scholarly journals Regulation and Site-Specific Covalent Labeling of NSUN2 via Genetic Encoding Expansion

Genes ◽  
2021 ◽  
Vol 12 (10) ◽  
pp. 1488
Author(s):  
Jizhong Zhao ◽  
Hongmei Hu ◽  
Sheng Wang ◽  
Li Wang ◽  
Rui Wang
Keyword(s):  
Click Reaction ◽  
Fluorescent Labeling ◽  
Rna Modification ◽  
Messenger Rnas ◽  
Special Groups ◽  
Wide Range ◽  
Substitution System ◽  
Living Organisms ◽  
Lysine Substitution ◽  
Upregulated Genes

In living organisms, RNA regulates gene expression, cell migration, differentiation, and cell death. 5-Methylcytosine is a post-transcriptional RNA modification in a wide range of RNA species, including messenger RNAs. The addition of m5C to RNA cytosines is enabled by the NSUN enzyme family, a critical RNA methyltransferase. In this study, natural lysines modified with special groups were synthesized. Through two rounds of positive screening and one round of negative screening, we evaluated and identified the MbPylRS-tRNACUA unnatural lysine substitution system, which specifically recognizes lysine with a defined group. Moreover, non-natural lysine substitution at C271 of NSUN2 active site and the subsequent fluorescent labeling was realized through the click reaction. Then, the function of the NSUN2 mutant and its upregulated CDK1 gene as well as its effect on cell proliferation were evaluated. Efficient labeling and regulation of NSUN2 was achieved, laying the basis for further studies on the function and regulatory mechanism of upregulated genes.

scholarly journals Precise Regulation and Site-specifically Covalent Labeling of NSUN2 Enable by Genetic Encoding Expansion

2020 ◽  
Author(s):  
Jizhong Zhao ◽  
Hongmei Hu ◽  
Sheng Wang ◽  
Li Wang ◽  
Rui Wang
Keyword(s):  
Gene Expression Regulation ◽  
Click Reaction ◽  
Critical Role ◽  
Living Organism ◽  
Fluorescent Labeling ◽  
Rna Modification ◽  
Genetic Encoding ◽  
Special Groups ◽  
Substitution System ◽  
Lysine Substitution

ABSTRACTRNA plays a critical role in gene expression regulation, cell migration, differentiation, cell death in living organism. 5-Methylcytosine is a post transcriptional RNA modification identified across wide ranges of RNA species including message RNAs. It is reported the addition of m5C to RNA cytosines is enabled by use of NSUN family enzyme, NSUN2 is identified as a critical RNA methyltransferase for adding m5C to mRNA. We demonstrated here that natural lysines modified with special groups were synthesized via chemical synthesis. Through two rounds of positive screening and one round of negative screening, MbPylRS-tRNAcua unnatural lysine substitution system which can specifically recognize lysine with defined group was evaluated and identified. Non-natural lysine substitution at C271 of NSUN2 active site and subsequently fluorescent labeling was realized via so-called click reaction. The function of NSUN2 mutant and its upregulated CDK1 gene and its effect on cell proliferation were also evaluated.

scholarly journals Graphene Oxide-Based Nanofiltration for Hg Removal from Wastewater: A Mini Review

Membranes ◽  
2021 ◽  
Vol 11 (4) ◽  
pp. 269
Author(s):  
Megawati Zunita
Keyword(s):  
Graphene Oxide ◽  
Negative Impact ◽  
Treatment Area ◽  
Functionalized Graphene Oxide ◽  
Flexible Membrane ◽  
High Mechanical Strength ◽  
Wide Range ◽  
Living Organisms ◽  
Filtration Properties ◽  
High Chemical Stability

Mercury (Hg) is one of heavy metals with the highest toxicity and negative impact on the biological functions of living organisms. Therefore, many studies are devoted to solving the problem of Hg separation from wastewater. Membrane-based separation techniques have become more preferable in wastewater treatment area due to their ease of operation, mild conditions and also more resistant to toxic pollutants. This technique is also flexible and has a wide range of possibilities to be integrated with other techniques. Graphene oxide (GO) and derivatives are materials which have a nanostructure can be used as a thin and flexible membrane sheet with high chemical stability and high mechanical strength. In addition, GO-based membrane was used as a barrier for Hg vapor due to its nano-channels and nanopores. The nano-channels of GO membranes were also used to provide ion mobility and molecule filtration properties. Nowadays, this technology especially nanofiltration for Hg removal is massively explored. The aim of the review paper is to investigate Hg removal using functionalized graphene oxide nanofiltration. The main focus is the effectiveness of the Hg separation process.

scholarly journals Characterization of an Insoluble and Soluble Form of Melanin Produced by Streptomyces cavourensis SV 21, a Sea Cucumber Associated Bacterium

Marine Drugs ◽  
2022 ◽  
Vol 20 (1) ◽  
pp. 54
Author(s):  
Joko Tri Wibowo ◽  
Matthias Y. Kellermann ◽  
Lars-Erik Petersen ◽  
Yustian R. Alfiansah ◽  
Colleen Lattyak ◽  
...  
Keyword(s):  
Biological Properties ◽  
Water Soluble ◽  
Soluble Form ◽  
Wide Range ◽  
Biological Form ◽  
Insoluble Form ◽  
New Perspective ◽  
Living Organisms ◽  
Purification Protocol

Melanin is a widely distributed and striking dark-colored pigment produced by countless living organisms. Although a wide range of bioactivities have been recognized, there are still major constraints in using melanin for biotechnological applications such as its fragmentary known chemical structure and its insolubility in inorganic and organic solvents. In this study, a bacterial culture of Streptomyces cavourensis SV 21 produced two distinct forms of melanin: (1) a particulate, insoluble form as well as (2) a rarely observed water-soluble form. The here presented novel, acid-free purification protocol of purified particulate melanin (PPM) and purified dissolved melanin (PDM) represents the basis for an in-depth comparison of their physicochemical and biological properties, which were compared to the traditional acid-based precipitation of melanin (AM) and to a synthetic melanin standard (SM). Our data show that the differences in solubility between PDM and PPM in aqueous solutions may be a result of different adjoining cation species, since the soluble PDM polymer is largely composed of Mg2+ ions and the insoluble PPM is dominated by Ca2+ ions. Furthermore, AM shared most properties with SM, which is likely attributed to a similar, acid-based production protocol. The here presented gentler approach of purifying melanin facilitates a new perspective of an intact form of soluble and insoluble melanin that is less chemical altered and thus closer to its original biological form.

scholarly journals The signalling role of ROS in the regulation of seed germination and dormancy

2019 ◽  
Vol 476 (20) ◽  
pp. 3019-3032 ◽  
Author(s):  
Christophe Bailly
Keyword(s):  
Seed Germination ◽  
Oxygen Species ◽  
Direct Oxidation ◽  
Cellular Events ◽  
Seed Physiology ◽  
Spatiotemporal Regulation ◽  
Wide Range ◽  
Living Organisms ◽  
Hormone Signalling

Abstract Reactive oxygen species (ROS) are versatile compounds which can have toxic or signalling effects in a wide range living organisms, including seeds. They have been reported to play a pivotal role in the regulation of seed germination and dormancy but their mechanisms of action are still far from being fully understood. In this review, we sum-up the major findings that have been carried out this last decade in this field of research and which altogether shed a new light on the signalling roles of ROS in seed physiology. ROS participate in dormancy release during seed dry storage through the direct oxidation of a subset of biomolecules. During seed imbibition, the controlled generation of ROS is involved in the perception and transduction of environmental conditions that control germination. When these conditions are permissive for germination, ROS levels are maintained at a level which triggers cellular events associated with germination, such as hormone signalling. Here we propose that the spatiotemporal regulation of ROS production acts in concert with hormone signalling to regulate the cellular events involved in cell expansion associated with germination.

scholarly journals COMPLEX ASSESSMENT OF BIOSOLID FOR AGRICULTURE USING LIVING ORGANISMS UNDER LABORATORY CONDITIONS

AGROFOR ◽  
2020 ◽  
Vol 5 (3) ◽  
Author(s):  
Ksenia PONOGAYBO ◽  
Liudmila VORONINA
Keyword(s):  
Tetrahymena Pyriformis ◽  
Integrated Approach ◽  
Water Soluble ◽  
Municipal Sewage ◽  
Municipal Sewage Sludge ◽  
Soil Extraction ◽  
Luminescent Bacteria ◽  
Wide Range ◽  
Test Organisms ◽  
Living Organisms

The use of biosolids (treated municipal sewage sludge) as a fertilizer is the best way of their disposal. However, not all of them are suitable for use as a fertilizer. Biosolids should be subject to mandatory laboratory control to confirm their safety. Two directions of research on biosolids are being improved: chemical and biological. Chemical analysis methods allow us to determine the qualitative composition of complex waste. The biological approach (use of living organisms) allows us to estimate the total toxicity of all the components. Accordingly, a distinctive characteristic of biological methods is the integrated approach. We examined biosolid extract using a wide range of bioassay methods. As test organisms, we took Daphnia magna Straus, Paramecium caudatum Ehrenberg, Tetrahymena pyriformis, luminescent bacteria Escherichia coli. In addition, a phytotest was carried out on the culture of Avena sativa L. and Raphanus sativus L. None of the tests revealed a high toxicity of biosolid. Biosolid safety was confirmed by a low content of potentially toxic water-soluble elements – (μg /l): Al3+ – 980; Ba2+ – 19; B – 140; Mn – 360; Cu – 61; As – 57; Ni – 200; Pb – 1,4; Sr2+ – 302; Cr – 18; Zn2+ – 310; Co – 30; Mo – 56; (mg/l): Na+ – 16,8; Fe – 1,0. The bioassay methods make it possible to give an indicative safety assessment of this type of object by the effect of readily soluble (readily available) components from this object on living organisms and plants. The use of bioassay methods using soil extraction as a control tool allows to take into account the combined effect of the presence in the extraction of not only toxic elements that suppress the vital activity of organisms, but also of elements that attract and stimulate the activity of test-organisms.

scholarly journals A IMPORTÂNCIA DAS CUMARINAS PARA A QUÍMICA MEDICINAL E O DESENVOLVIMENTO DE COMPOSTOS BIOATIVOS NOS ÚLTIMOS ANOS

Química Nova ◽  
2020 ◽  
Author(s):  
Daiana Franco ◽  
Thiago Pereira ◽  
Felipe Vitorio ◽  
Nathalia Nadur ◽  
Renata Lacerda ◽  
...  
Keyword(s):  
Chemical Space ◽  
Biological Activities ◽  
Research Projects ◽  
Wide Range ◽  
Non Covalent Interactions ◽  
Iupac Nomenclature ◽  
Living Organisms ◽  
Coumarin Compounds ◽  
New Treatments ◽  
Covalent Interactions

Coumarins are natural products characterized as 2H-chromen-2-one, according to IUPAC nomenclature, largely distributed in plants, as well as, in species of fungi and bacteria. Nowadays, many synthetic procedures allow the discovery of coumarins with expanded chemical space. The ability to exert non-covalent interactions with many enzymes an receptors in living organisms lead the coumarins to exhibit a wide range of biological activities and applications. Then, this manuscript provides an overview of the use of coumarin compounds in medicinal chemistry in treating many diseases. Important examples of the last years have been selected concerning the activities of coumarins as anticoagulant, anticancer, antioxidant, antiviral, antidiabetics, anti-inflammatory, antibacterial, antifungal, and anti-neurodegenerative agents. Thus, this work aims at contributing to the development of new rational research projects searching for new treatments and bioactive compounds for many pathologies using coumarin derivatives.

scholarly journals Directed Evolution of Aptamer Discovery Technologies

2021 ◽  
Author(s):  
Diana Wu ◽  
Chelsea Gordon ◽  
John Shin ◽  
Michael Eisenstein ◽  
Hyongsok Tom Soh
Keyword(s):  
High Throughput ◽  
High Throughput Screening ◽  
Click Reaction ◽  
Clinical Diagnostics ◽  
High Quality ◽  
Affinity Reagents ◽  
Wide Range ◽  
Target Binding ◽  
Modified Nucleobases ◽  
Parallel Fashion

Although antibodies are a powerful tool for molecular biology and clinical diagnostics, there are many emerging applications for which nucleic acid-based aptamers can be advantageous. However, generating high-quality aptamers with sufficient affinity and specificity for biomedical applications is a challenging feat for most research laboratories. In this Account, we describe four techniques developed in our lab to accelerate the discovery of high quality aptamer reagents that can achieve robust binding even for challenging molecular targets. The first method is particle display, in which we convert solution-phase aptamers into aptamer particles that can be screened via fluorescence-activated cell sorting (FACS) to quantitatively isolate individual aptamer particles based on their affinity. This enables the efficient isolation of high-affinity aptamers in fewer selection rounds than conventional methods, thereby minimizing selection biases and reducing the emergence of artifacts in the final aptamer pool. We subsequently developed the multi-parametric particle display (MPPD) method, which employs two-color FACS to isolate aptamer particles based on both affinity and specificity, yielding aptamers that exhibit excellent target binding even in complex matrices like serum. The third method is a click chemistry-based particle display (click-PD) that enables the generation and high-throughput screening of non-nattural aptamers with a wide range of base modifications. We have shown that these base-modified aptamers can achieve robust affinity and specificity for targets that have proven challenging or inaccessible with natural nucleotide-based aptamer libraries. Lastly, we describe the non-natural aptamer array (N2A2) platform, in which a modified benchtop sequencing instrument is used to characterize base-modified aptamers in a massively parallel fashion, enabling the efficient identification of molecules with excellent affinity and specificity for their targets. This system first generates aptamer clusters on the flow-cell surface that incorporate alkyne-modified nucleobases, and then performs a click reaction to couple those nucleobases to an azide-modified chemical moiety. This yields a sequence-defined array of tens of millions of base-modified sequences, which can then be characterized in a high-throughput fashion. Collectively, we believe that these advancements are helping to make aptamer technology more accessible, efficient, and robust, thereby enabling the use of these affinity reagents for a wider range of molecular recognition and detection-based applications.

scholarly journals Occurrence of the amphibians in the Volga, Don River basins and adjacent territories (Russia): research in 1996-2020

2020 ◽  
Vol 8 ◽  
Author(s):  
Alexander Ruchin ◽  
Oleg Artaev ◽  
Elvira Sharapova ◽  
Oleg Ermakov ◽  
Renat Zamaletdinov ◽  
...  
Keyword(s):  
Molecular Genetic ◽  
Genetic Research ◽  
Russian Plain ◽  
Amphibian Species ◽  
Volga River ◽  
Wide Range ◽  
Don River ◽  
Global Biodiversity ◽  
Single Standard ◽  
Living Organisms

Knowledge about the distribution of living organisms on Earth is very important for many areas of biological science and understanding of the surrounding world. However, much of the existing distributional data are scattered throughout a multitude of sources, such as taxonomic publications, checklists and natural history collections and often, bringing them together is difficult. A very successful attempt to solve this problem is the GBIF project, which allows a huge number of researchers to publish data in one place in a single standard. Our dataset represents a significant addition to the occurrences of amphibians in the Volga, Don riverine basins and adjacent territories. The dataset contains up-to-date information on amphibian occurrences in the Volga river basin and adjacent territories, located for the most part on the Russian plain of European Russia. The dataset is based on our own studies that were conducted in the years 1996-2020. The dataset consists of 5,030 incident records, all linked to geographical coordinates. A total of 13 amphibian species belonging to nine genera and six families have been registered within the studied territory, although the distribution of amphibian species in this region of Russia has not yet been fully studied. This is especially relevant with the spread of cryptic species that can only be identified using molecular genetic research methods. The main purpose of publishing a database is to make our data available in the global biodiversity system to a wide range of users. The data can be used by researchers, as well as helping the authorities to manage their territory more efficiently. All occurrences are published in GBIF for the first time. Most of the data are stored in field diaries and we would like to make it available to everyone by adding it in the global biodiversity database (GBIF).

scholarly journals Quantitative Assessment of Organic And Inorganic Contaminants In Charcoal Applied for Food Processing

2021 ◽  
Author(s):  
Zbigniew Jelonek ◽  
Monika Fabiańska ◽  
Iwona Jelonek
Keyword(s):  
Toxic Elements ◽  
Prolonged Exposure ◽  
Gas Chromatography Mass Spectrometry ◽  
Moderate Degree ◽  
Inorganic Contaminants ◽  
Low Degree ◽  
Wide Range ◽  
Polycyclic Aromatic ◽  
Living Organisms ◽  
High Degree

Abstract Thirty-one batches of commercial charcoal from various regions of Poland and Germany were tested for the presence of twenty toxic elements and polycyclic aromatic hydrocarbons (PAHs) using gas chromatography - mass spectrometry (GC-MS). Elements that are toxic to living organisms were determined using atomic absorption spectroscopy (AAS). They were classified as elements representing a very high degree of hazard (As, Cd, Cu, Hg, and Pb), high degree of hazard (Zn, Ba, Cr, Mn, and Mo), moderate degree of hazard (Co, Ni, Sn, and Te), and a low degree of hazard for living organisms and the environment (Ag, Bi, Ce, Se, Sr, and Zr). When it comes to the most toxic elements, the highest concentration in the whole tested material was recorded for Cu. In addition, considerable amounts of Ba, Mn, and Sr, i.e., elements representing high or moderate degree of hazard, were found in the tested charcoals. Moreover, all charcoals contained a wide range of PAHs, from naphthalene to benzo(ghi)perylene, with concentrations in the range between 12.55 and 3554.11 ng/g of charcoal. In total, 25 unsubstituted PAHs were identified in the charcoal extracts. PAHs distributions were dominated by 5-ring PAHs. The results indicate the high carcinogenicity with ∑PAHcarc/∑PAHtot close to 1, as well as high TEQ and MEQ values. Thus, prolonged exposure to charcoal and charcoal dust might cause serious health problems. This applies to employees actively involved in the production and transport of charcoal, and, to a lesser extent, also to users of this fuel.

Introductions as Factors in Diseases of Fish and Aquatic Invertebrates

1991 ◽  
Vol 48 (S1) ◽  
pp. 110-117 ◽  
Author(s):  
James E. Stewart
Keyword(s):  
Aquatic Invertebrates ◽  
Control Measures ◽  
Pet Trade ◽  
Inland Fisheries ◽  
Wide Range ◽  
The World ◽  
Advisory Commission ◽  
Local Species ◽  
Living Organisms ◽  
Trade Control

Fish and invertebrates are subject to a wide range of disease agents. Many of their diseases are probably local in origin although a lengthy list of infections were probably imported via the vast array of exotic species which have been transferred to virtually all areas of the world. Since ail living organisms carry a full suite of microorganisms and larger parasites the likelihood of there being pathogens for local species among them is good. Introductions can occur in at least one of three separate ways: (1) intentional introductions for specific purposes, (2) accidental transport of biological agents via massive transfers of ballast waters or (3) through the ornamental or aquatic pet trade. Control measures and information services devised by the International Council for the Exploration of the Sea, the European Inland Fisheries Advisory Commission and the Office International des Epizooties are described.

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