2020
DOI: 10.1101/2020.11.17.386797
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Genome-wide maps of nucleolus interactions reveal distinct layers of repressive chromatin domains

Abstract: Eukaryotic chromosomes are folded into hierarchical domains, enabling the organization of the genome into functional compartments. Nuclear periphery and nucleolus are two nuclear landmarks thought to contribute to repressive chromosome architecture. However, while the role of nuclear lamina (NL) in genome organization has been well documented, the function of the nucleolus remains under-investigated due to the lack of methods for genome-wide maps of nucleolar associated domains (NADs). Here we established a me… Show more

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Cited by 11 publications
(10 citation statements)
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“…Future work is needed to understand if these distinct NAD classes show differences in their association strength with the nucleolus, or if their activation depends on further mechanisms or factors upon dissociation. For example, neuronal NAD genes detach from the nucleolus upon neural progenitor cell differentiation yet do not yet become activated, supporting the model that their release might poise them for later expression (Bersaglieri et al 2020).…”
Section: Discussionmentioning
confidence: 72%
“…Future work is needed to understand if these distinct NAD classes show differences in their association strength with the nucleolus, or if their activation depends on further mechanisms or factors upon dissociation. For example, neuronal NAD genes detach from the nucleolus upon neural progenitor cell differentiation yet do not yet become activated, supporting the model that their release might poise them for later expression (Bersaglieri et al 2020).…”
Section: Discussionmentioning
confidence: 72%
“…Additionally, a number of studies have detected HS- and HSF1-dependent activation of typically silent constitutive heterochromatin regions, the satellite repeats on human chromosome 9 ( Jolly et al, 2002 , 2004 ; Rizzi et al, 2003 ; Valgardsdottir et al, 2008 ; Sengupta et al, 2009 ; Eymery et al, 2010 ; Pezer and Ugarkovic, 2012 ; Feliciello et al, 2015 ; Col et al, 2017 ; Feliciello et al, 2020 ). These repeats are often closely associated with the nucleoli periphery, one of the major locations of heterochromatin domains within the nucleus ( Politz et al, 2016 ; Vertii et al, 2019 ; Bersaglieri et al, 2020 ; Bury et al, 2020 ; Wang et al, 2021 ). Satellite III repeats are located in the pericentromeric regions of acrocentric chromosomes and in response to HS produce long noncoding RNA transcripts that accumulate at the site of transcription, primarily at chromosome 9, and help to mediate HS response.…”
Section: Heat Stress and Chromatin Architecturementioning
confidence: 99%
“…These limitations led to the establishment of another novel method, called 'Nucleolar-DamID'. By applying the existing DamID, Dam is fused with the histone, H2B, where in this adaptation, a nucleolar localization signal (NoLS, RKK RKKK) is inserted at the C-terminus (60). Through these sequencing approaches, the genome-wide maps and heterochromatic characteristics of LADs and NADs have been defined.…”
Section: Mapping Lads and Nads With Sequencing Approachesmentioning
confidence: 99%
“…This implicates that there seems to be no possible candidate molecules as scaffold to bind in and around the nucleoli, while there are the stable lamins under the nuclear envelope for mapping LADs. However, Nucleolar-DamID using Dam-fused and NoLS inserted histone, which can bind DNA sequences near nucleoli without motif specificity, has recently been proposed (60), thereby applying it may allow insight to be gained into the dynamics of NADs, as has been done for LADs. In addition to Nucleolar-DamID, other creative technologies for visualizing NADs need to be established.…”
Section: Visualization Of Lads and Nads In Live Cellsmentioning
confidence: 99%