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Fibrillarin homologs are required for divergent cell lineage development by translational regulation in planarian homeostasis and regeneration

ABSTRACT: Fibrillarin homologs are required for divergent cell lineage development by translational regulation in planarian homeostasis and regeneration

PROVIDER: PRJNA1075694 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR27947600.fastq.gz	Fastqsanger.gz
	SRR27947601.fastq.gz	Fastqsanger.gz
	SRR27947590.fastq.gz	Fastqsanger.gz
	SRR27947591.fastq.gz	Fastqsanger.gz
	SRR27947592.fastq.gz	Fastqsanger.gz

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Similar Datasets

Fibrillarin homologs are required for divergent cell lineage development by translational regulation in planarian homeostasis and regeneration [RiboMeth-Seq]

Project description:Fibrillarin homologs are required for divergent cell lineage development by translational regulation in planarian homeostasis and regeneration [RiboMeth-Seq]

| PRJNA1075681 | ENA

Fibrillarin homologs are required for divergent cell lineage development by translational regulation in planarian homeostasis and regeneration [Ribo-seq]

Project description:Fibrillarin homologs are required for divergent cell lineage development by translational regulation in planarian homeostasis and regeneration [Ribo-seq]

| PRJNA1083472 | ENA

Fibrillarin homologs are required for divergent cell lineage development by translational regulation in planarian homeostasis and regeneration [RiboMeth-Seq]

Project description:Translational regulation in adult regenerative tissue remains unclear. Planarians, renowned for remarkable cell turnover and tissue regeneration capabilities, are regenerative flatworms that provide an ideal model to address the gap in knowledge between translational control and cell turnover during adult tissue homeostasis and regeneration. Fibrillarin (FBL) is an RNA 2-O’-methyltransferase crucial for rRNA processing, playing a pivotal role in translational regulation. We explored this in planarian Schmidtea mediterranea and identified two FBL homologs: Smed-fbl-1 (fbl-1) and Smed-fbl-2 (fbl-2) are essential for homeostasis and regeneration, but have distinct roles. fbl-1 is enriched in neoblasts and essential for multiple progenitor cell differentiation. Conversely, fbl-2 is expressed in egr5+ epidermal progenitors, crucial for late-stage epidermal lineage specification. Knockdown (KD) of fbl-1 and fbl-2 resulted in different 2-O’-methylation patterns, suggesting their influence on specific mRNA translation during regeneration. Riboseq analysis revealed that fbl-1 KD reduced the translation of genes associated with alternative splicing, cell cycle, and DNA replication, while fbl-2 KD reduced the translation of genes related to protein stability. Interestingly, fbl-2+ cells spatially correlated with wnt-1+ cells, hinting at fbl-2’s role in its localization. Our study indicated that duplicate fbl genes may have a compensatory role in the development of specific cell lineages. This finding underscores the significance of rRNA modification in translation regulation during the maintenance and regeneration of adult tissues.

2024-11-13 | GSE255590 | GEO

Fibrillarin homologs are required for divergent cell lineage development by translational regulation in planarian homeostasis and regeneration [Ribo-seq]

2024-11-13 | GSE255594 | GEO

Fibrillarin homologs regulate translation in divergent cell lineages during planarian homeostasis and regeneration.

Project description:Tissue homeostasis and regeneration involve complex cellular changes. The role of rRNA modification-dependent translational regulation in these processes remains largely unknown. Planarians, renowned for their ability to undergo remarkable tissue regeneration, provide an ideal model for the analysis of differential rRNA regulation in diverse cell types during tissue homeostasis and regeneration. We investigated the role of RNA 2'-O-methyltransferase, Fibrillarin (FBL), in the planarian Schmidtea mediterranea and identified two FBL homologs: Smed-fbl-1 (fbl-1) and Smed-fbl-2 (fbl-2). Both are essential for planarian regeneration, but play distinct roles: fbl-1 is crucial for progenitor cell differentiation, while fbl-2 is important for late-stage epidermal lineage specification. Different 2'-O-methylation patterns were observed upon fbl-1 and fbl-2 knockdown, suggesting their roles in translation of specific mRNA pools during regeneration. Ribo-seq analysis further revealed differing impacts of fbl-1 and fbl-2 knockdown on gene translation. These findings indicate divergent roles of the duplicate fbl genes in specific cell lineage development in planarians and suggest a role of rRNA modifications in translational regulation during tissue maintenance and regeneration.

| S-EPMC11649923 | biostudies-literature

Fibrillarin homologs are required for divergent cell lineage development by translational regulation in planarian homeostasis and regeneration

Project description:This SuperSeries is composed of the SubSeries listed below.

2024-11-13 | GSE255595 | GEO

Fibrillarin homologs regulate translation in divergent cell lineages during planarian homeostasis and regeneration

Project description:Abstract: Tissue homeostasis and regeneration involve complex cellular changes. The role of rRNA modification-dependent translational regulation in these processes remains largely unknown. Planarians, renowned for their ability to undergo remarkable tissue regeneration, provide an ideal model for the analysis of differential rRNA regulation in diverse cell types during tissue homeostasis and regeneration. We investigated the role of RNA 2'-O-methyltransferase, Fibrillarin (FBL), in the planarian Schmidtea mediterranea and identified two FBL homologs: Smed-fbl-1 (fbl-1) and Smed-fbl-2 (fbl-2). Both are essential for planarian regeneration, but play distinct roles: fbl-1 is crucial for progenitor cell differentiation, while fbl-2 is important for late-stage epidermal lineage specification. Different 2'-O-methylation patterns were observed upon fbl-1 and fbl-2 knockdown, suggesting their roles in translation of specific mRNA pools during regeneration. Ribo-seq analysis further revealed differing impacts of fbl-1 and fbl-2 knockdown on gene translation. These findings indicate divergent roles of the duplicate fbl genes in specific cell lineage development in planarians and suggest a role of rRNA modifications in translational regulation during tissue maintenance and regeneration.

| S-SCDT-10_1038-S44318-024-00315-X | biostudies-other

Fibrillarin RIP-seq in PA1 cells

Project description:We have used fibrillarin RIP-seq to explore snoRNA related transcripts in PA1 cells.

2016-10-13 | GSE85852 | GEO

Large-scale, quantitative proteomics reveals key proteins required for planarian regeneration initiation

Project description:Multi-omics studies are increasingly used to decipher the mechanisms underlying tissue regeneration. However, the use of proteomics for such studies has been limited due to the high cost and relatively low throughput and reproducibility. The genes required for planarian regeneration have primarily been identified based on changes in mRNA transcripts; previous studies have not addressed the possibility of protein upregulation prior to detectable increases in transcript abundance during the early stages of planarian regeneration. Here, we used in-depth high-throughput proteomics approaches to analyze the model planarian Schmidtea mediterranea during regeneration and discovered 13 proteins that are essential regulators of key regeneration steps. Two of these proteins, Troponin T and MRPL18, are key regulators of regeneration initiation and showed increases in protein abundance prior to upregulation at the mRNA level. Extensive comparisons between proteomic and transcriptomic datasets suggested the critical mechanisms beyond the transcriptional level, such as the translational and post-translational levels. In summary, this study revealed key regulators of regeneration in a model organism; furthermore, it established an adaptable spectral library and comprehensive proteomics datasets, enabling future in-depth and multi-omics analyses of planarian biology.

2025-05-18 | GSE232894 | GEO

Functional divergence of TBP homologs through distinct DNA binding dynamics

Project description:The TATA box-binding protein (TBP) is an evolutionarily conserved basal transcription factor common in the pre-initiation complex of all three eukaryotic RNA polymerases (RNA Pols). Despite their high conservation, homologous TBPs exhibit species- and tissue-specific functions that may contribute to the increasingly complex gene expression regulation across evolutionary time. To determine the molecular mechanisms of species- and tissue-specificity for homologous TBPs, we examined the ability of yeast TBP and murine TBP paralogs to replace the endogenous TBP in mouse embryonic stem cells. We show that, despite the high conservation in the DNA binding domain among the homologs, they cannot fully rescue the lethality of TBP depletion in mESCs, largely due to their inability to support RNA Pol III transcription. Furthermore, we show that the homologs differentially support stress-induced transcription reprogramming, with the divergent N-terminal domain playing a role in modulating changes in transcriptional response. Lastly, we show that the homologs have vastly different DNA binding dynamics, suggesting a potential mechanism for the distinct functional behavior observed among the homologs. Taken together, these data show a remarkable balance between flexibility and essentiality for the different functions of homologous TBP in eukaryotic transcription.

2025-04-16 | GSE281338 | GEO

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