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  1. Article: The Australasian dingo archetype:

    Ballard, J William O / Field, Matt A / Edwards, Richard J / Wilson, Laura A B / Koungoulos, Loukas G / Rosen, Benjamin D / Chernoff, Barry / Dudchenko, Olga / Omer, Arina / Keilwagen, Jens / Skvortsova, Ksenia / Bogdanovic, Ozren / Chan, Eva / Zammit, Robert / Hayes, Vanessa / Aiden, Erez Lieberman

    bioRxiv : the preprint server for biology

    2023  

    Abstract: Background: One difficulty in testing the hypothesis that the Australasian dingo is a functional intermediate between wild wolves and domesticated breed dogs is that there is no reference specimen. Here we link a high-quality : Findings: We generated ...

    Abstract Background: One difficulty in testing the hypothesis that the Australasian dingo is a functional intermediate between wild wolves and domesticated breed dogs is that there is no reference specimen. Here we link a high-quality
    Findings: We generated a high-quality chromosome-level reference genome assembly (Canfam_ADS) using a combination of Pacific Bioscience, Oxford Nanopore, 10X Genomics, Bionano, and Hi-C technologies. Compared to the previously published Desert dingo assembly, there are large structural rearrangements on Chromosomes 11, 16, 25 and 26. Phylogenetic analyses of chromosomal data from Cooinda the Alpine dingo and nine previously published
    Conclusions: These combined data support the hypothesis that the dingo Cooinda fits the spectrum of genetic and morphological characteristics typical of the Alpine ecotype. We propose that she be considered the archetype specimen for future research investigating the evolutionary history, morphology, physiology, and ecology of dingoes. The female has been taxidermically prepared and is now at the Australian Museum, Sydney.
    Language English
    Publishing date 2023-01-27
    Publishing country United States
    Document type Preprint
    DOI 10.1101/2023.01.26.525801
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: The Australasian dingo archetype: de novo chromosome-length genome assembly, DNA methylome, and cranial morphology.

    Ballard, J William O / Field, Matt A / Edwards, Richard J / Wilson, Laura A B / Koungoulos, Loukas G / Rosen, Benjamin D / Chernoff, Barry / Dudchenko, Olga / Omer, Arina / Keilwagen, Jens / Skvortsova, Ksenia / Bogdanovic, Ozren / Chan, Eva / Zammit, Robert / Hayes, Vanessa / Aiden, Erez Lieberman

    GigaScience

    2023  Volume 12

    Abstract: Background: One difficulty in testing the hypothesis that the Australasian dingo is a functional intermediate between wild wolves and domesticated breed dogs is that there is no reference specimen. Here we link a high-quality de novo long-read ... ...

    Abstract Background: One difficulty in testing the hypothesis that the Australasian dingo is a functional intermediate between wild wolves and domesticated breed dogs is that there is no reference specimen. Here we link a high-quality de novo long-read chromosomal assembly with epigenetic footprints and morphology to describe the Alpine dingo female named Cooinda. It was critical to establish an Alpine dingo reference because this ecotype occurs throughout coastal eastern Australia where the first drawings and descriptions were completed.
    Findings: We generated a high-quality chromosome-level reference genome assembly (Canfam_ADS) using a combination of Pacific Bioscience, Oxford Nanopore, 10X Genomics, Bionano, and Hi-C technologies. Compared to the previously published Desert dingo assembly, there are large structural rearrangements on chromosomes 11, 16, 25, and 26. Phylogenetic analyses of chromosomal data from Cooinda the Alpine dingo and 9 previously published de novo canine assemblies show dingoes are monophyletic and basal to domestic dogs. Network analyses show that the mitochondrial DNA genome clusters within the southeastern lineage, as expected for an Alpine dingo. Comparison of regulatory regions identified 2 differentially methylated regions within glucagon receptor GCGR and histone deacetylase HDAC4 genes that are unmethylated in the Alpine dingo genome but hypermethylated in the Desert dingo. Morphologic data, comprising geometric morphometric assessment of cranial morphology, place dingo Cooinda within population-level variation for Alpine dingoes. Magnetic resonance imaging of brain tissue shows she had a larger cranial capacity than a similar-sized domestic dog.
    Conclusions: These combined data support the hypothesis that the dingo Cooinda fits the spectrum of genetic and morphologic characteristics typical of the Alpine ecotype. We propose that she be considered the archetype specimen for future research investigating the evolutionary history, morphology, physiology, and ecology of dingoes. The female has been taxidermically prepared and is now at the Australian Museum, Sydney.
    MeSH term(s) Dogs ; Animals ; Female ; Epigenome ; Phylogeny ; Australia ; Canidae/genetics ; Wolves/genetics ; Genome, Mitochondrial ; Chromosomes
    Language English
    Publishing date 2023-03-22
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, U.S. Gov't, Non-P.H.S. ; Research Support, Non-U.S. Gov't
    ZDB-ID 2708999-X
    ISSN 2047-217X ; 2047-217X
    ISSN (online) 2047-217X
    ISSN 2047-217X
    DOI 10.1093/gigascience/giad018
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article ; Online: The Australasian dingo archetype

    Ballard, J. William O. / Field, Matt A. / Edwards, Richard J. / Wilson, Laura A. B. / Koungoulos, Loukas G. / Rosen, Benjamin D. / Chernoff, Barry / Dudchenko, Olga / Omer, Arina / Keilwagen, Jens / Skvortsova, Ksenia / Bogdanovic, Ozren / Chan, Eva / Zammit, Robert / Hayes, Vanessa / Aiden, Erez Lieberman

    de novo chromosome-length genome assembly, DNA methylome, and cranial morphology

    2023  

    Abstract: Background One difficulty in testing the hypothesis that the Australasian dingo is a functional intermediate between wild wolves and domesticated breed dogs is that there is no reference specimen. Here we link a high-quality de novo long-read chromosomal ...

    Abstract Background One difficulty in testing the hypothesis that the Australasian dingo is a functional intermediate between wild wolves and domesticated breed dogs is that there is no reference specimen. Here we link a high-quality de novo long-read chromosomal assembly with epigenetic footprints and morphology to describe the Alpine dingo female named Cooinda. It was critical to establish an Alpine dingo reference because this ecotype occurs throughout coastal eastern Australia where the first drawings and descriptions were completed. Findings We generated a high-quality chromosome-level reference genome assembly (Canfam_ADS) using a combination of Pacific Bioscience, Oxford Nanopore, 10X Genomics, Bionano, and Hi-C technologies. Compared to the previously published Desert dingo assembly, there are large structural rearrangements on chromosomes 11, 16, 25, and 26. Phylogenetic analyses of chromosomal data from Cooinda the Alpine dingo and 9 previously published de novo canine assemblies show dingoes are monophyletic and basal to domestic dogs. Network analyses show that the mitochondrial DNA genome clusters within the southeastern lineage, as expected for an Alpine dingo. Comparison of regulatory regions identified 2 differentially methylated regions within glucagon receptor GCGR and histone deacetylase HDAC4 genes that are unmethylated in the Alpine dingo genome but hypermethylated in the Desert dingo. Morphologic data, comprising geometric morphometric assessment of cranial morphology, place dingo Cooinda within population-level variation for Alpine dingoes. Magnetic resonance imaging of brain tissue shows she had a larger cranial capacity than a similar-sized domestic dog. Conclusions These combined data support the hypothesis that the dingo Cooinda fits the spectrum of genetic and morphologic characteristics typical of the Alpine ecotype. We propose that she be considered the archetype specimen for future research investigating the evolutionary history, morphology, physiology, and ecology of dingoes. The female ...
    Keywords article ; Text ; ddc:630 ; type specimen -- cranium -- long-read sequencing -- de novo genome assembly -- biogeography
    Language English
    Publisher Oxford University Press (OUP)
    Publishing country de
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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