WEKO3
アイテム
{"_buckets": {"deposit": "3e9981a5-b6c4-4c17-8fb8-507e201db240"}, "_deposit": {"created_by": 30, "id": "2154", "owners": [30], "pid": {"revision_id": 0, "type": "depid", "value": "2154"}, "status": "published"}, "_oai": {"id": "oai:oist.repo.nii.ac.jp:00002154", "sets": ["72", "77"]}, "author_link": ["14167", "14171", "14172", "14170", "14169", "14168"], "item_10001_biblio_info_7": {"attribute_name": "Bibliographic Information", "attribute_value_mlt": [{"bibliographicIssueDates": {"bibliographicIssueDate": "2021-05-26", "bibliographicIssueDateType": "Issued"}, "bibliographic_titles": [{}, {"bibliographic_title": "Molecular Biology and Evolution", "bibliographic_titleLang": "en"}]}]}, "item_10001_creator_3": {"attribute_name": "Author", "attribute_type": "creator", "attribute_value_mlt": [{"creatorNames": [{"creatorName": "Kinjo, Yukihiro"}], "nameIdentifiers": [{"nameIdentifier": "14167", "nameIdentifierScheme": "WEKO"}]}, {"creatorNames": [{"creatorName": "Lo, Nathan"}], "nameIdentifiers": [{"nameIdentifier": "14168", "nameIdentifierScheme": "WEKO"}]}, {"creatorNames": [{"creatorName": "Villa Martín, Paula"}], "nameIdentifiers": [{"nameIdentifier": "14169", "nameIdentifierScheme": "WEKO"}]}, {"creatorNames": [{"creatorName": "Tokuda, Gaku"}], "nameIdentifiers": [{"nameIdentifier": "14170", "nameIdentifierScheme": "WEKO"}]}, {"creatorNames": [{"creatorName": "Pigolotti, Simone"}], "nameIdentifiers": [{"nameIdentifier": "14171", "nameIdentifierScheme": "WEKO"}]}, {"creatorNames": [{"creatorName": "Bourguignon, Thomas"}], "nameIdentifiers": [{"nameIdentifier": "14172", "nameIdentifierScheme": "WEKO"}]}]}, "item_10001_description_5": {"attribute_name": "Abstract", "attribute_value_mlt": [{"subitem_description": "Intracellular endosymbionts have reduced genomes that progressively lose genes at a timescale of tens of million years. We previously reported that gene loss rate is linked to mutation rate in Blattabacterium, however, the mechanisms causing gene loss are not yet fully understood. Here, we carried out comparative genomic analyses on the complete genome sequences of a representative set of 67 Blattabacterium strains, with sizes ranging between 511kbp and 645kbp. We found that 200 of the 566 analysed protein-coding genes were lost in at least one lineage of Blattabacterium, with the most extreme case being one gene that was lost independently in 24 lineages. We found evidence for three mechanisms influencing gene loss in Blattabacterium. First, gene loss rates were found to increase exponentially with the accumulation of substitutions. Second, genes involved in vitamin and amino acid metabolism experienced relaxed selection in Cryptocercus and Mastotermes, possibly triggered by their vertically-inherited gut symbionts. Third, we found evidences of epistatic interactions among genes leading to a \u0027domino effect\u0027 of gene loss within pathways. Our results highlight the complexity of the process of genome erosion in an endosymbiont.", "subitem_description_type": "Other"}]}, "item_10001_publisher_8": {"attribute_name": "Publisher", "attribute_value_mlt": [{"subitem_publisher": "Oxford University Press on behalf of the Society for Molecular Biology and Evolution."}]}, "item_10001_relation_13": {"attribute_name": "PubMedNo.", "attribute_value_mlt": [{"subitem_relation_type": "isIdenticalTo", "subitem_relation_type_id": {"subitem_relation_type_id_text": "info:pmid/34038525", "subitem_relation_type_select": "PMID"}}]}, "item_10001_relation_14": {"attribute_name": "DOI", "attribute_value_mlt": [{"subitem_relation_type": "isIdenticalTo", "subitem_relation_type_id": {"subitem_relation_type_id_text": "info:doi/10.1093/molbev/msab159", "subitem_relation_type_select": "DOI"}}]}, "item_10001_relation_17": {"attribute_name": "Related site", "attribute_value_mlt": [{"subitem_relation_type_id": {"subitem_relation_type_id_text": "https://academic.oup.com/mbe/advance-article/doi/10.1093/molbev/msab159/6284969", "subitem_relation_type_select": "URI"}}]}, "item_10001_rights_15": {"attribute_name": "Rights", "attribute_value_mlt": [{"subitem_rights": "© 2021 The Author(s). "}]}, "item_10001_source_id_9": {"attribute_name": "ISSN", "attribute_value_mlt": [{"subitem_source_identifier": "0737-4038", "subitem_source_identifier_type": "ISSN"}, {"subitem_source_identifier": "1537-1719", "subitem_source_identifier_type": "ISSN"}]}, "item_10001_version_type_20": {"attribute_name": "Author\u0027s flag", "attribute_value_mlt": [{"subitem_version_resource": "http://purl.org/coar/version/c_970fb48d4fbd8a85", "subitem_version_type": "VoR"}]}, "item_files": {"attribute_name": "ファイル情報", "attribute_type": "file", "attribute_value_mlt": [{"accessrole": "open_date", "date": [{"dateType": "Available", "dateValue": "2021-05-31"}], "displaytype": "detail", "download_preview_message": "", "file_order": 0, "filename": "Kinjo-2021-Enhanced mutation rate, relaxed sel.pdf", "filesize": [{"value": "3.6 MB"}], "format": "application/pdf", "future_date_message": "", "is_thumbnail": false, "licensefree": "Creative Commons Attribution-NonCommercial 4.0 International(https://creativecommons.org/licenses/by-nc/4.0/)", "licensetype": "license_free", "mimetype": "application/pdf", "size": 3600000.0, "url": {"label": "Kinjo-2021-Enhanced mutation rate, relaxed sel", "url": "https://oist.repo.nii.ac.jp/record/2154/files/Kinjo-2021-Enhanced mutation rate, relaxed sel.pdf"}, "version_id": "2d7f3a57-d00f-4b1a-8727-070499ba3d82"}]}, "item_language": {"attribute_name": "言語", "attribute_value_mlt": [{"subitem_language": "eng"}]}, "item_resource_type": {"attribute_name": "資源タイプ", "attribute_value_mlt": [{"resourcetype": "journal article", "resourceuri": "http://purl.org/coar/resource_type/c_6501"}]}, "item_title": "Enhanced mutation rate, relaxed selection, and the ‘domino effect’ drive gene loss in Blattabacterium, a cockroach endosymbiont", "item_titles": {"attribute_name": "タイトル", "attribute_value_mlt": [{"subitem_title": "Enhanced mutation rate, relaxed selection, and the ‘domino effect’ drive gene loss in Blattabacterium, a cockroach endosymbiont", "subitem_title_language": "en"}]}, "item_type_id": "10001", "owner": "30", "path": ["72", "77"], "permalink_uri": "https://oist.repo.nii.ac.jp/records/2154", "pubdate": {"attribute_name": "公開日", "attribute_value": "2021-05-31"}, "publish_date": "2021-05-31", "publish_status": "0", "recid": "2154", "relation": {}, "relation_version_is_last": true, "title": ["Enhanced mutation rate, relaxed selection, and the ‘domino effect’ drive gene loss in Blattabacterium, a cockroach endosymbiont"], "weko_shared_id": 30}
Enhanced mutation rate, relaxed selection, and the ‘domino effect’ drive gene loss in Blattabacterium, a cockroach endosymbiont
https://oist.repo.nii.ac.jp/records/2154
https://oist.repo.nii.ac.jp/records/2154d85fded4-13e0-4dbc-a000-91e45c50f78f
名前 / ファイル | ライセンス | アクション |
---|---|---|
Kinjo-2021-Enhanced mutation rate, relaxed sel (3.6 MB)
|
Creative Commons Attribution-NonCommercial 4.0 International(https://creativecommons.org/licenses/by-nc/4.0/)
|
Item type | 学術雑誌論文 / Journal Article(1) | |||||
---|---|---|---|---|---|---|
公開日 | 2021-05-31 | |||||
タイトル | ||||||
言語 | en | |||||
タイトル | Enhanced mutation rate, relaxed selection, and the ‘domino effect’ drive gene loss in Blattabacterium, a cockroach endosymbiont | |||||
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) |
Kinjo, Yukihiro
× Kinjo, Yukihiro× Lo, Nathan× Villa Martín, Paula× Tokuda, Gaku× Pigolotti, Simone× Bourguignon, Thomas |
|||||
書誌情報 |
en : Molecular Biology and Evolution 発行日 2021-05-26 |
|||||
抄録 | ||||||
内容記述タイプ | Other | |||||
内容記述 | Intracellular endosymbionts have reduced genomes that progressively lose genes at a timescale of tens of million years. We previously reported that gene loss rate is linked to mutation rate in Blattabacterium, however, the mechanisms causing gene loss are not yet fully understood. Here, we carried out comparative genomic analyses on the complete genome sequences of a representative set of 67 Blattabacterium strains, with sizes ranging between 511kbp and 645kbp. We found that 200 of the 566 analysed protein-coding genes were lost in at least one lineage of Blattabacterium, with the most extreme case being one gene that was lost independently in 24 lineages. We found evidence for three mechanisms influencing gene loss in Blattabacterium. First, gene loss rates were found to increase exponentially with the accumulation of substitutions. Second, genes involved in vitamin and amino acid metabolism experienced relaxed selection in Cryptocercus and Mastotermes, possibly triggered by their vertically-inherited gut symbionts. Third, we found evidences of epistatic interactions among genes leading to a 'domino effect' of gene loss within pathways. Our results highlight the complexity of the process of genome erosion in an endosymbiont. | |||||
出版者 | ||||||
出版者 | Oxford University Press on behalf of the Society for Molecular Biology and Evolution. | |||||
ISSN | ||||||
収録物識別子タイプ | ISSN | |||||
収録物識別子 | 0737-4038 | |||||
ISSN | ||||||
収録物識別子タイプ | ISSN | |||||
収録物識別子 | 1537-1719 | |||||
PubMed番号 | ||||||
関連タイプ | isIdenticalTo | |||||
識別子タイプ | PMID | |||||
関連識別子 | info:pmid/34038525 | |||||
DOI | ||||||
関連タイプ | isIdenticalTo | |||||
識別子タイプ | DOI | |||||
関連識別子 | info:doi/10.1093/molbev/msab159 | |||||
権利 | ||||||
権利情報 | © 2021 The Author(s). | |||||
関連サイト | ||||||
識別子タイプ | URI | |||||
関連識別子 | https://academic.oup.com/mbe/advance-article/doi/10.1093/molbev/msab159/6284969 | |||||
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 |