D.P. Nagahawatta- Doctor of Philosophy
- Researcher at Jeju National University
D.P. Nagahawatta
- Doctor of Philosophy
- Researcher at Jeju National University
Developing antiviral agents against SARS-CoV-2 using marine natural compounds
About
54
Publications
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534
Citations
Introduction
Current institution
Additional affiliations
March 2019 - April 2021
Position
- PhD Student
Description
- Developing a drug agent against SARS-CoV-2 from Marine algae
Education
March 2014 - April 2018
Publications
Publications (54)
Background
A sea cucumber (Stichopus japonicus) is an invertebrate rich in high-quality protein peptides that inhabits the coastal seas around East Asian countries. Such bioactive peptides can be utilized in targeted disease therapies and practical applications in the nutraceutical industry.
Methods
Bioactive peptides were isolated from Stichopus...
Marine natural products comprise unique chemical structures and vast varieties of biological activities. This review aims to summarize halichondrin, a marine natural product, and its synthetic analogs along with its therapeutic properties and mechanisms. Halichondrin and its analogs, derived from marine sponges, exhibit potent antineoplastic proper...
Cardiovascular diseases (CVDs) are responsible for significant mortality rates globally that have been raised due to the limitation of the available treatments and prevalence of CVDs. The innovative research and identification of potential preventives for CVDs are essential to alleviate global deaths and complications. The marine environment is a r...
Cyclic imines (CIs) produced by microalgal species that accumulate in the food chains of marine organisms are novel biotoxins that do not belong to the classic group of marine biotoxins. In the past, CIs were found only in limited areas; however, in recent years, rapid changes in marine ecosystems have led to widespread CIs and increased exposure t...
Muscle atrophy is a detrimental and injurious condition that leads to reduced skeletal muscle mass and disruption of protein metabolism. Oyster (Crassostrea nippona) is a famous and commonly consumed shellfish in East Asia and has become a popular dietary choice worldwide. The current investigation evaluated the efficacy of C. nippona against muscl...
Unlabelled:
A novel coronavirus, known as severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), has surfaced and caused global concern owing to its ferocity. SARS-CoV-2 is the causative agent of coronavirus disease 2019; however, it was only discovered at the end of the year and was considered a pandemic by the World Health Organization. T...
Fish head byproducts derived from surimi processing contribute about 15% of the total body weight, which are beneficial to health because they contain essential nutrients. In this study, olive flounder (OF) was the target species in order to maximize the byproduct utilization. In RAW 264.7 macrophages, the seven hydrolysates from OF head byproducts...
Sulfated polysaccharides (SPs) isolated from seaweed have emerged as remarkable bioactive compounds with a wide spectrum of biological activities and have substantial value in the scientific and industrial domains. The current study explores the diverse biological activities of SPs and their relationship with their structures. This aids in an in-de...
Inflammatory diseases caused by air pollution, especially from particulate matter (PM) exposure, have increased daily. Accordingly, attention to treatment or prevention for these inflammatory diseases has grown. Natural products have been recognized as promising sources of cures and prevention for not only inflammatory but also diverse illnesses. A...
Olive flounder (OF) is a widely aqua-cultivated and recognized socioeconomic resource in Korea. However, more than 50% of by-products are generated when processing one OF, and there is no proper way to utilize them. With rising awareness and interest in eco-friendly bio-materialization recycling, this research investigates the potential of enzymati...
Low molecular weight polysaccharides can be isolated from Sargassum thunbergii (LMPST) and in vitro experiments were conducted to evaluate the inhibitory effects on lipids. Two natures of LMPST were attained from S. thunbergii and appraised their LMPST on palmitic acid (PA) induced lipid accretion in HepG2, and 3T3-L1 cells. LMPST treatment lessene...
The limited availability of treatments for many infectious diseases highlights the need for new treatments, particularly for viral infections. Natural compounds from seaweed are attracting increasing attention for the treatment of various viral diseases, and thousands of novel compounds have been isolated for the development of pharmaceutical produ...
Fucoidans are sulfate-rich polysaccharides with a wide variety of beneficial biological activities. The present study aimed to highlight the anti-inflammatory activity of fucoidan from the brown seaweed Sargassum autumnale (SA) against lipopolysaccharide (LPS)-induced RAW 264.7 macrophage cells. Among the isolated fucoidan fractions, the third frac...
The skin is the outermost anatomical barrier, which plays a vital role in the maintenance of internal homeostasis and protection against physical, chemical, and biological detractors. Direct contact with various stimuli leads to several physiological changes that are ultimately important for the growth of the cosmetic industry. Due to the consequen...
Inflammatory bowel disease (IBD) is a prominent global public health issue. Anti-inflammatory medications, immunosuppressants, and biological therapies are currently used as treatments. However, they are often unsuccessful and have negative consequences on human health. Thus, there is a tremendous demand for using natural substances, such as seawee...
The brown seaweed, Scytosiphon lomentaria, is widely distributed worldwide but has received less research attention. Several studies have reported sulfated polysaccharides to be potential candidates for the development of nutraceuticals and functional foods. However, their anti-inflammatory properties and underlying mechanisms are yet to be elucida...
The continuous upsurge of airborne particulate matter (PM) is considered a major threat to human health all around worldwide, especially in East Asian countries. PM-induced lung inflammation contributes to acute lung injury (ALI), a critical condition with a high mortality rate. The current study aims at exploring the potential underlying mechanism...
A global health concern has emerged as a response to the recent SARS-CoV-2 pandemic. The identification and inhibition of drug targets of SARS-CoV-2 is a decisive obligation of scientists. In addition to the cell entry mechanism, SARS-CoV-2 expresses a complicated replication mechanism that provides excellent drug targets. Papain-like protease (PLp...
Sulfated polysaccharides extracted from brown algae are unique algal polysaccharides and potential ingredients in the cosmeceutical, functional food, and pharmaceutical industries. Therefore, the present study evaluated the cosmeceutical effects, including antioxidant, anti-wrinkle, anti-inflammation, and photoprotective activities, of Ishige okamu...
Airborne particulate matter (PM) originating from industrial processes is a major threat to the environment and health in East Asia. PM can cause asthma, collateral lung tissue damage, oxidative stress, allergic reactions, and inflammation. The present study was conducted to evaluate the protective effect of eckmaxol, a phlorotannin isolated from E...
In this study, seahorse peptide (SHP) was isolated from an alcalase-treated hydrolysate from Hippocampus abdominalis and assessed for its antioxidant potential against AAPH-induced oxidative stress damage. AAPH stimulation significantly decreased cell viability and increased intracellular reactive oxygen species (ROS) production in Vero cells. SHP...
Functional ingredients for human health have recently become the focus of research. One such potentially versatile therapeutic component is fucose-containing sulfated polysaccharides (FCSPs), referred to as fucoidans. The exploitation of marine brown algae provides a rich source of FCSPs because of their role as a structural component of the cell w...
Inflammation is a complex host-protective response against harmful stimuli involving macrophage activation that results in secretion of inflammatory mediators, like nitric oxide (NO), pro-inflammatory cytokines, and prostaglandin E2 (PGE2). In this study, we evaluated fucoidan isolated using Viscozyme-assisted enzymatic extraction of Sargassum core...
The increasing airborne particulate matter (PM) consisting of environmental contaminants such as dust, aerosols, and fibers has become a global concern by causing oxidative stress that leads to apoptosis and skin damage. The current study evaluated the protective effect of Caulerpa racemosa (CR) against PM-induced skin damage using human keratinocy...
Olive flounder is a common surimi industry related fish species in South Korea that generates a considerable amount of solid waste. To maximize the utilization of olive flounder gut (OFG) byproducts, OFG was subjected to enzymatic hydrolysis. Antioxidant activity of the obtained hydrolysates was evaluated to investigate radical scavenging activity...
Enzyme-assisted hydrolysis is frequently used as a cost-effective and efficient method to obtain functional ingredients from bioresources. This study involved the enzyme-assisted hydrolyzation and purification of fucoidan from Ecklonia maxima stipe and the investigation of its anti-inflammatory activity in lipopolysaccharide (LPS)-induced RAW 264.7...
Sargassum horneri (SH) is a brown macroalgal species commonly found along the coast of Japan, China, and Korea. SH possesses valuable bioactive compounds that can be developed as functional food ingredients as well as pharmaceutical agents for both humans and animals. In this study, SH was tested for its potential prebiotic effect. Several solvent-...
Brown seaweeds contain fucoidan, which has numerous biological activities. Here, the anti-fine-dust activity of fucoidan extracted from Ecklonia maxima, an abundant brown seaweed from South Africa, was explored. Fourier transmittance infrared spectroscopy, high-performance anion-exchange chromatography with pulsed amperometric detection analysis of...
Air pollution due to fine dust (FD) has become a global concern. Industrial effluents and traffic emissions combined with naturogenic sources influence this issue, which particularly impacts the East Asia region. Health concerns caused by this form of pollution include respiratory disorders. The development of anti-inflammatory agents requires an u...
Sargassum horneri is an invasive brown seaweed that grows along the shallow coastal areas of the Korean peninsula, which are potentially harmful to fisheries and natural habitats in the areas where it is accumulated. Therefore, the author attempted to evaluate the anti-inflammatory mechanism of Sargachromenol isolated from S. horneri against partic...
Obese sarcopenia is associated with palmitic acid (PA), an abundant circulating saturated fatty acid. This study examined a non-cytotoxic concentration of PA to provide mechanistic insights into PA-impaired skeletal myogenesis and potential medicinal and dietary interventions through edible brown seaweed, Ishige okamurae (IO). C2C12 cells were exam...
Air pollution is a process that mixes pollutants into the atmosphere, which is potentially harmful to humans and causes negative impacts on the surrounding environment (biotic and abiotic). The negative health effects associated with air pollution have been reported from both indoor and outdoor environments. Specifically, dust storms originating in...
Marine brown seaweeds are a source of functional ingredients with various
biological properties. They have been used in the food and functional food
industries. Brown seaweeds are divided into three parts of blades, stipe, and
root. Normally seaweed blades were used as raw materials for biological
research. However, there are limited uses on stipes...
Seaweeds are a potential source of minerals, essential amino acids, fatty acids,
proteins, and various bioactive compounds such as antioxidants. The higher water
content of seaweeds reduces the shelf life and this requires the appropriate
drying method. The drying conditions play a major role in the conservation of
nutrient composition in dried sea...
Fucosterol is a phytosterol that is abundant in marine brown algae and is a renowned secondary metabolite. However, its ability to protect macrophages against particulate matter (PM) has not been clarified with regard to inflammation; thus, this study aimed to illustrate the above. Padina boryana, a brown algae that is widespread in Indo–Pacific wa...
This study involves enzymatic extraction of fucoidan from Sargassum swartzii and further purification via ion-exchange chromatography. The chemical and molecular characteristics of isolated fucoidan is evaluated concerning its anti-inflammatory potential in RAW 264.7 macrophages under LPS induced conditions. Structural properties of fucoidan were a...
Seaweeds are a source of secondary metabolites possessing a wide range of bioactive properties. Asian medicinal culture have used seaweeds as traditional ingredients for centuries. Though, the mechanism of action of metabolites present remains to be determined. Elucidation of structures of the metabolites may enhance the terms of understanding resp...
Internal cell components are damaged by elevated levels of reactive oxygen species (ROS). Polysaccharides were extracted from Padina boryana; a brown alga from the Maldives. The Celluclast enzyme assisted extract (PBE) and ethanol precipitation (PBP) of P. boryana were assessed against hydrogen peroxide (H2O2) induced cell damage and zebra fish mod...
Inflammation is a well-organized innate immune response that plays an important role during the pathogen attacks and mechanical injuries. The Toll-like receptors (TLR)/nuclear factor kappa-light-chain-enhancer of activated B cells (NF-κB) is a major signal transduction pathway observed in RAW 264.7 macrophages during the inflammatory responses. Her...
Abstract
Seaweeds are a source of secondary metabolites possessing a wide range of bioactive properties. Asian medicinal culture have used seaweeds as traditional ingredients for centuries. Though, the mechanism of action of metabolites present remains to be determined. Elucidation of structures of the metabolites may enhance the terms of understan...
Fucoidan is a fucose containing sulfated polysaccharide (FCSP) present in the brown algae cell wall which exert potential anti-inflammatory activity. Present study purifies fucoidan from Turbinaria ornata (TO) from the Maldives. The method implements enzyme assisted extraction with modifications to improve the effectiveness and purity of the final...
Questions
Questions (9)
Hi.
I used Discovery studio software for molecular docking. Now I need to use RNA-dependent RNA polymerase enzyme (PDB Id:- 6M71) as a receptor to find inhibitors. However, I couldn't;t use it because there was an error in the prepare protein step. If anyone uses this software, I kindly request you to check this and help me.
Thank you
I already calculated the IC50 value of the inhibitor against the protease enzyme. Now I need to find this inhibitor competitive non-competitive. I decided to perform the Lineweaver Burk plot, but I am thinking about how to select the substrate concentration for that. I have only limited resources for this and I need to you the minimum number of substrate concentrations. Hope any genius will be able to guide me.
Dear all, I kindly hope for a quick answer to this. I used Discovery studio for molecular docking analysis. I need to use several molecular with receptor protein and find which one is the best for using biological assays. However, when I depend on the binding energy, I found several unfavorable bumps, donor-donor, and acceptor-acceptor bonds in the lowest binding energy conformation. Therefore, I selected the second or third conformation based on the binding energy to avoid these unfavorable bonds. I tried many methods to avoid these unfavorable bonds, but couldn't completely remove it. Are any more factors should I depend on, when I select molecules for further studies?
I used Discovery studio for molecular docking analysis for compound screening. Here I used binding energy, but now I am confused about which one is more important because when checking the pose of the docked ligand with the native ligand, the best cDOKER value gave the more similar pose with the native ligand than the best binding energy.
I used Discovery studio for molecular docking, I used several polyphenolic compounds, and the compounds that showed the highest binding energy contain several unfavorable bumps. Is this can affect binding energy? If can, how does it affect?
I used the Discovery studio for molecular docking analysis and obtained the best pose by flexible docking. I need to further analyze this result using PYMOL or Ligplot, but when I saved the result (receptor with ligand) in PDB format and open in above-mentioned, software, there was the only receptor. How do save both ligand and receptor?
I need to buy sargachromenol for HPLC standard. I tried to find it, but couldn't. If anyone knows where I can buy this, I kindly request you to inform me. Thank you.
I need to buy several assay kits from amsbio company, nut I couldn't find any reviewer comments about them or their products, so I need to confirm this before spending my money and this is an urgent request. If anyone has an experience with amsbio, I kindly request you to share it with me.
I want to find published MS/MS data of sargachromenol as a reference for my manuscript. If anyone has an awareness about this, I kindly request you to inform me.
