Jagannathan, Vidya; Hitte, Christophe; Kidd, Jeffrey M.; Masterson, Patrick; Murphy, Terence D.; Emery, Sarah; Davis, Brian; Buckley, Reuben M.; Liu, Yan-Hu; Zhang, Xiang-Quan; Leeb, Tosso; Zhang, Ya-Ping; Ostrander, Elaine A.; Wang, Guo-Dong (2021). Dog10K_Boxer_Tasha_1.0: A Long-Read Assembly of the Dog Reference Genome. Genes, 12(6) MDPI, Molecular Diversity Preservation International 10.3390/genes12060847
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Jagannathan_2021_Genes_12_847.pdf - Published Version Available under License Creative Commons: Attribution (CC-BY). Copyright: © 2021 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (http://creativecommons.org/licenses/by/4.0/). Download (950kB) | Preview |
The domestic dog has evolved to be an important biomedical model for studies regarding the genetic basis of disease, morphology and behavior. Genetic studies in the dog have relied on a draft reference genome of a purebred female boxer dog named "Tasha" initially published in 2005. Derived from a Sanger whole genome shotgun sequencing approach coupled with limited clone-based sequencing, the initial assembly and subsequent updates have served as the predominant resource for canine genetics for 15 years. While the initial assembly produced a good-quality draft, as with all assemblies produced at the time, it contained gaps, assembly errors and missing sequences, particularly in GC-rich regions, which are found at many promoters and in the first exons of protein-coding genes. Here, we present Dog10K_Boxer_Tasha_1.0, an improved chromosome-level highly contiguous genome assembly of Tasha created with long-read technologies that increases sequence contiguity >100-fold, closes >23,000 gaps of the CanFam3.1 reference assembly and improves gene annotation by identifying >1200 new protein-coding transcripts. The assembly and annotation are available at NCBI under the accession GCF_000002285.5.
Item Type: |
Journal Article (Original Article) |
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Division/Institute: |
05 Veterinary Medicine > Department of Clinical Research and Veterinary Public Health (DCR-VPH) > Institute of Genetics 05 Veterinary Medicine > Department of Clinical Research and Veterinary Public Health (DCR-VPH) |
UniBE Contributor: |
Jagannathan, Vidya, Leeb, Tosso |
Subjects: |
500 Science > 590 Animals (Zoology) 600 Technology > 630 Agriculture 500 Science > 570 Life sciences; biology 600 Technology > 610 Medicine & health |
ISSN: |
2073-4425 |
Publisher: |
MDPI, Molecular Diversity Preservation International |
Language: |
English |
Submitter: |
Tosso Leeb |
Date Deposited: |
07 Jun 2021 08:45 |
Last Modified: |
05 Dec 2022 15:51 |
Publisher DOI: |
10.3390/genes12060847 |
PubMed ID: |
34070911 |
BORIS DOI: |
10.48350/156573 |
URI: |
https://boris.unibe.ch/id/eprint/156573 |
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