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Whole-Genome Survey and Microsatellite Marker Detection of Antarctic Crocodile Icefish, Chionobathyscus dewitti

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Title
Whole-Genome Survey and Microsatellite Marker Detection of Antarctic Crocodile Icefish, Chionobathyscus dewitti
Other Titles
Antarctic Crocodile Icefish, Chionobathyscus dewitti의 전체 게놈 연구 및 미세부수체 마커 검출
Authors
김진무
이승재
Jo, Euna
최은경
조민주
최소윤
Kim, Jeong-Hoon
박현
Keywords
Chionobathyscus dewittiGenomeScopeIllumina Novaseq 6000JellyfishK-valuecrocodile icefishmicrosatellite
Issue Date
2022
Citation
김진무, et al. 2022. "Whole-Genome Survey and Microsatellite Marker Detection of Antarctic Crocodile Icefish, Chionobathyscus dewitti". ANIMALS, 12(19): 1-9.
Abstract
The crocodile icefish, Chionobathyscus dewitti, belonging to the family Channichthyidae, is an endemic species of the Southern Ocean. The study of its biological features and genetics is challenging as the fish inhabits the deep sea around Antarctic waters. The icefish, the sole cryopelagic species, shows unique physiological and genetic features, unlike other teleosts. It lacks hemoglobin and has evolved antifreeze proteins. Here, we report the genome sequencing data of crocodile icefish produced using the Illumina Novaseq 6000 platform. The estimated genome size was 0.88 Gb with a K-value of 19, and the unique sequence, heterozygosity, error, and duplication rates were 57.4%, 0.421%, 0.317%, and 0.738%, respectively. A genome assembly of 880.69 Mb, with an N50 scaffold length of 2401 bp, was conducted. We identified 2,252,265 microsatellite motifs from the genome assembly data, and dinucleotide repeats (1,920,127; 85.25%) had the highest rate. We selected 84 primer pairs from the genome survey assembly and randomly selected 30 primer pairs for validation. As a result, 15 primer pairs were validated as microsatellite markers.
URI
https://repository.kopri.re.kr/handle/201206/14085
DOI
http://dx.doi.org/10.3390/ani12192598
Type
Article
Station
Araon
Indexed
SCIE
Appears in Collections  
2022-2022, 로스해 해양보호구역의 보존조치 이행에 따른 생태계 변화 연구 (22-22) / Kim, Jeong-Hoon (PM22060)
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