Biochemical Principles in Prion-Based Inheritance

García, Dolores Brandis

doi:10.3390/epigenomes6010004

Cited by 6 publications

(9 citation statements)

References 83 publications

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“…However, the first discovered and well-characterized prion protein, human PrP, also does not contain typical Q/N-rich regions. Other yeast prion-forming proteins linked to the [ ISP + ], [ MOD + ], [ GAR + ], [ ESI + ] and [ BIG + ] phenotypes are also atypical in this context 73 . These atypical prions are poorly conserved in their linear amino acid sequence, but commonly contain intrinsically disordered regions (IDRs) which serve as PrDs to endow the proteins with prion-like behavior.…”

Section: Discussionmentioning

confidence: 99%

Prion-like characteristics of Hepatitis E virus ORF3 protein are associated with virus release and pathogenesis

Wang

Tian

Shi

et al. 2023

Preprint

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Hepatitis E virus (HEV) is a common causative agent of acute hepatitis. Due to the shortage of efficient in vitro model, the viral assembly and release processes are still poorly understood. In this study, we found that ORF3, an HEV structural protein showed prion-like properties. The prion domain (PrD) of yeast prion Sup35 could be functionally replaced by HEV-ORF3 and its candidate PrD (cPrD). A single amino acid substitution in the cPrD reduced the aggregation propensity of ORF3 and blocked the function of ORF3 in enhancing the stability of microtubules in HEV-infected cells, thus blocking virion release from the infected cells and resulting in reduced HEV pathogenicity in Mongolian gerbils. These data suggest that HEV-ORF3 is a novel functional prion-like protein which assembles into a filamentous structure for virion release, supporting the hypothesis that the self-propagating properties of prion proteins are widely exploited as epigenetic information carriers in nature.

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Section: Discussionmentioning

confidence: 99%

Prion-like characteristics of Hepatitis E virus ORF3 protein are associated with virus release and pathogenesis

Wang

Tian

Shi

et al. 2023

Preprint

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“…Protein conformers (protein isoforms that adopt different 3D conformations) connect genotype and environment and could possibly provide protein-based memory (24). Amyloid aggregateforming prions harbor low-complexity protein regions, enriched in glutamine/asparagine (Q/N) residues, or short amyloid-prone sequences in their prion domains (PrDs) that can propagate prion conformers (95).…”

Section: Swi/snf Conformers and Prion-like Domainsmentioning

confidence: 99%

The Role and Activity of SWI/SNF Chromatin Remodelers

Bieluszewski

Prakash

Roulé

et al. 2023

Annu. Rev. Plant Biol.

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SWITCH deficient SUCROSE NONFERMENTING (SWI/SNF) class chromatin remodeling complexes (CRCs) use the energy derived from ATP hydrolysis to facilitate access of proteins to the genomic DNA for transcription, replication, and DNA repair. Uniquely, SWI/SNF CRCs can both slide the histone octamer along the DNA or eject it from the DNA. Given their ability to change the chromatin status quo, SWI/SNF remodelers are critical for cell fate reprogramming with pioneer and other transcription factors, for responses to environmental challenges, and for disease prevention. Recent cryo-electron microscopy and mass spectrometry approaches have uncovered different subtypes of SWI/SNF complexes with unique properties and functions. At the same time, tethering or rapid depletion and inactivation of SWI/SNF have provided novel insight into SWI/SNF requirements for enhancer activity and into balancing chromatin compaction and accessibility in concert with Polycomb complexes. Given their importance, SWI/SNF recruitment to genomic locations by transcription factors and their biochemical activity is tightly controlled. This review focuses on recent advances in our understanding of SWI/SNF CRCs in animals and plants and discusses the multiple nuclear and biological roles of SWI/SNF CRCs and how SWI/SNF activity is altered by complex subunit composition, posttranslational modifications, and the chromatin context to support proper development and response to extrinsic cues. Expected final online publication date for the Annual Review of Plant Biology, Volume 74 is May 2023. Please see http://www.annualreviews.org/page/journal/pubdates for revised estimates.

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“…Recently, Dennis and Garcia reviewed both amyloid-forming and non-amyloid-forming prions. 20 Prions can be sustained for many generations. 21 An individual protein that contributes to the prion aggregate is called a "prion protein," and a distinct protein domain that is responsible for prion aggregation is called a prion domain (PrD).…”

Section: Amyloids and Prionsmentioning

confidence: 99%

“…While some proteins can be prions without being amyloid‐based, like intrinsically disordered RNA‐binding proteins in Saccharomyces cerevisiae , 19 here we focus on amyloid‐based prions. Recently, Dennis and Garcia reviewed both amyloid‐forming and non‐amyloid‐forming prions 20 …”

Section: Introductionmentioning

confidence: 99%

Conserved functions of prion candidates suggest a primeval role of protein self‐templating

et al. 2023

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Amyloid‐based prions have simple structures, a wide phylogenetic distribution, and a plethora of functions in contemporary organisms, suggesting they may be an ancient phenomenon. However, this hypothesis has yet to be addressed with a systematic, computational, and experimental approach. Here we present a framework to help guide future experimental verification of candidate prions with conserved functions to understand their role in the early stages of evolution and potentially in the origins of life. We identified candidate prions in all high‐quality proteomes available in UniProt computationally, assessed their phylogenomic distributions, and analyzed candidate‐prion functional annotations. Of the 27 980 560 proteins scanned, 228 561 were identified as candidate prions (~0.82%). Among these candidates, there were 84 Gene Ontology (GO) terms conserved across the three domains of life. We found that candidate prions with a possible role in adaptation were particularly well‐represented within this group. We discuss unifying features of candidate prions to elucidate the primeval roles of prions and their associated functions. Candidate prions annotated as transcription factors, DNA binding, and kinases are particularly well suited to generating diverse responses to changes in their environment and could allow for adaptation and population expansion into more diverse environments. We hypothesized that a relationship between these functions and candidate prions could be evolutionarily ancient, even if individual prion domains themselves are not evolutionarily conserved. Candidate prions annotated with these universally occurring functions potentially represent the oldest extant prions on Earth and are therefore excellent experimental targets.

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Biochemical Principles in Prion-Based Inheritance

Cited by 6 publications

References 83 publications

Prion-like characteristics of Hepatitis E virus ORF3 protein are associated with virus release and pathogenesis

Prion-like characteristics of Hepatitis E virus ORF3 protein are associated with virus release and pathogenesis

The Role and Activity of SWI/SNF Chromatin Remodelers

Conserved functions of prion candidates suggest a primeval role of protein self‐templating

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