The choreography of chromatin in RNA polymerase III regulation
Biochem Soc Trans. 2024 Apr 26:BST20230770. doi: 10.1042/BST20230770. Online ahead of print.ABSTRACTRegulation of eukaryotic gene expression involves a dynamic interplay between the core transcriptional machinery, transcription factors, and chromatin organization and modification. While this applies to transcription by all RNA polymerase complexes, RNA polymerase III (RNAPIII) seems to be atypical with respect to its mechanisms of regulation. One distinctive feature of most RNAPIII transcribed genes is that they are devoid of nucleosomes, which relates to the high levels of transcription. Moreover, most of the regulatory s...
Source: Biochemical Society Transactions - April 26, 2024 Category: Biochemistry Authors: Maria Elize van Breugel Alan Gerber Fred van Leeuwen Source Type: research
From bottom-up to cell surface proteomics: detergents or no detergents, that is the question
Biochem Soc Trans. 2024 Apr 26:BST20231020. doi: 10.1042/BST20231020. Online ahead of print.ABSTRACTMeasuring the expression levels of membrane proteins (MPs) is crucial for understanding cell differentiation and tissue specificity, defining disease characteristics, identifying biomarkers, and developing therapeutics. While bottom-up proteomics addresses the need for accurately surveying the membrane proteome, the lower abundance and hydrophobic nature of MPs pose challenges in sample preparation. As MPs normally reside in the lipid bilayer, conventional extraction methods rely on detergents, introducing here a paradox - d...
Source: Biochemical Society Transactions - April 26, 2024 Category: Biochemistry Authors: Zora Brough Zhiyu Zhao Franck Duong van Hoa Source Type: research
The SWI/SNF chromatin remodeling complex: a critical regulator of metabolism
Biochem Soc Trans. 2024 Apr 26:BST20231141. doi: 10.1042/BST20231141. Online ahead of print.ABSTRACTThe close relationship between chromatin and metabolism has been well-studied in recent years. Many metabolites have been found to be cofactors used to modify chromatin, and these modifications can in turn affect gene transcription. One chromatin-associated factor responsible for regulating transcription is the SWI/SNF complex, an ATP-dependent chromatin remodeler conserved throughout eukaryotes. SWI/SNF was originally described in yeast as regulating genes involved in carbon source metabolism and mating type switching, and ...
Source: Biochemical Society Transactions - April 26, 2024 Category: Biochemistry Authors: Michael C Church Jerry L Workman Source Type: research
Raman spectroscopy in the study of amyloid formation and phase separation
Biochem Soc Trans. 2024 Apr 26:BST20230599. doi: 10.1042/BST20230599. Online ahead of print.ABSTRACTNeurodegenerative diseases, such as Alzheimer's and Parkinson's, share a common pathological feature of amyloid structure accumulation. However, the structure-function relationship between these well-ordered, β-sheet-rich, filamentous protein deposits and disease etiology remains to be defined. Recently, an emerging hypothesis has linked phase separation, a process involved in the formation of protein condensates, to amyloid formation, suggesting that liquid protein droplets serve as loci for amyloid initiation. To elucidat...
Source: Biochemical Society Transactions - April 26, 2024 Category: Biochemistry Authors: Sashary Ramos Jennifer C Lee Source Type: research
The choreography of chromatin in RNA polymerase III regulation
Biochem Soc Trans. 2024 Apr 26:BST20230770. doi: 10.1042/BST20230770. Online ahead of print.ABSTRACTRegulation of eukaryotic gene expression involves a dynamic interplay between the core transcriptional machinery, transcription factors, and chromatin organization and modification. While this applies to transcription by all RNA polymerase complexes, RNA polymerase III (RNAPIII) seems to be atypical with respect to its mechanisms of regulation. One distinctive feature of most RNAPIII transcribed genes is that they are devoid of nucleosomes, which relates to the high levels of transcription. Moreover, most of the regulatory s...
Source: Biochemical Society Transactions - April 26, 2024 Category: Biochemistry Authors: Maria Elize van Breugel Alan Gerber Fred van Leeuwen Source Type: research
From bottom-up to cell surface proteomics: detergents or no detergents, that is the question
Biochem Soc Trans. 2024 Apr 26:BST20231020. doi: 10.1042/BST20231020. Online ahead of print.ABSTRACTMeasuring the expression levels of membrane proteins (MPs) is crucial for understanding cell differentiation and tissue specificity, defining disease characteristics, identifying biomarkers, and developing therapeutics. While bottom-up proteomics addresses the need for accurately surveying the membrane proteome, the lower abundance and hydrophobic nature of MPs pose challenges in sample preparation. As MPs normally reside in the lipid bilayer, conventional extraction methods rely on detergents, introducing here a paradox - d...
Source: Biochemical Society Transactions - April 26, 2024 Category: Biochemistry Authors: Zora Brough Zhiyu Zhao Franck Duong van Hoa Source Type: research
The SWI/SNF chromatin remodeling complex: a critical regulator of metabolism
Biochem Soc Trans. 2024 Apr 26:BST20231141. doi: 10.1042/BST20231141. Online ahead of print.ABSTRACTThe close relationship between chromatin and metabolism has been well-studied in recent years. Many metabolites have been found to be cofactors used to modify chromatin, and these modifications can in turn affect gene transcription. One chromatin-associated factor responsible for regulating transcription is the SWI/SNF complex, an ATP-dependent chromatin remodeler conserved throughout eukaryotes. SWI/SNF was originally described in yeast as regulating genes involved in carbon source metabolism and mating type switching, and ...
Source: Biochemical Society Transactions - April 26, 2024 Category: Biochemistry Authors: Michael C Church Jerry L Workman Source Type: research
Raman spectroscopy in the study of amyloid formation and phase separation
Biochem Soc Trans. 2024 Apr 26:BST20230599. doi: 10.1042/BST20230599. Online ahead of print.ABSTRACTNeurodegenerative diseases, such as Alzheimer's and Parkinson's, share a common pathological feature of amyloid structure accumulation. However, the structure-function relationship between these well-ordered, β-sheet-rich, filamentous protein deposits and disease etiology remains to be defined. Recently, an emerging hypothesis has linked phase separation, a process involved in the formation of protein condensates, to amyloid formation, suggesting that liquid protein droplets serve as loci for amyloid initiation. To elucidat...
Source: Biochemical Society Transactions - April 26, 2024 Category: Biochemistry Authors: Sashary Ramos Jennifer C Lee Source Type: research
The choreography of chromatin in RNA polymerase III regulation
Biochem Soc Trans. 2024 Apr 26:BST20230770. doi: 10.1042/BST20230770. Online ahead of print.ABSTRACTRegulation of eukaryotic gene expression involves a dynamic interplay between the core transcriptional machinery, transcription factors, and chromatin organization and modification. While this applies to transcription by all RNA polymerase complexes, RNA polymerase III (RNAPIII) seems to be atypical with respect to its mechanisms of regulation. One distinctive feature of most RNAPIII transcribed genes is that they are devoid of nucleosomes, which relates to the high levels of transcription. Moreover, most of the regulatory s...
Source: Biochemical Society Transactions - April 26, 2024 Category: Biochemistry Authors: Maria Elize van Breugel Alan Gerber Fred van Leeuwen Source Type: research
From bottom-up to cell surface proteomics: detergents or no detergents, that is the question
Biochem Soc Trans. 2024 Apr 26:BST20231020. doi: 10.1042/BST20231020. Online ahead of print.ABSTRACTMeasuring the expression levels of membrane proteins (MPs) is crucial for understanding cell differentiation and tissue specificity, defining disease characteristics, identifying biomarkers, and developing therapeutics. While bottom-up proteomics addresses the need for accurately surveying the membrane proteome, the lower abundance and hydrophobic nature of MPs pose challenges in sample preparation. As MPs normally reside in the lipid bilayer, conventional extraction methods rely on detergents, introducing here a paradox - d...
Source: Biochemical Society Transactions - April 26, 2024 Category: Biochemistry Authors: Zora Brough Zhiyu Zhao Franck Duong van Hoa Source Type: research
The SWI/SNF chromatin remodeling complex: a critical regulator of metabolism
Biochem Soc Trans. 2024 Apr 26:BST20231141. doi: 10.1042/BST20231141. Online ahead of print.ABSTRACTThe close relationship between chromatin and metabolism has been well-studied in recent years. Many metabolites have been found to be cofactors used to modify chromatin, and these modifications can in turn affect gene transcription. One chromatin-associated factor responsible for regulating transcription is the SWI/SNF complex, an ATP-dependent chromatin remodeler conserved throughout eukaryotes. SWI/SNF was originally described in yeast as regulating genes involved in carbon source metabolism and mating type switching, and ...
Source: Biochemical Society Transactions - April 26, 2024 Category: Biochemistry Authors: Michael C Church Jerry L Workman Source Type: research
Raman spectroscopy in the study of amyloid formation and phase separation
Biochem Soc Trans. 2024 Apr 26:BST20230599. doi: 10.1042/BST20230599. Online ahead of print.ABSTRACTNeurodegenerative diseases, such as Alzheimer's and Parkinson's, share a common pathological feature of amyloid structure accumulation. However, the structure-function relationship between these well-ordered, β-sheet-rich, filamentous protein deposits and disease etiology remains to be defined. Recently, an emerging hypothesis has linked phase separation, a process involved in the formation of protein condensates, to amyloid formation, suggesting that liquid protein droplets serve as loci for amyloid initiation. To elucidat...
Source: Biochemical Society Transactions - April 26, 2024 Category: Biochemistry Authors: Sashary Ramos Jennifer C Lee Source Type: research
The choreography of chromatin in RNA polymerase III regulation
Biochem Soc Trans. 2024 Apr 26:BST20230770. doi: 10.1042/BST20230770. Online ahead of print.ABSTRACTRegulation of eukaryotic gene expression involves a dynamic interplay between the core transcriptional machinery, transcription factors, and chromatin organization and modification. While this applies to transcription by all RNA polymerase complexes, RNA polymerase III (RNAPIII) seems to be atypical with respect to its mechanisms of regulation. One distinctive feature of most RNAPIII transcribed genes is that they are devoid of nucleosomes, which relates to the high levels of transcription. Moreover, most of the regulatory s...
Source: Biochemical Society Transactions - April 26, 2024 Category: Biochemistry Authors: Maria Elize van Breugel Alan Gerber Fred van Leeuwen Source Type: research
From bottom-up to cell surface proteomics: detergents or no detergents, that is the question
Biochem Soc Trans. 2024 Apr 26:BST20231020. doi: 10.1042/BST20231020. Online ahead of print.ABSTRACTMeasuring the expression levels of membrane proteins (MPs) is crucial for understanding cell differentiation and tissue specificity, defining disease characteristics, identifying biomarkers, and developing therapeutics. While bottom-up proteomics addresses the need for accurately surveying the membrane proteome, the lower abundance and hydrophobic nature of MPs pose challenges in sample preparation. As MPs normally reside in the lipid bilayer, conventional extraction methods rely on detergents, introducing here a paradox - d...
Source: Biochemical Society Transactions - April 26, 2024 Category: Biochemistry Authors: Zora Brough Zhiyu Zhao Franck Duong van Hoa Source Type: research
The SWI/SNF chromatin remodeling complex: a critical regulator of metabolism
Biochem Soc Trans. 2024 Apr 26:BST20231141. doi: 10.1042/BST20231141. Online ahead of print.ABSTRACTThe close relationship between chromatin and metabolism has been well-studied in recent years. Many metabolites have been found to be cofactors used to modify chromatin, and these modifications can in turn affect gene transcription. One chromatin-associated factor responsible for regulating transcription is the SWI/SNF complex, an ATP-dependent chromatin remodeler conserved throughout eukaryotes. SWI/SNF was originally described in yeast as regulating genes involved in carbon source metabolism and mating type switching, and ...
Source: Biochemical Society Transactions - April 26, 2024 Category: Biochemistry Authors: Michael C Church Jerry L Workman Source Type: research
