Reviewer #1 (Public Review): SERBP1 interacts with PARP1 and is present in PARylation-dependent protein complexes regulating splicing, cell division, and ribosome biogenesis DOI Open Access

Published: July 2, 2024

RNA binding proteins (RBPs) containing intrinsically disordered regions (IDRs) are present in diverse molecular complexes where they function as dynamic regulators. Their characteristics promote liquid-liquid phase separation (LLPS) and the formation of membraneless organelles such stress granules nucleoli. IDR-RBPs particularly relevant nervous system their dysfunction is associated with neurodegenerative diseases brain tumor development. SERBP1 a unique member this group, being mostly lacking canonical RNA-binding domains. Using proteomics approach followed by functional analysis, we defined SERBP1's interactome. We uncovered novel roles splicing, cell division, ribosomal biogenesis showed its participation pathological Tau aggregates Alzheimer's disease brains. preferentially interacts other G-quadruplex (G4) binders, implicated different stages gene expression, suggesting that G4 critical component settings. Similarly, identified important associations between PARP1/polyADP-ribosylation (PARylation). PARP1 factors influences PARylation. Moreover, protein which participates contain PARylated PAR binders. Based on these results, propose feedback regulatory model PARylation, while PARylation modulates functions complexes.

Language: Английский

SERBP1 interacts with PARP1 and is present in PARylation-dependent protein complexes regulating splicing, cell division, and ribosome biogenesis DOI Creative Commons

Kira Breunig,

X. Lei,

Mauro Montalbano

et al.

eLife, Journal Year: 2025, Volume and Issue: 13

Published: Feb. 12, 2025

RNA binding proteins (RBPs) containing intrinsically disordered regions (IDRs) are present in diverse molecular complexes where they function as dynamic regulators. Their characteristics promote liquid-liquid phase separation (LLPS) and the formation of membraneless organelles such stress granules nucleoli. IDR-RBPs particularly relevant nervous system their dysfunction is associated with neurodegenerative diseases brain tumor development. Serpine1 mRNA-binding protein 1 (SERBP1) a unique member this group, being mostly lacking canonical RNA-binding domains. We defined SERBP1’s interactome, uncovered novel roles splicing, cell division ribosomal biogenesis, showed its participation pathological Tau aggregates Alzheimer’s brains. SERBP1 preferentially interacts other G-quadruplex (G4) binders, implicated different stages gene expression, suggesting that G4 critical component settings. Similarly, we identified important associations between PARP1/polyADP-ribosylation (PARylation). PARP1 factors influences PARylation. Moreover, which participates contain PARylated PAR binders. Based on these results, propose feedback regulatory model PARylation, while PARylation modulates functions complexes.

Language: Английский

Citations

1
Protein-based delivery systems for RNA delivery DOI

Haichao Zhu,

Hong Luo,

Ruilong Chang

et al.

Journal of Controlled Release, Journal Year: 2023, Volume and Issue: 363, P. 253 - 274

Published: Sept. 28, 2023

Language: Английский

Citations

19
SERBP1 interacts with PARP1 and is present in PARylation-dependent protein complexes regulating splicing, cell division, and ribosome biogenesis DOI Open Access

Kira Breunig,

Xiufen Lei,

Mauro Montalbano

et al.

Published: Jan. 6, 2025

RNA binding proteins (RBPs) containing intrinsically disordered regions (IDRs) are present in diverse molecular complexes where they function as dynamic regulators. Their characteristics promote liquid-liquid phase separation (LLPS) and the formation of membraneless organelles such stress granules nucleoli. IDR-RBPs particularly relevant nervous system their dysfunction is associated with neurodegenerative diseases brain tumor development. Serpine1 mRNA-binding protein 1 (SERBP1) a unique member this group, being mostly lacking canonical RNA-binding domains. We defined SERBP1’s interactome, uncovered novel roles splicing, cell division ribosomal biogenesis, showed its participation pathological Tau aggregates Alzheimer’s brains. SERBP1 preferentially interacts other G-quadruplex (G4) binders, implicated different stages gene expression, suggesting that G4 critical component settings. Similarly, we identified important associations between PARP1/polyADP-ribosylation (PARylation). PARP1 factors influences PARylation. Moreover, which participates contain PARylated PAR binders. Based on these results, propose feedback regulatory model PARylation, while PARylation modulates functions complexes.

Language: Английский

Citations

0
RNA BINDING PROTEINS (RBPs) ON GENETIC STABILITY AND DISEASES DOI Creative Commons
Abdullahi Tunde Aborode, Ohilebo Abdulateef Abass,

Shaibu Nasiru

et al.

Global Medical Genetics, Journal Year: 2025, Volume and Issue: 12(1), P. 100032 - 100032

Published: Jan. 21, 2025

RNA-binding proteins (RBPs) are integral components of cellular machinery, playing crucial roles in the regulation gene expression and maintaining genetic stability. Their interactions with RNA molecules govern critical processes such as mRNA splicing, stability, localization, translation, which essential for proper function. These interact other to form ribonucleoprotein complexes (RNPs), hence controlling fate target RNAs. The interaction occurs via recognition motif, zinc finger domain, KH domain double stranded binding motif (all known domains (RBDs). found within coding sequences (intron exon domains), 5' untranslated regions (5'UTR) 3' (3'UTR). Dysregulation RBPs can lead genomic instability, contributing various pathologies, including cancer neurodegenerative diseases, metabolic disorders. This study comprehensively explores multifaceted highlighting their involvement integrity through modulation processing implications signalling pathways. Furthermore, it discusses how aberrant RBP function precipitate instability disease progression, emphasizing therapeutic potential targeting restoring homeostasis. Through an analysis current literature, this aims delineate role ensuring stability promise targets innovative strategies.

Language: Английский

Citations

0
2′-19F labelling of ribose in RNAs: a tool to analyse RNA/protein interactions by NMR in physiological conditions DOI Creative Commons

Hesna Kara,

Alexander Axer,

Frederick W. Muskett

et al.

Frontiers in Molecular Biosciences, Journal Year: 2024, Volume and Issue: 11

Published: Feb. 14, 2024

Protein-RNA interactions are central to numerous cellular processes. In this work, we present an easy and straightforward NMR-based approach determine the RNA binding site of proteins evaluate pairs a single-stranded (ssRNA) under physiological conditions, in case nuclear extracts. By incorporation 19F atom on ribose different nucleotides along ssRNA sequence, show that, upon addition protein, intensity NMR signal changes when is located near protein site. Furthermore, that containing two atoms at locations informs their concurrent or competition. We demonstrate such studies can be done extract mimics environment which these protein-ssRNA occur. Finally, trifluoromethoxy group (-OCF3) incorporated 2'ribose position sequences increases sensitivity signal, leading decreased measurement times, reduces issue degradation

Language: Английский

Citations

1
RNA-binding proteins potentially regulate the alternative splicing of apoptotic genes during knee osteoarthritis progression DOI Creative Commons
Zheng Zhang,

Limei Dong,

Hai Tao

et al.

BMC Genomics, Journal Year: 2024, Volume and Issue: 25(1)

Published: March 19, 2024

Abstract Background Alternative splicing (AS) is a principal mode of genetic regulation and one the most widely used mechanisms to generate structurally functionally distinct mRNA protein variants. Dysregulation AS may result in aberrant transcription products, leading emergence human diseases. Although considered important for regulating gene expression, genome-wide dysregulation, underlying mechanisms, clinical relevance knee osteoarthritis (OA) remain unelucidated. Therefore, this study, we elucidated validated events their regulatory during OA progression. Results In identified differentially expressed genes between healthy meniscus samples. Among them, OA-associated were primarily enriched biological pathways such as extracellular matrix organization ossification. The predominant regulated (RAS) found be involved apoptosis development. expression apoptosis-related BCL2L13, XAF1, NF2 significantly different construction covariation network RNA-binding proteins (RBPs) RAS revealed that RBP LAMA2 CUL4B regulate apoptotic XAF1 BCL2L13 undergo Finally, RT-qPCR was higher samples than normal controls ratio control samples; these findings consistent with expected relationships. Conclusions Differentially RBPs its regulator, CUL4B, serve novel biomarkers potential therapeutic targets disease.

Language: Английский

Citations

1
SERBP1 interacts with PARP1 and is present in PARylation-dependent protein complexes regulating splicing, cell division, and ribosome biogenesis DOI Open Access

Kira Breunig,

Xiufen Lei,

Mauro Montalbano

et al.

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2024, Volume and Issue: unknown

Published: March 25, 2024

ABSTRACT RNA binding proteins (RBPs) containing intrinsically disordered regions (IDRs) are present in diverse molecular complexes where they function as dynamic regulators. Their characteristics promote liquid-liquid phase separation (LLPS) and the formation of membraneless organelles such stress granules nucleoli. IDR-RBPs particularly relevant nervous system their dysfunction is associated with neurodegenerative diseases brain tumor development. Serpine1 mRNA-binding protein 1 (SERBP1) a unique member this group, being mostly lacking canonical RNA-binding domains. We defined SERBP1’s interactome, uncovered novel roles splicing, cell division ribosomal biogenesis, showed its participation pathological Tau aggregates Alzheimer’s brains. SERBP1 preferentially interacts other G-quadruplex (G4) binders, implicated different stages gene expression, suggesting that G4 critical component settings. Similarly, we identified important associations between PARP1/polyADP-ribosylation (PARylation). PARP1 factors influences PARylation. Moreover, which participates contain PARylated PAR binders. Based on these results, propose feedback regulatory model PARylation, while PARylation modulates functions complexes.

Language: Английский

Citations

1
SERBP1 interacts with PARP1 and is present in PARylation-dependent protein complexes regulating splicing, cell division, and ribosome biogenesis DOI Creative Commons

Kira Breunig,

Xiufen Lei,

Mauro Montalbano

et al.

eLife, Journal Year: 2024, Volume and Issue: unknown

Published: July 2, 2024

RNA binding proteins (RBPs) containing intrinsically disordered regions (IDRs) are present in diverse molecular complexes where they function as dynamic regulators. Their characteristics promote liquid-liquid phase separation (LLPS) and the formation of membraneless organelles such stress granules nucleoli. IDR-RBPs particularly relevant nervous system their dysfunction is associated with neurodegenerative diseases brain tumor development. Serpine1 mRNA-binding protein 1 (SERBP1) a unique member this group, being mostly lacking canonical RNA-binding domains. We defined SERBP1's interactome, uncovered novel roles splicing, cell division ribosomal biogenesis, showed its participation pathological Tau aggregates Alzheimer's brains. SERBP1 preferentially interacts other G-quadruplex (G4) binders, implicated different stages gene expression, suggesting that G4 critical component settings. Similarly, we identified important associations between PARP1/polyADP-ribosylation (PARylation). PARP1 factors influences PARylation. Moreover, which participates contain PARylated PAR binders. Based on these results, propose feedback regulatory model PARylation, while PARylation modulates functions complexes.

Language: Английский

Citations

1
RBPs: an RNA editor’s choice DOI Creative Commons

Ivo Fierro-Monti

Frontiers in Molecular Biosciences, Journal Year: 2024, Volume and Issue: 11

Published: Aug. 6, 2024

RNA-binding proteins (RBPs) play a key role in gene expression and post-transcriptional RNA regulation. As integral components of ribonucleoprotein complexes, RBPs are susceptible to genomic Editing derived amino acid substitutions, impacting functional interactions. This article explores the prevalent RBPs, unravelling complex interplay between events. Emphasis is placed on their influence single variants (SAAVs) implications for disease development. The Proteogenomics identifying SAAVs briefly discussed, offering insights into RBP landscape. within emerges as promising target precision medicine, reshaping our understanding genetic epigenetic variations health disease.

Language: Английский

Citations

1
Discovering common pathogenetic processes between tuberculosis and COVID-19 by bioinformatics and system biology approach DOI Creative Commons
Xin Liu, Haoran Li, Yilin Wang

et al.

Heliyon, Journal Year: 2024, Volume and Issue: 10(7), P. e28664 - e28664

Published: March 27, 2024

BackgroundSARS-CoV-2, the cause of COVID-19 pandemic, poses a significant threat to humanity. Individuals with pulmonary tuberculosis (PTB) are at increased risk developing severe COVID-19, due long-term lung damage that heightens their susceptibility full-blown disease.MethodsThree datasets (GSE157103, GSE166253, and GSE171110) one PTB dataset (GSE83456) were obtained from Gene Expression Omnibus databases. Subsequently, data subjected weighted gene co-expression network analysis(WGCNA)followed by functional enrichment analysis using Ontology (GO) Kyoto Encyclopedia Genes Genomes (KEGG) pathway These analyses revealed two overlapping disease-specific modules, each comprising co-regulated genes potentially related biological functions. Using Cytoscape, we visualised interaction containing common disease-related found within intersection between modules predicted transcription factors (TFs). Real-time qPCR was conducted quantify expression levels these in blood samples patients. Finally, DisGeNET Drug Signatures database employed analyze genes, unveiling connections clinical disease features potential drug treatments.ResultsExamination overlap unveiled 11 genes. Functional KEGG GO shed light on relationships among providing insights into roles heightened mortality patients SARS-CoV-2 infection. Furthermore, results various bioinformatics-based TFs target led identification shared pathways therapeutic targets for along treatments patients.ConclusionOur connection PTB, as supported highlighted processes signaling both diseases. Building findings, propose pending verification safety efficacy through laboratory multicentre studies before use.

Language: Английский

Citations

0