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A draft nuclear-genome assembly of the acoel flatworm Praesagittifera naikaiensis
https://oist.repo.nii.ac.jp/records/1089
https://oist.repo.nii.ac.jp/records/10893d8ee004-9e37-4beb-b4a6-24569784e341
| 名前 / ファイル | ライセンス | アクション |
|---|---|---|
Arimoto-2019-A draft nuclear-genome assembly o (1.7 MB)
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Creative Commons Attribution 4.0 International (https://creativecommons.org/licenses/by/4.0/)
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| Item type | 学術雑誌論文 / Journal Article(1) | |||||
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| 公開日 | 2019-09-05 | |||||
| タイトル | ||||||
| タイトル | A draft nuclear-genome assembly of the acoel flatworm Praesagittifera naikaiensis | |||||
| 言語 | en | |||||
| 言語 | ||||||
| 言語 | eng | |||||
| 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） |
Arimoto, Asuka
× Arimoto, Asuka× Hikosaka-Katayama, Tomoe× Hikosaka, Akira× Tagawa, Kuni× Inoue, Toyoshige× Ueki, Tatsuya× Yoshida, Masa-aki× Kanda, Miyuki× Shoguchi, Eiichi× Hisata, Kanako× Satoh, Noriyuki |
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| 書誌情報 |
en : GigaScience 巻 8, 号 4, p. giz023, 発行日 2019-04-06 |
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| 抄録 | ||||||
| 内容記述タイプ | Other | |||||
| 内容記述 | Background:Acoels are primitive bilaterians with very simple soft bodies, in which many organs, including the gut, are not developed. They provide platforms for studying molecular and developmental mechanisms involved in the formation of the basic bilaterian body plan, whole-body regeneration, and symbiosis with photosynthetic microalgae. Because genomic information is essential for future research on acoel biology, we sequenced and assembled the nuclear genome of an acoel, Praesagittifera naikaiensis. Findings:To avoid sequence contamination derived from symbiotic microalgae, DNA was extracted from embryos that were free of algae. More than 290x sequencing coverage was achieved using a combination of Illumina (paired-end and mate-pair libraries) and PacBio sequencing. RNA sequencing and Iso-Seq data from embryos, larvae, and adults were also obtained. First, a preliminary ∼17–kilobase pair (kb) mitochondrial genome was assembled, which was deleted from the nuclear sequence assembly. As a result, a draft nuclear genome assembly was ∼656 Mb in length, with a scaffold N50 of 117 kb and a contig N50 of 57 kb. Although ∼70% of the assembled sequences were likely composed of repetitive sequences that include DNA transposons and retrotransposons, the draft genome was estimated to contain 22,143 protein-coding genes, ∼99% of which were substantiated by corresponding transcripts. We could not find horizontally transferred microalgal genes in the acoel genome. Benchmarking Universal Single-Copy Orthologs analyses indicated that 77% of the conserved single-copy genes were complete. Pfam domain analyses provided a basic set of gene families for transcription factors and signaling molecules. Conclusions:Our present sequencing and assembly of the P. naikaiensis nuclear genome are comparable to those of other metazoan genomes, providing basic information for future studies of genic and genomic attributes of this animal group. Such studies may shed light on the origins and evolution of simple bilaterians. |
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| 出版者 | ||||||
| 出版者 | Oxford University Press | |||||
| ISSN | ||||||
| 収録物識別子タイプ | ISSN | |||||
| 収録物識別子 | 2047-217X | |||||
| PubMed番号 | ||||||
| 関連タイプ | isIdenticalTo | |||||
| 識別子タイプ | PMID | |||||
| 関連識別子 | info:pmid/30953569 | |||||
| DOI | ||||||
| 関連タイプ | isIdenticalTo | |||||
| 識別子タイプ | DOI | |||||
| 関連識別子 | info:doi/10.1093/gigascience/giz023 | |||||
| 権利 | ||||||
| 権利情報 | © 2019 The Author(s). | |||||
| 情報源 | ||||||
| 関連名称 | https://creativecommons.org/licenses/by/4.0/ | |||||
| 関連サイト | ||||||
| 識別子タイプ | URI | |||||
| 関連識別子 | https://academic.oup.com/gigascience/article/8/4/giz023/5429687?searchresult=1 | |||||
| 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 | |||||
