RapamycinFungusV1, Main, Exploration, bibRecord, 000540

Natural Variation in SER1 and ENA6 Underlie Condition-Specific Growth Defects in Saccharomyces cerevisiae.

Identifieur interne : 000540 ( Main/Exploration ); précédent : 000539; suivant : 000541

Natural Variation in SER1 and ENA6 Underlie Condition-Specific Growth Defects in Saccharomyces cerevisiae.

Auteurs : Amy Sirr [États-Unis] ; Adrian C. Scott [États-Unis] ; Gareth A. Cromie [États-Unis] ; Catherine L. Ludlow [États-Unis] ; Vida Ahyong [États-Unis] ; Trey S. Morgan [États-Unis] ; Teresa Gilbert ; Aimée M. Dudley [Oman]

Source :

G3 (Bethesda, Md.) [ 2160-1836 ] ; 2018.

RBID : pubmed:29138237

Descripteurs français

KwdFr :
- Annotation de séquence moléculaire (MeSH), Boissons alcooliques (analyse), Caféine (pharmacologie), Cuivre (pharmacologie), Fermentation (MeSH), Génome fongique (MeSH), Humains (MeSH), Locus de caractère quantitatif (MeSH), Milieux de culture (pharmacologie), Polymorphisme génétique (MeSH), Protéines de Saccharomyces cerevisiae (génétique), Protéines de Saccharomyces cerevisiae (métabolisme), Protéines de répression (génétique), Protéines de répression (métabolisme), Régions promotrices (génétique) (MeSH), Régulation de l'expression des gènes fongiques (MeSH), Saccharomyces cerevisiae (croissance et développement), Saccharomyces cerevisiae (effets des médicaments et des substances chimiques), Saccharomyces cerevisiae (génétique), Saccharomyces cerevisiae (métabolisme), Sels (pharmacologie), Sirolimus (pharmacologie), Sodium-Potassium-Exchanging ATPase (déficit), Sodium-Potassium-Exchanging ATPase (génétique), Transaminases (déficit), Transaminases (génétique), Éthanol (pharmacologie).
MESH :
- analyse : Boissons alcooliques.
- croissance et développement : Saccharomyces cerevisiae.
- déficit : Sodium-Potassium-Exchanging ATPase, Transaminases.
- effets des médicaments et des substances chimiques : Saccharomyces cerevisiae.
- génétique : Protéines de Saccharomyces cerevisiae, Protéines de répression, Saccharomyces cerevisiae, Sodium-Potassium-Exchanging ATPase, Transaminases.
- métabolisme : Protéines de Saccharomyces cerevisiae, Protéines de répression, Saccharomyces cerevisiae.
- pharmacologie : Caféine, Cuivre, Milieux de culture, Sels, Sirolimus, Éthanol.
- Annotation de séquence moléculaire, Fermentation, Génome fongique, Humains, Locus de caractère quantitatif, Polymorphisme génétique, Régions promotrices (génétique), Régulation de l'expression des gènes fongiques.

English descriptors

KwdEn :
- Alcoholic Beverages (analysis), Caffeine (pharmacology), Copper (pharmacology), Culture Media (pharmacology), Ethanol (pharmacology), Fermentation (MeSH), Gene Expression Regulation, Fungal (MeSH), Genome, Fungal (MeSH), Humans (MeSH), Molecular Sequence Annotation (MeSH), Polymorphism, Genetic (MeSH), Promoter Regions, Genetic (MeSH), Quantitative Trait Loci (MeSH), Repressor Proteins (genetics), Repressor Proteins (metabolism), Saccharomyces cerevisiae (drug effects), Saccharomyces cerevisiae (genetics), Saccharomyces cerevisiae (growth & development), Saccharomyces cerevisiae (metabolism), Saccharomyces cerevisiae Proteins (genetics), Saccharomyces cerevisiae Proteins (metabolism), Salts (pharmacology), Sirolimus (pharmacology), Sodium-Potassium-Exchanging ATPase (deficiency), Sodium-Potassium-Exchanging ATPase (genetics), Transaminases (deficiency), Transaminases (genetics).
MESH :
- chemical , deficiency : Sodium-Potassium-Exchanging ATPase, Transaminases.
- chemical , genetics : Repressor Proteins, Saccharomyces cerevisiae Proteins, Sodium-Potassium-Exchanging ATPase, Transaminases.
- chemical , metabolism : Repressor Proteins, Saccharomyces cerevisiae Proteins.
- chemical , pharmacology : Caffeine, Copper, Culture Media, Ethanol, Salts, Sirolimus.
- analysis : Alcoholic Beverages.
- drug effects : Saccharomyces cerevisiae.
- genetics : Saccharomyces cerevisiae.
- growth & development : Saccharomyces cerevisiae.
- metabolism : Saccharomyces cerevisiae.
- Fermentation, Gene Expression Regulation, Fungal, Genome, Fungal, Humans, Molecular Sequence Annotation, Polymorphism, Genetic, Promoter Regions, Genetic, Quantitative Trait Loci.

Abstract

Despite their ubiquitous use in laboratory strains, naturally occurring loss-of-function mutations in genes encoding core metabolic enzymes are relatively rare in wild isolates of Saccharomyces cerevisiae Here, we identify a naturally occurring serine auxotrophy in a sake brewing strain from Japan. Through a cross with a honey wine (white tecc) brewing strain from Ethiopia, we map the minimal medium growth defect to SER1, which encodes 3-phosphoserine aminotransferase and is orthologous to the human disease gene, PSAT1 To investigate the impact of this polymorphism under conditions of abundant external nutrients, we examine growth in rich medium alone or with additional stresses, including the drugs caffeine and rapamycin and relatively high concentrations of copper, salt, and ethanol. Consistent with studies that found widespread effects of different auxotrophies on RNA expression patterns in rich media, we find that the SER1 loss-of-function allele dominates the quantitative trait locus (QTL) landscape under many of these conditions, with a notable exacerbation of the effect in the presence of rapamycin and caffeine. We also identify a major-effect QTL associated with growth on salt that maps to the gene encoding the sodium exporter, ENA6 We demonstrate that the salt phenotype is largely driven by variation in the ENA6 promoter, which harbors a deletion that removes binding sites for the Mig1 and Nrg1 transcriptional repressors. Thus, our results identify natural variation associated with both coding and regulatory regions of the genome that underlie strong growth phenotypes.

DOI: 10.1534/g3.117.300392
PubMed: 29138237
PubMed Central: PMC5765352

Affiliations:

Links toward previous steps (curation, corpus...)

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Le document en format XML

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 Underlie Condition-Specific Growth Defects in <i>Saccharomyces cerevisiae</i>
.</title>
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 Underlie Condition-Specific Growth Defects in <i>Saccharomyces cerevisiae</i>
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<term>Copper (pharmacology)</term>
<term>Culture Media (pharmacology)</term>
<term>Ethanol (pharmacology)</term>
<term>Fermentation (MeSH)</term>
<term>Gene Expression Regulation, Fungal (MeSH)</term>
<term>Genome, Fungal (MeSH)</term>
<term>Humans (MeSH)</term>
<term>Molecular Sequence Annotation (MeSH)</term>
<term>Polymorphism, Genetic (MeSH)</term>
<term>Promoter Regions, Genetic (MeSH)</term>
<term>Quantitative Trait Loci (MeSH)</term>
<term>Repressor Proteins (genetics)</term>
<term>Repressor Proteins (metabolism)</term>
<term>Saccharomyces cerevisiae (drug effects)</term>
<term>Saccharomyces cerevisiae (genetics)</term>
<term>Saccharomyces cerevisiae (growth & development)</term>
<term>Saccharomyces cerevisiae (metabolism)</term>
<term>Saccharomyces cerevisiae Proteins (genetics)</term>
<term>Saccharomyces cerevisiae Proteins (metabolism)</term>
<term>Salts (pharmacology)</term>
<term>Sirolimus (pharmacology)</term>
<term>Sodium-Potassium-Exchanging ATPase (deficiency)</term>
<term>Sodium-Potassium-Exchanging ATPase (genetics)</term>
<term>Transaminases (deficiency)</term>
<term>Transaminases (genetics)</term>
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<term>Boissons alcooliques (analyse)</term>
<term>Caféine (pharmacologie)</term>
<term>Cuivre (pharmacologie)</term>
<term>Fermentation (MeSH)</term>
<term>Génome fongique (MeSH)</term>
<term>Humains (MeSH)</term>
<term>Locus de caractère quantitatif (MeSH)</term>
<term>Milieux de culture (pharmacologie)</term>
<term>Polymorphisme génétique (MeSH)</term>
<term>Protéines de Saccharomyces cerevisiae (génétique)</term>
<term>Protéines de Saccharomyces cerevisiae (métabolisme)</term>
<term>Protéines de répression (génétique)</term>
<term>Protéines de répression (métabolisme)</term>
<term>Régions promotrices (génétique) (MeSH)</term>
<term>Régulation de l'expression des gènes fongiques (MeSH)</term>
<term>Saccharomyces cerevisiae (croissance et développement)</term>
<term>Saccharomyces cerevisiae (effets des médicaments et des substances chimiques)</term>
<term>Saccharomyces cerevisiae (génétique)</term>
<term>Saccharomyces cerevisiae (métabolisme)</term>
<term>Sels (pharmacologie)</term>
<term>Sirolimus (pharmacologie)</term>
<term>Sodium-Potassium-Exchanging ATPase (déficit)</term>
<term>Sodium-Potassium-Exchanging ATPase (génétique)</term>
<term>Transaminases (déficit)</term>
<term>Transaminases (génétique)</term>
<term>Éthanol (pharmacologie)</term>
</keywords>
<keywords scheme="MESH" type="chemical" qualifier="deficiency" xml:lang="en"><term>Sodium-Potassium-Exchanging ATPase</term>
<term>Transaminases</term>
</keywords>
<keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>Repressor Proteins</term>
<term>Saccharomyces cerevisiae Proteins</term>
<term>Sodium-Potassium-Exchanging ATPase</term>
<term>Transaminases</term>
</keywords>
<keywords scheme="MESH" type="chemical" qualifier="metabolism" xml:lang="en"><term>Repressor Proteins</term>
<term>Saccharomyces cerevisiae Proteins</term>
</keywords>
<keywords scheme="MESH" type="chemical" qualifier="pharmacology" xml:lang="en"><term>Caffeine</term>
<term>Copper</term>
<term>Culture Media</term>
<term>Ethanol</term>
<term>Salts</term>
<term>Sirolimus</term>
</keywords>
<keywords scheme="MESH" qualifier="analyse" xml:lang="fr"><term>Boissons alcooliques</term>
</keywords>
<keywords scheme="MESH" qualifier="analysis" xml:lang="en"><term>Alcoholic Beverages</term>
</keywords>
<keywords scheme="MESH" qualifier="croissance et développement" xml:lang="fr"><term>Saccharomyces cerevisiae</term>
</keywords>
<keywords scheme="MESH" qualifier="drug effects" xml:lang="en"><term>Saccharomyces cerevisiae</term>
</keywords>
<keywords scheme="MESH" qualifier="déficit" xml:lang="fr"><term>Sodium-Potassium-Exchanging ATPase</term>
<term>Transaminases</term>
</keywords>
<keywords scheme="MESH" qualifier="effets des médicaments et des substances chimiques" xml:lang="fr"><term>Saccharomyces cerevisiae</term>
</keywords>
<keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Saccharomyces cerevisiae</term>
</keywords>
<keywords scheme="MESH" qualifier="growth & development" xml:lang="en"><term>Saccharomyces cerevisiae</term>
</keywords>
<keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Protéines de Saccharomyces cerevisiae</term>
<term>Protéines de répression</term>
<term>Saccharomyces cerevisiae</term>
<term>Sodium-Potassium-Exchanging ATPase</term>
<term>Transaminases</term>
</keywords>
<keywords scheme="MESH" qualifier="metabolism" xml:lang="en"><term>Saccharomyces cerevisiae</term>
</keywords>
<keywords scheme="MESH" qualifier="métabolisme" xml:lang="fr"><term>Protéines de Saccharomyces cerevisiae</term>
<term>Protéines de répression</term>
<term>Saccharomyces cerevisiae</term>
</keywords>
<keywords scheme="MESH" qualifier="pharmacologie" xml:lang="fr"><term>Caféine</term>
<term>Cuivre</term>
<term>Milieux de culture</term>
<term>Sels</term>
<term>Sirolimus</term>
<term>Éthanol</term>
</keywords>
<keywords scheme="MESH" xml:lang="en"><term>Fermentation</term>
<term>Gene Expression Regulation, Fungal</term>
<term>Genome, Fungal</term>
<term>Humans</term>
<term>Molecular Sequence Annotation</term>
<term>Polymorphism, Genetic</term>
<term>Promoter Regions, Genetic</term>
<term>Quantitative Trait Loci</term>
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<keywords scheme="MESH" xml:lang="fr"><term>Annotation de séquence moléculaire</term>
<term>Fermentation</term>
<term>Génome fongique</term>
<term>Humains</term>
<term>Locus de caractère quantitatif</term>
<term>Polymorphisme génétique</term>
<term>Régions promotrices (génétique)</term>
<term>Régulation de l'expression des gènes fongiques</term>
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<front><div type="abstract" xml:lang="en">Despite their ubiquitous use in laboratory strains, naturally occurring loss-of-function mutations in genes encoding core metabolic enzymes are relatively rare in wild isolates of <i>Saccharomyces cerevisiae</i>
 Here, we identify a naturally occurring serine auxotrophy in a sake brewing strain from Japan. Through a cross with a honey wine (white tecc) brewing strain from Ethiopia, we map the minimal medium growth defect to <i>SER1</i>
, which encodes 3-phosphoserine aminotransferase and is orthologous to the human disease gene, <i>PSAT1</i>
 To investigate the impact of this polymorphism under conditions of abundant external nutrients, we examine growth in rich medium alone or with additional stresses, including the drugs caffeine and rapamycin and relatively high concentrations of copper, salt, and ethanol. Consistent with studies that found widespread effects of different auxotrophies on RNA expression patterns in rich media, we find that the <i>SER1</i>
 loss-of-function allele dominates the quantitative trait locus (QTL) landscape under many of these conditions, with a notable exacerbation of the effect in the presence of rapamycin and caffeine. We also identify a major-effect QTL associated with growth on salt that maps to the gene encoding the sodium exporter, <i>ENA6</i>
 We demonstrate that the salt phenotype is largely driven by variation in the <i>ENA6</i>
 promoter, which harbors a deletion that removes binding sites for the Mig1 and Nrg1 transcriptional repressors. Thus, our results identify natural variation associated with both coding and regulatory regions of the genome that underlie strong growth phenotypes.</div>
</front>
</TEI>
<pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">29138237</PMID>
<DateCompleted><Year>2018</Year>
<Month>10</Month>
<Day>09</Day>
</DateCompleted>
<DateRevised><Year>2019</Year>
<Month>12</Month>
<Day>10</Day>
</DateRevised>
<Article PubModel="Electronic"><Journal><ISSN IssnType="Electronic">2160-1836</ISSN>
<JournalIssue CitedMedium="Internet"><Volume>8</Volume>
<Issue>1</Issue>
<PubDate><Year>2018</Year>
<Month>01</Month>
<Day>04</Day>
</PubDate>
</JournalIssue>
<Title>G3 (Bethesda, Md.)</Title>
<ISOAbbreviation>G3 (Bethesda)</ISOAbbreviation>
</Journal>
<ArticleTitle>Natural Variation in <i>SER1</i>
 and <i>ENA6</i>
 Underlie Condition-Specific Growth Defects in <i>Saccharomyces cerevisiae</i>
.</ArticleTitle>
<Pagination><MedlinePgn>239-251</MedlinePgn>
</Pagination>
<ELocationID EIdType="doi" ValidYN="Y">10.1534/g3.117.300392</ELocationID>
<Abstract><AbstractText>Despite their ubiquitous use in laboratory strains, naturally occurring loss-of-function mutations in genes encoding core metabolic enzymes are relatively rare in wild isolates of <i>Saccharomyces cerevisiae</i>
 Here, we identify a naturally occurring serine auxotrophy in a sake brewing strain from Japan. Through a cross with a honey wine (white tecc) brewing strain from Ethiopia, we map the minimal medium growth defect to <i>SER1</i>
, which encodes 3-phosphoserine aminotransferase and is orthologous to the human disease gene, <i>PSAT1</i>
 To investigate the impact of this polymorphism under conditions of abundant external nutrients, we examine growth in rich medium alone or with additional stresses, including the drugs caffeine and rapamycin and relatively high concentrations of copper, salt, and ethanol. Consistent with studies that found widespread effects of different auxotrophies on RNA expression patterns in rich media, we find that the <i>SER1</i>
 loss-of-function allele dominates the quantitative trait locus (QTL) landscape under many of these conditions, with a notable exacerbation of the effect in the presence of rapamycin and caffeine. We also identify a major-effect QTL associated with growth on salt that maps to the gene encoding the sodium exporter, <i>ENA6</i>
 We demonstrate that the salt phenotype is largely driven by variation in the <i>ENA6</i>
 promoter, which harbors a deletion that removes binding sites for the Mig1 and Nrg1 transcriptional repressors. Thus, our results identify natural variation associated with both coding and regulatory regions of the genome that underlie strong growth phenotypes.</AbstractText>
<CopyrightInformation>Copyright © 2018 Sirr et al.</CopyrightInformation>
</Abstract>
<AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Sirr</LastName>
<ForeName>Amy</ForeName>
<Initials>A</Initials>
<Identifier Source="ORCID">0000-0002-5186-9692</Identifier>
<AffiliationInfo><Affiliation>Pacific Northwest Research Institute, Seattle, Washington 98122.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Scott</LastName>
<ForeName>Adrian C</ForeName>
<Initials>AC</Initials>
<Identifier Source="ORCID">0000-0003-4511-0898</Identifier>
<AffiliationInfo><Affiliation>Pacific Northwest Research Institute, Seattle, Washington 98122.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Cromie</LastName>
<ForeName>Gareth A</ForeName>
<Initials>GA</Initials>
<Identifier Source="ORCID">0000-0001-5265-1970</Identifier>
<AffiliationInfo><Affiliation>Pacific Northwest Research Institute, Seattle, Washington 98122.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Ludlow</LastName>
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   |texte=   Natural Variation in SER1 and ENA6 Underlie Condition-Specific Growth Defects in Saccharomyces cerevisiae.
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	Serveur d'exploration sur la rapamycine et les champignons
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Serveur d'exploration sur la rapamycine et les champignons

Natural Variation in SER1 and ENA6 Underlie Condition-Specific Growth Defects in Saccharomyces cerevisiae.

Natural Variation in SER1 and ENA6 Underlie Condition-Specific Growth Defects in Saccharomyces cerevisiae.

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