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Genome Information for Catharus ustulatus
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The Swainson's thrush (Catharus ustulatus) is medium size songbird, known for its long migrations in the Americas, from as far north in Canada to as far south as Argentina. This assembly has been produced as part of the G10K-VGP project. Sequencing was conducted with Pacific long reads, Bionano optical maps, and 10X Genomics libraries at the Rockefeller University Vertebrate Genomes Lab led by Olivier Fedrigo, HiC at Arima Genomics, and Illumina sequencing at NovaGene. Genome assembly was conducted by Majid Vafadar, and supervised by Arang Rhie, using the VGP 1.5 pipeline. The primary haplotype was assembled to chromosomes, whereas the alternate as contigs only. Funding and coordination for the genomes was supported by Kira Delmore. The raw data and assembly are currently under a G10K-VGP publication embargo until removed from this description, following the G10K data use policy at the following URL: https://genome10k.soe.ucsc.edu/data-use-policies/
| Accession | PRJNA562193 |
| Type | Umbrella project |
| Organism | Catharus ustulatus[Taxonomy ID: 91951] Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Archelosauria; Archosauria; Dinosauria; Saurischia; Theropoda; Coelurosauria; Aves; Neognathae; Neoaves; Telluraves; Australaves; Passeriformes; Turdidae; Catharus; Catharus ustulatus |
| Submission | Registration date: 26-Aug-2019
Vertebrate Genomes Project |
| Relevance | Model Organism |
Project Data:
| Resource Name | Number
of Links |
|---|
| Sequence data |
| Nucleotide (total) | 40366 |
| WGS master | 2 |
| Transcript | 40121 |
| SRA Experiments | 14 |
| Protein Sequences | 36071 |
| Other datasets |
| BioSample | 1 |
| Assembly | 2 |
This project encompasses the following 4 sub-projects:
| Project Type | Number of Projects |
Genome sequencingHighest level of assembly : Chromosomes Scaffolds SRA or Trace Total |
2
1
1
4
|
BioProject
accession | Assembly
level | Name | Title |
|---|
| PRJNA561933 | Chromosomes | Catharus ustulatus | Catharus ustulatus (Swainson's thrush) genome, bCatUst1, primary haplotype (Vertebrate Genomes Project) | | PRJNA561934 | Scaffolds | Catharus ustulatus | Catharus ustulatus (Swainson's thrush) genome, bCatUst1, alternate haplotype (Vertebrate Genomes Project) | | PRJNA613294 | Chromosomes | Catharus ustulatus | Catharus ustulatus isolate:bCatUst1 RefSeq Genome sequencing and assembly (NCBI) | | PRJNA1008127 | SRA or Trace | Catharus ustulatus (Swainson's thrush) genome, bCatUst1, sequence data. | Catharus ustulatus (Swainson's thrush) genome, bCatUst1, sequence data. (G10K) |
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