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Data released on March 07, 2017

Supporting data for "Genome sequence of pacific abalone (Haliotis discus hannai): the first draft genome in family Haliotidae"

Nam, B; Kwak, W; Kim, Y; Kim, D; Kong, H, J; Kang, J; Kim, W; Park, J, Y; An, C, M; Moon, J; Park, C, J; Yu, J, W; Yoon, J; Seo, M; Kim, K; Kim, D, K; Lee, S; Sung, S; Lee, C; Shin, Y; Jung, M; Kang, B; Shin, G; Ka, S; Caetano-Anolles, K; Cho, S; Kim, H (2017): Supporting data for "Genome sequence of pacific abalone (Haliotis discus hannai): the first draft genome in family Haliotidae" GigaScience Database. http://dx.doi.org/10.5524/100281 RIS BibTeX Text

Abalones are large marine snails in the family Haliotidae and the genus Haliotis belonging to the class Gastropoda of the phylum Mollusca. The family Haliotidae contains only one genus, Haliotis, and this single genus is known to contain several species of abalone. With 18 additional subspecies, the most comprehensive treatment of Haliotidae considers 56 species valid. Abalone is an economically important fishery and aquaculture animal which is considered a highly-prized seafood delicacy. The total global supply of abalone has increased fivefold since 1970’s and farm productions increased explosively from 50 mt to 103,464 mt in the past forty years. Additionally, researchers have recently focused on Abalone given their reported tumor suppression effect. However, despite the valuable features of this marine animal, no genomic information is available for Haliotidae family and related research is still limited.
In order to construct the H.discus hannai genome, a total of 580G base pairs using Illumina and Pacbio platforms were generated with 322-fold coverage based on the 1.8Gb estimated genome size of H.discus hannai using flow cytometry. The final genome assembly consisted of 1.86Gb with 35,450 scaffolds (>2kb). GC content level was 40.51%, and the N50 length of assembled scaffolds was 211kb. We identified 29,449 genes using Evidence Modeler based on the gene information from ab initio prediction, protein homology with known genes and transcriptome evidence of RNA-seq.
Here we present the first Haliotidae genome, Haliotis discus hannai, with sequencing data, assembly, and gene annotation information. This will be helpful for resolving the lack of genomic information in the Haliotidae family as well as providing more opportunities for understanding gastropod evolution.

Contact Submitter

Accessions (data included in GigaDB):

BioProject: PRJNA317403

Genomic

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Funding:

  • Funding body - National Institute of Fisheries Science
  • Award ID - R2016024

Samples: Table Settings

Columns:

Common Name
Scienfic Name
Sample Attributes
Taxonomic ID
Genbank Name

Sample IDTaxonomic IDCommon NameGenbank NameScientific NameSample Attributes
Abalone genomic DNA42344Japanese abaloneJapanese disc abaloneHaliotis discus hannai Analyte:DNA
Description:Genomic DNA extracted from the mucle h...
Geographic location (latitude and longitude):34.72...
...
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Blood42344Japanese abaloneJapanese disc abaloneHaliotis discus hannai Analyte:RNA
Description:RNA extracted from the Blood of an adu...
Geographic location (latitude and longitude):34.72...
...
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Digestive duct42344Japanese abaloneJapanese disc abaloneHaliotis discus hannai Analyte:RNA
Description:RNA extracted from the Digestive duct ...
Geographic location (latitude and longitude):34.72...
...
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Gill42344Japanese abaloneJapanese disc abaloneHaliotis discus hannai Analyte:RNA
Description:RNA extracted from the Gill of an adul...
Geographic location (latitude and longitude):34.72...
...
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Hepatopancreas42344Japanese abaloneJapanese disc abaloneHaliotis discus hannai Analyte:RNA
Description:RNA extracted from the Hepatopancreas ...
Geographic location (latitude and longitude):34.72...
...
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Mantle42344Japanese abaloneJapanese disc abaloneHaliotis discus hannai Analyte:RNA
Description:RNA extracted from the Mantle of an ad...
Geographic location (latitude and longitude):34.72...
...
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Ovary42344Japanese abaloneJapanese disc abaloneHaliotis discus hannai Analyte:RNA
Description:RNA extracted from the Ovary of an adu...
Geographic location (latitude and longitude):34.72...
...
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Displaying 1-7 of 7 Sample(s).

Files: (FTP site) Table Settings

Columns:

File Description
Sample ID
File Type
File Format
Size
Release Date
Download Link
File Attributes

File NameSample IDFile TypeFile FormatSizeRelease Date 
Genome sequenceFASTA1.76 GB2017-02-28
Repeat sequenceGFF715.23 MB2017-02-28
annotationGFF11.72 MB2017-02-28
Coding sequenceFASTA22.22 MB2017-02-28
otherTEXT0.32 KB2017-02-28
ReadmeTEXT2.61 KB2017-02-28
protein sequenceFASTA8.66 MB2017-02-28
Coding sequenceFASTA79.11 MB2017-02-28
Displaying 1-8 of 8 File(s).

History:

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