available for an additional trematode (the blood fluke Schistosoma malayensis). All of these parasites belong to a large flatworm taxon named the Neodermata. Considerable variation was found in the base composition of the protein-coding genes among these neodermatans. This variation was reflected in statistically-significant differences in numbers of each inferred amino acid between many pairs of species. Both convergence and divergence in nucleotide, and hence amino acid, composition was noted among groups within the Neodermata. Considerable variation in skew (unequal representation of complementary bases on the same strand) was found among the species studied. A pattern is thus emerging of diversity in the mt genome in neodermatans that may cast light on evolution of mt genomes generally.

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Section: Discussionsupporting

confidence: 57%

Codon usage and bias in mitochondrial genomes of parasitic platyhelminthes

McManus

Blair

2004

Korean J Parasitol

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“…In the cases where it has been studied, all genes on each strand are transcribed together (Clayton 1992), so selection on gene arrangements is expected to be minimal. A summary of the evolutionary relationships convincingly demonstrated by this type of data (and in many cases left unresolved by all other studies) is found in Boore (2006), but here are a few of the more significant conclusions of deepbranch phylogenetic relationships: (i) the superphylum Eutrochozoa includes cestode platyhelminths (von von Nickisch-Rosenegk et al 2001) and the phylum Phoronida (Helfenbein & Boore 2004); (ii) Sipuncula is closely related to Annelida rather than to Mollusca (Boore & Staton 2002); (iii) Annelida is more closely related to Mollusca than to Arthropoda (Boore & Brown 2000); (iv) Arthropoda is monophyletic and, within this phylum, Crustacea is united with Hexapoda to the exclusion of Myriapoda and Onychophora (Boore et al 1995 and (v) Pentastomida is not a phylum, but rather a type of crustacean, and joins with Cephalocarida and Maxillopoda to the exclusion of other major crustacean groups (Lavrov et al 2004).…”

Section: Comparisons Of Mitochondrial Genomes Have Laid the Foundationmentioning

confidence: 58%

Beyond linear sequence comparisons: the use of genome-level characters for phylogenetic reconstruction

Boore

Fuerstenberg²

2008

Phil. Trans. R. Soc. B

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The first whole genomes to be compared for phylogenetic inference were those of mitochondria, which provided the first sets of genome-level characters for phylogenetic reconstruction. Most powerful among these characters has been the comparisons of the relative arrangements of genes, which has convincingly resolved numerous branch points, including those that had remained recalcitrant even to very large molecular sequence comparisons. Now the world faces a tsunami of complete nuclear genome sequences. In addition to the tremendous amount of DNA sequence that is becoming available for comparison, there is also a potential for many more genome-level characters to be developed, including the relative positions of introns, the domain structures of proteins, gene family membership, the presence of particular biochemical pathways, aspects of DNA replication or transcription, and many others. These characters can be especially convincing owing to their low likelihood of reverting to a primitive condition or occurring independently in separate lineages, thereby reducing the occurrence of homoplasy. The comparisons of organelle genomes pioneered the way for using such features for phylogenetic reconstructions, and it is almost certainly true, as ever more genomic sequence becomes available, that further use of genome-level characters will play a big role in outlining the relationships among major animal groups.

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“…We amplified a portion of the mitochondrial (mtDNA) cytochrome oxidase I (COI; 369 bp) gene and ribosomal subunits (rRNA; approx. 810 bp) from the nematodes and cestodes, respectively, using primers COI-F/COI-R [23] and Hym16sF/Hym12sR [24]. Polymerase chain reaction (PCR) conditions were as in Galbreath et al [25], except for the annealing temperature (508C).…”

Section: (A) Data Collectionmentioning

confidence: 99%

Return to Beringia: parasites reveal cryptic biogeographic history of North American pikas

Galbreath

Hoberg

2011

Proc. R. Soc. B.

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Traditional concepts of the Bering Land Bridge as a zone of predominantly eastward expansion from Eurasia and a staging area for subsequent colonization of lower latitudes in North America led to early inferences regarding biogeographic histories of North American faunas, many of which remain untested. Here we apply a host-parasite comparative phylogeographical (HPCP) approach to evaluate one such history, by testing competing biogeographic hypotheses for five lineages of host-specific parasites shared by the collared pika (Ochotona collaris) and American pika (Ochotona princeps) of North America. We determine whether the southern host species (O. princeps) was descended from a northern ancestor or vice versa. Three parasite phylogenies revealed patterns consistent with the hypothesis of a southern origin, which is corroborated by four additional parasite lineages restricted to O. princeps. This finding reverses the traditional narrative for the origins of North American pikas and highlights the role of dispersal from temperate North America into Beringia in structuring northern diversity considerably prior to the Holocene. By evaluating multiple parasite lineages simultaneously, the study demonstrates the power of HPCP for resolving complex biogeographic histories that are not revealed by characteristics of the host alone.

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Complete Sequence of the Mitochondrial Genome of the Tapeworm Hymenolepis diminuta: Gene Arrangements Indicate that Platyhelminths Are Eutrochozoans

Cited by 130 publications

References 37 publications

Codon usage and bias in mitochondrial genomes of parasitic platyhelminthes

Codon usage and bias in mitochondrial genomes of parasitic platyhelminthes

Beyond linear sequence comparisons: the use of genome-level characters for phylogenetic reconstruction

Return to Beringia: parasites reveal cryptic biogeographic history of North American pikas

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