Rational Tuning of the Concentration-independent Enrichment of Prion-like Domains in Stress Granules

[Display omitted] •Determinants of PrLD recruitment to SGs have not been fully characterized.•Non-aromatic hydrophobic residues tune PrLD recruitment to SGs.•PrLD concentration has little or no effect on SG recruitment.•PrLDs offer a synthetic biology toolkit for tunable targeting to SGs.•PrLD recru...

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Veröffentlicht in:Journal of molecular biology 2024-09, Vol.436 (18), p.168703, Article 168703
Hauptverfasser: Baer, Matthew H., Cascarina, Sean M., Paul, Kacy R., Ross, Eric D.
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container_issue 18
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container_title Journal of molecular biology
container_volume 436
creator Baer, Matthew H.
Cascarina, Sean M.
Paul, Kacy R.
Ross, Eric D.
description [Display omitted] •Determinants of PrLD recruitment to SGs have not been fully characterized.•Non-aromatic hydrophobic residues tune PrLD recruitment to SGs.•PrLD concentration has little or no effect on SG recruitment.•PrLDs offer a synthetic biology toolkit for tunable targeting to SGs.•PrLD recruitment to SGs is consistent with concentration-independent partitioning. Stress granules (SGs) are large ribonucleoprotein assemblies that form in response to acute stress in eukaryotes. SG formation is thought to be initiated by liquid–liquid phase separation (LLPS) of key proteins and RNA. These molecules serve as a scaffold for recruitment of client molecules. LLPS of scaffold proteins in vitro is highly concentration-dependent, yet biomolecular condensates in vivo contain hundreds of unique proteins, most of which are thought to be clients rather than scaffolds. Many proteins that localize to SGs contain low-complexity, prion-like domains (PrLDs) that have been implicated in LLPS and SG recruitment. The degree of enrichment of proteins in biomolecular condensates such as SGs can vary widely, but the underlying basis for these differences is not fully understood. Here, we develop a toolkit of model PrLDs to examine the factors that govern efficiency of PrLD recruitment to stress granules. Recruitment was highly sensitive to amino acid composition: enrichment in SGs could be tuned through subtle changes in hydrophobicity. By contrast, SG recruitment was largely insensitive to PrLD concentration at both a population level and single-cell level. These observations point to a model wherein PrLDs are enriched in SGs through either simple solvation effects or interactions that are effectively non-saturable even at high expression levels.
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Stress granules (SGs) are large ribonucleoprotein assemblies that form in response to acute stress in eukaryotes. SG formation is thought to be initiated by liquid–liquid phase separation (LLPS) of key proteins and RNA. These molecules serve as a scaffold for recruitment of client molecules. LLPS of scaffold proteins in vitro is highly concentration-dependent, yet biomolecular condensates in vivo contain hundreds of unique proteins, most of which are thought to be clients rather than scaffolds. Many proteins that localize to SGs contain low-complexity, prion-like domains (PrLDs) that have been implicated in LLPS and SG recruitment. The degree of enrichment of proteins in biomolecular condensates such as SGs can vary widely, but the underlying basis for these differences is not fully understood. Here, we develop a toolkit of model PrLDs to examine the factors that govern efficiency of PrLD recruitment to stress granules. Recruitment was highly sensitive to amino acid composition: enrichment in SGs could be tuned through subtle changes in hydrophobicity. By contrast, SG recruitment was largely insensitive to PrLD concentration at both a population level and single-cell level. 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Stress granules (SGs) are large ribonucleoprotein assemblies that form in response to acute stress in eukaryotes. SG formation is thought to be initiated by liquid–liquid phase separation (LLPS) of key proteins and RNA. These molecules serve as a scaffold for recruitment of client molecules. LLPS of scaffold proteins in vitro is highly concentration-dependent, yet biomolecular condensates in vivo contain hundreds of unique proteins, most of which are thought to be clients rather than scaffolds. Many proteins that localize to SGs contain low-complexity, prion-like domains (PrLDs) that have been implicated in LLPS and SG recruitment. The degree of enrichment of proteins in biomolecular condensates such as SGs can vary widely, but the underlying basis for these differences is not fully understood. Here, we develop a toolkit of model PrLDs to examine the factors that govern efficiency of PrLD recruitment to stress granules. Recruitment was highly sensitive to amino acid composition: enrichment in SGs could be tuned through subtle changes in hydrophobicity. By contrast, SG recruitment was largely insensitive to PrLD concentration at both a population level and single-cell level. These observations point to a model wherein PrLDs are enriched in SGs through either simple solvation effects or interactions that are effectively non-saturable even at high expression levels.</description><subject>amino acid composition</subject><subject>biomolecular condensate</subject><subject>Biomolecular Condensates - chemistry</subject><subject>Biomolecular Condensates - metabolism</subject><subject>Cytoplasmic Granules - chemistry</subject><subject>Cytoplasmic Granules - metabolism</subject><subject>eukaryotic cells</subject><subject>Humans</subject><subject>Hydrophobic and Hydrophilic Interactions</subject><subject>hydrophobicity</subject><subject>intrinsically disordered region</subject><subject>liquid–liquid phase separation</subject><subject>molecular biology</subject><subject>prion-like domain</subject><subject>Prions - chemistry</subject><subject>Prions - metabolism</subject><subject>Protein Domains</subject><subject>ribonucleoproteins</subject><subject>Ribonucleoproteins - chemistry</subject><subject>Ribonucleoproteins - metabolism</subject><subject>RNA</subject><subject>separation</subject><subject>solvation</subject><subject>stress granule</subject><subject>Stress Granules - metabolism</subject><issn>0022-2836</issn><issn>1089-8638</issn><issn>1089-8638</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2024</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNqFkU9P3DAQxS3UqmwpH4BL5WMv2Y7_riNO1UIBCamIwtlKnHHxkjhbO0Hqt8fbBY7tZWak95t3eI-QEwZLBkx_3Sw3Q7vkwOWSabMCcUAWDExdGS3MO7IA4LziRuhD8jHnDQAoIc0HcihqAMm1WpDutpnCGJue3s0xxF909HR6QLoeo8M4pb9qFWKHWywjTvQ8puAeht1Z2Ju00_vwiPRsHJoQMw2R_pwS5kwvUhPnHvMn8t43fcbjl31E7r-f360vq-sfF1frb9eV49pMlWRSe4FOCuEYV6iYR8cAPfdKGo8r41tRq84p53zNObatYKDqQtS8VUIckS97320af8-YJzuE7LDvm4jjnK1gSmglRc3_j4IBLSRf1QVle9SlMeeE3m5TGJr0xzKwux7sxpYe7K4Hu--h_Hx-sZ_bAbu3j9fgC3C6B7Dk8RQw2ewClsy7kNBNthvDP-yfASm5mLI</recordid><startdate>20240915</startdate><enddate>20240915</enddate><creator>Baer, Matthew H.</creator><creator>Cascarina, Sean M.</creator><creator>Paul, Kacy R.</creator><creator>Ross, Eric D.</creator><general>Elsevier Ltd</general><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7X8</scope><scope>7S9</scope><scope>L.6</scope></search><sort><creationdate>20240915</creationdate><title>Rational Tuning of the Concentration-independent Enrichment of Prion-like Domains in Stress Granules</title><author>Baer, Matthew H. ; 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Stress granules (SGs) are large ribonucleoprotein assemblies that form in response to acute stress in eukaryotes. SG formation is thought to be initiated by liquid–liquid phase separation (LLPS) of key proteins and RNA. These molecules serve as a scaffold for recruitment of client molecules. LLPS of scaffold proteins in vitro is highly concentration-dependent, yet biomolecular condensates in vivo contain hundreds of unique proteins, most of which are thought to be clients rather than scaffolds. Many proteins that localize to SGs contain low-complexity, prion-like domains (PrLDs) that have been implicated in LLPS and SG recruitment. The degree of enrichment of proteins in biomolecular condensates such as SGs can vary widely, but the underlying basis for these differences is not fully understood. Here, we develop a toolkit of model PrLDs to examine the factors that govern efficiency of PrLD recruitment to stress granules. 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ispartof Journal of molecular biology, 2024-09, Vol.436 (18), p.168703, Article 168703
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subjects amino acid composition
biomolecular condensate
Biomolecular Condensates - chemistry
Biomolecular Condensates - metabolism
Cytoplasmic Granules - chemistry
Cytoplasmic Granules - metabolism
eukaryotic cells
Humans
Hydrophobic and Hydrophilic Interactions
hydrophobicity
intrinsically disordered region
liquid–liquid phase separation
molecular biology
prion-like domain
Prions - chemistry
Prions - metabolism
Protein Domains
ribonucleoproteins
Ribonucleoproteins - chemistry
Ribonucleoproteins - metabolism
RNA
separation
solvation
stress granule
Stress Granules - metabolism
title Rational Tuning of the Concentration-independent Enrichment of Prion-like Domains in Stress Granules
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