Dog10K_Boxer_Tasha_1.0: A Long-Read Assembly of the Dog Reference Genome

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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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)

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 and 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:

07 Jun 2021 08:45

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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