Glycan Modifications as Regulators of Stem Cell Fate

Alghazali, Raghad; Nugud, Ahmed; El-Serafi, Ahmed

doi:10.3390/biology13020076

Cited by 4 publications

(2 citation statements)

References 131 publications

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“…Glycosylation is one of the posttranslational modifications in cell surface proteins and extracellular matrix proteins, which regulate a variety of biological functions, including enhancement of protein stability, controlling cell-to-cell communication, and adhesion [76]. In addition, this process is known to contribute to the pathogenesis of various kinds of diseases [77,78]. We previously performed quantitative and qualitative analyses of N-linked glycans and glycoproteins during chondrogenic differentiation using the glycoblotting method [79] and subsequent glycoform-focused reverse proteomics and genomics using mouse pre-chondrogenic cell line, ATDC5 cell line [80].…”

Section: Changes In the Glycan Structure During Chondrogenic Differen...mentioning

confidence: 99%

Glycosphingolipids in Osteoarthritis and Cartilage Regeneration Therapy: Mechanisms and Therapeutic Prospects

Homan,

Onodera,

Matsuoka

et al. 2024

Preprint

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Glycosphingolipids (GSLs), a subtype of glycolipids containing sphingosine, are critical components of vertebrate plasma membranes, playing a pivotal role in cellular signaling and interactions. In human articular cartilage in osteoarthritis (OA), GSL expression is known notably to decrease. This review focuses on the roles of gangliosides, a specific type of GSL, in cartilage degeneration and regeneration, emphasizing their regulatory function in signal transduction. The expression of gangliosides, whether endogenous or augmented exogenously, is regulated at the enzymatic level, targeting specific glycosyltransferases. This regulation has significant implications for the composition of cell surface gangliosides and their impact on signal transduction in chondrocytes and progenitor cells. Different levels of ganglioside expression can influence signaling pathways in various ways, potentially affecting cell properties, including malignancy. Moreover, gene manipulations against gangliosides have been shown to regulate cartilage metabolism and chondrocyte differentiation in vivo and in vitro. This review highlights the potential of targeting gangliosides in the development of therapeutic strategies for osteoarthritis and cartilage injury and addresses promising directions for future research and treatment.

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Section: Changes In the Glycan Structure During Chondrogenic Differen...mentioning

confidence: 99%

Glycosphingolipids in Osteoarthritis and Cartilage Regeneration Therapy: Mechanisms and Therapeutic Prospects

Homan,

Onodera,

Matsuoka

et al. 2024

Preprint

View full text Add to dashboard Cite

show abstract

“…These oligomers usually consist of a limited number of subunits (NS), ranging from two to ten, offering substantial combinatorial potential, particularly through both hetero-oligomerization and homo-oligomerization [5]. Furthermore, it is wellestablished that homo-oligomers play crucial roles in mediating and regulating processes such as gene expression [6], enzyme function [7], ion channels [8], receptors [9], and cell-cell adhesion [10]. Therefore, understanding the homo-oligomers is vital at the molecular level to comprehend the physiological functions of proteins and design molecular regulators for their modulation [11].…”

Section: Introductionmentioning

confidence: 99%

DeepSub: Utilizing Deep Learning for Predicting the Number of Subunits in Homo-Oligomeric Protein Complexes

Deng,

Wu,

Lin

et al. 2024

IJMS

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The molecular weight (MW) of an enzyme is a critical parameter in enzyme-constrained models (ecModels). It is determined by two factors: the presence of subunits and the abundance of each subunit. Although the number of subunits (NS) can potentially be obtained from UniProt, this information is not readily available for most proteins. In this study, we addressed this gap by extracting and curating subunit information from the UniProt database to establish a robust benchmark dataset. Subsequently, we propose a novel model named DeepSub, which leverages the protein language model and Bi-directional Gated Recurrent Unit (GRU), to predict NS in homo-oligomers solely based on protein sequences. DeepSub demonstrates remarkable accuracy, achieving an accuracy rate as high as 0.967, surpassing the performance of QUEEN. To validate the effectiveness of DeepSub, we performed predictions for protein homo-oligomers that have been reported in the literature but are not documented in the UniProt database. Examples include homoserine dehydrogenase from Corynebacterium glutamicum, Matrilin-4 from Mus musculus and Homo sapiens, and the Multimerins protein family from M. musculus and H. sapiens. The predicted results align closely with the reported findings in the literature, underscoring the reliability and utility of DeepSub.

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Glycosphingolipids in Osteoarthritis and Cartilage-Regeneration Therapy: Mechanisms and Therapeutic Prospects Based on a Narrative Review of the Literature

Homan,

Onodera,

Matsuoka

et al. 2024

IJMS

View full text Add to dashboard Cite

Glycosphingolipids (GSLs), a subtype of glycolipids containing sphingosine, are critical components of vertebrate plasma membranes, playing a pivotal role in cellular signaling and interactions. In human articular cartilage in osteoarthritis (OA), GSL expression is known notably to decrease. This review focuses on the roles of gangliosides, a specific type of GSL, in cartilage degeneration and regeneration, emphasizing their regulatory function in signal transduction. The expression of gangliosides, whether endogenous or augmented exogenously, is regulated at the enzymatic level, targeting specific glycosyltransferases. This regulation has significant implications for the composition of cell-surface gangliosides and their impact on signal transduction in chondrocytes and progenitor cells. Different levels of ganglioside expression can influence signaling pathways in various ways, potentially affecting cell properties, including malignancy. Moreover, gene manipulations against gangliosides have been shown to regulate cartilage metabolisms and chondrocyte differentiation in vivo and in vitro. This review highlights the potential of targeting gangliosides in the development of therapeutic strategies for osteoarthritis and cartilage injury and addresses promising directions for future research and treatment.

show abstract

Glycan Modifications as Regulators of Stem Cell Fate

Cited by 4 publications

References 131 publications

Glycosphingolipids in Osteoarthritis and Cartilage Regeneration Therapy: Mechanisms and Therapeutic Prospects

Glycosphingolipids in Osteoarthritis and Cartilage Regeneration Therapy: Mechanisms and Therapeutic Prospects

DeepSub: Utilizing Deep Learning for Predicting the Number of Subunits in Homo-Oligomeric Protein Complexes

Glycosphingolipids in Osteoarthritis and Cartilage-Regeneration Therapy: Mechanisms and Therapeutic Prospects Based on a Narrative Review of the Literature

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