Improved de novo genomic assembly for the domestic donkey

Research output: Contribution to journalJournal article – Annual report year: 2018Researchpeer-review

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Improved de novo genomic assembly for the domestic donkey. / Renaud, Gabriel; Petersen, Bent; Seguin-Orlando, Andaine; Bertelsen, Mads Frost ; Waller, Andrew; Newton, Richard ; Paillot, Romain; Bryant, Neil; Vaudin, Mark; Librado, Pablo; Orlando, Ludovic.

In: Science Advances, Vol. 4, No. 4, eaaq0392, 2018.

Research output: Contribution to journalJournal article – Annual report year: 2018Researchpeer-review

Harvard

Renaud, G, Petersen, B, Seguin-Orlando, A, Bertelsen, MF, Waller, A, Newton, R, Paillot, R, Bryant, N, Vaudin, M, Librado, P & Orlando, L 2018, 'Improved de novo genomic assembly for the domestic donkey', Science Advances, vol. 4, no. 4, eaaq0392. https://doi.org/10.1126/sciadv.aaq0392

APA

Renaud, G., Petersen, B., Seguin-Orlando, A., Bertelsen, M. F., Waller, A., Newton, R., ... Orlando, L. (2018). Improved de novo genomic assembly for the domestic donkey. Science Advances, 4(4), [eaaq0392]. https://doi.org/10.1126/sciadv.aaq0392

CBE

Renaud G, Petersen B, Seguin-Orlando A, Bertelsen MF, Waller A, Newton R, Paillot R, Bryant N, Vaudin M, Librado P, Orlando L. 2018. Improved de novo genomic assembly for the domestic donkey. Science Advances. 4(4). https://doi.org/10.1126/sciadv.aaq0392

MLA

Vancouver

Renaud G, Petersen B, Seguin-Orlando A, Bertelsen MF, Waller A, Newton R et al. Improved de novo genomic assembly for the domestic donkey. Science Advances. 2018;4(4). eaaq0392. https://doi.org/10.1126/sciadv.aaq0392

Author

Renaud, Gabriel ; Petersen, Bent ; Seguin-Orlando, Andaine ; Bertelsen, Mads Frost ; Waller, Andrew ; Newton, Richard ; Paillot, Romain ; Bryant, Neil ; Vaudin, Mark ; Librado, Pablo ; Orlando, Ludovic. / Improved de novo genomic assembly for the domestic donkey. In: Science Advances. 2018 ; Vol. 4, No. 4.

Bibtex

@article{cb6f3fe0b78a4094b2b0a458d408f073,
title = "Improved de novo genomic assembly for the domestic donkey",
abstract = "Donkeys and horses share a common ancestor dating back to about 4 million years ago. Although a high-quality genome assembly at the chromosomal level is available for the horse, current assemblies available for the donkey are limited to moderately sized scaffolds. The absence of a better-quality assembly for the donkey has hampered studies involving the characterization of patterns of genetic variation at the genome-wide scale. These range from the application of genomic tools to selective breeding and conservation to the more fundamental characterization of the genomic loci underlying speciation and domestication. We present a new high-quality donkey genome assembly obtained using the Chicago HiRise assembly technology, providing scaffolds of subchromosomal size. We make use of this new assembly to obtain more accurate measures of heterozygosity for equine species other than the horse, both genome-wide and locally, and to detect runs of homozygosity potentially pertaining to positive selection in domestic donkeys. Finally, this new assembly allowed us to identify fine-scale chromosomal rearrangements between the horse and the donkey that likely played an active role in their divergence and, ultimately, speciation.",
author = "Gabriel Renaud and Bent Petersen and Andaine Seguin-Orlando and Bertelsen, {Mads Frost} and Andrew Waller and Richard Newton and Romain Paillot and Neil Bryant and Mark Vaudin and Pablo Librado and Ludovic Orlando",
note = "This is an open-access article distributed under the terms of the Creative Commons Attribution-NonCommercial license, which permits use, distribution, and reproduction in any medium, so long as the resultant use is not for commercial advantage and provided the original work is properly cited.",
year = "2018",
doi = "10.1126/sciadv.aaq0392",
language = "English",
volume = "4",
journal = "Science Advances",
issn = "2375-2548",
publisher = "American Association for the Advancement of Science (A A A S)",
number = "4",

}

RIS

TY - JOUR

T1 - Improved de novo genomic assembly for the domestic donkey

AU - Renaud, Gabriel

AU - Petersen, Bent

AU - Seguin-Orlando, Andaine

AU - Bertelsen, Mads Frost

AU - Waller, Andrew

AU - Newton, Richard

AU - Paillot, Romain

AU - Bryant, Neil

AU - Vaudin, Mark

AU - Librado, Pablo

AU - Orlando, Ludovic

N1 - This is an open-access article distributed under the terms of the Creative Commons Attribution-NonCommercial license, which permits use, distribution, and reproduction in any medium, so long as the resultant use is not for commercial advantage and provided the original work is properly cited.

PY - 2018

Y1 - 2018

N2 - Donkeys and horses share a common ancestor dating back to about 4 million years ago. Although a high-quality genome assembly at the chromosomal level is available for the horse, current assemblies available for the donkey are limited to moderately sized scaffolds. The absence of a better-quality assembly for the donkey has hampered studies involving the characterization of patterns of genetic variation at the genome-wide scale. These range from the application of genomic tools to selective breeding and conservation to the more fundamental characterization of the genomic loci underlying speciation and domestication. We present a new high-quality donkey genome assembly obtained using the Chicago HiRise assembly technology, providing scaffolds of subchromosomal size. We make use of this new assembly to obtain more accurate measures of heterozygosity for equine species other than the horse, both genome-wide and locally, and to detect runs of homozygosity potentially pertaining to positive selection in domestic donkeys. Finally, this new assembly allowed us to identify fine-scale chromosomal rearrangements between the horse and the donkey that likely played an active role in their divergence and, ultimately, speciation.

AB - Donkeys and horses share a common ancestor dating back to about 4 million years ago. Although a high-quality genome assembly at the chromosomal level is available for the horse, current assemblies available for the donkey are limited to moderately sized scaffolds. The absence of a better-quality assembly for the donkey has hampered studies involving the characterization of patterns of genetic variation at the genome-wide scale. These range from the application of genomic tools to selective breeding and conservation to the more fundamental characterization of the genomic loci underlying speciation and domestication. We present a new high-quality donkey genome assembly obtained using the Chicago HiRise assembly technology, providing scaffolds of subchromosomal size. We make use of this new assembly to obtain more accurate measures of heterozygosity for equine species other than the horse, both genome-wide and locally, and to detect runs of homozygosity potentially pertaining to positive selection in domestic donkeys. Finally, this new assembly allowed us to identify fine-scale chromosomal rearrangements between the horse and the donkey that likely played an active role in their divergence and, ultimately, speciation.

U2 - 10.1126/sciadv.aaq0392

DO - 10.1126/sciadv.aaq0392

M3 - Journal article

VL - 4

JO - Science Advances

JF - Science Advances

SN - 2375-2548

IS - 4

M1 - eaaq0392

ER -