Dataset Information

A transcriptome-based phylogenetic study of hard ticks (Ixodidae).

ABSTRACT: Hard ticks are widely distributed across temperate regions, show strong variation in host associations, and are potential vectors of a diversity of medically important zoonoses, such as Lyme disease. To address unresolved issues with respect to the evolutionary relationships among certain species or genera, we produced novel RNA-Seq data sets for nine different Ixodes species. We combined this new data with 18 data sets obtained from public databases, both for Ixodes and non-Ixodes hard tick species, using soft ticks as an outgroup. We assembled transcriptomes (for 27 species in total), predicted coding sequences and identified single copy orthologues (SCO). Using Maximum-likelihood and Bayesian frameworks, we reconstructed a hard tick phylogeny for the nuclear genome. We also obtained a mitochondrial DNA-based phylogeny using published genome sequences and mitochondrial sequences derived from the new transcriptomes. Our results confirm previous studies showing that the Ixodes genus is monophyletic and clarify the relationships among Ixodes sub-genera. This work provides a baseline for studying the evolutionary history of ticks: we indeed found an unexpected acceleration of substitutions for mitochondrial sequences of Prostriata, and for nuclear and mitochondrial genes of two species of Rhipicephalus, which we relate with patterns of genome architecture and changes of life-cycle, respectively.

SUBMITTER: Charrier NP

PROVIDER: S-EPMC6733903 | biostudies-literature | 2019 Sep

REPOSITORIES: biostudies-literature

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A transcriptome-based phylogenetic study of hard ticks (Ixodidae).

Charrier N Pierre NP Hermouet Axelle A Hervet Caroline C Agoulon Albert A Barker Stephen C SC Heylen Dieter D Toty Céline C McCoy Karen D KD Plantard Olivier O Rispe Claude C

Scientific reports 20190909 1

Hard ticks are widely distributed across temperate regions, show strong variation in host associations, and are potential vectors of a diversity of medically important zoonoses, such as Lyme disease. To address unresolved issues with respect to the evolutionary relationships among certain species or genera, we produced novel RNA-Seq data sets for nine different Ixodes species. We combined this new data with 18 data sets obtained from public databases, both for Ixodes and non-Ixodes hard tick spe ...[more]

PMID: 31501478

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Project description:Hard ticks (Acari: Ixodidae) are considered the most important transmitters of pathogens in the temperate zone that covers most of Europe. In the era of climate change tick-borne diseases are predicted to undergo geographical range expansion toward the north through regions that are connected to southern areas of the continent by bird migration. This alone would justify the importance of synthesized knowledge on the association of tick species with avian hosts, yet birds also represent the most taxonomically and ecologically diverse part of urban vertebrate fauna. Birds frequently occur in gardens and near animal keeping facilities, thus playing a significant role in the dispersal of ticks and tick-borne pathogens in synanthropic environments. The primary aim of this review is to provide a comprehensive reference source (baseline data) for future studies, particularly in the context of discovering new tick-host associations after comparison with already published data. The records on the ixodid tick infestations of birds were assessed from nearly 200 papers published since 1952. In this period, 37 hard tick species were reported from 16 orders of avian hosts in Europe. Here we compile a list of these tick species, followed by the English and Latin name of all reported infested bird species, as well as the tick developmental stage and country of origin whenever this information was available. These data allowed a first-hand analysis of general trends regarding how and at which developmental stage of ticks tend to infest avian hosts. Five tick species that were frequently reported from birds and show a broad geographical distribution in the Western Palearctic (Ixodes arboricola, I. frontalis, I. ricinus, Haemaphysalis concinna and Hyalomma marginatum) were also selected for statistical comparisons. Differences were demonstrated between these tick species regarding their association with bird species that typically feed from the ground and those that rarely occur at the soil level. The ecology of these five bird-infesting tick species is also illustrated here according to avian orders, taking into account the ecology (habitat type) and activity (circadian rhythm and feeding level) of most bird species that represent a certain order.

Project description:BackgroundThe Australasian paralysis ticks and their relatives, Ixodes Latrielle, subgenus Sternalixodes Schulze, are some of the most important ticks in the region. However, very little is known about their phylogenetic relationships. The aim of this study was to elucidate the evolutionary relationships of members of the subgenus Sternalixodes by undertaking phylogenetic analyses of morphological and molecular datasets.MethodsAdult females (n = 64) of Sternalixodes, including Ixodes anatis Chilton, 1904, Ixodes confusus Roberts, 1960, Ixodes cornuatus Roberts, 1960, Ixodes cordifer Neumann, 1908, Ixodes dendrolagi Wilson, 1967, Ixodes hirsti Hassall, 1931, Ixodes holocyclus Neumann, 1899, Ixodes myrmecobii Roberts, 1962 and Ixodes trichosuri Roberts, 1960, were examined morphologically. Subsequently, these Ixodes spp. were genetically characterised using cytochrome c oxidase subunit 1 (cox1) gene and the internal transcribed spacer 2 (ITS-2) of the rRNA. Both morphological and molecular datasets were analysed using various phylogenetic methods to assess the evolutionary relationship of various members of the subgenus Sternalixodes.ResultsPhylogenetic analyses of the cox1 sequences and morphological characters datasets revealed that the Australian and Papuan Sternalixodes formed a distinct clade with the New Zealand member of the group I. anatis positioned basally, in a separate clade. Ixodes holocyclus, I. cornuatus and I. myrmecobii formed a distinctive clade in both the cox1 and morphological phylogenies. However, based on phylogenetic analysis of the ITS-2 data, I. holocyclus formed a separate clade whereas I. cornuatus and I. myrmecobii grouped in a different clade.ConclusionsThe cox1 and morphological data suggest that the subgenus Sternalixodes is paraphyletic, and I. anatis is not a sternalixodid tick; hence, it should not be included in the subgenus. Based on the phylogenetic analyses of cox1 and ITS-2 sequences, it appears that I. myrmecobii and I. cornuatus are not subspecies of I. holocyclus. Although this study provided better insights into the taxonomic status of the subgenus Sternalixodes, a complete morphological and molecular (using multiple markers) phylogenetic analysis including all members of the subgenus would be required to more accurately elucidate the evolutionary relationships within the subgenus.

Dataset Information

A transcriptome-based phylogenetic study of hard ticks (Ixodidae).

Publications

A transcriptome-based phylogenetic study of hard ticks (Ixodidae).

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