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Topic Review
Modulation of Class I TCP Protein Activity
TEOSINTE BRANCHED1, CYCLOIDEA, PROLIFERATING CELL FACTOR 1 and 2 (TCP) proteins constitute a plant-specific transcription factors family exerting effects on multiple aspects of plant development, such as germination, embryogenesis, leaf and flower morphogenesis, and pollen development, through the recruitment of other factors and the modulation of different hormonal pathways. They are divided into two main classes, I and II. The roles of class TCPs from class I in plant growth and development, as well as the modulation of their activity through interaction with other proteins and redox interconversions, proteolytic processing, or intra- or intercellular movement are discussed. Additionally, the function of these proteins in response to different environmental conditions is discussed.
  • 632
  • 03 Apr 2023
Topic Review
Mesenchymal-Stromal-Cell-Conditioned Media
Despite significant advances in biomedical research, osteochondral defects resulting from injury, an autoimmune condition, cancer, or other pathological conditions still represent a significant medical problem. Cell-based therapies and tissue engineering have gradually become promising alternatives. They combine the use of different types of cells and biomaterials to induce regeneration processes or replace damaged osteochondral tissue. One of the main challenges of this approach before clinical translation is the large-scale in vitro expansion of cells without changing their biological properties, while the use of conditioned media which contains various bioactive molecules appears to be very important.
  • 632
  • 28 May 2023
Topic Review
Hematopoietic stem cell: regulation and nutritional intervention
Hematopoietic stem cells (HSCs) are multipotent precursors with the unique ability to self-renew into all cell types and self-regenerate in order to resume proliferation in the blood-forming system. They are crucial for the life maintenance of bio-organisms. Investigation into the functioning of HSCs remains a prominent and dynamic area of exploration by researchers. Here we summarizes the intrinsic factors (i.e., RNA-binding protein, modulators in epigenetics and enhancer–promotor-mediated transcription) essential to the function of HSCs.
  • 632
  • 09 Jun 2023
Topic Review
Vascular Endothelial Cell Senescence and Death
Endothelial cells (ECs) form the inner linings of blood vessels, and are directly exposed to endogenous hazard signals and metabolites in the circulatory system. The senescence and death of ECs are not only adverse outcomes, but also causal contributors to endothelial dysfunction, an early risk marker of atherosclerosis. The pathophysiological process of EC senescence involves both structural and functional changes and has been linked to various factors, including oxidative stress, dysregulated cell cycle, hyperuricemia, vascular inflammation, and aberrant metabolite sensing and signaling. Multiple forms of EC death have been documented in atherosclerosis, including autophagic cell death, apoptosis, pyroptosis, NETosis, necroptosis, and ferroptosis. Despite this, the molecular mechanisms underlying EC senescence or death in atherogenesis are not fully understood.
  • 632
  • 17 Oct 2023
Topic Review
Mapping the Protein Kinome
The kinome includes over 500 different protein kinases, which form an integrated kinase network that regulates cellular phosphorylation signals. The kinome plays a central role in almost every cellular process and has strong linkages with many diseases. Thus, the evaluation of the cellular kinome in the physiological environment is essential to understand biological processes, disease development, and to target therapy. A number of strategies for kinome analysis have been developed, which are based on monitoring the phosphorylation of kinases or substrates. They have enabled researchers to tackle increasingly complex biological problems and pathological processes, and have promoted the development of kinase inhibitors. Additionally, with the increasing interest in how kinases participate in biological processes at spatial scales, it has become urgent to develop tools to estimate spatial kinome activity. With multidisciplinary efforts, a growing number of novel approaches have the potential to be applied to spatial kinome analysis. 
  • 629
  • 26 Apr 2023
Topic Review
Epigenetics and Alzheimer’s Disease and Parkinson’s Disease
Chronic neurodegenerative disorders are believed to be caused by a combination of multiple events that damage neuronal function. Alzheimer’s disease (AD) is the most common neurodegenerative disorder, and Parkinson’s disease (PD) is the second-most common neurodegenerative disorder worldwide. Epigenetics is defined as the stable inheritance of a phenotype, resulting from changes in the chromosomal DNA without mutations in the nucleotide sequence. A number of epigenetic research has revealed that the modification of histones accompanied by both a local and global remodeling of the chromatin structure and alternations in the transcriptional patterns are closely associated with the pathogenesis of neurodegenerative diseases, including AD and PD. 
  • 629
  • 06 Sep 2023
Topic Review
PTEN-p53-AKT-MDM2 Loop in Mesenchymal Stem/Stromal Cells Regulation
Mesenchymal stromal/stem cells (MSCs) are multipotent cells that can differentiate to various specialized cells, which have the potential capacity to differentiate properly and accelerate recovery in damaged sites of the body. This stem cell technology has become the fundamental element in regenerative medicine. As reactive oxygen species (ROS) have been reported to adversely influence stem cell properties, it is imperative to attenuate the extent of ROS to the promising protective approach with MSCs’ regenerative therapy. Oxidative stress also affects the culture expansion and longevity of MSCs. Therefore, there is great need to identify a method to prevent oxidative stress and replicative senescence in MSCs. Phosphatase and tensin homologue deleted on chromosome 10/Protein kinase B, PKB (PTEN/AKT) and the tumor suppressor p53 pathway have been proven to play a pivotal role in regulating cell apoptosis by regulating the oxidative stress and/or ROS quenching.
  • 629
  • 08 Sep 2023
Topic Review
Extracellular Vesicles Regulate Wnt Signaling in Hepatocellular Carcinoma
So far, extracellular vesicles (EVs) have played an important role in the progression of multiple cancers by regulating the Wnt pathway. The regulation of Wnt signaling by Evs in hepatocellular carcinoma (HCC) is primarily achieved by modulating the classical pathway.
  • 628
  • 24 Apr 2023
Topic Review
Methylation in Period2 (PER2) Transcription
It has been proposed that carbon monoxide (CO) is a chemical light carrier that is transferred by the humoral pathway from the retina to the brain. Here, we aimed to study how deeply CO is involved in regulating the expression of Period2 gene (PER2), one of the genes maintaining the intrinsic biological clock.
  • 627
  • 05 Aug 2021
Topic Review
Continuum of Protein Structures and Dynamics for Function
The range of protein conformational dynamics in nature can be roughly classified into four general categories of increasing complexity and thus difficulty for characterization and prediction. The simplest case is local conformational dynamics within a largely well-defined native fold. Such dynamics include atomic thermal fluctuations around the native structure, which measure the local rigidity.
  • 627
  • 15 Jun 2023
Topic Review
Matrix Vesicles and Media Vesicles
Mineralization-competent cells, including hypertrophic chondrocytes, mature osteoblasts, and osteogenic-differentiated smooth muscle cells secrete media extracellular vesicles (media vesicles) and extracellular vesicles bound to the extracellular matrix (matrix vesicles). Media vesicles are purified directly from the extracellular medium. On the other hand, matrix vesicles are purified after discarding the extracellular medium and subjecting the cells embedded in the extracellular matrix or bone or cartilage tissues to an enzymatic treatment. 
  • 626
  • 04 Jan 2024
Topic Review
Application of μPADs in Detection of Cancer Biomarkers
Microfluidics is very crucial in lab-on-a-chip systems for carrying out operations in a large-scale laboratory environment on a single chip. Microfluidic systems are miniaturized devices in which the fluid behavior and control can be manipulated on a small platform, with surface forces on the platform being greater than volumetric forces depending on the test method used. Paper-based microfluidic analytical devices (μPADs) have been developed to be used in point-of-care (POC) technologies. μPADs have numerous advantages, including ease of use, low cost, capillary action liquid transfer without the need for power, the ability to store reagents in active form in the fiber network, and the capability to perform multiple tests using various measurement techniques. These benefits are critical in the advancement of paper-based microfluidics in the fields of disease diagnosis, drug application, and environment and food safety. Cancer is one of the most critical diseases for early detection all around the world. Detecting cancer-specific biomarkers provides significant data for both early diagnosis and controlling the disease progression. μPADs for cancer biomarker detection hold great promise for improving cure rates, quality of life, and minimizing treatment costs. 
  • 625
  • 06 Apr 2023
Topic Review
Yin and Yang of IκB Kinases in Cancer
IκB kinases (IKKs), specifically IKKα and IKKβ, have long been recognized for their pivotal role in the NF-κB pathway, orchestrating immune and inflammatory responses.
  • 625
  • 03 Jan 2024
Topic Review
Caenorhabditis elegans Models Established for Amyotrophic Lateral Sclerosis
Amyotrophic lateral sclerosis (ALS) is a lethal motor neuron disease characterised by the selective and gradual loss of motor neurons in the spinal, bulbar and cortical regions. C. elegans has established itself as a favoured model organism in the field of neurodegenerative disease research. Through analysis of gene mutations pertinent to these disease, it provides a unique opportunity to identify pathogenic molecular pathways and explore promising therapeutic options. 
  • 624
  • 10 Jan 2024
Topic Review
IQGAPs
IQ motif-containing GTPase-activating proteins (IQGAPs) modulate a wide range of cellular processes by acting as scaffolds and driving protein components into distinct signaling networks. Their functional states have been proposed to be controlled by members of the RHO family of GTPases, among other regulators. In this study, we show that IQGAP1 and IQGAP2 can associate with CDC42 and RAC1-like proteins but not with RIF, RHOD, or RHO-like proteins, including RHOA. This seems to be based on the distribution of charged surface residues, which varies significantly among RHO GTPases despite their high sequence homology. Although effector proteins bind first to the highly flexible switch regions of RHO GTPases, additional contacts outside are required for effector activation. Sequence alignment and structural, mutational, and competitive biochemical analyses revealed that RHO GTPases possess paralog-specific residues outside the two highly conserved switch regions that essentially determine the selectivity of RHO GTPase binding to IQGAPs. Amino acid substitution of these specific residues in RHOA to the corresponding residues in RAC1 resulted in RHOA association with IQGAP1. Thus, electrostatics most likely plays a decisive role in these interactions
  • 623
  • 01 Dec 2021
Topic Review
Oncogenic miRNAs in Breast Cancer Progression and Metastasis
Both clinical samples and cancer cell lines provide researchers with an insight into the complex structure and hierarchy of cancer. Intratumor heterogeneity allows for multiple cancer cell subpopulations to simultaneously coexist within tumors. One category of these cancer cell subpopulations is cancer stem cells (CSCs), which possess stem-like characteristics and are not easily detectable. In the case of breast cancer, which is the most prevalent cancer type among females, such subpopulations of cells have been isolated and characterized via specific stem cell markers. These stem-like cells, known as breast cancer stem cells (BCSCs), have been linked to major events during tumorigenesis including invasion, metastasis and patient relapse following conventional therapies. Complex signaling circuitries seem to regulate the stemness and phenotypic plasticity of BCSCs along with their differentiation, evasion of immunosurveillance, invasiveness and metastatic potential. Within these complex circuitries, new key players begin to arise, with one of them being a category of small non-coding RNAs, known as miRNAs.
  • 621
  • 25 Jun 2023
Topic Review
Neuroprotective Action of Humanin and Humanin Analogues
Humanin is a 24-mer peptide first reported in the early 2000s as a new neuroprotective/cytoprotective factor rescuing neuronal cells from death induced by various Alzheimer’s disease-associated insults. Nowadays it is known that humanin belongs to the novel class of the so-called mitochondrial-derived peptides (which are encoded by mitochondrial DNA) and has been shown to exert beneficial cytoprotective effects in a series of in vitro and/or in vivo experimental models of human diseases, including not only neurodegenerative disorders but other human diseases as well (e.g., age-related macular degeneration, cardiovascular diseases, or diabetes mellitus).
  • 621
  • 08 Jan 2024
Topic Review
Long Non-Coding RNAs in Neurodegenerative Diseases
Long non-coding RNAs (lncRNAs) are novel genetic biomarkers that can be used as exclusionary tools specific to Neurodegenerative diseases (NDDs). These historical biomarkers have been there for years, so a change in the approach is necessary to better diagnose and treat these NDDs.
  • 621
  • 18 Mar 2024
Topic Review
RXynSOS
A GH10 β-1,4-endoxylanase (XynSOS), from the ascomycetous fungus Talaromyces amestolkiae, has been heterologously produced in Pichia pastoris, purified, and characterized. rXynSOS is a highly glycosylated monomeric enzyme of 53 kDa that contains a functional CBM1 domain and shows its optimal activity on azurine cross-linked (AZCL)–beechwood xylan at 70 °C and pH 5. rXynSOS was capable of transglycosylating phenolic compounds, although with low efficiencies.
  • 620
  • 14 Mar 2022
Topic Review
Molecular Biology of Miscanthus
Miscanthus is a perennial wild plant that is vital for the production of paper and roofing, as well as horticulture and the development of new high-yielding crops in temperate climates. Chromosome-level assembly of the ancient tetraploid genome of miscanthus chromosomes is reported to provide resources that can link its chromosomes to related diploid sorghum and complex polyploid sugarcane. 
  • 620
  • 25 Aug 2023
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