In vitro chromatin self-association and its relevance to genome architectureThis paper is one of a selection of papers published in this Special Issue, entitled 27th International West Coast Chromatin and Chromosome Conference, and has undergone the Journal's usual peer review process.

2006 ◽  
Vol 84 (4) ◽  
pp. 411-417 ◽  
Author(s):  
Xu Lu ◽  
Joshua M. Klonoski ◽  
Michael G. Resch ◽  
Jeffrey C. Hansen
Keyword(s):  
Peer Review ◽  
West Coast ◽  
Review Process ◽  
Peer Review Process ◽  
Special Issue ◽  
Eukaryotic Nucleus ◽  
Self Association ◽  
Selection Of

Chromatin in a eukaryotic nucleus is condensed through 3 hierarchies: primary, secondary, and tertiary chromatin structures. In vitro, when induced with cations, chromatin can self-associate and form large oligomers. This self-association process has been proposed to mimic processes involved in the assembly and maintenance of tertiary chromatin structures in vivo. In this article, we review 30 years of studies of chromatin self-association, with an emphasis on the evidence suggesting that this in vitro process is physiologically relevant.

Glycogen: an overview of possible regulatory roles of the proteins associated with the granuleThis paper is one of a selection of papers published in this Special Issue, entitled 14th International Biochemistry of Exercise Conference – Muscles as Molecular and Metabolic Machines, and has undergone the Journal’s usual peer review process.

2009 ◽  
Vol 34 (3) ◽  
pp. 488-492 ◽  
Author(s):  
Terry E. Graham
Keyword(s):  
Peer Review ◽  
Muscle Glycogen ◽  
Review Process ◽  
Peer Review Process ◽  
Glycogen Granule ◽  
Special Issue ◽  
Dynamic Regulation ◽  
Considerable Evidence ◽  
The Past ◽  
Selection Of

While scientists have routinely measured muscle glycogen in many metabolic situations for over 4 decades, there is surprisingly little known regarding its regulation. In the past decade, considerable evidence has illustrated that the carbohydrate stores in muscle are not homogeneous, and it is very likely that metabolic pools exist or that each granule has independent regulation. The fundamental aspects appear to be associated with a complex set of proteins that associate with both the granule and each other in a dynamic fashion. Some of the proteins are enzymes and others play scaffolding roles. A number of the proteins can translocate, depending on the metabolic stimulus. These various processes appear to be the mechanisms that give the glycogen granule precise yet dynamic regulation. This may also allow the stores to serve as an important metabolic regulator of other metabolic events.

Cryo electron microscopy structures of Hsp100 proteins: crowbars in or out?This paper is one of a selection of papers published in this special issue entitled 8th International Conference on AAA Proteins and has undergone the Journal's usual peer review process.

2010 ◽  
Vol 88 (1) ◽  
pp. 89-96 ◽  
Author(s):  
Petra Wendler ◽  
Helen R Saibil
Keyword(s):  
Electron Microscopy ◽  
Peer Review ◽  
Atomic Structure ◽  
Review Process ◽  
Peer Review Process ◽  
Experimental Information ◽  
Related Protein ◽  
Special Issue ◽  
Cryo Electron Microscopy ◽  
Selection Of

Independent cryo electron microscopy (cryo-EM) studies of the closely related protein disaggregases ClpB and Hsp104 have resulted in two different models of subunit arrangement in the active hexamer. We compare the EM maps and resulting atomic structure fits, discuss their differences, and relate them to published experimental information in an attempt to discriminate between models. In addition, we present some general assessment criteria for low-resolution cryo-EM maps to offer non-structural biologists tools to evaluate these structures.

Transcriptional repression by Tup1–Ssn6This paper is one of a selection of papers published in this Special Issue, entitled 27th International West Coast Chromatin and Chromosome Conference, and has undergone the Journal's usual peer review process.

2006 ◽  
Vol 84 (4) ◽  
pp. 437-443 ◽  
Author(s):  
Tania M. Malavé ◽  
Sharon Y.R. Dent
Keyword(s):  
Dna Binding ◽  
West Coast ◽  
Transcriptional Repression ◽  
Histone Deacetylases ◽  
Review Process ◽  
Peer Review Process ◽  
Chromatin Modification ◽  
Special Issue ◽  
Higher Eukaryotes ◽  
Selection Of

The Tup1–Ssn6 complex from budding yeast is one of the best studied corepressors and has served as a model for the study of similar corepressor complexes in higher eukaryotes. Tup1–Ssn6 represses multiple subsets of genes when recruited to promoters by sequence-specific DNA binding repressors. Tup1–Ssn6 mediated repression involves interactions among the corepressor and hypoacetylated histones, histone deacetylases, and the RNA transcriptional machinery. Nucleosome positioning is also involved in repression of a subset of Tup1–Ssn6 regulated genes. These findings highlight the importance of chromatin modification states in Tup1–Ssn6 mediated repression. Here we review the multiple mechanisms involved in repression and discuss Tup1–Ssn6 homolog functions in higher organisms. We also present a model for how repression by Tup1–Ssn6 may be established.

Is histone loss a common feature of DNA metabolism regulation?This paper is one of a selection of papers published in this Special Issue, entitled 27th International West Coast Chromatin and Chromosome Conference, and has undergone the Journal's usual peer review process.

2006 ◽  
Vol 84 (4) ◽  
pp. 450-452 ◽  
Author(s):  
Antonin Morillon
Keyword(s):  
West Coast ◽  
Crucial Role ◽  
Review Process ◽  
Peer Review Process ◽  
Chromatin Modifications ◽  
Dna Metabolism ◽  
Special Issue ◽  
Dna Breaks ◽  
Metabolism Regulation ◽  
Selection Of

Chromatin modifications play a crucial role in regulating DNA metabolism. Chromatin structures can be remodeled by covalently modifying histones, by shifting nucleosomes along the DNA, and by changing the histone composition of nucleosomes. Lately, nucleosome displacement has been extensively described within transcribed genes and DNA breaks. This review focuses on recently published work that describes the relationships between histone modification/exchange and nucleosome displacement.

Sampling Research on Advanced Computational Intelligence in Canada

2000 ◽  
Vol 4 (3) ◽  
pp. 187-187
Author(s):  
Max Meng ◽  
◽  
Witold Pedrycz
Keyword(s):  
Peer Review ◽  
Computational Intelligence ◽  
Review Process ◽  
Peer Review Process ◽  
Great Success ◽  
Computer Engineering ◽  
Special Issue ◽  
Research Results ◽  
Conference Centre ◽  
Selection Of

The 1999 IEEE Canadian Conference on Electrical and computer Engineering (CCECE'99) was held from May 9 to 12, 1999, at the Shaw Conference Centre in Edmonton. The conference was a great success with over 380 papers presented and more than 400 peoples from 38 different countries presenting their recent research results. The area of Computational Intelligence was one of the vivid pursuits presented at the conference. Subsequently, we have been invited by the Editors-in-Chief of the Journal of Advanced Computational Intelligence to prepare a Special Issue of the Journal CCECE'99 conference. After a careful and strict peer review process, we have chosen six papers to be included in this special issue. They are selected from more than 20 papers submitted to this special issue, which are extended versions of the papers presented at the CCECE'99 conference in the areas of advanced computational intelligence. The papers fully reflect the breadth and diversity of conceptual and algorithmic facets of Computational Intelligence along with a spectrum of applications. We thank the authors and reviewers for doing an excellent job. We are grateful to Kaoru Hirota and Toshio Fukuda for making this selection of papers a part of the journal. We do hope the readers will enjoy this issue.

A moment’s pause: putative nucleosome-based influences on MeCP2 regulationThis paper is one of a selection of papers published in this Special Issue, entitled 30th Annual International Asilomar Chromatin and Chromosomes Conference, and has undergone the Journal’s usual peer review process.

2009 ◽  
Vol 87 (5) ◽  
pp. 791-798 ◽  
Author(s):  
Anita A. Thambirajah ◽  
Juan Ausió
Keyword(s):  
Peer Review ◽  
Critical Points ◽  
Review Process ◽  
Peer Review Process ◽  
Special Issue ◽  
The Past ◽  
Chromatin Template ◽  
The Brain ◽  
Complex Activities ◽  
Selection Of

There has been a hotbed of activity surrounding MeCP2 research in the past number of years. Despite better characterizing the functions and nature of this protein, it has become abundantly clear that MeCP2 is involved in far more complex activities than perhaps initially anticipated. Recent publications have shown that MeCP2 is dynamically post-translationally modified, and it is possible that these marks permit MeCP2 to inhabit very diverse chromatin environments. It is also of interest to consider how nucleosome composition differs in these varying chromatin regions, and how the chromatin template itself contributes to diversifying the regulatory roles of MeCP2. These will be critical points to examine when seeking to understand how MeCP2 behaviour differentiates in tissues other than the brain. By understanding the chromatin and (or) tissue context in which MeCP2 interacts, it may be possible to discern the specific etiology of diseases linked to MeCP2 dysfunction.

scholarly journals Structure of the H1 C-terminal domain and function in chromatin condensationThis paper is one of a selection of papers published in a Special Issue entitled 31st Annual International Asilomar Chromatin and Chromosomes Conference, and has undergone the Journal’s usual peer review process.

2011 ◽  
Vol 89 (1) ◽  
pp. 35-44 ◽  
Author(s):  
Tamara L. Caterino ◽  
Jeffrey J. Hayes
Keyword(s):  
Review Process ◽  
Peer Review Process ◽  
Special Issue ◽  
Direct Role ◽  
Linker Histones ◽  
Terminal Domain ◽  
Chromatin Folding ◽  
And Function ◽  
Positively Charged ◽  
Selection Of

Linker histones are multifunctional proteins that are involved in a myriad of processes ranging from stabilizing the folding and condensation of chromatin to playing a direct role in regulating gene expression. However, how this class of enigmatic proteins binds in chromatin and accomplishes these functions remains unclear. Here we review data regarding the H1 structure and function in chromatin, with special emphasis on the C-terminal domain (CTD), which typically encompasses approximately half of the mass of the linker histone and includes a large excess of positively charged residues. Owing to its amino acid composition, the CTD was previously proposed to function in chromatin as an unstructured polycation. However, structural studies have shown that the CTD adopts detectable secondary structure when interacting with DNA and macromolecular crowding agents. We describe classic and recent experiments defining the function of this domain in chromatin folding and emerging data indicating that the function of this protein may be linked to intrinsic disorder.

Towards a unifying mechanism for ClpB/Hsp104-mediated protein disaggregation and prion propagationThis paper is one of a selection of papers published in this special issue entitled 8th International Conference on AAA Proteins and has undergone the Journal's usual peer review process.

2010 ◽  
Vol 88 (1) ◽  
pp. 63-75 ◽  
Author(s):  
Tobias Haslberger ◽  
Bernd Bukau ◽  
Axel Mogk
Keyword(s):  
Review Process ◽  
Peer Review Process ◽  
Special Issue ◽  
Yeast Prions ◽  
Substrate Interaction ◽  
Initial Substrate ◽  
Hsp70 Chaperone ◽  
Prion Propagation ◽  
Precise Role ◽  
Selection Of

The oligomeric AAA+ chaperones ClpB/Hsp104 mediate the reactivation of aggregated proteins, an activity that is crucial for the survival of cells during severe stress. Hsp104 is also essential for the propagation of yeast prions by severing prion fibres. Protein disaggregation depends on the cooperation of ClpB/Hsp104 with a cognate Hsp70 chaperone system. While Hsp70 chaperones are also involved in prion propagation, their precise role is much less well defined compared with its function in aggregate solubilization. Therefore, it remained unclear whether both ClpB/Hsp104 activities are based on common or different mechanisms. Novel data show that ClpB/Hsp104 uses a motor threading activity to remodel both protein aggregates and prion fibrils. Moreover, transfer of both types of substrates to the ClpB/Hsp104 processing pore site requires initial substrate interaction of Hsp70. Together these data emphasize the similarity of thermotolerance and prion propagation pathways and point to a shared mechanistic principle of Hsp70–ClpB/Hsp104-mediated solubilization of amorphous and ordered aggregates.

scholarly journals Expression of Concern: Al-Baqami, N.M.; Hamza, R.Z. Protective Effect of Resveratrol against Hepatotoxicity of Cadmium in Male Rats: Antioxidant and Histopathological Approaches. Coatings 2021, 11, 594

Coatings ◽  
2021 ◽  
Vol 11 (9) ◽  
pp. 1113
Author(s):  
Keyword(s):  
Protective Effect ◽  
Peer Review ◽  
Guest Editor ◽  
Review Process ◽  
Peer Review Process ◽  
Male Rats ◽  
Special Issue

Following acceptance of the Special Issue article by the Guest Editor, El-Sayed Abd El-Aziz, concerns were raised regarding the integrity of the peer review process [...]

scholarly journals Expression of Concern: Hamza et al. A Potential Role of Apelin-13 against Hepatic Injury and Metabolic Disorders in Preeclampsia Induced by L-NAME. Coatings 2021, 11, 391

Coatings ◽  
2021 ◽  
Vol 11 (9) ◽  
pp. 1117
Author(s):  
Keyword(s):  
Peer Review ◽  
Guest Editor ◽  
Metabolic Disorders ◽  
Hepatic Injury ◽  
Potential Role ◽  
Review Process ◽  
Peer Review Process ◽  
Special Issue

Following acceptance of the Special Issue article by the Guest Editor, El-Sayed Abd El-Aziz, concerns were raised regarding the integrity of the peer review process [...]

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