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Data released on November 22, 2016

Supporting data for "The genome of Antarctic-endemic Copepod, Tigriopus kingsejongensis"

Ahn, D, H; Kang, S; Kim, H, W; Kim, S; Lee, H; Lee, J, H; Lee, J; Lee, S, G; Min, G, S; Park, H; Shin, S, C (2016): Supporting data for "The genome of Antarctic-endemic Copepod, Tigriopus kingsejongensis" GigaScience Database. http://dx.doi.org/10.5524/100249 RIS BibTeX Text

The Antarctic intertidal zone is continuously subject to extreme fluctuations in biotic and abiotic stressors, and the West Antarctic Peninsula is the most rapidly warming region on earth. Organisms living in Antarctic intertidal pools are therefore of great interest for research on topics such as evolutionary adaptation to extreme environments and the effects of climate change.
Here, we report the whole-genome sequence of the Antarctic endemic Harpacticoid copepod, Tigriopus kingsejongensis with a total of 37 Gb raw DNA sequence using Illumina Miseq platform and the libraries were prepared with 65-fold coverage with a total length of 295 Mb. The final assembly consists of 48,368 contigs with an N50 contig length of 17.5 kb and 27,823 scaffolds with N50 contig length of 159.2 kb and a total of 12,772 coding genes were inferred using the MAKER annotation pipeline approach. Comparative genome analysis revealed that T. kingsejongensis specific genes are enriched in transport and metabolism processes. Furthermore, rapidly evolving genes related to energy metabolism showed signatures of positive selection.
The genome of T. kingsejongensis will provide an interesting example of an evolutionary strategy for Antarctic cold adaptation, and offers new genetic insights into Antarctic intertidal biota.

Contact Submitter

Related manuscripts:

doi:10.1093/gigascience/giw010

Accessions (data included in GigaDB):

BioProject: PRJNA349776
BioProject: PRJNA307207
BioProject: PRJNA307513

Keywords:

Copepoda Genome Antarctic adaptation Tigriopus 

Genomic, Transcriptomic

http://gigadb.org/images/data/cropped/100249.jpg

Funding:

  • Funding body - Korea Polar Research Institute (KOPRI)
  • Award ID - PE14260
  • Comment - Sanghee Kim
  • Funding body - Korea Polar Research Institute (KOPRI)
  • Award ID - PE16070
  • Comment - Hyun Park

Samples: Table Settings

Columns:

Common Name
Scienfic Name
Sample Attributes
Taxonomic ID
Genbank Name

Sample IDTaxonomic IDCommon NameGenbank NameScientific NameSample Attributes
TJ15RNA:SAMN05933004158387  Tigriopus japonicus Analyte type:RNA
Description:Pooled adult individuals from 15°C ex...
Geographic location (latitude and longitude):37°2...
...
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TJ4RNA:SAMN05933003158387  Tigriopus japonicus Analyte type:RNA
Description:Pooled adult individuals from 4°C exp...
Geographic location (latitude and longitude):37°2...
...
+
Tk15CRNA:SAMN043821301133412Tigriopus kingsejongensis Analyte type:RNA
Description:Pooled adult individuals from 15°C ex...
Geographic location (latitude and longitude):62°1...
...
+
Tk4CRNA:SAMN043821291133412Tigriopus kingsejongensis Analyte type:RNA
Description:Pooled adult individuals from 4°C exp...
Geographic location (latitude and longitude):62°1...
...
+
TkDNA: SAMN043767101133412Tigriopus kingsejongensis Analyte type:DNA
Description:Pooled adult individuals were used for...
Geographic location (latitude and longitude):62°1...
...
+
Displaying 1-5 of 5 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 
TextUNKNOWN0.33 KB2016-10-27
TextUNKNOWN0.33 KB2016-10-27
TextUNKNOWN0.32 KB2016-10-27
TextUNKNOWN2.2 KB2016-10-27
Alignmentsarchive593.1 KB2016-10-27
ReadmeTEXT19.98 KB2016-10-27
annotationUNKNOWN1011.22 KB2016-10-27
Coding sequenceFASTA18.28 MB2016-10-27
Genome sequenceFASTA313.39 MB2016-10-27
annotationUNKNOWN596.17 MB2016-10-27
Displaying 1-10 of 15 File(s).

History:

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