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  1. Article ; Online: Relationship between the Chromosome Structural Dynamics and Gene Expression—A Chicken and Egg Dilemma?

    Diana Le Berre / Sylvie Reverchon / Georgi Muskhelishvili / William Nasser

    Microorganisms, Vol 10, Iss 846, p

    2022  Volume 846

    Abstract: Prokaryotic transcription was extensively studied over the last half-century. A great deal of data has been accumulated regarding the control of gene expression by transcription factors regulating their target genes by binding at specific DNA sites. ... ...

    Abstract Prokaryotic transcription was extensively studied over the last half-century. A great deal of data has been accumulated regarding the control of gene expression by transcription factors regulating their target genes by binding at specific DNA sites. However, there is a significant gap between the mechanistic description of transcriptional control obtained from in vitro biochemical studies and the complexity of transcriptional regulation in the context of the living cell. Indeed, recent studies provide ample evidence for additional levels of complexity pertaining to the regulation of transcription in vivo, such as, for example, the role of the subcellular localization and spatial organization of different molecular components involved in the transcriptional control and, especially, the role of chromosome configurational dynamics. The question as to how the chromosome is dynamically reorganized under the changing environmental conditions and how this reorganization is related to gene expression is still far from being clear. In this article, we focus on the relationships between the chromosome structural dynamics and modulation of gene expression during bacterial adaptation. We argue that spatial organization of the bacterial chromosome is of central importance in the adaptation of gene expression to changing environmental conditions and vice versa, that gene expression affects chromosome dynamics.
    Keywords bacteria ; genetic regulation ; transcription ; DNA supercoiling ; chromosome dynamics ; chromosomal expression domains ; Biology (General) ; QH301-705.5
    Subject code 570
    Language English
    Publishing date 2022-04-01T00:00:00Z
    Publisher MDPI AG
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  2. Article ; Online: Phospholipid Scramblase 4 (PLSCR4) Regulates Adipocyte Differentiation via PIP3-Mediated AKT Activation

    Lisa A. G. Barth / Michèle Nebe / Hermann Kalwa / Akhil Velluva / Stephanie Kehr / Florentien Kolbig / Patricia Prabutzki / Wieland Kiess / Diana Le Duc / Antje Garten / Anna S. Kirstein

    International Journal of Molecular Sciences, Vol 23, Iss 9787, p

    2022  Volume 9787

    Abstract: Phospholipid scramblase 4 (PLSCR4) is a member of a conserved enzyme family with high relevance for the remodeling of phospholipid distribution in the plasma membrane and the regulation of cellular signaling. While PLSCR1 and -3 are involved in the ... ...

    Abstract Phospholipid scramblase 4 (PLSCR4) is a member of a conserved enzyme family with high relevance for the remodeling of phospholipid distribution in the plasma membrane and the regulation of cellular signaling. While PLSCR1 and -3 are involved in the regulation of adipose-tissue expansion, the role of PLSCR4 is so far unknown. PLSCR4 is significantly downregulated in an adipose-progenitor-cell model of deficiency for phosphatase and tensin homolog (PTEN). PTEN acts as a tumor suppressor and antagonist of the growth and survival signaling phosphoinositide 3-kinase (PI3K)/AKT cascade by dephosphorylating phosphatidylinositol-3,4,5-trisphosphate (PIP3). Patients with PTEN germline deletion frequently develop lipomas. The underlying mechanism for this aberrant adipose-tissue growth is incompletely understood. PLSCR4 is most highly expressed in human adipose tissue, compared with other phospholipid scramblases, suggesting a specific role of PLSCR4 in adipose-tissue biology. In cell and mouse models of lipid accumulation, we found PLSCR4 to be downregulated. We observed increased adipogenesis in PLSCR4-knockdown adipose progenitor cells, while PLSCR4 overexpression attenuated lipid accumulation. PLSCR4 knockdown was associated with increased PIP3 levels and the activation of AKT. Our results indicated that PLSCR4 is a regulator of PI3K/AKT signaling and adipogenesis and may play a role in PTEN-associated adipose-tissue overgrowth and lipoma formation.
    Keywords PLSCR4 ; PTEN ; lipoma ; scramblase ; PIP3 ; adipogenesis ; Biology (General) ; QH301-705.5 ; Chemistry ; QD1-999
    Subject code 571
    Language English
    Publishing date 2022-08-01T00:00:00Z
    Publisher MDPI AG
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  3. Article ; Online: Altered gene expression profiles impair the nervous system development in individuals with 15q13.3 microdeletion

    Marek B. Körner / Akhil Velluva / Linnaeus Bundalian / Maximilian Radtke / Chen-Ching Lin / Pia Zacher / Tobias Bartolomaeus / Anna S. Kirstein / Achmed Mrestani / Nicole Scholz / Konrad Platzer / Anne-Christin Teichmann / Julia Hentschel / Tobias Langenhan / Johannes R. Lemke / Antje Garten / Rami Abou Jamra / Diana Le Duc

    Scientific Reports, Vol 12, Iss 1, Pp 1-

    2022  Volume 10

    Abstract: Abstract The 15q13.3 microdeletion has pleiotropic effects ranging from apparently healthy to severely affected individuals. The underlying basis of the variable phenotype remains elusive. We analyzed gene expression using blood from three individuals ... ...

    Abstract Abstract The 15q13.3 microdeletion has pleiotropic effects ranging from apparently healthy to severely affected individuals. The underlying basis of the variable phenotype remains elusive. We analyzed gene expression using blood from three individuals with 15q13.3 microdeletion and brain cortex tissue from ten mice Df[h15q13]/+. We assessed differentially expressed genes (DEGs), protein–protein interaction (PPI) functional modules, and gene expression in brain developmental stages. The deleted genes’ haploinsufficiency was not transcriptionally compensated, suggesting a dosage effect may contribute to the pathomechanism. DEGs shared between tested individuals and a corresponding mouse model show a significant overlap including genes involved in monogenic neurodevelopmental disorders. Yet, network-wide dysregulatory effects suggest the phenotype is not caused by a single critical gene. A significant proportion of blood DEGs, silenced in adult brain, have maximum expression during the prenatal brain development. Based on DEGs and their PPI partners we identified altered functional modules related to developmental processes, including nervous system development. We show that the 15q13.3 microdeletion has a ubiquitous impact on the transcriptome pattern, especially dysregulation of genes involved in brain development. The high phenotypic variability seen in 15q13.3 microdeletion could stem from an increased vulnerability during brain development, instead of a specific pathomechanism.
    Keywords Medicine ; R ; Science ; Q
    Subject code 616
    Language English
    Publishing date 2022-08-01T00:00:00Z
    Publisher Nature Portfolio
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  4. Article ; Online: Data and Tools Integration in the Canadian Open Neuroscience Platform

    Jean-Baptiste Poline / Samir Das / Tristan Glatard / Cécile Madjar / Erin W. Dickie / Xavier Lecours / Thomas Beaudry / Natacha Beck / Brendan Behan / Shawn T. Brown / David Bujold / Michael Beauvais / Bryan Caron / Candice Czech / Moyez Dharsee / Mathieu Dugré / Ken Evans / Tom Gee / Giulia Ippoliti /
    Gregory Kiar / Bartha Maria Knoppers / Tristan Kuehn / Diana Le / Derek Lo / Mandana Mazaheri / Dave MacFarlane / Naser Muja / Emmet A. O’Brien / Liam O’Callaghan / Santiago Paiva / Patrick Park / Darcy Quesnel / Henri Rabelais / Pierre Rioux / Mélanie Legault / Jennifer Tremblay-Mercier / David Rotenberg / Jessica Stone / Ted Strauss / Ksenia Zaytseva / Joey Zhou / Simon Duchesne / Ali R. Khan / Sean Hill / Alan C. Evans

    Scientific Data, Vol 10, Iss 1, Pp 1-

    2023  Volume 11

    Abstract: Measurement(s) Digital Data Repository Technology Type(s) Digital Data ... ...

    Abstract Measurement(s) Digital Data Repository Technology Type(s) Digital Data Repository
    Keywords Science ; Q
    Language English
    Publishing date 2023-04-01T00:00:00Z
    Publisher Nature Portfolio
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  5. Article: Evolution of the GST Omega Gene Family in 12 Drosophila Species

    Walters, Kathryn B / Grant, Paaqua / Johnson, Diana L.E

    journal of heredity. 2009 Nov., v. 100, no. 6

    2009  

    Abstract: Gene families provide a unique system to study the evolutionary relationships between related genes both within and between organisms. We can ascertain whether members of a gene family in different species are orthologs or paralogs. We may also search ... ...

    Abstract Gene families provide a unique system to study the evolutionary relationships between related genes both within and between organisms. We can ascertain whether members of a gene family in different species are orthologs or paralogs. We may also search for evidence that may explain why duplicate genes are present. The availability of genome sequences for 12 Drosophila species allows us to address these questions with respect to the evolution of one gene family, the glutathione S transferase (GST) omega class. This gene family is of particular interest because of its relationship with human disease and its presence in a wide range of species.
    Keywords Drosophila ; duplicate genes ; evolution ; glutathione ; human diseases ; nucleotide sequences
    Language English
    Size p. 742-753.
    Publishing place The American Genetic Association
    Document type Article
    ZDB-ID 3044-2
    ISSN 1465-7333 ; 0022-1503
    ISSN (online) 1465-7333
    ISSN 0022-1503
    Database NAL-Catalogue (AGRICOLA)

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  6. Article ; Online: Germline AGO2 mutations impair RNA interference and human neurological development

    Davor Lessel / Daniela M. Zeitler / Margot R. F. Reijnders / Andriy Kazantsev / Fatemeh Hassani Nia / Alexander Bartholomäus / Victoria Martens / Astrid Bruckmann / Veronika Graus / Allyn McConkie-Rosell / Marie McDonald / Bernarda Lozic / Ee-Shien Tan / Erica Gerkes / Jessika Johannsen / Jonas Denecke / Aida Telegrafi / Evelien Zonneveld-Huijssoon / Henny H. Lemmink /
    Breana W. M. Cham / Tanja Kovacevic / Linda Ramsdell / Kimberly Foss / Diana Le Duc / Diana Mitter / Steffen Syrbe / Andreas Merkenschlager / Margje Sinnema / Bianca Panis / Joanna Lazier / Matthew Osmond / Taila Hartley / Jeremie Mortreux / Tiffany Busa / Chantal Missirian / Pankaj Prasun / Sabine Lüttgen / Ilaria Mannucci / Ivana Lessel / Claudia Schob / Stefan Kindler / John Pappas / Rachel Rabin / Marjolein Willemsen / Thatjana Gardeitchik / Katharina Löhner / Patrick Rump / Kerith-Rae Dias / Carey-Anne Evans / Peter Ian Andrews

    Nature Communications, Vol 11, Iss 1, Pp 1-

    2020  Volume 14

    Abstract: AGO2 binds to miRNAs to repress expression of cognate target mRNAs. Here the authors report that heterozygous AGO2 mutations result in defects in neurological development and impair RNA interference. ...

    Abstract AGO2 binds to miRNAs to repress expression of cognate target mRNAs. Here the authors report that heterozygous AGO2 mutations result in defects in neurological development and impair RNA interference.
    Keywords Science ; Q
    Language English
    Publishing date 2020-11-01T00:00:00Z
    Publisher Nature Portfolio
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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