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A chromosome-scale genome assembly of the false clownfish, Amphiprion ocellaris
https://oist.repo.nii.ac.jp/records/2693
https://oist.repo.nii.ac.jp/records/2693aa6fb89f-909a-4128-9243-dbcdf5dd0d4c
名前 / ファイル | ライセンス | アクション |
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Ryu-A chromosome-scale genome assembly of the_2 (4.0 MB)
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CC BY 4.0
Creative Commons Attribution 4.0 International (https://creativecommons.org/licenses/by/4.0/) |
Item type | 学術雑誌論文 / Journal Article(1) | |||||
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公開日 | 2022-07-06 | |||||
タイトル | ||||||
言語 | en | |||||
タイトル | A chromosome-scale genome assembly of the false clownfish, Amphiprion ocellaris | |||||
言語 | ||||||
言語 | eng | |||||
キーワード | ||||||
主題Scheme | Other | |||||
主題 | Amphiprion ocellaris | |||||
キーワード | ||||||
主題Scheme | Other | |||||
主題 | anemonefish | |||||
キーワード | ||||||
主題Scheme | Other | |||||
主題 | clownfish | |||||
キーワード | ||||||
主題Scheme | Other | |||||
主題 | genome | |||||
キーワード | ||||||
主題Scheme | Other | |||||
主題 | chromosome-scale assembly | |||||
資源タイプ | ||||||
資源タイプ識別子 | http://purl.org/coar/resource_type/c_6501 | |||||
資源タイプ | journal article | |||||
著者(英) |
Ryu, Taewoo
× Ryu, Taewoo× Herrera, Marcela× Moore, Billy× Izumiyama, Michael× Kawai, Erina× Laudet, Vincent× Ravasi, Timothy |
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書誌情報 |
en : G3 Genes|Genomes|Genetics 巻 12, 号 5, p. jkac074, 発行日 2022-03-30 |
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抄録 | ||||||
内容記述タイプ | Other | |||||
内容記述 | The false clownfish Amphiprion ocellaris is a popular fish species and an emerging model organism for studying the ecology, evolution, adaptation, and developmental biology of reef fishes. Despite this, high-quality genomic resources for this species are scarce, hindering advanced genomic analyses. Leveraging the power of PacBio long-read sequencing and Hi-C chromosome conformation capture techniques, we constructed a high-quality chromosome-scale genome assembly for the clownfish A. ocellaris. The initial genome assembly comprised of 1,551 contigs of 861.42 Mb, with an N50 of 863.85 kb. Hi-C scaffolding of the genome resulted in 24 chromosomes containing 856.61 Mb. The genome was annotated with 26,797 protein-coding genes and had 96.62% completeness of conserved actinopterygian genes, making this genome the most complete and high quality among published anemonefish genomes. Transcriptomic analysis identified tissue-specific gene expression patterns, with the brain and optic lobe having the largest number of expressed genes. Further, comparative genomic analysis revealed 91 genome elements conserved only in A. ocellaris and its sister species Amphiprion percula, and not in other anemonefish species. These elements are close to genes that are involved in various nervous system functions and exhibited distinct expression patterns in brain tissue, potentially highlighting the genetic toolkits involved in lineage-specific divergence and behaviors of the clownfish branch. Overall, our study provides the highest quality A. ocellaris genome assembly and annotation to date, whilst also providing a valuable resource for understanding the ecology and evolution of reef fishes. | |||||
出版者 | ||||||
出版者 | Oxford University Press | |||||
出版者 | ||||||
出版者 | Genetics Society of America | |||||
ISSN | ||||||
収録物識別子タイプ | ISSN | |||||
収録物識別子 | 2160-1836 | |||||
PubMed番号 | ||||||
関連タイプ | isIdenticalTo | |||||
識別子タイプ | PMID | |||||
関連識別子 | info:pmid/35353192 | |||||
DOI | ||||||
関連タイプ | isIdenticalTo | |||||
識別子タイプ | DOI | |||||
関連識別子 | info:doi/10.1093/g3journal/jkac074 | |||||
権利 | ||||||
権利情報 | © 2022 The Author(s) | |||||
関連サイト | ||||||
識別子タイプ | URI | |||||
関連識別子 | https://academic.oup.com/g3journal/article/12/5/jkac074/6555996 | |||||
著者版フラグ | ||||||
出版タイプ | VoR | |||||
出版タイプResource | http://purl.org/coar/version/c_970fb48d4fbd8a85 |