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Data released on December 06, 2016

Supporting data for "Genome sequencing of the winged midge, Parochlus steinenii, from the Antarctic Peninsula"

Choi, H; Jung, W; Kim, S; Oh, M; Park, J; Shin, S, C (2016): Supporting data for "Genome sequencing of the winged midge, Parochlus steinenii, from the Antarctic Peninsula" GigaScience Database. http://dx.doi.org/10.5524/100256 RIS BibTeX Text

In the Antarctic, only two species of Chironomidae occur naturally—the wingless midge, Belgica antarctica, and the winged midge, Parochlus steinenii. B. antarctica is an extremophile with unusual adaptations. The larvae of B. antarctica are desiccation- and freeze-tolerant and the adults are wingless. Recently, the compact genome of B. antarctica was reported and it is the first Antarctic eukaryote to be sequenced. Although they occur naturally in the Antarctic with B. antarctica, the larvae of P. steinenii are cold-tolerant but not freeze-tolerant and the adults are winged. Differences in adaptations in the Antarctic midges are interesting in terms of evolutionary processes under an extreme environment. Herein, we provide another genome of an Antarctic midge to elucidate the evolution of these species. The draft genome of P. steinenii had a total size of 138 Mbp, comprising 9,513 contigs with an N50 contig size of 34,110 bp, and a GC content of 32.2%. Overall, 13,468 genes were predicted using the MAKER annotation pipeline, and gene ontology classified 10,801 (80.2%) predicted genes to a function. Compared to the assembled genome architecture of B. antarctica, that of P. steinenii was approximately 50 Mbp longer with 6.2-fold more repeat sequences, whereas gene regions were similarly compact as B. antarctica.

Contact Submitter

Related manuscripts:

doi:10.1093/gigascience/giw009

Accessions (data included in GigaDB):

BioProject: PRJNA284858

Accessions (data not in GigaDB):

BioProject: PRJNA174315

Keywords:

Parochlus steinenii cold tolerant Antarctic midge 

Genomic

http://gigadb.org/images/data/cropped/100256.jpg

Funding:

  • Funding body - Korea Polar Research Institute (KOPRI)
  • Award ID - PE16070
  • Funding body - Korea Polar Research Institute (KOPRI)
  • Award ID - PE16080

Samples: Table Settings

Columns:

Common Name
Scienfic Name
Sample Attributes
Taxonomic ID
Genbank Name

Sample IDTaxonomic IDCommon NameGenbank NameScientific NameSample Attributes
Parachlus-totalRNA315571Parochlus steinenii Description:total RNA was extracted from the whole...
Analyte type:RNA
Alternative names:PS300PE01
...
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Parachlus-totalRNA2315571Parochlus steinenii Description:total RNA was extracted from the whole...
Analyte type:RNA
Alternative names:PS300PE02
...
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Parachlus-totalRNA3315571Parochlus steinenii Description:total RNA was extracted from the whole...
Analyte type:RNA
Alternative names:PS300PE03
...
+
Sejong01315571Parochlus steinenii Description:Parochlus steinenii specimens were col...
Analyte type:DNA
Alternative names:PE400
...
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Displaying 1-4 of 4 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 
Coding sequenceFASTA17.58 MB2016-11-15
annotationGFF19.7 MB2016-11-15
protein sequenceFASTA6.69 MB2016-11-15
annotationGFF4.85 MB2016-11-15
Sequence assemblyFASTA131.66 MB2016-11-15
Coding sequenceFASTA17.87 MB2016-11-15
annotationGFF29.76 MB2016-11-15
BLASTXML172.1 MB2016-11-15
protein sequenceFASTA6.06 MB2016-11-15
Coding sequenceFASTA21.33 MB2016-11-15
Displaying 1-10 of 14 File(s).

History:

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