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Genome Information for Zalophus californianus
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As an apex marine predator, the California sea lion is an important indicator species for the impact of anthropogenic pollution on ocean health. This assembly has been produced as part of the G10K-VGP Project, and supported by Jochen Wolf, Professor of Evolutionary Biology, LMU Munich, Germany. DNA was collected from from a juvenile male at the Marine Mammal Center in Sausalito, California. The sample was sequenced using the VGP 1.6 individual pipeline at the Rockefeller University Vertebrate Genome Lab, led by Olivier Fedrigo and Erich Jarvis. Manual curation of chromosomes and other genomic features was conducted by the gEVAL group led by Kerstin Howe at the Sanger Institute. The primary haplotype contains the longest contigs of the Pacbio FALCON unzip assembly, scaffolded with 10X linked reads, Bionano optical maps, and Arima HiC reads, with multiple tools to further separate out haplotypes.
More...As an apex marine predator, the California sea lion is an important indicator species for the impact of anthropogenic pollution on ocean health. This assembly has been produced as part of the G10K-VGP Project, and supported by Jochen Wolf, Professor of Evolutionary Biology, LMU Munich, Germany. DNA was collected from from a juvenile male at the Marine Mammal Center in Sausalito, California. The sample was sequenced using the VGP 1.6 individual pipeline at the Rockefeller University Vertebrate Genome Lab, led by Olivier Fedrigo and Erich Jarvis. Manual curation of chromosomes and other genomic features was conducted by the gEVAL group led by Kerstin Howe at the Sanger Institute. The primary haplotype contains the longest contigs of the Pacbio FALCON unzip assembly, scaffolded with 10X linked reads, Bionano optical maps, and Arima HiC reads, with multiple tools to further separate out haplotypes. 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/about/data_use_policy
Less...Accession | PRJNA561800 |
Type | Umbrella project |
Organism | Zalophus californianus[Taxonomy ID: 9704] Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Laurasiatheria; Carnivora; Caniformia; Pinnipedia; Otariidae; Zalophus; Zalophus californianus |
Submission | Registration date: 23-Aug-2019 Vertebrate Genomes Project |
Relevance | Model Organism |
Project Data:
Resource Name | Number of Links |
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Sequence data |
Nucleotide (total) | 70875 |
WGS master | 2 |
Transcript | 70788 |
SRA Experiments | 9 |
Protein Sequences | 61011 |
Publications |
PubMed | 2 |
PMC | 1 |
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 Contigs SRA or Trace Total | 2 1 1 4
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BioProject accession | Assembly level | Name | Title |
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PRJNA559673 | Chromosomes | Zalophus californianus | Zalophus californianus (California sea lion) genome, mZalCal1, primary haplotype (Vertebrate Genomes Project) | PRJNA559674 | Contigs | Zalophus californianus | Zalophus californianus (California sea lion) genome, mZalCal1, alternate haplotype (Vertebrate Genomes Project) | PRJNA602522 | Chromosomes | Zalophus californianus | Zalophus californianus isolate:mZalCal1 RefSeq Genome sequencing and assembly (NCBI) | PRJNA1008629 | SRA or Trace | Zalophus californianus (California sea lion) genome, mZalCal1, sequence data | Zalophus californianus (California sea lion) genome, mZalCal1, sequence data (G10K) |
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