Integrated Bayesian species delimitation and morphological diagnostics of chorioptic mange mites (Acariformes: Psoroptidae: Chorioptes)

Bochkov, André V.; Klimov, Pavel B.; Hestvik, G.; Saveljev, Alexander P.

doi:10.1007/s00436-014-3914-9

Cited by 36 publications

(22 citation statements)

References 58 publications

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“…For 173 taxa we sequenced six genes, 18S ribosomal RNA gene (18S), 28S ribosomal RNA gene (28S), elongation factor 1alpha100E Ef1alpha100E (EF1‐α), signal recognition particle protein 54k Srp54k (SRP54), heat shock protein cognate 5 Hsc70‐5 (HSP70), cytochrome c oxidase subunit I (COX1), using previously published amplification, sequencing, and DNA extraction protocols (Klimov and OConnor ; Knowles and Klimov ; Klimov and OConnor ; Bochkov et al. ). Our aligned matrix had 11,468 sites and did not have missing data due to amplification/sequencing failures.…”

Section: Methodsmentioning

confidence: 99%

Detecting ancient codispersals and host shifts by double dating of host and parasite phylogenies: Application in proctophyllodid feather mites associated with passerine birds

2017

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Inferring cophylogeographic events requires matching the timing of these events on both host and symbiont (e.g., parasites) phylogenies because divergences of hosts and their symbionts may not temporally coincide, and host switches may occur. We investigate a large radiation of birds (Passeriformes) and their permanent symbionts, the proctophyllodid feather mites (117 species from 116 bird species; six genes, 11,468 nt aligned) using two time-calibration strategies for mites: fossils only and host phylogeography only. Out of 10 putative cophylogeographic events 4 agree in timing for both symbiont and host events being synchronous co-origins or codispersals; three were based on host shifts, but agree in timing being very close to the origin of modern hosts; two disagree; and one large basal mite split was seemingly independent from host phylogeography. Among these events was an ancient (21-25.3 Mya), synchronous codispersal from the Old World leading to the origin and diversifications of New World emberizoid passerids and their mites, the thraupis + quadratus species groups of Proctophyllodes. Our framework offers a more robust detection of host and symbiont cophylogeographic events (as compared to host-symbiont reconciliation analysis and using host phylogeography for time-calibration) and provides independent data for testing alternative hypotheses on timing of host diversification and dispersal.

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Section: Methodsmentioning

confidence: 99%

Detecting ancient codispersals and host shifts by double dating of host and parasite phylogenies: Application in proctophyllodid feather mites associated with passerine birds

2017

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“…This query yielded 284 results, from which we only selected studies using BPP on arthropods (20 total). We did not include a study on parasitic mites (Bochkov et al 2014) because estimates of host-specific mites are included separately in our analyses of arthropod richness (Appendix S2).…”

Section: Appendix S1mentioning

confidence: 99%

Inordinate Fondness Multiplied and Redistributed: the Number of Species on Earth and the New Pie of Life

Larsen

Miller

Rhodes

et al. 2017

The Quarterly Review of Biology

286

221

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The number of species on Earth is one of the most fundamental numbers in science, but one that remains highly uncertain. Clearly, more species exist than the present number of formally described species (approximately 1.5 million), but projected species numbers differ dramatically among studies. Recent estimates range from about 2 million species to approximately 1 trillion, but most project around 11 million species or fewer. Numerous studies have focused on insects as a major component of overall richness, and many have excluded other groups, especially non-eukaryotes. Here, we re-estimate global biodiversity. We also estimate the relative richness of the major clades of living organisms, summarized as a "Pie of Life." Unlike many previous estimates, we incorporate morphologically cryptic arthropod species from molecular-based species delimitation. We also include numerous groups of organisms that have not been simultaneously included in previous estimates, especially those often associated with particular insect host species (including mites, nematodes, apicomplexan protists, microsporidian fungi, and bacteria). Our estimates suggest that there are likely to be at least 1 to 6 billion species on Earth. Furthermore, in contrast to previous estimates, the new Pie of Life is dominated by bacteria (approximately 70-90% of species) and insects are only one of many hyperdiverse groups. 230 Volume 92 THE QUARTERLY REVIEW OF BIOLOGY

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“…Six genes (18S, 28S rDNA, EF1-a, SRP54, HSP70, and CO1) were sequenced. DNA extraction, rDNA secondary structure alignment, oligonucleotide primers, amplification and sequencing were as described previously (Klimov and OConnor, 2008;Knowles and Klimov, 2011;Bochkov et al, 2014b). Outgroups were chosen based on our previous, large-scale molecular study designed to elucidate the origin of house dust mites (Klimov and OConnor, 2013).…”

Section: Dna Isolation and Sequencingmentioning

confidence: 99%

Phylogenetic position of the house dust mite subfamily Guatemalichinae (Acariformes: Pyroglyphidae) based on integrated molecular and morphological analyses and different measures of support

2015

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Based on multilocus phylogenetic analyses (18S, 28S, EF1‐α, SRP54, HSP70, CO1, 10 860 nt aligned), we show that the house dust mite subfamily Guatemalichinae is nested within non‐onychalgine pyroglyphid mites and forms the sister group to the genus Sturnophagoides (bootstrap support 100, posterior probability 1.0). Because high bootstrap support values may be misleading in the presence of incongruence, we evaluate robustness of the Guatemalichinae+Sturnophagoides clade using: (1) internode certainty indices to estimate the frequency of conflicting bipartitions in maximum‐likelihood bootstrap trees, (ii) consensus networks to investigate conflict among different loci; and (iii) statistical hypothesis testing based on information theory, both multi‐scale and regular bootstrap. Results suggest that this grouping is very well supported given the data. The molecular analyses were integrated with detailed morphological study using scanning electron and light microscopy. We suggest that the subfamilial status of Guatemalichinae should be reconsidered, and this lineage should be placed within the subfamily Dermatophagoidinae. The latter subfamily is currently accepted in the literature as a monophyletic group but was here inferred as paraphyletic and was not supported by any morphological synapomorphy. The paraphyly involved the most species‐rich and medically important genus, Dermatophagoides. Our findings suggest the need for a comprehensive revision of the higher‐level relationships of pyroglyphid house dust mites using both DNA sequences and morphology coupled with a broad taxonomic sampling.

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Integrated Bayesian species delimitation and morphological diagnostics of chorioptic mange mites (Acariformes: Psoroptidae: Chorioptes)

Cited by 36 publications

References 58 publications

Detecting ancient codispersals and host shifts by double dating of host and parasite phylogenies: Application in proctophyllodid feather mites associated with passerine birds

Detecting ancient codispersals and host shifts by double dating of host and parasite phylogenies: Application in proctophyllodid feather mites associated with passerine birds

Inordinate Fondness Multiplied and Redistributed: the Number of Species on Earth and the New Pie of Life

Phylogenetic position of the house dust mite subfamily Guatemalichinae (Acariformes: Pyroglyphidae) based on integrated molecular and morphological analyses and different measures of support

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