19 Mitochondrial gene order in Metazoa – theme and variations

Podsiadłowski, Lars; Mwinyi, Adina; Lesný, Peter; Bartolomaeus, Thomas

doi:10.1515/9783110277524.459

Cited by 7 publications

(4 citation statements)

References 0 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…In addition to the model-based framework, the extraction of phylogenetic information directly from GOs without making assumptions about rearrangement operations is also useful. The results support one hypothesis among a set of competing hypotheses favored by different data [ 22 ]. Interestingly, the Hymenoptera are among the orders of insects with the highest variation in GOs [ 23 ].…”

Section: Introductionsupporting

confidence: 67%

Phylogenomic Analyses of the Tenthredinoidea Support the Familial Rank of Athaliidae (Insecta, Tenthredinoidea)

Niu

Budak

Korkmaz

et al. 2022

Insects

View full text Add to dashboard Cite

The systematic status of the genus Athalia and related genera is a perennial controversy in sawfly taxonomy. Several authors have hypothesized that the placement of Athalia within the Tenthredinidae is artificial, but no studies have focused on this topic. If the hypothesis that Athalia does not belong to Tenthredinidae can be supported, the taxonomic framework of Tenthredinoidea needs revision. We present a comprehensive phylogenomic study of Tenthredinoidae, focusing on the positions of Athalia and related genera by sampling 97 representatives mainly of the Tenthredinoidea, including Heptamelinae and Blasticotomidae. Our phylogenetic reconstructions based on nuclear genes and mitochondrial (mt) sequences support Athalia and related genera as a distinct clade sister to Tenthredinidae + (Cimbicidae + Diprionidae). A comparison of symphytan mitochondrial genomes reveals an innovative gene rearrangement pattern in Athaliidae, in which Dentathalia demonstrates a more ancestral pattern than Athalia and Hypsathalia. The lineage specificity of mt rRNA secondary structures also provides sufficient support to consider Athaliidae as a separate family. In summary, the phylogeny and genomic structural changes unanimously support the taxonomic treatment of Athaliidae as a family and the re-establishment of Dentathalia as a valid genus.

show abstract

Section: Introductionsupporting

confidence: 67%

Phylogenomic Analyses of the Tenthredinoidea Support the Familial Rank of Athaliidae (Insecta, Tenthredinoidea)

Niu

Budak

Korkmaz

et al. 2022

Insects

View full text Add to dashboard Cite

show abstract

“…Most of metazoan mitochondrial genomes are circular molecules that typically include 13 protein coding genes (PCG), two ribosomal RNA genes, 22 transfer RNA genes and a control region ([ 4 ], but see [ 5 , 6 ]). The mitochondrial gene content is almost invariant among species, but the gene order has been found to vary considerably across Metazoans (such as flatworms, molluscs and tunicates [ 7 ]), generating interest in using mitochondrial DNA (mtDNA) gene order for phylogenetic inference [ 2 ]. The advent of next generation sequencing has made it easier to obtain mitochondrial genomes even for classical non-model organisms.…”

Section: Introductionmentioning

confidence: 99%

Extensive gene rearrangements in the mitogenomes of congeneric annelid species and insights on the evolutionary history of the genus Ophryotrocha

et al. 2020

View full text Add to dashboard Cite

Background Annelids are one the most speciose and ecologically diverse groups of metazoans. Although a significant effort has been recently invested in sequencing genomes of a wide array of metazoans, many orders and families within the phylum Annelida are still represented by a single specimen of a single species. The genus of interstitial annelids Ophryotrocha (Dorvilleidae, Errantia, Annelida) is among these neglected groups, despite its extensive use as model organism in numerous studies on the evolution of life history, physiological and ecological traits. To compensate for the paucity of genomic information in this genus, we here obtained novel complete mitochondrial genomes of six Ophryotrocha species using next generation sequencing. In addition, we investigated the evolution of the reproductive mode in the Ophryotrocha genus using a phylogeny based on two mitochondrial markers (COXI and 16S rDNA) and one nuclear fragment (Histone H3). Results Surprisingly, gene order was not conserved among the six Ophryotrocha species investigated, and varied greatly as compared to those found in other annelid species within the class Errantia. The mitogenome phylogeny for the six Ophryotrocha species displayed a separation of gonochoric and hermaphroditic species. However, this separation was not observed in the phylogeny based on the COX1, 16S rDNA, and H3 genes. Parsimony and Bayesian ancestral trait reconstruction indicated that gonochorism was the most parsimonious ancestral reproductive mode in Ophryotrocha spp. Conclusions Our results highlight the remarkably high level of gene order variation among congeneric species, even in annelids. This encourages the need for additional mitogenome sequencing of annelid taxa in order to properly understand its mtDNA evolution, high biodiversity and phylogenetic relationships.

show abstract

“…Besides the primary sequence information which has been proven valuable for evolutionary studies [ 1 , 3 – 5 ], the mitochondrial (mt) gene order is also a reliable marker for phylogenetic inferences at many taxonomic levels for several reasons [ 4 , 6 – 8 ]. First, the gene content is almost invariant and provides a unique and universal dataset.…”

Section: Introductionmentioning

confidence: 99%

“…However, relying on gene order to make phylogenetic inferences has, at times, been disappointing because no evolutionary significant changes could be identified in some lineages [ 16 ]. Indeed, mtDNA can strongly differ in tunicates, molluscs, brachiopods, platyhelminthes, bryozoans and nematodes and these high evolutionary rates lead to homoplasious gene orders (for a review see [ 6 ]). It is noteworthy that these problematic phyla appear as long-branched leaves in sequence-based phylogenetic analyses [ 16 , 17 ], confirming that their rates of molecular evolution are unusually high.…”

Section: Introductionmentioning

confidence: 99%

A complete logical approach to resolve the evolution and dynamics of mitochondrial genome in bilaterians

2018

View full text Add to dashboard Cite

Investigating how recombination might modify gene order during the evolution has become a routine part of mitochondrial genome analysis. A new method of genomic maps analysis based on formal logic is described. The purpose of this method is to 1) use mitochondrial gene order of current taxa as datasets 2) calculate rearrangements between all mitochondrial gene orders and 3) reconstruct phylogenetic relationships according to these calculated rearrangements within a tree under the assumption of maximum parsimony. Unlike existing methods mainly based on the probabilistic approach, the main strength of this new approach is that it calculates all the exact tree solutions with completeness and provides logical consequences as highly robust results. Moreover, this method infers all possible hypothetical ancestors and reconstructs character states for all internal nodes of the trees. We started by testing our method using the deuterostomes as a study case. Then, with sponges as an outgroup, we investigated the evolutionary history of mitochondrial genomes of 47 bilaterian phyla and emphasised the peculiar case of chaetognaths. This pilot work showed that the use of formal logic in a hypothetico-deductive background such as phylogeny (where experimental testing of hypotheses is impossible) is very promising to explore mitochondrial gene order in deuterostomes and should be applied to many other bilaterian clades.

show abstract

19 Mitochondrial gene order in Metazoa – theme and variations

Cited by 7 publications

References 0 publications

Phylogenomic Analyses of the Tenthredinoidea Support the Familial Rank of Athaliidae (Insecta, Tenthredinoidea)

Phylogenomic Analyses of the Tenthredinoidea Support the Familial Rank of Athaliidae (Insecta, Tenthredinoidea)

Extensive gene rearrangements in the mitogenomes of congeneric annelid species and insights on the evolutionary history of the genus Ophryotrocha

A complete logical approach to resolve the evolution and dynamics of mitochondrial genome in bilaterians

Contact Info

Product

Resources

About