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5 results on '"Yll Hwan Cho"'

1. The complete mitochondrial genome of the Antarctic marbled rockcod, Notothenia rossii (Perciformes, Nototheniidae)

Author

Euna Jo, Yll Hwan Cho, Seung Jae Lee, Eunkyung Choi, Jeong-Hoon Kim, Young Min Chi, Jin-Hyoung Kim, and Hyun Park

Subjects
notothenia rossii, mitochondrial genome, antarctica, notothenioidei, pacbio, Genetics, QH426-470
Abstract

The complete mitochondrial genome of Notothenia rossii was obtained using PacBio Sequel long-read sequencing platform. The mitogenome of N. rossii was circular form and 18,274 bp long, which consists of 13 protein-coding genes, 24 tRNAs, 2 rRNAs, and non-coding control region. Particularly, we found duplicated tRNAThr and tRNAPro in addition to the typical 22 tRNAs. The phylogenetic tree revealed that N. rossii was most closely related to N. coriiceps among species in the Nototheniidae clade within the suborder Notothenioidei.

Published
2020
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2. Genome survey and microsatellite motif identification ofPogonophryne albipinna

Author

Yll Hwan Cho, Seung Jae Lee, E. Choi, Euna Jo, Jeong Hoon Kim, Hyun Park, Young Min Chi, and Jinmu Kim

Subjects
Fish Proteins, Genetic Markers, 0106 biological sciences, 0301 basic medicine, microsatellite, Biophysics, Sequence assembly, Biology, 010603 evolutionary biology, 01 natural sciences, Biochemistry, Genome, Loss of heterozygosity, 03 medical and health sciences, Genome Size, Animals, Nucleotide Motifs, Molecular Biology, Genome size, Research Articles, Pogonophryne, Evolutionary Biology, GC content, Contig, High-Throughput Nucleotide Sequencing, Genomics, Cell Biology, biology.organism_classification, Perciformes, 030104 developmental biology, Evolutionary biology, genome assembly, Microsatellite, GC-content, Microsatellite Repeats, Pogonophryne albipinna
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.

Published
2021
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3. The complete mitochondrial genome of the Antarctic marbled rockcod

Author

Euna, Jo, Yll Hwan, Cho, Seung Jae, Lee, Eunkyung, Choi, Jeong-Hoon, Kim, Young Min, Chi, Jin-Hyoung, Kim, and Hyun, Park

Subjects
PacBio, mitochondrial genome, Notothenioidei, Antarctica, Notothenia rossii, Mitogenome Announcement, Research Article
Abstract

The complete mitochondrial genome of Notothenia rossii was obtained using PacBio Sequel long-read sequencing platform. The mitogenome of N. rossii was circular form and 18,274 bp long, which consists of 13 protein-coding genes, 24 tRNAs, 2 rRNAs, and non-coding control region. Particularly, we found duplicated tRNAThr and tRNAPro in addition to the typical 22 tRNAs. The phylogenetic tree revealed that N. rossii was most closely related to N. coriiceps among species in the Nototheniidae clade within the suborder Notothenioidei.

Published
2021

4. The complete mitochondrial genome of the Antarctic marbled rockcod, Notothenia rossii (Perciformes, Nototheniidae)

Author

Yll Hwan Cho, Young Min Chi, E. Choi, Hyun Park, Seung Jae Lee, Jeong-Hoon Kim, Jin-Hyoung Kim, and Euna Jo

Subjects
0106 biological sciences, 0301 basic medicine, Mitochondrial DNA, Phylogenetic tree, biology, Notothenioidei, biology.organism_classification, 010603 evolutionary biology, 01 natural sciences, Perciformes, Notothenia rossii, 03 medical and health sciences, 030104 developmental biology, Evolutionary biology, Genetics, Nototheniidae, Clade, Molecular Biology, Gene
Abstract

The complete mitochondrial genome of Notothenia rossii was obtained using PacBio Sequel long-read sequencing platform. The mitogenome of N. rossii was circular form and 18,274 bp long, which consists of 13 protein-coding genes, 24 tRNAs, 2 rRNAs, and non-coding control region. Particularly, we found duplicated tRNAThr and tRNAPro in addition to the typical 22 tRNAs. The phylogenetic tree revealed that N. rossii was most closely related to N. coriiceps among species in the Nototheniidae clade within the suborder Notothenioidei.

Published
2020
Full Text
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5. Genome survey and microsatellite motif identification of Pogonophryne albipinna.

Author

Euna Jo, Yll Hwan Cho, Seung Jae Lee, Eunkyung Choi, Jinmu Kim, Jeong-Hoon Kim, Young Min Chi, and Hyun Park

Subjects
*MICROSATELLITE repeats, *NUCLEOTIDE sequencing, *GENOME size, *TERRITORIAL waters, *GENOMES
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. [ABSTRACT FROM AUTHOR]

Published
2021
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