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Topic Review
Mitochondrial Ribosomal Proteins
Mammalian mitochondrial ribosomes translate 13 proteins encoded by mitochondrial genes, all of which play roles in the mitochondrial respiratory chain. After a long period of reconstruction, mitochondrial ribosomes are the most protein-rich ribosomes. Mitochondrial ribosomal proteins (MRPs) are encoded by nuclear genes, synthesized in the cytoplasm and then, transported to the mitochondria to be assembled into mitochondrial ribosomes. MRPs not only play a role in mitochondrial oxidative phosphorylation (OXPHOS). Moreover, they participate in the regulation of cell state as apoptosis inducing factors. Abnormal expressions of MRPs will lead to mitochondrial metabolism disorder, cell dysfunction, etc. Many researches have demonstrated the abnormal expression of MRPs in various tumors.
  • 1.2K
  • 16 Dec 2020
Topic Review
Constituents and Identification of Super-Enhancers
Super-enhancers (SEs) are clusters of neighboring enhancers spanning over 10 kb with high-fold enhancer activity that drive cell-type specific gene expression. 3D genome organization enables SEs to interact with specific gene promoters and orchestrates their activity as evidenced by the high frequency of chromatin interactions at the genomic loci containing SEs. SEs contain many TF binding sites, and are heavily loaded with enhancer-associated chromatin features, such as master TFs (e.g., Oct4, Sox2, Nanog, and Klf4 in embryonic stem cells), RNA Pol II, MED1, and chromatin modifiers (p300 and BRD4). The recruited factors alter the chromatin structure, leading to interactions with promoters and RNA Pol II, a process mediated by enhancer–promoter looping. Phase separation may facilitate the assembly and function of SEs.
  • 1.2K
  • 29 Jun 2022
Topic Review
Oxidative-Stress Modulators in Hematological Malignancies
Among the different mechanisms involved in oxidative stress, protein carbonylation and lipid peroxidation are both important modifications associated with the pathogenesis of several diseases, including cancer. Hematopoietic cells are particularly vulnerable to oxidative damage, as the excessive production of reactive oxygen species and associated lipid peroxidation suppress self-renewal and induce DNA damage and genomic instability, which can trigger malignancy. A richer understanding of the clinical effects of oxidative stress might improve the prognosis of these diseases and inform therapeutic strategies. The most common protein carbonylation and lipid peroxidation compounds, including hydroxynonenal, malondialdehyde, and advanced oxidation protein products, have been investigated for their potential effect on hematopoietic cells in several studies.
  • 1.2K
  • 17 Jan 2021
Topic Review
Irisin and Autophagy: First Update
Aging and sedentary life style are considered independent risk factors for many disorders. Under these conditions, accumulation of dysfunctional and damaged cellular proteins and organelles occurs, resulting in a cellular degeneration and cell death. Autophagy is a conserved recycling pathway responsible for the degradation, then turnover of cellular proteins and organelles. This process is a part of the molecular underpinnings by which exercise promotes healthy aging and mitigate age-related pathologies. Irisin is a myokine released during physical activity and acts as a link between muscles and other tissues and organs. Its main beneficial function is the change of subcutaneous and visceral adipose tissue into brown adipose tissue, with a consequential increase in thermogenesis. Irisin modulates metabolic processes, acting on glucose homeostasis, reduces systemic inflammation, maintains the balance between resorption and bone formation, and regulates the functioning of the nervous system. Recently, some of its pleiotropic and favorable properties have been attributed to autophagy induction, posing irisin as an important regulator of autophagy by exercise.
  • 1.2K
  • 29 Oct 2020
Topic Review
Approaches to Microsample Collections
Although the application of microsamples in metabolic phenotyping exists, it is still in its infancy, with whole blood being overwhelmingly the primary biofluid collected through the collection method of dried blood spots. 
  • 1.2K
  • 19 Jul 2022
Topic Review
C-type Lectin CD209L/L-SIGN and CD209/DC-SIGN
COVID-19 pandemic continues to pose a serious threat to global public health with overwhelming worldwide socio-economic disruption. SARS-CoV-2, the viral agent of COVID-19, uses its surface glycoprotein Spike (S) for host cell attachment and entry. The emerging picture of pathogenesis of SARS-CoV-2 demonstrates that S protein, in addition, to ACE2, interacts with the carbohydrate recognition domain (CRD) of C-type lectin receptors, CD209L and CD209. Recognition of CD209L and CD209 which are widely expressed in SARS-CoV-2 target organs can facilitate entry and transmission leading to dysregulation of the host immune response and other major organs including, cardiovascular system. Establishing a comprehensive map of the SARS-CoV-2 interaction with CD209 family proteins, and their roles in transmission and pathogenesis can provide new insights into host-pathogen interaction with implications in therapies and vaccine development. 
  • 1.2K
  • 13 Jan 2021
Topic Review
Nucleases and Co-Factors in DNA Replication Stress Responses
DNA replication stress is a constant threat that cells must manage to proliferate and maintain genome integrity. DNA replication stress responses, a subset of the broader DNA damage response (DDR), operate when the DNA replication machinery (replisome) is blocked or replication forks collapse during S phase. There are many sources of replication stress, such as DNA lesions caused by endogenous and exogenous agents including commonly used cancer therapeutics, and difficult-to-replicate DNA sequences comprising fragile sites, G-quadraplex DNA, hairpins at trinucleotide repeats, and telomeres. Replication stress is also a consequence of conflicts between opposing transcription and replication, and oncogenic stress which dysregulates replication origin firing and fork progression. Cells initially respond to replication stress by protecting blocked replisomes, but if the offending problem (e.g., DNA damage) is not bypassed or resolved in a timely manner, forks may be cleaved by nucleases, inducing a DNA double-strand break (DSB) and providing a means to accurately restart stalled forks via homologous recombination. However, DSBs pose their own risks to genome stability if left unrepaired or misrepaired.  
  • 1.2K
  • 29 Mar 2022
Topic Review
Extracellular vesicles in embryo–maternal communication
The establishment of proper conceptus–endometrial communication is essential for conceptus implantation and subsequent successful placentation in mammals including ruminants. Extracellular vesicles (EVs) present in uterine lumen are now considered to play a role in conceptus–endometrial interactions during the preimplantation period. In fact, EV transport a variety of bioactive molecules, including soluble and membrane-bound proteins, lipids, DNA, and RNAs, into target cells. EVs thus regulate gene expression and elicit biological effects including increased cell proliferation, migration, and adhesion in recipient cells. EVs of conceptus as well as endometrial origins are interactive in the uterine microenvironment for improved pregnancy success.
  • 1.2K
  • 06 Aug 2020
Topic Review
Extracellular Vesicles in Central Nervous System
Extracellular vesicles (EVs) form a heterogeneous group of membrane-enclosed structures secreted by all cell types. EVs export encapsulated materials composed of proteins, lipids, and nucleic acids, making them a key mediator in cell–cell communication. In the context of the neurovascular unit (NVU), a tightly interacting multicellular brain complex, EVs play a role in intercellular communication and in maintaining NVU functionality. In addition, NVU-derived EVs can also impact peripheral tissues by crossing the blood–brain barrier (BBB) to reach the blood stream. As such, EVs have been shown to be involved in the physiopathology of numerous neurological diseases.
  • 1.2K
  • 13 Dec 2022
Topic Review
Astrocytes and α-Syn in Parkinson’s Disease
The α-syn protein is a 140-amino-acid protein that comprises an N-terminal region that assumes an α-helical secondary structure upon membrane binding, a non-amyloid-component hydrophobic domain that can adopt a β-sheet conformation, promoting protein aggregation in its monomeric form, and a negatively charged C-terminal domain. Astrocytes greatly contribute to neuronal survival through numerous mechanisms, such as the secretion of neurotrophins and antioxidants, the clearance of α-synuclein, glutamate metabolism, fatty acid metabolism, and the transfer of healthy mitochondria to neurons.
  • 1.2K
  • 13 Mar 2024
Topic Review
Defining Blood Plasma and Serum Metabolome by GC-MS
Metabolomics uses advanced analytical chemistry methods to analyze metabolites in biological samples. The most intensively studied samples are blood and its liquid components: plasma and serum. Armed with advanced equipment and progressive software solutions, the scientific community has shown that small molecules’ roles in living systems are not limited to traditional “building blocks” or “just fuel” for cellular energy. 
  • 1.2K
  • 06 Jan 2022
Topic Review
Plant Xyloglucan:Xyloglucosyl Transferases
Plant xyloglucan:xyloglucosyl transferases, known as xyloglucan endo-transglycosylases (XETs) are the key players that underlie plant cell wall dynamics and mechanics. These fundamental roles are central for the assembly and modifications of cell walls during embryogenesis, vegetative and reproductive growth, and adaptations to living environments under biotic and abiotic (environmental) stresses. Xyloglucan:xyloglucosyl transferases or xyloglucan endo-transglycosylases (XET), classified under EC 2.4.1.207, transfer the glycosyl groups from one glycoside to another. These enzymes were discovered in 1992 independently in bean epicotyls, nasturtium seeds, and pea, tomato and other plant extracts, and since their discovery, significant knowledge has been accumulated on their mode of action.
  • 1.2K
  • 14 Feb 2022
Topic Review
Genetic Effects on Plant Immunity
An immune system is a protective mechanism that shields plants from environmental stresses. This primary function is to maintain optimal circumstances for the growth and development of plant tissues while avoiding harm from biotic and abiotic stress factors. Plants subjected to various stressors initiate stress signaling cascades that affect multiple gene expressions and induce adaptation. These signaling pathways are coordinated by transcription factors, non-coding RNAs, RNA-binding proteins, and protein-protein interaction networks.
  • 1.2K
  • 22 Nov 2022
Topic Review
Insights into Postoperative Cognitive Impairment Induced by Anesthesia
Cognitive impairment after surgery is a common problem, affects mainly the elderly, and can be divided into postoperative delirium and postoperative cognitive dysfunction. Both phenomena are accompanied by neuroinflammation; however, the precise molecular mechanisms underlying cognitive impairment after anesthesia are not yet fully understood. Anesthesiological drugs can have a longer-term influence on protein transcription, thus, epigenetics is a possible mechanism that impacts on cognitive function. Epigenetic mechanisms may be responsible for long-lasting effects and may implicate novel therapeutic approaches.
  • 1.2K
  • 19 Oct 2022
Topic Review
Cetuximab
Cetuximab is a human/mouse chimeric monoclonal antibody targeting epidermal growth factor receptor (EGFR), first approved in the world.
  • 1.2K
  • 12 Jan 2021
Topic Review
MIT for Uric Acid Determination
The application of molecular imprinting technology (MIT) is a fascinating way to obtain the highly selective analytical systems. The terminology of MIT is applicable to both (i) inorganic compounds as it was demonstrated on the silica gel-based system at the very beginning of the history of this technology and also for the (ii) polymeric compounds. In case of the MIT application for the systems based on the polymers, the obtained structures are called MIPs. Uric acid is a biologically active compound, which is found in human fluids (blood and urine). The increased (hyperuricemia) or decreased (hypouricemia) levels of uric acid in the blood and urine are linked to many diseases, including gout, diabetes (type 2), cardiovascular, kidney, and many other. MIPs are offering many analytical and/or technological advantages for electrochemical and some other analytical systems dedicated to the determination of uric acid, which is an important issue in biomedicine, environmental and food chemistry. 
  • 1.2K
  • 21 May 2021
Topic Review
FURIN in insulin receptor processing
The insulin receptor (IR) is critically involved in maintaining glucose homeostasis. It undergoes proteolytic cleavage by proprotein convertases, which is an essential step for its activation. The importance of the insulin receptor in the liver is well established, but its role in pancreatic β cells is still controversial.
  • 1.2K
  • 24 Jun 2021
Topic Review
Polyamines Catabolism
Polyamines (PAs) are organic polycations found ubiquitously in organisms, and, in mammals, they are mainly represented by putrescine (Put), spermidine (Spd), spermine (Spm) and their acetylated forms.
  • 1.2K
  • 01 Aug 2022
Topic Review
GSK-3
The serine/threonine kinase, GSK-3, is a promising drug discovery target for treating multiple pathological disorders. Most GSK-3 inhibitors that were developed function as ATP competitive inhibitors, with typical limitations in specificity, safety and drug-induced resistance. In contrast, substrate competitive inhibitors (SCIs), are considered highly selective, and more suitable for clinical practice. The development of SCIs has been largely neglected in the past because the ambiguous, undefined nature of the substrate-binding site makes them difficult to design. In this study, we used our previously described structural models of GSK-3 bound to SCI peptides, to design a pharmacophore model and to virtually screen the “drug-like” Zinc database (~6.3 million compounds). We identified leading hits that interact with critical binding elements in the GSK-3 substrate binding site and are chemically distinct from known GSK-3 inhibitors. Accordingly, novel GSK-3 SCI compounds were designed and synthesized with IC50 values of~1–4 μM. Biological activity of the SCI compound was confirmed in cells and in primary neurons that showed increased β-catenin levels and reduced tau phosphorylation in response to compound treatment. We have generated a new type of small molecule GSK-3 inhibitors and propose to use this strategy to further develop SCIs for other protein kinases.
  • 1.2K
  • 11 Mar 2021
Topic Review
Enhancer Regulation of WNT3A
Upon traumatic brain injury, epigenome reprograms allowing gene expressions for injury response and regeneration. Using chromatin immunoprecipitation-sequencing of histone marks, we identify a novel enhancer region for induced WNT3A transcription during regeneration of injured cortical neurons. An increased mono-methylation of histone H3 at lysine 4 (H3K4me1) modification and a topological transformation of this enhancer and with promoter of WNT3A gene orchestrate the transcription of WNT3A gene during neuronal regeneration.
  • 1.2K
  • 02 Nov 2020
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