scholarly journals Four-dimensional nuclear speckle phase separation dynamics regulate proteostasis

2022 ◽  
Vol 8 (1) ◽  
Author(s):  
William Dion ◽  
Heather Ballance ◽  
Jane Lee ◽  
Yinghong Pan ◽  
Saad Irfan ◽  
...  
Keyword(s):  
Phase Separation ◽  
Nuclear Speckle

scholarly journals Splicing at the phase-separated nuclear speckle interface: a model

2020 ◽  
Author(s):  
Susan E Liao ◽  
Oded Regev
Keyword(s):  
Phase Separation ◽  
Rna Splicing ◽  
Splicing Factors ◽  
Sequence Motifs ◽  
Splice Sites ◽  
Nuclear Speckles ◽  
Nuclear Speckle ◽  
Functional Roles ◽  
Hnrnp Proteins ◽  
Model Sequence

Abstract Phase-separated membraneless bodies play important roles in nucleic acid biology. While current models for the roles of phase separation largely focus on the compartmentalization of constituent proteins, we reason that other properties of phase separation may play functional roles. Specifically, we propose that interfaces of phase-separated membraneless bodies could have functional roles in spatially organizing biochemical reactions. Here we propose such a model for the nuclear speckle, a membraneless body implicated in RNA splicing. In our model, sequence-dependent RNA positioning along the nuclear speckle interface coordinates RNA splicing. Our model asserts that exons are preferentially sequestered into nuclear speckles through binding by SR proteins, while introns are excluded through binding by nucleoplasmic hnRNP proteins. As a result, splice sites at exon-intron boundaries are preferentially positioned at nuclear speckle interfaces. This positioning exposes splice sites to interface-localized spliceosomes, enabling the subsequent splicing reaction. Our model provides a simple mechanism that seamlessly explains much of the complex logic of splicing. This logic includes experimental results such as the antagonistic duality between splicing factors, the position dependence of splicing sequence motifs, and the collective contribution of many motifs to splicing decisions. Similar functional roles for phase-separated interfaces may exist for other membraneless bodies.

scholarly journals USP42 drives nuclear speckle mRNA splicing via directing dynamic phase separation to promote tumorigenesis

2021 ◽  
Author(s):  
Shuyan Liu ◽  
Taishu Wang ◽  
Yulin Shi ◽  
Lu Bai ◽  
Shanshan Wang ◽  
...  
Keyword(s):  
Phase Separation ◽  
Posttranslational Modifications ◽  
Bioinformatic Analysis ◽  
Mrna Splicing ◽  
Dependent Manner ◽  
Nuclear Speckles ◽  
Nuclear Speckle ◽  
Dynamic Regulation ◽  
Intrinsically Disordered ◽  
The Impact

AbstractLiquid–liquid phase separation is considered a generic approach to organize membrane-less compartments, enabling the dynamic regulation of phase-separated assemblies to be investigated and pivotal roles of protein posttranslational modifications to be demonstrated. By surveying the subcellular localizations of human deubiquitylases, USP42 was identified to form nuclear punctate structures that are associated with phase separation properties. Bioinformatic analysis demonstrated that the USP42 C-terminal sequence was intrinsically disordered, which was further experimentally confirmed to confer phase separation features. USP42 is distributed to SC35-positive nuclear speckles in a positively charged C-terminal residue- and enzymatic activity-dependent manner. Notably, USP42 directs the integration of the spliceosome component PLRG1 into nuclear speckles, and its depletion interferes with the conformation of SC35 foci. Functionally, USP42 downregulation deregulates multiple mRNA splicing events and leads to deterred cancer cell growth, which is consistent with the impact of PLRG1 repression. Finally, USP42 expression is strongly correlated with that of PLRG1 in non-small-cell lung cancer samples and predicts adverse prognosis in overall survival. As a deubiquitylase capable of dynamically guiding nuclear speckle phase separation and mRNA splicing, USP42 inhibition presents a novel anticancer strategy by targeting phase separation.

Bulk standards for low-temperature biological x-ray microanalysis

1984 ◽  
Vol 42 ◽  
pp. 282-283
Author(s):  
P. Echlin ◽  
M. McKoon ◽  
E.S. Taylor ◽  
C.E. Thomas ◽  
K.L. Maloney ◽  
...  
Keyword(s):  
Phase Separation ◽  
Low Temperature ◽  
Analytical Method ◽  
Salt Solutions ◽  
Absolute Concentration ◽  
Cooling Process ◽  
X Ray ◽  
The Absolute ◽  
Analytical Procedures ◽  
Electrical Conductors

Although sections of frozen salt solutions have been used as standards for x-ray microanalysis, such solutions are less useful when analysed in the bulk form. They are poor thermal and electrical conductors and severe phase separation occurs during the cooling process. Following a suggestion by Whitecross et al we have made up a series of salt solutions containing a small amount of graphite to improve the sample conductivity. In addition, we have incorporated a polymer to ensure the formation of microcrystalline ice and a consequent homogenity of salt dispersion within the frozen matrix. The mixtures have been used to standardize the analytical procedures applied to frozen hydrated bulk specimens based on the peak/background analytical method and to measure the absolute concentration of elements in developing roots.

Phase separation in sol gel-derived ceramic films of silica-zirconia, alumina-zirconia, and titania-zirconia system

1994 ◽  
Vol 52 ◽  
pp. 646-647
Author(s):  
J. Tong ◽  
L. Eyring
Keyword(s):  
Fracture Toughness ◽  
Phase Separation ◽  
Sol Gel ◽  
Great Influence ◽  
High Strength ◽  
Chemical Durability ◽  
Separation Method ◽  
Toughening Mechanism ◽  
Ceramic Films ◽  
Zirconia Toughened Alumina

There is increasing interest in composites containing zirconia because of their high strength, fracture toughness, and its great influence on the chemical durability in glass. For the zirconia-silica system, monolithic glasses, fibers and coatings have been obtained. There is currently a great interest in designing zirconia-toughened alumina including exploration of the processing methods and the toughening mechanism.The possibility of forming nanocrystal composites by a phase separation method has been investigated in three systems: zirconia-alumina, zirconia-silica and zirconia-titania using HREM. The morphological observations initially suggest that the formation of nanocrystal composites by a phase separation method is possible in the zirconia-alumina and zirconia-silica systems, but impossible in the zirconia-titania system. The separation-produced grain size in silica-zirconia system is around 5 nm and is more uniform than that in the alumina-zirconia system in which the sizes of the small polyhedron grains are around 10 nm. In the titania-zirconia system, there is no obvious separation as was observed in die alumina-zirconia and silica-zirconia system.

Phase separation in fluid additive hard sphere mixtures?

1998 ◽  
Vol 95 (2) ◽  
pp. 131-135 ◽  
Author(s):  
DOUGLAS HENDERSON DEZSO BODA KWONG-YU CHAN
Keyword(s):  
Phase Separation ◽  
Hard Sphere

The plant response to heat requires phase separation

Nature ◽  
2020 ◽  
Vol 585 (7824) ◽  
pp. 191-192 ◽  
Author(s):  
Simon Alberti
Keyword(s):  
Phase Separation ◽  
Plant Response

Smectic a1 ↔ a2 transition of n_c-60.8 : a two-dimensional phase separation of the molecular endgroups

1989 ◽  
Vol 50 (3) ◽  
pp. 375-385 ◽  
Author(s):  
H. Fadel ◽  
D. Guillon ◽  
A. Skoulios ◽  
F. Barbarin ◽  
M. Dugay
Keyword(s):  
Phase Separation ◽  
Two Dimensional

Influence of Polymer Charge, Temperature, and Surfactants on Surface Sizing of Liner and Greaseproof Paper With Hydrophobically Modified Starch

TAPPI Journal ◽  
2009 ◽  
Vol 8 (2) ◽  
pp. 33-38 ◽  
Author(s):  
ANNA JONHED ◽  
LARS JÄRNSTRÖM
Keyword(s):  
Phase Separation ◽  
Contact Angles ◽  
Low Ph ◽  
Hydrophobically Modified ◽  
Paper Sizing ◽  
Surface Sizing ◽  
Separation Temperature ◽  
Hydrophobic Nature ◽  
Sizing Agents ◽  
Charge Temperature

The aim of this study was to investigate the properties of hydrophobically modified (HM) quaterna-ry ammonium starch ethers for paper sizing. These starches possess temperature-responsive properties; that is, gelation or phase separation occurs at a certain temperature upon cooling. This insolubility of the HM starches in water at room temperature improved their performance as sizing agents. The contact angles for water on sized liner were substantially larger than on unsized liner. When the application temperature was well above the critical phase-separation temperature, larger contact angles were obtained for liner independently of pH compared with those at the lower application temperature. Cobb60 values for liner decreased upon surface sizing, with a low pH and high application temperature giving lower water penetration. Contact angles on greaseproof paper decreased upon sur-face sizing as compared to unsized greaseproof paper, independently of pH and temperature. Greaseproof paper showed no great difference between unsized substrates and substrates sized with HM starch at different pH. This is probably due to the already hydrophobic nature of greaseproof paper. However, the Cobb60 values increased at low pH and low application temperature. Surfactants were added to investigate how they affect the sized surface. Addition of surfactant reduces the contact angles, in spite of indications of complex formation.

Ordering, phase separation, and phase transformations in Fe'M alloys

2006 ◽  
Vol 176 (6) ◽  
pp. 611 ◽  
Author(s):  
Yu.I. Ustinovshchikov ◽  
B.E. Pushkarev
Keyword(s):  
Phase Separation ◽  
Phase Transformations

Porous Gel Coatings Obtained by Phase Separation in ORMOSIL System

2000 ◽  
Vol 628 ◽  
Author(s):  
Kazuki Nakanishi ◽  
Souichi Kumon ◽  
Kazuyuki Hirao ◽  
Hiroshi Jinnai
Keyword(s):  
Phase Separation ◽  
Reaction Time ◽  
Volume Fraction ◽  
Sol Gel ◽  
Reaction Times ◽  
Dip Coating ◽  
Coating Solution ◽  
Coating Method ◽  
Gel Phase ◽  
Dip Coating Method

ABSTRACTMacroporous silicate thick films were prepared by a sol-gel dip-coating method accompanied by the phase separation using methyl-trimethoxysilane (MTMS), nitric acid and dimethylformamide (DMF) as starting components. The morphology of the film varied to a large extent depending on the time elapsed after the hydrolysis until the dipping of the coating solution. On a glass substrate, the films prepared by early dipping had inhomogeneous submicrometer-sized pores on the surface of the film. At increased reaction times, relatively narrow sized isolated macropores were observed and their size gradually decreased with the increase of reaction time. On a polyester substrate, in contrast, micrometer-sized isolated spherical gel domains were homogeneously deposited by earlier dippings. With an increase of reaction time, the volume fraction of the gel phase increased, then the morphology of the coating transformed into co-continuous gel domains and macropores, and finally inverted into the continuous gel domains with isolated macropores. The overall morphological variation with the reaction time was explained in terms of the phase separation and the structure freezing by the forced gelation, both of which were induced by the evaporation of methanol during the dipping operation.

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