Emerging Roles of PRDM Factors in Stem Cells and Neuronal System: Cofactor Dependent Regulation of PRDM3/16 and FOG1/2 (Novel PRDM Factors)

Leszczyński, Paweł; Śmiech, Magdalena; Parvanov, Emil D.; Watanabe, Chisato; Mizutani, Ken-ichi; Taniguchi, Hiroaki

doi:10.3390/cells9122603

Cited by 15 publications

(15 citation statements)

References 251 publications

(358 reference statements)

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“…It is possible that these are stem or pluripotent cells, expressing few variable features, or potentially noisy artefactual cells. However, interestingly, the top marker for cluster 0 was a PRDM gene, hamlet ( ham ) [aug3.g11431], which has known functions in stem cell maintenance, neural stem cell and endoderm fate, and therefore tentatively suggests that these are possibly stem cells [64, 65] (S2B, S2C Fig).…”

Section: Resultsmentioning

confidence: 99%

“…Expression of tll starts at the anterior rim of the germband, however it maintains the anterior rim boundary of expression as the domain broadens towards the posterior margin of the precheliceral region (Fig 3C). ham was another cluster 8 marker that was not in clusters 10, 16, or 19, and has been shown to function in neural stem cells and their differentiation [64, 65] (S2 Fig), Cluster 8 therefore may represent a stem cell type that is widely distributed throughout the developing precheliceral region and may contribute to neurogenic tissues [68].…”

Section: Resultsmentioning

confidence: 99%

“…All these genes were expressed in the precheliceral region and in both the prosoma and opisthosoma, extending from the midline into appendages (S8C Fig). Given the function of ham in the PNS and of Awh in (motor) neuron cell types, this cluster possibly relates to PNS cells that innervate appendages [64, 65, 77, 78]. Cluster 6 also likely corresponds to another PNS cell type.…”

Section: Resultsmentioning

confidence: 99%

“…tll encodes a nuclear receptor and is a marker of clusters 8, 10, 16 and 19, while ham is only a marker of cluster 8 (Fig 3, S2 Fig). Both tll and ham regulate neural stem cell fate and their broad expression in the head suggests specification and differentiation of neural stem cells is already underway at this early stage of head development [64, 65, 86, 87]. Markers of clusters 10, 16 and 19 have more specific spatial expression consistent with demarcation of different regions in the developing head.…”

Section: Discussionmentioning

confidence: 96%

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An atlas of spider development at single-cell resolution provides new insights into arthropod embryogenesis

Leite

Schoenauer

Blakeley

et al. 2022

Preprint

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Spiders are a diverse order of chelicerates that diverged from other arthropods over 500 million years ago. Research on spider embryogenesis has made important contributions to understanding the evolution of animal development. In particular, studies of the common house spider Parasteatoda tepidariorum using developmental candidate gene approaches have provided key insights into the regulation and evolution of many processes including axis formation, segmentation and patterning. However, there remains a paucity of knowledge about the cells that build spider embryos, their gene expression profiles and fate. Single-cell transcriptomic analyses have been revolutionary in describing these complex landscapes of cellular genetics in a range of animals. Therefore, we carried out single-cell RNA sequencing of P. tepidariorum embryos at stages 7, 8 and 9, which encompass the establishment and patterning of the body plan, and initial differentiation of many tissues and organs. We identified 23 cell clusters marked by many developmental toolkit genes, as well as a plethora of non-candidate genes not previously investigated. We found many Hox genes were markers of cell clusters, and Hox gene paralogs often were present in different clusters. This provided further evidence of sub- and/or neo-functionalisation of these important developmental genes after the whole genome duplication in the arachnopulmonate ancestor. We also examined the spatial expression of marker genes for each cluster to generate a comprehensive cell atlas of these embryonic stages. This revealed new insights into the cellular basis and genetic regulation of head patterning, hematopoiesis, limb development, gut development and posterior segmentation. This atlas will serve as a platform for future analysis of spider cell specification and fate, and the evolution of these processes among animals at cellular resolution.

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Section: Resultsmentioning

confidence: 99%

Section: Resultsmentioning

confidence: 99%

Section: Resultsmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 96%

See 2 more Smart Citations

An atlas of spider development at single-cell resolution provides new insights into arthropod embryogenesis

Leite

Schoenauer

Blakeley

et al. 2022

Preprint

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“…PRDF1 and RIZ1 homology domain containing (PRDM) proteins represent an evolutionary recent branch of the methyltransferase superfamily. This subfamily contains 19 members (in humans) that control key biological processes, ranging from lineage specification to carcinogenesis [1–5]. All PRDM proteins share a characteristic structure that brings together a SET [Su(var)3‐9, Enhancer‐of‐zeste and Trithorax]‐like domain called a PR [PRDF1 (positive regulatory domain I‐binding factor 1) domain, a RIZ1 (retinoblastoma protein‐interacting zinc finger gene 1)] domain, and a variable array of Cys2‐His2 (C2H2) zinc fingers (ZNF).…”

Section: Introduction—prdm Proteins: Protein Domains Origin and Evolu...mentioning

confidence: 99%

The duality of PRDM proteins: epigenetic and structural perspectives

et al. 2021

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PRDMs are a subfamily of Kruppel-like zinc finger proteins controlling key processes in metazoan development and in cancer. PRDMs exhibit unique dualities: (i) PR domain/ZNF arraystheir structure combines a SET-like domain known as a PR domain, typically found in methyltransferases, with a variable array of C2H2 zinc fingers (ZNF) characteristic of DNA-binding transcription factors; (ii) Transcriptional activators/repressors -their physiological function is context and cell dependent; mechanistically, some PRDMs have a PKMT activity and directly catalyze histone lysine methylation, while others are rather pseudomethyltransferases and act by recruiting transcriptional co-factors; (iii) Oncogenes/tumor suppressors -their pathological function depends on the specific PRDM isoform expressed during tumorigenesis. This duality is well known as the "Yin and Yang" of PRDMs and involves a complex regulation of alternative splicing or alternative promoter usage, to generate full-length or PR-deficient isoforms with opposing functions in cancer. In conclusion, once their dualities are fully appreciated, PRDMs represent a promising class of targets in oncology by virtue of their widespread upregulation across multiple tumor types and their somatic dispensability, conferring a broad therapeutic window and limited toxic side effects. The recent discovery of a first-in-class compound able to inhibit PRDM9 activity has paved the way for the identification of further small molecular inhibitors able to counteract PRDM oncogenic activity.

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A Single-Cell Transcriptomic Analysis of the Mouse Hippocampus After Voluntary Exercise

Methi,

Islam,

Kaurani

et al. 2024

Mol Neurobiol

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Exercise has been recognized as a beneficial factor for cognitive health, particularly in relation to the hippocampus, a vital brain region responsible for learning and memory. Previous research has demonstrated that exercise-mediated improvement of learning and memory in humans and rodents correlates with increased adult neurogenesis and processes related to enhanced synaptic plasticity. Nevertheless, the underlying molecular mechanisms are not fully understood. With the aim to further elucidate these mechanisms, we provide a comprehensive dataset of the mouse hippocampal transcriptome at the single-cell level after 4 weeks of voluntary wheel-running. Our analysis provides a number of interesting observations. For example, the results suggest that exercise affects adult neurogenesis by accelerating the maturation of a subpopulation of Prdm16-expressing neurons. Moreover, we uncover the existence of an intricate crosstalk among multiple vital signaling pathways such as NF-κB, Wnt/β-catenin, Notch, and retinoic acid (RA) pathways altered upon exercise in a specific cluster of excitatory neurons within the Cornu Ammonis (CA) region of the hippocampus. In conclusion, our study provides an important resource dataset and sheds further light on the molecular changes induced by exercise in the hippocampus. These findings have implications for developing targeted interventions aimed at optimizing cognitive health and preventing age-related cognitive decline.

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Emerging Roles of PRDM Factors in Stem Cells and Neuronal System: Cofactor Dependent Regulation of PRDM3/16 and FOG1/2 (Novel PRDM Factors)

Cited by 15 publications

References 251 publications

An atlas of spider development at single-cell resolution provides new insights into arthropod embryogenesis

An atlas of spider development at single-cell resolution provides new insights into arthropod embryogenesis

The duality of PRDM proteins: epigenetic and structural perspectives

A Single-Cell Transcriptomic Analysis of the Mouse Hippocampus After Voluntary Exercise

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