Mitochondrial DNA Introgression in the European Abalone Haliotis tuberculata tuberculata: Evidence for Experimental mtDNA Paternal Inheritance and a Natural Hybrid Sequence

Wormhoudt, Alain Van; Roussel, Valérie; Courtois, G.; Huchette, Sylvain

doi:10.1007/s10126-010-9327-6

Cited by 13 publications

(4 citation statements)

References 52 publications

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“…The base composition of the final assembly version is A = 26.58%, C = 13.51%, G = 24.19%, T = 35.7%, and consists of 22 transfer RNAs and 13 protein coding genes. This assembly was slightly larger than mitochondrial genomes from other members of the Haliotidae, with H. laevigata at 16 545 bp ( Robinson et al 2016 ), H. d. hannai at 16 886 bp ( Yang et al 2015 ), Haliotis diversicolor at 16 186–16 266 bp ( Xin et al 2011 ) and Haliotis tuberculata tuberculata at 15 938–16 521 bp ( Van Wormhoudt et al 2011 ). We also identified 2280 regions that correspond to potential numts.…”

Section: Resultsmentioning

confidence: 91%

A Draft Reference Genome Assembly of the Critically Endangered Black Abalone,Haliotis cracherodii

Orland

Escalona

Sahasrabudhe

et al. 2022

Journal of Heredity

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The once abundant black abalone, Haliotis cracherodii, is a large, long-lived grazing marine mollusk that inhabits the rocky intertidal along the coast of California. The species has experienced dramatic declines since the mid-1980s largely due to the fatal bacterial disease called withering syndrome, leading to the collapse of an economically important fishery and to its inclusion into the IUCN listing as a critically endangered species. In some places impacted by the disease, populations of black abalone have declined by more than 90%, prompting population crashes associated with very little recruitment of new individuals and changes to intertidal communities. Habitats that were dominated by crustose coralline algae and bare rock have become dominated instead by fleshy algae and sessile invertebrates. Here, we present the first high-quality black abalone reference genome, assembled with PacBio HiFi long-reads and assembled with Dovetail Omni-C data to generate a scaffold-level assembly. The black abalone reference genome will be an essential resource in understanding the evolutionary history of this species as well as for exploring its current levels of genetic diversity and establishing future management and restoration plans.

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Section: Resultsmentioning

confidence: 91%

A Draft Reference Genome Assembly of the Critically Endangered Black Abalone,Haliotis cracherodii

Orland

Escalona

Sahasrabudhe

et al. 2022

Journal of Heredity

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“…Haliotids have an unusual (for molluscs) propensity to hybridize readily with other, sometimes quite distantly related species, which has the potential to generate misleading signals in mitochondrial data (Guo, Ding, et al, 2019; Hirase et al, 2021). There was no indication of hybridization with out‐group taxa within our data set, which could be characterized by polyphyly in the in‐group ( H. virginea ) due to highly divergent hybrid individuals (Guo, Ding, et al, 2019; Van Wormhoudt et al, 2011), as well as distinctive and morphologically intermediate shells (Geiger & Owen, 2012). Some haliotid hybrids have also been reported to have paternal mitochondrial transmission (Van Wormhoudt et al, 2011), which can result in heteroplasmy.…”

Section: Discussionmentioning

confidence: 89%

“…There was no indication of hybridization with out‐group taxa within our data set, which could be characterized by polyphyly in the in‐group ( H. virginea ) due to highly divergent hybrid individuals (Guo, Ding, et al, 2019; Van Wormhoudt et al, 2011), as well as distinctive and morphologically intermediate shells (Geiger & Owen, 2012). Some haliotid hybrids have also been reported to have paternal mitochondrial transmission (Van Wormhoudt et al, 2011), which can result in heteroplasmy. However, we observed extremely few mitochondrial genome coordinates where there was consistent disagreement between mapped reads that could reflect heteroplasmy (as opposed to DNA damage or sequencing errors).…”

Section: Discussionmentioning

confidence: 89%

Application of palaeogenetic techniques to historic mollusc shells reveals phylogeographic structure in a New Zealand abalone

Walton

Scarsbrook

Verry

et al. 2022

Molecular Ecology Resources

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Natural history collections worldwide contain a plethora of mollusc shells. Recent studies have detailed the sequencing of DNA extracted from shells up to thousands of years old and from various taphonomic and preservational contexts. However, previous approaches have largely addressed methodological rather than evolutionary research questions. Here, we report the generation of DNA sequence data from mollusc shells using such techniques, applied to Haliotis virginea Gmelin, 1791, a New Zealand abalone, in which morphological variation has led to the recognition of several forms and subspecies. We successfully recovered near‐complete mitogenomes from 22 specimens including 12 dry‐preserved shells up to 60 years old. We used a combination of palaeogenetic techniques that have not previously been applied to shell, including DNA extraction optimized for ultra‐short fragments and hybridization‐capture of single‐stranded DNA libraries. Phylogenetic analyses revealed three major, well‐supported clades comprising samples from: (1) The Three Kings Islands; (2) the Auckland, Chatham and Antipodes Islands; and (3) mainland New Zealand and Campbell Island. This phylogeographic structure does not correspond to the currently recognized forms. Critically, our nonreliance on freshly collected or ethanol‐preserved samples enabled inclusion of topotypes of all recognized subspecies as well as additional difficult‐to‐sample populations. Broader application of these comparatively cost‐effective and reliable methods to modern, historical, archaeological and palaeontological shell samples has the potential to revolutionize invertebrate genetic research.

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“…), H. tuberculata (Van Wormhoudt et al . ), H. diversicolor (Xin et al . ), H. laevigata (Robinson et al .…”

Section: Introductionmentioning

confidence: 99%

Mitogenomics of Vetigastropoda: insights into the evolution of pallial symmetry

et al. 2015

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The nucleotide sequences of the complete or nearly complete mitochondrial (mt) genomes of seven vetigastropods were determined: Angaria neglecta (Angarioidea), Phasianella solida (Phasianelloidea), Granata lyrata (Seguenzioidea), Tegula lividomaculata and Bolma rugosa (Trochoidea), Diodora graeca (Fissurelloidea) and Lepetodrilus schrolli (Lepetodriloidea). While the mt genomes of the superfamilies Angarioidea, Phasianelloidea, Seguenzioidea and Trochoidea conform generally to the ancestral gene order of Vetigastropoda and Gastropoda, those of the superfamilies Fissurelloidea and Lepetodriloidea have suffered important rearrangements. The gene order of the mtDNA of Chrysomallon squamiferum, a representative of Neomphalina, was also analysed since it has been proposed to be closely related to Vetigastropoda, and showed a distinct arrangement. The reconstructed phylogenies recovered Neomphalina as a distinct gastropod lineage that is the sister group (only with moderate bootstrap support) of a clade including Vetigastropoda and Neritimorpha + Caeno‐gastropoda while the relative position of Heterobranchia and Patellogastropoda in the gastropod tree could not be determined definitively due to their long branches. Within the monophyletic Vetigastropoda, the superfamily Fissurelloidea was recovered as the sister group of two lineages, one including Lepetodriloidea as the sister group of Seguenzioidea + Halitoidea, the other including Phasianelloidea, Angarioidea and Trochoidea without resolved relationships. The long branches of Fissurelloidea were found to introduce significant tree instability in phylogenetic reconstruction. The new phylogeny supports that the loss of the right pallial gill occurred multiple times in vetigastropod evolution as previously suggested and that Phasianelloidea, Angarioidea and Trochoidea radiated from a common asymmetric (single‐gilled) ancestor that lived in the middle Palaeozoic.

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Mitochondrial DNA Introgression in the European Abalone Haliotis tuberculata tuberculata: Evidence for Experimental mtDNA Paternal Inheritance and a Natural Hybrid Sequence

Cited by 13 publications

References 52 publications

A Draft Reference Genome Assembly of the Critically Endangered Black Abalone,Haliotis cracherodii

A Draft Reference Genome Assembly of the Critically Endangered Black Abalone,Haliotis cracherodii

Application of palaeogenetic techniques to historic mollusc shells reveals phylogeographic structure in a New Zealand abalone

Mitogenomics of Vetigastropoda: insights into the evolution of pallial symmetry

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