Loging...

KPDC, Korea Polar Data Center

Korea Polar Data Center Scientific observations and results from Antarctica shall
be exchanged and made freely available

Chromosome-scale genome assembly and annotation of the Antarctic monocot plant, Deschampsia antarctica

Deschampsia antarctica É. Desv., the only indigenous grass species in the Antarctic Peninsula and the surrounding islands, has garnered significant garnered significant scientific attention due to its remarkable adaptations to the extreme polar environment. Given the importance of genomic adaptation in plants, particularly in extremophiles like D. antarctica, genome analysis and annotation is crucial for understanding its evolutionary significance and potential adaptive mechanisms. Here, a chromosome-scale assembly is presented for this species. The assembly was generated by Revio HiFi sequencing with proximity ligation Hi-C for the scaffolding and represents 4.755 Gb with 13 pseudochromosomes. The genome assembly statistics presented a contig N50 of 67.2 Mb, a BUSCO (Benchmarking Universal Single-Copy Orthologue) score of 99.1%, collectively signal the achieved high assembly quality. A comprehensive annotation yielded a total of 178,191 genes, and the associated BUSCO score of 98.2% for the annotated sequences attests to their completeness.

Register faveorites
Disclosure Request

92Views

Entry ID
DOI
https://dx.doi.org/doi:10.22663/KOPRI-KPDC-00002817
Copyright
Science Keyword
ISO Topic
Biota
Personnel
  • HyoungSeok Lee (soulaid@kopri.re.kr)
  • Seung Chul Shin (ssc@kopri.re.kr)
  • JungEun Lee (jelee@kopri.re.kr)
  • Jin-Hyoung Kim (kimjh@kopri.re.kr)
Project
Research period
2024-01-01 ~ 2025-04-01
Create/Update Date
2025-04-21 / 2025-04-21
Location
CONTINENT > ANTARCTICA > ANTARCTIC PENINSULA > Barton Peninsula
Citation
The data(KOPRI-KPDC-00002817) used in this work was provided by the Korea Polar Research Institute.
Spatial Coverage

POINT

  • lat:-62.153333, lon:-58.473889

My Favorite Areas

Favorite Area
EPSG Title Lat Lon ZoomLv DEL

Measure

distance

Unit Selection

Area

Unit Selection

Raw Data
File Size 5.34 Gb for 6 items
Category File Name Description Size Status
Rawdata DA_scaffold.fasta Da chromosome scaffold nucleotide fasta 4.8 Gb Request required
Processing Data DA_braker.aa.fasta protein, transcript, coding sequence files 73.69 Mb Request required
Processing Data DA_braker.aa.t1.fasta protein, transcript, coding sequence files 64.97 Mb Request required
Processing Data DA_braker.codingseq.fasta protein, transcript, coding sequence files 216.48 Mb Request required
Analysis Data DA_braker_annot.gtf annotation file 180.49 Mb Request required
Thumbnail Da_chromosome.jpg 썸네일 이미지 483.22 Kb Request required