Dog10K_Boxer_Tasha_1.0: A Long-Read Assembly of the Dog Reference Genome
| Autor: | Xiangquan Zhang, Christophe Hitte, Elaine A. Ostrander, Patrick Masterson, Terence Murphy, Yan-Hu Liu, Jeffrey M. Kidd, S. Emery, Brian W. Davis, Tosso Leeb, Ya-Ping Zhang, Reuben M. Buckley, Guo-Dong Wang, Vidhya Jagannathan |
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| Přispěvatelé: | University of Bern, Institut de Génétique et Développement de Rennes (IGDR), Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique )-Centre National de la Recherche Scientifique (CNRS)-Université de Rennes 1 (UR1), Université de Rennes (UNIV-RENNES)-Université de Rennes (UNIV-RENNES), University of Michigan [Ann Arbor], University of Michigan System, National Center for Biotechnology Information (NCBI), Texas A&M University [College Station], National Human Genome Research Institute (NHGRI), Kunming Institute of Zoology, Chinese Academy of Sciences [Beijing] (CAS), 2019YFA0707101, The National Key R&D Program of China, R01GM140135, National Institutes of Health, Université de Rennes (UR)-Centre National de la Recherche Scientifique (CNRS)-Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique ), Kunming Institute of Zoology (KIZ) |
| Rok vydání: | 2021 |
| Předmět: |
clone (Java method)
0301 basic medicine Canis lupus familiaris contiguity 0206 medical engineering Sequence assembly 610 Medicine & health 02 engineering and technology Computational biology QH426-470 Biology resource Article Contig Mapping 03 medical and health sciences Annotation high quality Dogs 0302 clinical medicine Pacific biosciences Genetics Animals Canine genetics Gene Genetics (clinical) 030304 developmental biology 0303 health sciences Genome 630 Agriculture Shotgun sequencing Molecular Sequence Annotation Gene Annotation [SDV.GEN.GA]Life Sciences [q-bio]/Genetics/Animal genetics 030104 developmental biology annotation 590 Animals (Zoology) 570 Life sciences biology 020602 bioinformatics 030217 neurology & neurosurgery Reference genome |
| Zdroj: | 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 Genes Genes, MDPI, 2021, 12 (6), pp.847. ⟨10.3390/genes12060847⟩ Genes, 2021, 12 (6), pp.847. ⟨10.3390/genes12060847⟩ Genes, Vol 12, Iss 847, p 847 (2021) Volume 12 Issue 6 |
| ISSN: | 2073-4425 |
| DOI: | 10.48350/156573 |
| Popis: | 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. |
| Databáze: | OpenAIRE |
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