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  1. Article ; Online: Whi7/Srl3 polymorphisms reveal its role in cell size and quiescence.

    Miles, Shawna / Breeden, Linda L

    microPublication biology

    2022  Volume 2022

    Abstract: Whi5 and Srl3/Whi7 are related proteins that resulted from the whole genome duplication ... ...

    Abstract Whi5 and Srl3/Whi7 are related proteins that resulted from the whole genome duplication of
    Language English
    Publishing date 2022-11-01
    Publishing country United States
    Document type Journal Article
    ISSN 2578-9430
    ISSN (online) 2578-9430
    DOI 10.17912/micropub.biology.000661
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: Quiescence in

    Breeden, Linda L / Tsukiyama, Toshio

    Annual review of genetics

    2022  Volume 56, Page(s) 253–278

    Abstract: Most cells live in environments that are permissive for proliferation only a small fraction of the time. Entering quiescence enables cells to survive long periods of nondivision and reenter the cell cycle when signaled to do so. Here, we describe what is ...

    Abstract Most cells live in environments that are permissive for proliferation only a small fraction of the time. Entering quiescence enables cells to survive long periods of nondivision and reenter the cell cycle when signaled to do so. Here, we describe what is known about the molecular basis for quiescence in
    MeSH term(s) Saccharomyces cerevisiae/genetics ; Cell Cycle/genetics ; Cytoplasm ; Protein Processing, Post-Translational ; Chromatin/genetics
    Chemical Substances Chromatin
    Language English
    Publishing date 2022-11-29
    Publishing country United States
    Document type Journal Article ; Review ; Research Support, N.I.H., Extramural
    ZDB-ID 207928-8
    ISSN 1545-2948 ; 0066-4170 ; 0066-4197
    ISSN (online) 1545-2948
    ISSN 0066-4170 ; 0066-4197
    DOI 10.1146/annurev-genet-080320-023632
    Database MEDical Literature Analysis and Retrieval System OnLINE

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    In stock of ZB MED Cologne/Königswinter

    Zs.A 1109: Show issues Location:
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  3. Article ; Online: A common

    Breeden, Linda / Miles, Shawna

    microPublication biology

    2022  Volume 2022

    Abstract: Ssd1p is an RNA binding protein ... ...

    Abstract Ssd1p is an RNA binding protein in
    Language English
    Publishing date 2022-12-09
    Publishing country United States
    Document type Journal Article
    ISSN 2578-9430
    ISSN (online) 2578-9430
    DOI 10.17912/micropub.biology.000671
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article ; Online: BY4741 cannot enter quiescence from rich medium.

    Miles, Shawna / Lee, Cameron / Breeden, Linda

    microPublication biology

    2023  Volume 2023

    Abstract: In rich medium, ... ...

    Abstract In rich medium, W303
    Language English
    Publishing date 2023-03-17
    Publishing country United States
    Document type Journal Article
    ISSN 2578-9430
    ISSN (online) 2578-9430
    DOI 10.17912/micropub.biology.000742
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  5. Article ; Online: The budding yeast transition to quiescence.

    Miles, Shawna / Bradley, Graham T / Breeden, Linda L

    Yeast (Chichester, England)

    2021  Volume 38, Issue 1, Page(s) 30–38

    Abstract: A subset of Saccharomyces cerevisiae cells in a stationary phase culture achieve a unique quiescent state characterized by increased cell density, stress tolerance, and longevity. Trehalose accumulation is necessary but not sufficient for conferring this ...

    Abstract A subset of Saccharomyces cerevisiae cells in a stationary phase culture achieve a unique quiescent state characterized by increased cell density, stress tolerance, and longevity. Trehalose accumulation is necessary but not sufficient for conferring this state, and it is not recapitulated by abrupt starvation. The fraction of cells that achieve this state varies widely in haploids and diploids and can approach 100%, indicating that both mother and daughter cells can enter quiescence. The transition begins when about half the glucose has been taken up from the medium. The high affinity glucose transporters are turned on, glycogen storage begins, the Rim15 kinase enters the nucleus and the accumulation of cells in G1 is initiated. After the diauxic shift (DS), when glucose is exhausted from the medium, growth promoting genes are repressed by the recruitment of the histone deacetylase Rpd3 by quiescence-specific repressors. The final division that takes place post-DS is highly asymmetrical and G1 arrest is complete after 48 h. The timing of these events can vary considerably, but they are tightly correlated with total biomass of the culture, suggesting that the transition to quiescence is tightly linked to changes in external glucose levels. After 7 days in culture, there are massive morphological changes at the protein and organelle level. There are global changes in histone modification. An extensive array of condensin-dependent, long-range chromatin interactions lead to genome-wide chromatin compaction that is conserved in yeast and human cells. These interactions are required for the global transcriptional repression that occurs in quiescent yeast.
    MeSH term(s) Adenosine Triphosphatases/genetics ; Adenosine Triphosphatases/metabolism ; Cell Division/genetics ; DNA-Binding Proteins/genetics ; DNA-Binding Proteins/metabolism ; Gene Expression Regulation, Fungal ; Genome, Fungal ; Glucose/metabolism ; Histone Code ; Multiprotein Complexes/genetics ; Multiprotein Complexes/metabolism ; Resting Phase, Cell Cycle/genetics ; Resting Phase, Cell Cycle/physiology ; Saccharomyces cerevisiae/genetics ; Saccharomyces cerevisiae/growth & development ; Saccharomyces cerevisiae/physiology ; Saccharomyces cerevisiae Proteins/genetics ; Saccharomycetales/genetics ; Saccharomycetales/physiology ; Transcription, Genetic
    Chemical Substances DNA-Binding Proteins ; Multiprotein Complexes ; Saccharomyces cerevisiae Proteins ; condensin complexes ; Adenosine Triphosphatases (EC 3.6.1.-) ; Glucose (IY9XDZ35W2)
    Language English
    Publishing date 2021-01-08
    Publishing country England
    Document type Journal Article ; Research Support, N.I.H., Extramural
    ZDB-ID 632636-5
    ISSN 1097-0061 ; 0749-503X
    ISSN (online) 1097-0061
    ISSN 0749-503X
    DOI 10.1002/yea.3546
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    In stock of ZB MED Cologne/Königswinter

    Zs.B 2820: Show issues Location:
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  6. Article ; Online: Ssd1 and the cell wall integrity pathway promote entry, maintenance, and recovery from quiescence in budding yeast.

    Miles, Shawna / Li, Li Hong / Melville, Zephan / Breeden, Linda L

    Molecular biology of the cell

    2019  Volume 30, Issue 17, Page(s) 2205–2217

    Abstract: ... ...

    Abstract Wild
    MeSH term(s) Cell Wall/metabolism ; Diploidy ; Haploidy ; Meiosis ; Nuclear Proteins/metabolism ; RNA-Binding Proteins/metabolism ; Resting Phase, Cell Cycle ; Saccharomyces cerevisiae/cytology ; Saccharomyces cerevisiae/genetics ; Saccharomyces cerevisiae/metabolism ; Saccharomyces cerevisiae Proteins/metabolism ; Spores, Fungal ; Transcription Factors/metabolism ; Transcription, Genetic
    Chemical Substances IME1 protein, S cerevisiae ; MPT5 protein, S cerevisiae ; Nuclear Proteins ; RNA-Binding Proteins ; Saccharomyces cerevisiae Proteins ; Ssd1 protein, S cerevisiae ; Transcription Factors
    Language English
    Publishing date 2019-05-29
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural
    ZDB-ID 1098979-1
    ISSN 1939-4586 ; 1059-1524
    ISSN (online) 1939-4586
    ISSN 1059-1524
    DOI 10.1091/mbc.E19-04-0190
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    Zs.A 2853: Show issues Location:
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    Zs.MO 410: Show issues

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  7. Article ; Online: A common strategy for initiating the transition from proliferation to quiescence.

    Miles, Shawna / Breeden, Linda

    Current genetics

    2017  Volume 63, Issue 2, Page(s) 179–186

    Abstract: Development, tissue renewal and long term survival of multi-cellular organisms is dependent upon the persistence of stem cells that are quiescent, but retain the capacity to re-enter the cell cycle to self-renew, or to produce progeny that can ... ...

    Abstract Development, tissue renewal and long term survival of multi-cellular organisms is dependent upon the persistence of stem cells that are quiescent, but retain the capacity to re-enter the cell cycle to self-renew, or to produce progeny that can differentiate and re-populate the tissue. Deregulated release of these cells from the quiescent state, or preventing them from entering quiescence, results in uncontrolled proliferation and cancer. Conversely, loss of quiescent cells, or their failure to re-enter cell division, disrupts organ development and prevents tissue regeneration and repair. Understanding the quiescent state and how cells control the transitions in and out of this state is of fundamental importance. Investigations into the mechanics of G1 arrest during the transition to quiescence continue to identify striking parallels between the strategies used by yeast and mammals to regulate this transition. When cells commit to a stable but reversible arrest, the G1/S genes responsible for promoting S phase must be inhibited. This process, from yeast to humans, involves the formation of quiescence-specific complexes on their promoters. In higher cells, these so-called DREAM complexes of E2F4/DP/RBL/MuvB recruit the highly conserved histone deacetylase HDAC1, which leads to local histone deacetylation and repression of S phase-promoting transcripts. Quiescent yeast cells also show pervasive histone deacetylation by the HDAC1 counterpart Rpd3. In addition, these cells contain quiescence-specific regulators of G1/S genes: Msa1 and Msa2, which can be considered components of the yeast equivalent of the DREAM complex. Despite a lack of physical similarities, the goals and the strategies used to achieve a reversible transition to quiescence are highly conserved. This motivates a detailed study of this process in the simple model organism: budding yeast.
    MeSH term(s) Cell Cycle Proteins/genetics ; Cell Division/genetics ; G1 Phase Cell Cycle Checkpoints/genetics ; Gene Expression ; Histone Deacetylase 1/genetics ; Histone Deacetylases/genetics ; Humans ; Models, Genetic ; S Phase/genetics ; Saccharomyces cerevisiae/genetics ; Saccharomyces cerevisiae Proteins/genetics
    Chemical Substances Cell Cycle Proteins ; Saccharomyces cerevisiae Proteins ; RPD3 protein, S cerevisiae (EC 3.5.1.-) ; HDAC1 protein, human (EC 3.5.1.98) ; Histone Deacetylase 1 (EC 3.5.1.98) ; Histone Deacetylases (EC 3.5.1.98)
    Language English
    Publishing date 2017-05
    Publishing country United States
    Document type Journal Article ; Review
    ZDB-ID 282876-5
    ISSN 1432-0983 ; 0172-8083
    ISSN (online) 1432-0983
    ISSN 0172-8083
    DOI 10.1007/s00294-016-0640-0
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    Zs.A 2586: Show issues Location:
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  8. Article ; Online: A molecular off switch for transcriptional quiescence.

    McKnight, Jeffrey N / Breeden, Linda L / Tsukiyama, Toshio

    Cell cycle (Georgetown, Tex.)

    2015  Volume 14, Issue 23, Page(s) 3667–3668

    MeSH term(s) Cell Cycle/genetics ; Histone Deacetylases/genetics ; Histone Deacetylases/metabolism ; Histone Deacetylases/physiology ; Models, Genetic ; Saccharomyces cerevisiae/cytology ; Saccharomyces cerevisiae/enzymology ; Saccharomyces cerevisiae/genetics ; Saccharomyces cerevisiae Proteins/physiology ; Transcription, Genetic
    Chemical Substances Saccharomyces cerevisiae Proteins ; RPD3 protein, S cerevisiae (EC 3.5.1.-) ; Histone Deacetylases (EC 3.5.1.98)
    Language English
    Publishing date 2015-10-28
    Publishing country United States
    Document type Editorial
    ZDB-ID 2146183-1
    ISSN 1551-4005 ; 1538-4101 ; 1554-8627
    ISSN (online) 1551-4005
    ISSN 1538-4101 ; 1554-8627
    DOI 10.1080/15384101.2015.1112618
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    Zs.A 5881: Show issues Location:
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  9. Article ; Online: A Genetic Screen for Saccharomyces cerevisiae Mutants That Fail to Enter Quiescence.

    Li, Lihong / Miles, Shawna / Breeden, Linda L

    G3 (Bethesda, Md.)

    2015  Volume 5, Issue 8, Page(s) 1783–1795

    Abstract: Budding yeast begin the transition to quiescence by prolonging G1 and accumulating limited nutrients. They undergo asymmetric cell divisions, slow cellular expansion, acquire significant stress tolerance and construct elaborate cell walls. These ... ...

    Abstract Budding yeast begin the transition to quiescence by prolonging G1 and accumulating limited nutrients. They undergo asymmetric cell divisions, slow cellular expansion, acquire significant stress tolerance and construct elaborate cell walls. These morphologic changes give rise to quiescent (Q) cells, which can be distinguished from three other cell types in a stationary phase culture by flow cytometry. We have used flow cytometry to screen for genes that are required to obtain the quiescent cell fraction. We find that cell wall integrity is critical and these genes may help define quiescence-specific features of the cell wall. Genes required to evade the host innate immune response are common. These may be new targets for antifungal drugs. Acquired thermotolerance is also a common property, and we show that the stress-response transcription factors Msn2 and Msn4 promote quiescence. Many other pathways also contribute, including a subset of genes involved in autophagy, ubiquitin-mediated proteolysis, DNA replication, bud site selection, and cytokinesis.
    MeSH term(s) Cell Wall/metabolism ; DNA-Binding Proteins/genetics ; DNA-Binding Proteins/metabolism ; Genetic Testing ; Immunity, Innate ; Membrane Proteins/genetics ; Membrane Proteins/metabolism ; Mutation ; Saccharomyces cerevisiae/genetics ; Saccharomyces cerevisiae/metabolism ; Saccharomyces cerevisiae Proteins/genetics ; Saccharomyces cerevisiae Proteins/metabolism ; Transcription Factors/genetics ; Transcription Factors/metabolism
    Chemical Substances DNA-Binding Proteins ; ECM33 protein, S cerevisiae ; MSN2 protein, S cerevisiae ; MSN4 protein, S cerevisiae ; Membrane Proteins ; Saccharomyces cerevisiae Proteins ; Transcription Factors
    Language English
    Publishing date 2015-06-10
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural
    ZDB-ID 2629978-1
    ISSN 2160-1836 ; 2160-1836
    ISSN (online) 2160-1836
    ISSN 2160-1836
    DOI 10.1534/g3.115.019091
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  10. Article ; Online: Msa1 and Msa2 Modulate G1-Specific Transcription to Promote G1 Arrest and the Transition to Quiescence in Budding Yeast.

    Miles, Shawna / Croxford, Matthew W / Abeysinghe, Amali P / Breeden, Linda L

    PLoS genetics

    2016  Volume 12, Issue 6, Page(s) e1006088

    Abstract: Yeast that naturally exhaust their glucose source can enter a quiescent state that is characterized by reduced cell size, and high cell density, stress tolerance and longevity. The transition to quiescence involves highly asymmetric cell divisions, ... ...

    Abstract Yeast that naturally exhaust their glucose source can enter a quiescent state that is characterized by reduced cell size, and high cell density, stress tolerance and longevity. The transition to quiescence involves highly asymmetric cell divisions, dramatic reprogramming of transcription and global changes in chromatin structure and chromosome topology. Cells enter quiescence from G1 and we find that there is a positive correlation between the length of G1 and the yield of quiescent cells. The Swi4 and Swi6 transcription factors, which form the SBF transcription complex and promote the G1 to S transition in cycling cells, are also critical for the transition to quiescence. Swi6 forms a second complex with Mbp1 (MBF), which is not required for quiescence. These are the functional analogues of the E2F complexes of higher eukaryotes. Loss of the RB analogue, Whi5, and the related protein Srl3/Whi7, delays G1 arrest, but it also delays recovery from quiescence. Two MBF- and SBF-Associated proteins have been identified that have little effect on SBF or MBF activity in cycling cells. We show that these two related proteins, Msa1 and Msa2, are specifically required for the transition to quiescence. Like the E2F complexes that are quiescence-specific, Msa1 and Msa2 are required to repress the transcription of many SBF target genes, including SWI4, the CLN2 cyclin and histones, specifically after glucose is exhausted from the media. They also activate transcription of many MBF target genes. msa1msa2 cells fail to G1 arrest and rapidly lose viability upon glucose exhaustion. msa1msa2 mutants that survive this transition are very large, but they attain the same thermo-tolerance and longevity of wild type quiescent cells. This indicates that Msa1 and Msa2 are required for successful transition to quiescence, but not for the maintenance of that state.
    MeSH term(s) DNA-Binding Proteins/genetics ; Fungal Proteins/genetics ; G1 Phase Cell Cycle Checkpoints/genetics ; Gene Expression Regulation, Fungal/genetics ; Merozoite Surface Protein 1/genetics ; Myelin Basic Protein/genetics ; S Phase/genetics ; Saccharomycetales/genetics ; Transcription Factors/genetics ; Transcription, Genetic/genetics
    Chemical Substances DNA-Binding Proteins ; Fungal Proteins ; Merozoite Surface Protein 1 ; Myelin Basic Protein ; Transcription Factors
    Language English
    Publishing date 2016
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural
    ZDB-ID 2186725-2
    ISSN 1553-7404 ; 1553-7390
    ISSN (online) 1553-7404
    ISSN 1553-7390
    DOI 10.1371/journal.pgen.1006088
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