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  1. Article ; Online: Formation of a stable RNase Y-RicT (YaaT) complex requires RicA (YmcA) and RicF (YlbF).

    Dubnau, Eugenie / DeSantis, Micaela / Dubnau, David

    mBio

    2023  Volume 14, Issue 4, Page(s) e0126923

    Abstract: ... ...

    Abstract In
    MeSH term(s) Ribonucleases/genetics ; Ribonucleases/metabolism ; Bacterial Proteins/genetics ; Bacterial Proteins/metabolism ; Endoribonucleases/genetics ; Endoribonucleases/metabolism ; RNA/metabolism ; RNA, Messenger/genetics ; RNA, Messenger/metabolism ; Bacillus subtilis/metabolism
    Chemical Substances Ribonucleases (EC 3.1.-) ; Bacterial Proteins ; Endoribonucleases (EC 3.1.-) ; RNA (63231-63-0) ; RNA, Messenger
    Language English
    Publishing date 2023-08-09
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural
    ZDB-ID 2557172-2
    ISSN 2150-7511 ; 2161-2129
    ISSN (online) 2150-7511
    ISSN 2161-2129
    DOI 10.1128/mbio.01269-23
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article: Formation of a stable RNase Y-RicT (YaaT) complex requires RicA (YmcA) and RicF (YlbF).

    Dubnau, Eugenie / DeSantis, Micaela / Dubnau, David

    bioRxiv : the preprint server for biology

    2023  

    Abstract: In : Importance: The action of nucleases on RNA is universal and essential for all forms of life and includes processing steps that lead to the mature and functional forms of certain transcripts. ... ...

    Abstract In
    Importance: The action of nucleases on RNA is universal and essential for all forms of life and includes processing steps that lead to the mature and functional forms of certain transcripts. In
    Language English
    Publishing date 2023-05-23
    Publishing country United States
    Document type Preprint
    DOI 10.1101/2023.05.22.541740
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article ; Online: Reply to Losick, "Concerns about Continuing Claims that a Protein Complex Interacts with the Phosphorelay".

    Dubnau, David

    mBio

    2020  Volume 11, Issue 2

    MeSH term(s) Bacillus subtilis/genetics ; Bacterial Proteins ; Gene Expression ; Gene Expression Regulation, Bacterial ; RNA
    Chemical Substances Bacterial Proteins ; RNA (63231-63-0)
    Language English
    Publishing date 2020-03-10
    Publishing country United States
    Document type Letter ; Comment
    ZDB-ID 2557172-2
    ISSN 2150-7511 ; 2161-2129
    ISSN (online) 2150-7511
    ISSN 2161-2129
    DOI 10.1128/mBio.00154-20
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article ; Online: Regulation by the modulation of gene expression variability.

    Dubnau, David

    Journal of bacteriology

    2015  Volume 197, Issue 12, Page(s) 1974–1975

    Abstract: Classically, transcription is regulated so that the average expression per cell changes, often with a distribution that extends across the population. Roggiani and Goulian (M. Roggiani and M. Goulian, J. Bacteriol. 197:1976-1987, 2015, doi:http://dx.doi ... ...

    Abstract Classically, transcription is regulated so that the average expression per cell changes, often with a distribution that extends across the population. Roggiani and Goulian (M. Roggiani and M. Goulian, J. Bacteriol. 197:1976-1987, 2015, doi:http://dx.doi.org/10.1128/JB.00074-15) have shown that this is what happens when the torCAD operon of Escherichia coli is induced anaerobically by the addition of trimethylamine-N-oxide (TMAO). However, when the same inducer is added to aerobically growing cells, only a subset of the cells respond, although the mean expression per cell is similar to that obtained anaerobically. Thus, in the presence of oxygen, the variance but not the expression mean is altered. The regulation of gene expression variance appears to be due to noise in the phosphorelay that governs torCAD transcription.
    MeSH term(s) Escherichia coli/physiology ; Escherichia coli Proteins/metabolism ; Gene Expression Regulation, Bacterial/physiology ; Oxygen/metabolism ; Signal Transduction/physiology ; Transcription, Genetic/physiology
    Chemical Substances Escherichia coli Proteins ; Oxygen (S88TT14065)
    Language English
    Publishing date 2015-06-15
    Publishing country United States
    Document type Comment ; Journal Article ; Research Support, N.I.H., Extramural
    ZDB-ID 2968-3
    ISSN 1098-5530 ; 0021-9193
    ISSN (online) 1098-5530
    ISSN 0021-9193
    DOI 10.1128/JB.00235-15
    Database MEDical Literature Analysis and Retrieval System OnLINE

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    In stock of ZB MED Cologne/Königswinter

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  5. Article ; Online: Mechanisms of Transforming DNA Uptake to the Periplasm of Bacillus subtilis.

    Hahn, Jeanette / DeSantis, Micaela / Dubnau, David

    mBio

    2021  Volume 12, Issue 3, Page(s) e0106121

    Abstract: We demonstrate here that the acquisition of DNase resistance by transforming DNA, often assumed to indicate transport to the cytoplasm, reflects uptake to the periplasm, requiring a reevaluation of conclusions about the roles of several proteins in ... ...

    Abstract We demonstrate here that the acquisition of DNase resistance by transforming DNA, often assumed to indicate transport to the cytoplasm, reflects uptake to the periplasm, requiring a reevaluation of conclusions about the roles of several proteins in transformation. The new evidence suggests that the transformation pilus is needed for DNA binding to the cell surface near the cell poles and for the initiation of uptake. The cellular distribution of the membrane-anchored ComEA of Bacillus subtilis does not dramatically change during DNA uptake as does the unanchored ComEA of
    MeSH term(s) Bacillus subtilis/genetics ; Bacillus subtilis/metabolism ; Biological Transport ; Cell Membrane/metabolism ; DNA, Bacterial/genetics ; DNA, Bacterial/metabolism ; Membrane Proteins/metabolism ; Periplasm/metabolism ; Transformation, Bacterial
    Chemical Substances DNA, Bacterial ; Membrane Proteins
    Language English
    Publishing date 2021-06-15
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural
    ZDB-ID 2557172-2
    ISSN 2150-7511 ; 2161-2129
    ISSN (online) 2150-7511
    ISSN 2161-2129
    DOI 10.1128/mBio.01061-21
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  6. Article ; Online: ComEB protein is dispensable for the transformation but must be translated for the optimal synthesis of comEC.

    De Santis, Micaela / Hahn, Jeanette / Dubnau, David

    Molecular microbiology

    2021  Volume 116, Issue 1, Page(s) 71–79

    Abstract: We show that the ComEB protein is not required for transformation in Bacillus subtilis, despite its expression from within the comE operon under competence control, nor is it required for the correct polar localization of ComGA. We show further that the ... ...

    Abstract We show that the ComEB protein is not required for transformation in Bacillus subtilis, despite its expression from within the comE operon under competence control, nor is it required for the correct polar localization of ComGA. We show further that the synthesis of the putative channel protein ComEC is translationally coupled to the upstream comEB open reading frame, so that the translation of comEB and a suboptimal ribosomal-binding site embedded in its sequence are needed for proper comEC expression. Translational coupling appears to be a common mechanism in three major competence operons for the adjustment of protein amounts independent of transcriptional control, probably ensuring the correct stoichiometries for assembly of the transformation machinery. comEB and comFC, respectively, encode cytidine deaminase and a protein resembling type 1 phosphoribosyl transferases and we speculate that nucleotide scavenging proteins are produced under competence control for efficient reutilization of the products of degradation of the non-transforming strand during DNA uptake.
    MeSH term(s) Bacillus subtilis/genetics ; Bacillus subtilis/metabolism ; Bacterial Proteins/biosynthesis ; Cell Membrane/metabolism ; DCMP Deaminase/metabolism ; DNA Transformation Competence/physiology ; DNA, Bacterial/metabolism ; DNA-Binding Proteins/metabolism ; Membrane Proteins/metabolism ; Multienzyme Complexes/biosynthesis ; Transformation, Bacterial/physiology
    Chemical Substances Bacterial Proteins ; DNA, Bacterial ; DNA-Binding Proteins ; Membrane Proteins ; Multienzyme Complexes ; comC protein, Bacillus subtilis (127004-93-7) ; DCMP Deaminase (EC 3.5.4.12)
    Language English
    Publishing date 2021-02-08
    Publishing country England
    Document type Journal Article ; Research Support, N.I.H., Extramural
    ZDB-ID 619315-8
    ISSN 1365-2958 ; 0950-382X
    ISSN (online) 1365-2958
    ISSN 0950-382X
    DOI 10.1111/mmi.14690
    Database MEDical Literature Analysis and Retrieval System OnLINE

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    In stock of ZB MED Cologne/Königswinter

    Zs.A 2502: Show issues Location:
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  7. Article ; Online: Mechanisms of DNA Uptake by Naturally Competent Bacteria.

    Dubnau, David / Blokesch, Melanie

    Annual review of genetics

    2019  Volume 53, Page(s) 217–237

    Abstract: Transformation is a widespread mechanism of horizontal gene transfer in bacteria. DNA uptake to the periplasmic compartment requires a DNA-uptake pilus and the DNA-binding protein ComEA. In the gram-negative bacteria, DNA is first pulled toward the outer ...

    Abstract Transformation is a widespread mechanism of horizontal gene transfer in bacteria. DNA uptake to the periplasmic compartment requires a DNA-uptake pilus and the DNA-binding protein ComEA. In the gram-negative bacteria, DNA is first pulled toward the outer membrane by retraction of the pilus and then taken up by binding to periplasmic ComEA, acting as a Brownian ratchet to prevent backward diffusion. A similar mechanism probably operates in the gram-positive bacteria as well, but these systems have been less well characterized. Transport, defined as movement of a single strand of transforming DNA to the cytosol, requires the channel protein ComEC. Although less is understood about this process, it may be driven by proton symport. In this review we also describe various phenomena that are coordinated with the expression of competence for transformation, such as fratricide, the kin-discriminatory killing of neighboring cells, and competence-mediated growth arrest.
    MeSH term(s) Anti-Bacterial Agents/pharmacology ; Bacteria/cytology ; Bacteria/drug effects ; Bacteria/genetics ; Bacterial Proteins/genetics ; Bacterial Proteins/metabolism ; DNA, Bacterial/genetics ; DNA, Bacterial/metabolism ; DNA-Binding Proteins/genetics ; DNA-Binding Proteins/metabolism ; Gene Transfer, Horizontal ; Helicobacter pylori/genetics ; Helicobacter pylori/metabolism ; Membrane Proteins/genetics ; Membrane Proteins/metabolism ; Transformation, Bacterial/genetics ; Type IV Secretion Systems
    Chemical Substances Anti-Bacterial Agents ; Bacterial Proteins ; ComEA protein, Bacillus subtilis ; DNA, Bacterial ; DNA-Binding Proteins ; Membrane Proteins ; Type IV Secretion Systems
    Language English
    Publishing date 2019-08-21
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't ; Review
    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-112618-043641
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    In stock of ZB MED Cologne/Königswinter

    Zs.A 1109: Show issues Location:
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  8. Article: Regulation by the Modulation of Gene Expression Variability

    Dubnau, David

    Journal of bacteriology. 2015 June 15, v. 197, no. 12

    2015  

    Abstract: Classically, transcription is regulated so that the average expression per cell changes, often with a distribution that extends across the population. Roggiani and Goulian (M. Roggiani and M. Goulian, J. Bacteriol. 197:1976–1987, 2015, doi: http://dx.doi. ...

    Abstract Classically, transcription is regulated so that the average expression per cell changes, often with a distribution that extends across the population. Roggiani and Goulian (M. Roggiani and M. Goulian, J. Bacteriol. 197:1976–1987, 2015, doi: http://dx.doi.org/10.1128/JB.00074-15) have shown that this is what happens when the torCAD operon of Escherichia coli is induced anaerobically by the addition of trimethylamine- N -oxide (TMAO). However, when the same inducer is added to aerobically growing cells, only a subset of the cells respond, although the mean expression per cell is similar to that obtained anaerobically. Thus, in the presence of oxygen, the variance but not the expression mean is altered. The regulation of gene expression variance appears to be due to noise in the phosphorelay that governs torCAD transcription.
    Keywords Escherichia coli ; gene expression regulation ; operon ; oxygen ; variance
    Language English
    Dates of publication 2015-0615
    Size p. 1974-1975.
    Publishing place American Society for Microbiology
    Document type Article
    ZDB-ID 2968-3
    ISSN 1098-5530 ; 0021-9193
    ISSN (online) 1098-5530
    ISSN 0021-9193
    DOI 10.1128/JB.00235-15
    Database NAL-Catalogue (AGRICOLA)

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  9. Article ; Online: Swim or chill: lifestyles of a bacillus.

    Dubnau, David

    Genes & development

    2010  Volume 24, Issue 8, Page(s) 735–737

    Abstract: Bacillus subtilis exhibits a number of lifestyles, each characterized by a distinguishing pattern of gene expression. In this issue of Genes & Development, Chai and colleagues (pp. 754-765) dissect the decision-making processes underlying the switch ... ...

    Abstract Bacillus subtilis exhibits a number of lifestyles, each characterized by a distinguishing pattern of gene expression. In this issue of Genes & Development, Chai and colleagues (pp. 754-765) dissect the decision-making processes underlying the switch between the motile and sessile states of B. subtilis, and show a role for a double-negative feedback loop that locks the system into the sessile state. These findings are discussed in the context of the natural history and of other lifestyle decisions faced by this model organism.
    MeSH term(s) Bacillus subtilis/genetics ; Bacillus subtilis/metabolism ; Bacillus subtilis/physiology ; Bacterial Proteins/genetics ; Gene Expression Regulation, Bacterial ; Phenotype
    Chemical Substances Bacterial Proteins
    Language English
    Publishing date 2010-04-15
    Publishing country United States
    Document type Comment ; Journal Article ; Research Support, N.I.H., Extramural
    ZDB-ID 806684-x
    ISSN 1549-5477 ; 0890-9369
    ISSN (online) 1549-5477
    ISSN 0890-9369
    DOI 10.1101/gad.1923110
    Database MEDical Literature Analysis and Retrieval System OnLINE

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    In stock of ZB MED Cologne/Königswinter

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  10. Article: A DegU-P and DegQ-Dependent Regulatory Pathway for the K-state in

    Miras, Mathieu / Dubnau, David

    Frontiers in microbiology

    2016  Volume 7, Page(s) 1868

    Abstract: The K-state in the model ... ...

    Abstract The K-state in the model bacterium
    Language English
    Publishing date 2016-11-22
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 2587354-4
    ISSN 1664-302X
    ISSN 1664-302X
    DOI 10.3389/fmicb.2016.01868
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