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Genome survey and microsatellite motif identification of Pogonophryne albipinna

Cited 1 time in wos
Cited 1 time in scopus
Title
Genome survey and microsatellite motif identification of Pogonophryne albipinna
Other Titles
Pogonophryne albipinna의 게놈연구 및 microsatellite motif 식별
Authors
Jo, Euna
Cho, Yll Hwan
Lee, Seung Jae
Choi, Eunkyung
Kim, Jinmu
Kim, Jeong-Hoon
Chi, Young Min
Park, Hyun
Subject
Biochemistry & Molecular BiologyCell Biology
Keywords
PERCIFORMES NOTOTHENIOIDEI ARTEDIDRACONIDAEDEEP ROSS SEASIZE
Issue Date
2021-07
Citation
Jo, Euna, et al. 2021. "Genome survey and microsatellite motif identification of Pogonophryne albipinna". BIOSCIENCE REPORTS, 41(7): 1-7.
Abstract
The genus Pogonophryne is a speciose group that includes 28 species inhabiting the coastal or deep waters of the Antarctic Southern Ocean. The genus has been divided into five species groups, among which the P. albipinna group is the most deep-living group and is characterized by a lack of spots on the top of the head. Here, we carried out genome survey sequencing of P. albipinna using the Illumina HiSeq platform to estimate the genomic characteristics and identify genome-wide microsatellite motifs. The genome size was predicted to be ∼883.8 Mb by K-mer analysis (K = 25), and the heterozygosity and repeat ratio were 0.289 and 39.03%, respectively. The genome sequences were assembled into 571624 contigs, covering a total length of ∼819.3 Mb with an N50 of 2867 bp. A total of 2217422 simple sequence repeat (SSR) motifs were identified from the assembly data, and the number of repeats decreased as the length and number of repeats increased. These data will provide a useful foundation for the development of new molecular markers for the P. albipinna group as well as for further whole-genome sequencing of P. albipinna.
URI
https://repository.kopri.re.kr/handle/201206/12966
DOI
http://dx.doi.org/10.1042/BSR20210824
Type
Article
Station
Jang Bogo Station
Indexed
SCIE
Appears in Collections  
2021-2022, Ecosystem Structure and Function of Marine Protected Area (MPA) in Antarctica (21-22) / Kim, Jeong-Hoon (PM21060)
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