C Proteins: Controllers of Orderly Paramyxovirus Replication and of the Innate Immune Response

Particles of many paramyxoviruses include small amounts of proteins with a molecular weight of about 20 kDa. These proteins, termed “C”, are basic, have low amino acid homology and some secondary structure conservation. C proteins are encoded in alternative reading frames of the phosphoprotein gene. Some viruses express nested sets of C proteins that exert their functions in different locations: In the nucleus, they interfere with cellular transcription factors that elicit innate immune responses; in the cytoplasm, they associate with viral ribonucleocapsids and control polymerase processivity and orderly replication, thereby minimizing the activation of innate immunity. In addition, certain C proteins can directly bind to, and interfere with the function of, several cytoplasmic proteins required for interferon induction, interferon signaling and inflammation. Some C proteins are also required for efficient virus particle assembly and budding. C-deficient viruses can be grown in certain transformed cell lines but are not pathogenic in natural hosts. C proteins affect the same host functions as other phosphoprotein gene-encoded proteins named V but use different strategies for this purpose. Multiple independent systems to counteract host defenses may ensure efficient immune evasion and facilitate virus adaptation to new hosts and tissue environments.

Evolutionary traits of Tick-borne encephalitis virus: Pervasive non-coding RNA structure conservation and molecular epidemiology

Tick-borne encephalitis virus (TBEV) is the etiological agent of tick-borne encephalitis, an infectious disease of the central nervous system that is often associated with severe sequelae in humans. While TBEV is typically classified into three subtypes, recent evidence suggests a more varied range of TBEV subtypes and lineages that differ substantially in their 3'UTR architecture. Building on comparative genomics approaches and thermodynamic modeling, we characterize the TBEV 3'UTR structureome diversity and propose a unified picture of pervasive non-coding RNA (ncRNA) structure conservation. Moreover, we provide an updated phylogeny of TBEV, building on more than 220 publicly available complete genomes, and investigate the molecular epidemiology and phylodynamics with Nextstrain, a web-based visualization framework for real-time pathogen evolution.

Metallothioneins: Diverse Protein Family to Bind Metallic Ions

Metallothionein’s (MTs) are the lower molecular weight (6-7 kDa) proteins that are found to be present in almost all organism types ranging from prokaryotes to eukaryotes species. MT are the metal detecting proteins that can mitigate the effect caused by the excess metal ions. They are also found to be involved in cellular process such as cell growth regulation, ROS (Reactive Oxygen Species) and DNA repair. The protein was termed as Metallothionein due to the unusual higher metal (metallo) and the sulfur (thiol) content. They are further grouped into 3 classes viz., class I, II and III. The Class I and II MTs are polypeptides that were obtained from direct gene products, the class III MTs are from the cysteine-rich non-translational molecules that are termed as phytochelatins. The metal ions are been sequestered through the MTs with Cys rich motifs. All the cysteines are present in the reduced form and are been co-ordinated through the mercaptide bonds. The cysteines present in the MTs are preserved across the species, it is supposed that, cysteines are essential for the function and the MTs are required for the life. Metallothionins structure, conservation in evolution, their ubiquitous nature of occurrence, the genes redundancy and the programmed MTs synthesis in development, regeneration and reproduction of living organisms are some of the weighty arguments in suspecting MTs to also serve others and perhaps the high particular metal-related cellular roles. In this chapter, there is a detailed discussion about Metallothionein its structure, occurrence and function.

Entrainment of Endangered Sturgeon by a Large Water Diversion: Rescue, Enumeration, and Conservation Opportunities

The Bonnet Carre’ Spillway diverts water from the Mississippi River through a floodway into Lake Pontchartrain to reduce river stages at New Orleans and prevent flood damages. Pallid Sturgeon, a federally listed species under the Endangered Species Act, and Shovelnose Sturgeon, listed under the Similarity of Appearance rule, are entrained through the Spillway structure and become trapped in the Spillway canals and other waterbodies. Five openings and corresponding rescue operations occurred between 2008 and 2019 after each Spillway closure. Operational parameters spanned a range of water temperatures and seasons with magnitude and duration of discharge varying across all openings. A total of 70 days with crew number ranging from 6 to 12 were expended to rescue 57 Pallid Sturgeon and 362 Shovelnose Sturgeon after the five openings that spanned 240 total days. More sturgeon were entrained at higher water temperatures, with greater numbers of bays opened, and for longer periods of time. Recovery of sturgeon is initially high but over time declines as sturgeon are depleted from the floodway, stranded in isolated waterbodies in the floodway, and/or displaced further downstream into Lake Pontchartrain during longer openings. Sturgeon that cannot find their way back to the floodway are unlikely to be rescued. Recent population studies indicate that less than 1% of the total population size in the Lower Mississippi River are entrained. However, this does not take into account those individuals entrained but not captured and the potential impacts of more frequent openings of the structure. Conservation recommendations are provided to increase catch efficiency and recovery of the endangered sturgeon.

Divergent low-density lipoprotein receptor (LDLR) linked to low VSV G-dependent viral infectivity and unique serum lipid profile in zebra finches

The low-density lipoprotein receptor (LDLR) is key to cellular cholesterol uptake and is also the main receptor for the vesicular stomatitis virus glycoprotein (VSV G). Here we show that in songbirds LDLR is highly divergent and lacks domains critical for ligand binding and cellular trafficking, inconsistent with universal structure conservation and function across vertebrates. Linked to the LDLR functional domain loss, zebra finches show inefficient infectivity by lentiviruses (LVs) pseudotyped with VSV G, which can be rescued by the expression of human LDLR. Finches also show an atypical plasma lipid distribution that relies largely on high-density lipoprotein (HDL). These findings provide insights into the genetics and evolution of viral infectivity and cholesterol transport mechanisms in vertebrates.

Electrolyte-Dependent Modification of Resistive Switching in Anodic Hafnia

Anodic HfO2 memristors grown in phosphate, borate, or citrate electrolytes and formed on sputtered Hf with Pt top electrodes are characterized at fundamental and device levels. The incorporation of electrolyte species deep into anodic memristors concomitant with HfO2 crystalline structure conservation is demonstrated by elemental analysis and atomic scale imaging. Upon electroforming, retention and endurance tests are performed on memristors. The use of borate results in the weakest memristive performance while the citrate demonstrates clear superior memristive properties with multilevel switching capabilities and high read/write cycling in the range of 106. Low temperature heating applied to memristors shows a direct influence on their behavior mainly due to surface release of water. Citrate-based memristors show remarkable properties independent on device operation temperatures up to 100 °C. The switching dynamic of anodic HfO2 memristors is discussed by analyzing high resolution transmission electron microscope images. Full and partial conductive filaments are visualized, and apart from their modeling, a concurrency of filaments is additionally observed. This is responsible for the multilevel switching mechanism in HfO2 and is related to device failure mechanisms.

Unravelling Structure, Localization, and Genetic Crosstalk of KLF3 in Human Breast Cancer

Breast cancer is the most prevailing disease among women. It actually develops from breast tissue and has heterogeneous and complex nature that constitutes multiple tumor quiddities. These features are associated with different histological forms, distinctive biological characteristics, and clinical patterns. The predisposition of breast cancer has been attributed to a number of genetic factors, associated with the worst outcomes. Unfortunately, their behavior with relevance to clinical significance remained poorly understood. So, there is a need to further explore the nature of the disease at the transcriptome level. The focus of this study was to explore the influence of Krüppel-like factor 3 (KLF3), tumor protein D52 (TPD52), microRNA 124 (miR-124), and protein kinase C epsilon (PKCε) expression on breast cancer. Moreover, this study was also aimed at predicting the tertiary structure of KLF3 protein. Expression of genes was analyzed through real-time PCR using the delta cycle threshold method, and statistical significance was calculated by two-way ANOVA in Graphpad Prism. For the construction of a 3D model, various bioinformatics software programs, Swiss Model and UCSF Chimera, were employed. The expression of KLF3, miR-124, and PKCε genes was decreased (fold change: 0.076443, 0.06969, and 0.011597, respectively). However, there was 2-fold increased expression of TPD52 with p value < 0.001 relative to control. Tertiary structure of KLF3 exhibited 80.72% structure conservation with its template KLF4 and was 95.06% structurally favored by a Ramachandran plot. These genes might be predictors of stage, metastasis, receptor, and treatment status and used as new biomarkers for breast cancer diagnosis. However, extensive investigations at the tissue level and in in vivo are required to further strengthen their role as a potential biomarker for prognosis of breast cancer.

Reanatomization of anterior teeth with composite resin: case report

Dental diastema is a space or absence of contact between two consecutive teeth, which may represent an aesthetic embarrassment for the patient when smiling. For the aesthetic resolution of diastema some factors should be evaluated as, age of the patient, dental structure conservation, reversibility of treatment, cost and longevity. For closing diastema, for a long time, the clinical alternatives were the use of orthodontics and fixed prostheses. Currently, with composite resins, it is possible to reproduce natural characteristics of the teeth with a direct, reversible restorative technique, without the wear of healthy dental structure, with affordable cost, able to provide satisfactory aesthetic results. The aim of this study is to report a case of a patient diagnosed with inter incisor diastema and to present a literature review. Patient, male, 70 years old, was attended at oral clinic of Ingá University Center - Uningá, complaining about the aesthetics of his smile. Clinically, was observed the presence of a diastema between upper incisor, fracture of incisal edge of central incisors and poor dental positioning. A reverse planning of the case was carried out through diagnostic waxing. With aid of a silicone guide, the diastema was closed through reanatomizations in composite resin. After the proposed treatment, was possible to obtain a satisfactory aesthetic in the patient's smile. The closure of diastema, with the use of composite resins was able to provide a better contour to the teeth, closing the spaces present, resulting in an aesthetic and pleasant smile.

Coding Structure for the ORF1ab, S, M and N Coronavirus Genes

Spectral-statistical approach was applied to comparative analysis of coronavirus genomes from the four genus Alphacoronavirus, Betacoronavirus (including new SARS-CoV-2 virus), Gammacoronavirus and Deltacoronavirus. This analysis was done from the point of view of 3-regularity and latent triplet profile periodicity existence in the coding sequences of four structural genes: ORF1ab encoding transcriptase; S-gene of glycoprotein forming spikes; M-gene of membrane protein; N-gene of nucleoprotein. A whole number of the genomes analyzed was equal to 3410. Gene numbers in each of the four groups in the study respectively were the same. In the result, practically, in the CDSs of all analyzed genes of ORF1ab, S and N the latent profile triplet periodicity was revealed and high value of 3-regularity index, being a quality estimate of coding triplet structure conservation, was determined. On the contrary, for coding structure of M-genes a tendency was revealed to diffuse up to homogeneity for 60 % of the genes in the genomes of alphacoronaviruses analyzed and for 67 % of the genes of the gammacoronaviruses. Tendency of the such structure diffusion, being accompanied by decrease of 3-regularity index average value in comparison with other genes, while the triplet profile periodicity remains saved, was also noted for M-genes of SARS-CoV-2 viruses. Probably, this tendency reflects a significance of M-genes variability in coronavirus adaptation to the novel hosts of genus. Analysis of 3-profile periodicity matrices of the four groups of SARS-CoV-2 genes considered in the work, for the viruses isolated in Europe, Asia and USA, did not revealed their significant difference, that is allowing to propose a single source of this virus propagation.