WEKO3
アイテム
High-quality genome assembly of the silkworm, Bombyx mori
https://repository.naro.go.jp/records/2870
https://repository.naro.go.jp/records/2870c9b71bce-9d63-4859-b814-0f07e23b1a14
| 名前 / ファイル | ライセンス | アクション |
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SC30201903050002_OA (1.6 MB)
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| Item type | 学術雑誌論文 / Journal Article(1) | |||||||||||
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| 公開日 | 2019-10-04 | |||||||||||
| タイトル | ||||||||||||
| タイトル | High-quality genome assembly of the silkworm, Bombyx mori | |||||||||||
| タイトル | ||||||||||||
| タイトル | High-quality genome assembly of the silkworm, Bombyx mori | |||||||||||
| 言語 | en | |||||||||||
| 言語 | ||||||||||||
| 言語 | eng | |||||||||||
| キーワード | ||||||||||||
| 主題Scheme | Other | |||||||||||
| 主題 | Silkworm (Bombyx mori) | |||||||||||
| キーワード | ||||||||||||
| 主題Scheme | Other | |||||||||||
| 主題 | Genome assembly | |||||||||||
| キーワード | ||||||||||||
| 主題Scheme | Other | |||||||||||
| 主題 | Long-read sequencing | |||||||||||
| キーワード | ||||||||||||
| 主題Scheme | Other | |||||||||||
| 主題 | Gene prediction | |||||||||||
| キーワード | ||||||||||||
| 言語 | en | |||||||||||
| 主題Scheme | Other | |||||||||||
| 主題 | Silkworm (Bombyx mori) | |||||||||||
| キーワード | ||||||||||||
| 言語 | en | |||||||||||
| 主題Scheme | Other | |||||||||||
| 主題 | Genome assembly | |||||||||||
| キーワード | ||||||||||||
| 言語 | en | |||||||||||
| 主題Scheme | Other | |||||||||||
| 主題 | Long-read sequencing | |||||||||||
| キーワード | ||||||||||||
| 言語 | en | |||||||||||
| 主題Scheme | Other | |||||||||||
| 主題 | Gene prediction | |||||||||||
| 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 |
上樂, 明也
× 上樂, 明也× 横井, 翔
WEKO
2304
× 山本, 公子 |
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| 抄録 | ||||||||||||
| 内容記述タイプ | Abstract | |||||||||||
| 内容記述 | In 2008, the genome assembly and gene models for the domestic silkworm, Bombyx mori, were published by a Japanese and Chinese collaboration group. However, the genome assembly contains a non-negligible number of misassembled and gap regions due to the presence of many repetitive sequences within the silkworm genome. The erroneous genome assembly occasionally causes incorrect gene prediction. Here we performed hybrid assembly based on 140 × deep sequencing of long (PacBio) and short (Illumina) reads. The remaining gaps in the initial genome assembly were closed using BAC and Fosmid sequences, giving a new total length of 460.3 Mb, with 30 gap regions and an N50 comprising 16.8 Mb in scaffolds and 12.2 Mb in contigs. More RNA-seq and piRNA-seq reads were mapped on the new genome assembly compared with the previous version, indicating that the new genome assembly covers more transcribed regions, including repetitive elements. We performed gene prediction based on the new genome assembly using available mRNA and protein sequence data. The number of gene models was 16,880 with an N50 of 2154 bp. The new gene models reflected more accurate coding sequences and gene sets than old ones. The proportion of repetitive elements was also reestimated using the new genome assembly, and was calculated to be 46.8% in the silkworm genome. The new genome assembly and gene models are provided in SilkBase (http://silkbase.ab.a.u-tokyo.ac.jp). | |||||||||||
| 書誌情報 |
Insect Biochemistry and Molecular Biology en : Insect Biochemistry and Molecular Biology 巻 107, p. 53-62, 発行日 2019-04 |
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| 出版者 | ||||||||||||
| 出版者 | Elsevier | |||||||||||
| ISSN | ||||||||||||
| 収録物識別子タイプ | ISSN | |||||||||||
| 収録物識別子 | 0965-1748 | |||||||||||
| DOI | ||||||||||||
| 関連タイプ | isIdenticalTo | |||||||||||
| 識別子タイプ | DOI | |||||||||||
| 関連識別子 | 10.1016/j.ibmb.2019.02.002 | |||||||||||
| 権利 | ||||||||||||
| 権利情報 | The Author(s) | |||||||||||
| 情報源 | ||||||||||||
| 関連名称 | SC30201903050002 | |||||||||||
| 情報源 | ||||||||||||
| 関連名称 | NARO成果DBa | |||||||||||
| 情報源 | ||||||||||||
| 関連名称 | OA | |||||||||||
| 情報源 | ||||||||||||
| 関連名称 | 表示-非営利-改変禁止(CC-BY-NC-ND) | |||||||||||
| 関連サイト | ||||||||||||
| 識別子タイプ | DOI | |||||||||||
| 関連識別子 | https://doi.org/10.1016/j.ibmb.2019.02.002 | |||||||||||
| 関連名称 | Insect Biochemistry and Molecular Biology | |||||||||||
| 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 | |||||||||||
