Morphometric analysis of autophagy-related structures in Saccharomyces cerevisiae.
Identifieur interne : 000795 ( Main/Exploration ); précédent : 000794; suivant : 000796Morphometric analysis of autophagy-related structures in Saccharomyces cerevisiae.
Auteurs : Tatsuya Kawaoka [Japon] ; Shinsuke Ohnuki [Japon] ; Yoshikazu Ohya [Japon] ; Kuninori Suzuki [Japon]Source :
- Autophagy [ 1554-8635 ] ; 2017.
Descripteurs français
- KwdFr :
- Autophagie (MeSH), Famille de la protéine-8 associée à l'autophagie (métabolisme), Protéines de Saccharomyces cerevisiae (métabolisme), Protéines à fluorescence verte (métabolisme), Saccharomyces cerevisiae (cytologie), Saccharomyces cerevisiae (métabolisme), Traitement d'image par ordinateur (MeSH).
- MESH :
English descriptors
- KwdEn :
- MESH :
- chemical , metabolism : Autophagy-Related Protein 8 Family, Green Fluorescent Proteins, Saccharomyces cerevisiae Proteins.
- cytology : Saccharomyces cerevisiae.
- metabolism : Saccharomyces cerevisiae.
- Autophagy, Image Processing, Computer-Assisted.
Abstract
When macroautophagy (autophagy) is induced by nutrient starvation or rapamycin treatment, Atg (autophagy-related) proteins are assembled at a restricted region close to the vacuole. Subsequently, the phagophore expands to form a closed autophagosome. In Saccharomyces cerevisiae cells overexpressing precursor Ape1 (prApe1), a specific autophagosome cargo protein, the phagophore can be visualized as a cup-shaped structure labeled with green fluorescent protein (GFP)-tagged Atg8. Previously, our group has shown that the maximum length of GFP-Atg8-labeled structures reflects the magnitude of bulk autophagy. In that study, the morphological parameters of the autophagy-related structures were extracted manually, requiring a great deal of time. Moreover, only well-expanded phagophores were subjected to further analysis. Here we report Qautas (Quantitative autophagy-related structure analysis system), a high-throughput and comprehensive system for morphological analysis of autophagy-related structures using a combination of image processing and machine learning. We describe both the manual method and Qautas in detail.
DOI: 10.1080/15548627.2017.1384888
PubMed: 28980865
PubMed Central: PMC5788549
Affiliations:
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wicri:level="1"><nlm:affiliation>a Department of Integrated Biosciences , Graduate School of Frontier Sciences , University of Tokyo , Kashiwa , Chiba , Japan.</nlm:affiliation><country xml:lang="fr">Japon</country><wicri:regionArea>a Department of Integrated Biosciences , Graduate School of Frontier Sciences , University of Tokyo , Kashiwa , Chiba </wicri:regionArea><wicri:noRegion>Chiba </wicri:noRegion></affiliation></author><author><name sortKey="Suzuki, Kuninori" sort="Suzuki, Kuninori" uniqKey="Suzuki K" first="Kuninori" last="Suzuki">Kuninori Suzuki</name><affiliation wicri:level="1"><nlm:affiliation>a Department of Integrated Biosciences , Graduate School of Frontier Sciences , University of Tokyo , Kashiwa , Chiba , Japan.</nlm:affiliation><country xml:lang="fr">Japon</country><wicri:regionArea>a Department of Integrated Biosciences , Graduate School of Frontier Sciences , University of Tokyo , Kashiwa , Chiba </wicri:regionArea><wicri:noRegion>Chiba </wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:affiliation>b Bioimaging Center , Graduate School of Frontier Sciences , University of Tokyo , Kashiwa , Chiba , Japan.</nlm:affiliation><country xml:lang="fr">Japon</country><wicri:regionArea>b Bioimaging Center , Graduate School of Frontier Sciences , University of Tokyo , Kashiwa , Chiba </wicri:regionArea><wicri:noRegion>Chiba </wicri:noRegion></affiliation></author></analytic><series><title level="j">Autophagy</title><idno type="eISSN">1554-8635</idno><imprint><date when="2017" type="published">2017</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Autophagy (MeSH)</term><term>Autophagy-Related Protein 8 Family (metabolism)</term><term>Green Fluorescent Proteins (metabolism)</term><term>Image Processing, Computer-Assisted (MeSH)</term><term>Saccharomyces cerevisiae (cytology)</term><term>Saccharomyces cerevisiae (metabolism)</term><term>Saccharomyces cerevisiae Proteins (metabolism)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Autophagie (MeSH)</term><term>Famille de la protéine-8 associée à l'autophagie (métabolisme)</term><term>Protéines de Saccharomyces cerevisiae (métabolisme)</term><term>Protéines à fluorescence verte (métabolisme)</term><term>Saccharomyces cerevisiae (cytologie)</term><term>Saccharomyces cerevisiae (métabolisme)</term><term>Traitement d'image par ordinateur (MeSH)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="metabolism" xml:lang="en"><term>Autophagy-Related Protein 8 Family</term><term>Green Fluorescent Proteins</term><term>Saccharomyces cerevisiae Proteins</term></keywords><keywords scheme="MESH" qualifier="cytologie" xml:lang="fr"><term>Saccharomyces cerevisiae</term></keywords><keywords scheme="MESH" qualifier="cytology" xml:lang="en"><term>Saccharomyces cerevisiae</term></keywords><keywords scheme="MESH" qualifier="metabolism" xml:lang="en"><term>Saccharomyces cerevisiae</term></keywords><keywords scheme="MESH" qualifier="métabolisme" xml:lang="fr"><term>Famille de la protéine-8 associée à l'autophagie</term><term>Protéines de Saccharomyces cerevisiae</term><term>Protéines à fluorescence verte</term><term>Saccharomyces cerevisiae</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Autophagy</term><term>Image Processing, Computer-Assisted</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Autophagie</term><term>Traitement d'image par ordinateur</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">When macroautophagy (autophagy) is induced by nutrient starvation or rapamycin treatment, Atg (autophagy-related) proteins are assembled at a restricted region close to the vacuole. Subsequently, the phagophore expands to form a closed autophagosome. In Saccharomyces cerevisiae cells overexpressing precursor Ape1 (prApe1), a specific autophagosome cargo protein, the phagophore can be visualized as a cup-shaped structure labeled with green fluorescent protein (GFP)-tagged Atg8. Previously, our group has shown that the maximum length of GFP-Atg8-labeled structures reflects the magnitude of bulk autophagy. In that study, the morphological parameters of the autophagy-related structures were extracted manually, requiring a great deal of time. Moreover, only well-expanded phagophores were subjected to further analysis. Here we report Qautas (Quantitative autophagy-related structure analysis system), a high-throughput and comprehensive system for morphological analysis of autophagy-related structures using a combination of image processing and machine learning. We describe both the manual method and Qautas in detail.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">28980865</PMID><DateCompleted><Year>2019</Year><Month>07</Month><Day>05</Day></DateCompleted><DateRevised><Year>2019</Year><Month>07</Month><Day>05</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1554-8635</ISSN><JournalIssue CitedMedium="Internet"><Volume>13</Volume><Issue>12</Issue><PubDate><Year>2017</Year></PubDate></JournalIssue><Title>Autophagy</Title><ISOAbbreviation>Autophagy</ISOAbbreviation></Journal><ArticleTitle>Morphometric analysis of autophagy-related structures in Saccharomyces cerevisiae.</ArticleTitle><Pagination><MedlinePgn>2104-2110</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1080/15548627.2017.1384888</ELocationID><Abstract><AbstractText>When macroautophagy (autophagy) is induced by nutrient starvation or rapamycin treatment, Atg (autophagy-related) proteins are assembled at a restricted region close to the vacuole. Subsequently, the phagophore expands to form a closed autophagosome. In Saccharomyces cerevisiae cells overexpressing precursor Ape1 (prApe1), a specific autophagosome cargo protein, the phagophore can be visualized as a cup-shaped structure labeled with green fluorescent protein (GFP)-tagged Atg8. Previously, our group has shown that the maximum length of GFP-Atg8-labeled structures reflects the magnitude of bulk autophagy. In that study, the morphological parameters of the autophagy-related structures were extracted manually, requiring a great deal of time. Moreover, only well-expanded phagophores were subjected to further analysis. Here we report Qautas (Quantitative autophagy-related structure analysis system), a high-throughput and comprehensive system for morphological analysis of autophagy-related structures using a combination of image processing and machine learning. We describe both the manual method and Qautas in detail.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Kawaoka</LastName><ForeName>Tatsuya</ForeName><Initials>T</Initials><AffiliationInfo><Affiliation>a Department of Integrated Biosciences , Graduate School of Frontier Sciences , University of Tokyo , Kashiwa , Chiba , Japan.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Ohnuki</LastName><ForeName>Shinsuke</ForeName><Initials>S</Initials><AffiliationInfo><Affiliation>a Department of Integrated Biosciences , Graduate School of Frontier Sciences , University of Tokyo , Kashiwa , Chiba , Japan.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Ohya</LastName><ForeName>Yoshikazu</ForeName><Initials>Y</Initials><AffiliationInfo><Affiliation>a Department of Integrated Biosciences , Graduate School of Frontier Sciences , University of Tokyo , Kashiwa , Chiba , Japan.</Affiliation></AffiliationInfo></Author><Author 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uniqKey="Ohya Y" first="Yoshikazu" last="Ohya">Yoshikazu Ohya</name><name sortKey="Suzuki, Kuninori" sort="Suzuki, Kuninori" uniqKey="Suzuki K" first="Kuninori" last="Suzuki">Kuninori Suzuki</name><name sortKey="Suzuki, Kuninori" sort="Suzuki, Kuninori" uniqKey="Suzuki K" first="Kuninori" last="Suzuki">Kuninori Suzuki</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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