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Probing SWATH‐MS as a tool for proteome level quantification in a nonmodel fish
https://oist.repo.nii.ac.jp/records/1763
https://oist.repo.nii.ac.jp/records/1763cebb3527-c813-4688-9462-8864e699c780
名前 / ファイル | ライセンス | アクション |
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Monroe-2020-Probing SWATH‐MS as a tool for pro (1.1 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 | 2020-11-05 | |||||
タイトル | ||||||
言語 | en | |||||
タイトル | Probing SWATH‐MS as a tool for proteome level quantification in a nonmodel fish | |||||
言語 | ||||||
言語 | eng | |||||
キーワード | ||||||
言語 | en | |||||
主題Scheme | Other | |||||
主題 | climate change | |||||
キーワード | ||||||
言語 | en | |||||
主題Scheme | Other | |||||
主題 | data-independent acquisition | |||||
キーワード | ||||||
言語 | en | |||||
主題Scheme | Other | |||||
主題 | fish | |||||
キーワード | ||||||
言語 | en | |||||
主題Scheme | Other | |||||
主題 | quantitative proteomics | |||||
キーワード | ||||||
言語 | en | |||||
主題Scheme | Other | |||||
主題 | spectral libraries | |||||
キーワード | ||||||
言語 | en | |||||
主題Scheme | Other | |||||
主題 | SWATH-MS | |||||
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) |
Monroe, Alison A.
× Monroe, Alison A.× Zhang, Huoming× Schunter, Celia× Ravasi, Timothy |
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書誌情報 |
en : Molecular Ecology Resources 巻 20, 号 6, p. 1647-1657, 発行日 2020-08-04 |
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抄録 | ||||||
内容記述タイプ | Other | |||||
内容記述 | Quantitative proteomics via mass spectrometry can provide valuable insight into molecular and phenotypic characteristics of a living system. Recent mass spectrometry developments include data-independent acquisition (SWATH/DIA-MS), an accurate, sensitive and reproducible method for analysing the whole proteome. The main requirement for this method is the creation of a comprehensive spectral library. New technologies have emerged producing larger and more accurate species-specific libraries leading to a progressive collection of proteome references for multiple molecular model species. Here, for the first time, we set out to compare different spectral library constructions using multiple tissues from a coral reef fish to demonstrate its value and feasibility for nonmodel organisms. We created a large spectral library composed of 12,553 protein groups from liver and brain tissues. Via identification of differentially expressed proteins under fish exposure to elevated pCO2 and temperature, we validated the application and usefulness of these different spectral libraries. Successful identification of significant differentially expressed proteins from different environmental exposures occurred using the library with a combination of data-independent and data-dependent acquisition methods as well as both tissue types. Further analysis revealed expected patterns of significantly up-regulated heat shock proteins in a dual condition of ocean warming and acidification indicating the biological accuracy and relevance of the method. This study provides the first reference spectral library for a nonmodel organism. It represents a useful guide for future building of accurate spectral library references in nonmodel organisms allowing the discovery of ecologically relevant changes in the proteome. | |||||
出版者 | ||||||
出版者 | John Wiley & Sons | |||||
ISSN | ||||||
収録物識別子タイプ | ISSN | |||||
収録物識別子 | 1755-098X | |||||
ISSN | ||||||
収録物識別子タイプ | ISSN | |||||
収録物識別子 | 1755-0998 | |||||
PubMed番号 | ||||||
関連タイプ | isIdenticalTo | |||||
識別子タイプ | PMID | |||||
関連識別子 | info:pmid/32687632 | |||||
DOI | ||||||
関連タイプ | isIdenticalTo | |||||
識別子タイプ | DOI | |||||
関連識別子 | info:doi/10.1111/1755-0998.13229 | |||||
権利 | ||||||
権利情報 | © 2020 The Author(s) | |||||
関連サイト | ||||||
識別子タイプ | URI | |||||
関連識別子 | https://onlinelibrary.wiley.com/doi/full/10.1111/1755-0998.13229 | |||||
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 |