Mitotic Gene Bookmarking: An Epigenetic Mechanism for Coordination of Lineage Commitment, Cell Identity and Cell Growth

Zaidi, Sayyed K.; Lian, Jane B.; Wijnen, André van; Stein, Janet L.; Stein, Gary S.

doi:10.1007/978-981-10-3233-2_7

Cited by 18 publications

(12 citation statements)

References 60 publications

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“…Recent studies have shown that TFs binding to mitotic chromosomes are rather common 26,61 , and these were proposed to play a role in cell fate maintenance by controlling gene reactivation early during mitotic exit 31,34,39,62 . Furthermore, the presence of SOX2 and OCT4 at the M-G1 transition was shown to be required for their role in regulating ES cell fate decisions 32,63 .…”

Section: Discussionmentioning

confidence: 99%

Mitotic chromosome binding predicts transcription factor properties in interphase

et al. 2019

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Mammalian transcription factors (TFs) differ broadly in their nuclear mobility and sequence-specific/non-specific DNA binding. How these properties affect their ability to occupy specific genomic sites and modify the epigenetic landscape is unclear. The association of TFs with mitotic chromosomes observed by fluorescence microscopy is largely mediated by non-specific DNA interactions and differs broadly between TFs. Here we combine quantitative measurements of mitotic chromosome binding (MCB) of 501 TFs, TF mobility measurements by fluorescence recovery after photobleaching, single molecule imaging of DNA binding, and mapping of TF binding and chromatin accessibility. TFs associating to mitotic chromosomes are enriched in DNA-rich compartments in interphase and display slower mobility in interphase and mitosis. Remarkably, MCB correlates with relative TF on-rates and genome-wide specific site occupancy, but not with TF residence times. This suggests that non-specific DNA binding properties of TFs regulate their search efficiency and occupancy of specific genomic sites.

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Section: Discussionmentioning

confidence: 99%

Mitotic chromosome binding predicts transcription factor properties in interphase

et al. 2019

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“…While it has long been thought that most TFs are excluded from mitotic chromosomes, more recent studies have shown that mitotic chromosome binding of TFs is rather common (Zaidi et al, 2017;Raccaud and Suter, 2017). TFs enriched on mitotic chromosomes were proposed to play a role in maintenance of cell fate by controlling gene reactivation early during mitotic exit (Caravaca et al, 2013;Kadauke et al, 2012;Lake et al, 2014;Zaret, 2014), and the presence of SOX2 and OCT4 at the M-G1 transition was shown to be required for their role in regulating ES cell fate decisions (Deluz et al, 2016;Liu et al, 2017).…”

Section: Discussionmentioning

confidence: 99%

Mitotic chromosome binding predicts transcription factor properties in interphase

Raccaud

Alber

Friman

et al. 2018

Preprint

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Mammalian transcription factors (TFs) differ broadly in their nuclear mobility and sequencespecific/non-specific DNA binding affinity. How these properties affect the ability of TFs to occupy their specific binding sites in the genome and modify the epigenetic landscape is unclear. Here we combined live cell quantitative measurements of mitotic chromosome binding (MCB) of 502 TFs, measurements of TF mobility by fluorescence recovery after photobleaching, single molecule imaging of DNA binding in live cells, and genome-wide mapping of TF binding and chromatin accessibility. MCB scaled with interphase properties such as association with DNA-rich compartments, mobility, as well as large differences in genome-wide specific site occupancy that correlated with TF impact on chromatin accessibility. As MCB is largely mediated by electrostatic, non-specific TF-DNA interactions, our data suggests that non-specific DNA binding of TFs enhances their search for specific sites and thereby their impact on the accessible chromatin landscape.

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“…In addition, CpG methylation of specific promoters selectively silences the expression of tissue-specific genes (Fischle et al, 2003; He et al, 2008). And mitotic bookmarking, the retention of transcription factors at gene loci on chromosomes during cell division, epigenetically sustains RNA polymerase I and II control of cell growth and phenotype in normal and cancer cells(Ali et al, 2008; Arampatzi et al, 2013; Arora et al, 2016; Bakshi et al, 2008; Caravaca et al, 2013; Festuccia et al, 2016; John and Workman, 1998; Kadauke and Blobel, 2013; Kadauke et al, 2012; Kelly and Jones, 2011; Lake et al, 2014; Lerner et al, 2016; Liu et al, 2017; Lodhi et al, 2014, 2016; Lopez-Camacho et al, 2014; Pockwinse et al, 2011; Sarge and Park-Sarge, 2009; Teves et al, 2016; Verdeguer et al, 2010; Young et al, 2007a, 2007b; Zaidi et al, 2010a, 2010b, 2011b, 2014b, 2017a, 2017b; Zaret, 2014; Zhao et al, 2011). The significance of mitotic bookmarking is reinforced by a recent report from the Tjian laboratory that most transcription factors are significantly enriched on mitotic chromosomes (Teves et al, 2016).…”

Section: Gene Expression In Biological Control and Cancer In The Cmentioning

confidence: 99%

“…Persistence of cell identity requires post-mitotic restoration of nuclear organization and assembly of regulatory complexes. It has been conclusively demonstrated that RUNX proteins, as well as myogenic and adipogenic transcription factors that determine lin eage commitment, remain bound to their target genes, including rRNA genes, on mitotic chromosomes(Ali et al, 2010; Young et al, 2007a, 2007b; Zaidi et al, 2003, 2010b, 2017b). It has been established that RUNX2 remains associated with both RNA polymerase I and II-transcribed genes during mitosis (Young et al, 2007a, 2007b).…”

Section: The Regulatory Landscape Of the Cancer Cell Nucleusmentioning

confidence: 99%

Nuclear organization mediates cancer-compromised genetic and epigenetic control

Zaidi

Fritz

Tracy

et al. 2018

Advances in Biological Regulation

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Nuclear organization is functionally linked to genetic and epigenetic regulation of gene expression for biological control and is modified in cancer. Nuclear organization supports cell growth and phenotypic properties of normal and cancer cells by facilitating physiologically responsive interactions of chromosomes, genes and regulatory complexes at dynamic three-dimensional microenvironments. We will review nuclear structure/function relationships that include: 1. Epigenetic bookmarking of genes by phenotypic transcription factors to control fidelity and plasticity of gene expression as cells enter and exit mitosis; 2. Contributions of chromatin remodeling to breast cancer nuclear morphology, metabolism and effectiveness of chemotherapy; 3. Relationships between fidelity of nuclear organization and metastasis of breast cancer to bone; 4. Dynamic modifications of higher-order inter- and intra-chromosomal interactions in breast cancer cells; 5. Coordinate control of cell growth and phenotype by tissue-specific transcription factors; 6. Oncofetal epigenetic control by bivalent histone modifications that are functionally related to sustaining the stem cell phenotype; and 7. Noncoding RNA-mediated regulation in the onset and progression of breast cancer. The discovery of components to nuclear organization that are functionally related to cancer and compromise gene expression have the potential for translation to innovative cancer diagnosis and targeted therapy.

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Mitotic Gene Bookmarking: An Epigenetic Mechanism for Coordination of Lineage Commitment, Cell Identity and Cell Growth

Cited by 18 publications

References 60 publications

Mitotic chromosome binding predicts transcription factor properties in interphase

Mitotic chromosome binding predicts transcription factor properties in interphase

Mitotic chromosome binding predicts transcription factor properties in interphase

Nuclear organization mediates cancer-compromised genetic and epigenetic control

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