Abstract
Humic substances are well known human nutritional supplement materials and play important performance-enhancing roles as animal feed additives, too. For decades, ingredients of humic substances have also been proven to carry potent antiviral effects against different viruses. Here, the antiviral activity of a humic substance containing ascorbic acid, Se− and Zn2+ ions intended as a nutritional supplement material was investigated against SARS-CoV-2 virus B1.1.7 Variant of Concern (“Alpha Variant”) in a VeroE6 cell line. Results show that this combination has a significant in vitro antiviral effect at a very low concentration range of its intended active ingredients. Even picomolar concentration ranges of humic substances, vitamin C and Zn/Se ions in the given composition were enough to achieve fifty percent viral replication inhibition in the applied SARS-CoV-2 virus inhibition test.
1. Introduction
Humic substances (HS), composed by hymatomelanic acid, humic acids (HA), fulvic acid (FA), ulmic acid and trace minerals are widely known basic components of nutritional supplement materials in human. A large amount of HS are generated in forests and peat. HS have a ubiquitous presence and HS are one of the largest carbon sources in nature. HS originate from decayed plants in the soil that are decomposed by microbes. HS are soluble in alkaline media, partially soluble in water and insoluble in acidic media. The exact composition of HS may differ based on their origin and type of extraction technology. One of their most important components, FA is water-soluble thanks to its polyphenolic molecular structure (Figure 1). Water molecules stabilize its electronic structure even in neutral form (Alvarez-Puebla et al., 2006). Fulvic acid (FA) forms small aggregates at pH 5 on gold surfaces and presumably in soil microstructures too. These aggregates compose a fractal-like structure at pH 8 caused by electrostatic forces according to surface-enhanced Raman spectroscopy measurements (SERS) (Alvarez-Puebla et al., 2004). The average molar mass of FA is highly dependent of its origin. Native FA is usually a mixture of different molecules (Lieke et al., 2021). The molecular weight of native FA (e.g. originating from Suwanee River) is about 2310 Da as provided by literature and the International Humic Substances Society (IHSS) (Chon et al., 2013; Chin et al., 1994). The other important and well studied component, HA is larger and more complex in structure with much less solubility. The molecular weight of HA changes from 3160 to 26400 Da depending on the origin of the samples (Asakawa et al., 2008). Contrary to the molecular weight differences, no significant difference is detectable between the structural building block elements of FA and HA (Schellekens et al., 2017; Stevenson, 1994; Sutton and Sposito, 2005; Nebbioso and Piccolo, 2013).
HS have been used for thousands of years in human healthcare. Humic substances are well-known drugs in Indian Ayurvedic medicine as “shilajit” (Ghosal et al., 1991; Ghosal et al., 1995; Pant et al., 2012; Mishra et al., 2019) since time immemorial, as well as in European mud- and balneotherapy from ancient times (Kumar Gautam et al., 2021). Shilajit contains mainly FA, HA and trace minerals. Numerous studies show that it has anti-inflammatory, antioxidant, antimutagenic, antiviral, heavy metal chelating, antitumor, pro-apoptotic and photo-protective properties (Pant et al., 2012). The first formal scientific reports on HS as therapeutic agents in modern Western clinical medicine are from 1957 in Hungary (Béres et al., 1957; Béres et al., 1958). Chinese medical literature also abounds with the therapeutic application of HS as those have consituted an important therapeutic class in Traditional Chinese Medicine since circa 3000 years. Humic substances have been since then clinically trialled and found to confer numerous beneficial features, e.g. they might protect the human body against blood coagulation or fibrinolysis as well as decreasing the effects of ionizing radiation (Klöcking and Björn, 2005).
Humic acids (HA) have good antioxidant activity and free radical scavenger ability (de Melo et al., 2016).
HS seem to have very few adverse effects (and even those only in specially hindered nutritional circumstances) and they are applicable as food and feed supplements (Murbach et al., 2020). Besides, HS have a wide agricultural and environmental use, e.g. as plant nutrients (Mosa et al., 2020). Nowadays humic matter is not only a human nutritional supplement, but it forms the basis of numerous feed additives in order to improve animal growth performance and health even by replacing antibiotic performance enhancers (Szabo et al., 2017). HS also have effects on gastrointestinal ulcer in pigs (Molnar, 2021) or rats (Li et al., 2011). HA forms a protective film on the surface of the ulcer in the stomach and helps cellular regeneration (Molnar, 2021). Fulvic acid (FA) combined with probiotics enhances the digestibility of phosphorous and metals. Moreover, it increased immune capability in a study conducted on a convincingly large number of pigs (Kunavue and Lien, 2012). HS as nutritional supplements have numerous beneficial effects on microelement and trace element homeostasis e.g. on iron and manganese homeostasis as proven in a rat model (Szabo et al., 2017) as well as copper and zinc homeostasis (Hullar et al., 2018). Some compounds of HS were found to have neuroprotective effects in animal studies, e.g., anthocyanin-containing gold-FA coated nanoparticles could prevent Alzheimer’s disease signs in rats (Kim et al., 2017). FAs not only reduce the assembly of tau proteins but also restore the original tau folding state (Cornejo et al., 2011). Some recent reports concluded that numerous compounds of HS, e.g. fulvic acid (Gnananath et al., 2020), are promising candidates for pharmaceutical use to enhance drug delivery of active pharmaceutical ingredients (APIs) (Jacob et al., 2019). HS have not only additional effects on health but they also have some therapeutic potential (Schepetkin et al., 2002). Fulvic acid has a clinical beneficial effect in chronic inflammatory diseases and diabetes (Winkler and Ghosh, 2018). The full HS fraction also has proven anti-inflammatory activity (Vucskits et al., 2010a; Vucskits et al., 2010b; Van Rensburg, 2015).
HS are known as antiviral agents for decades. Not long ago, a drink based on HS and plant extracts, branded as “Secomet V” was reported to possess broad spectral antiviral properties e.g. as anti-HIV, anti-poxvirus and anti-SARS activities (Kotwal et al., 2005). Numerous studies investigated and then reported antiviral features of HS e.g. against Coxsackie virus A9 (Klöcking and Sprössig, 1972), Herpes Simplex virus Type I. (Helbig et al., 1997), Influenza virus A/WSN/1933 (H1N1) (Lu et al., 2002), or HS being immune stimulators in Human Immunodeficiency virus-1 (HIV-1)-positive patients (Jooné et al., 2003), and tick-borne encephalitis virus infection (TBEV) (Orlov et al., 2019). A very recent high-quality study finds high antiviral activity of HS compounds against HIV-1 (Zhernov et al., 2021). HS could also be regarded as pre-biotics inasmuch as they could provide beneficial effects in prophylaxis and therapy of coronaviral diseases (Tiwari et al., 2020). Given historical records and the scientific knowledge about the undisputedly high activity of HS against human viruses for more than fifty years, the authors attempted to investigate the possible antiviral activity of a commercially available nutritional supplement material. An in vitro quantitative real time Polymerase Chain Reaction (RT-qPCR)-based viral replication inhibition test was applied, using different dilutions of the investigated HS material.
In this material peat extract HS are enriched with Zn2+ ions, Se− ions and ascorbic acid. Numerous studies confirmed that both ascorbic acid (Larenas-Linnemann et al., 2020; Grant et al., 2020), selenium ion (Bae and Kim, 2020; He et al., 2021) and zinc ions (Larenas-Linnemann et al., 2020; Quiles et al., 2020; te Velthuis et al., 2010), one by one, have anti-inflammatory effect and could reduce symptoms of COVID-19 infections. HS effectively bind metal ions as chelates (Saar and Weber, 1982; Kretzschmar and Christl, 2001; Bertoli et al., 2016), aromatic molecules and groups e.g. pyrene or Zn2+ ions, Se− ions and ascorbic acid containg HS macromolecules could function with a nanoparticle-like colloidal behaviour (Jones and Bryan, 1998) which can enhance the antiviral activity of drug molecules (Chen and Liang, 2020) by virtue of their high surface to mass ratio.
2. Materials and Methods
The Test Article (TA) is a nutritional supplement base ingredient available commercially from its producer (ZnSeC-Humicin, Humic2000 Ltd, Budapest, Hungary) in powder or in solution and was commercially sourced by the authors. After sourcing, the purchased TA was sent to an independent commercial testing laboratory (Balint Analitika Ltd. Budapest) for the determination of ingredient concentrations using standardised, quality-assured and certified analytical test methods as prescribed in the Codex Alimentarius Hungaricus (Hungarian Food Book). All further in vitro cytopathogenicity and antiviral activity tests were performed at the Biosafety Level 3 (BSL-3) National Biosafety Laboratory (Budapest, Hungary).
2.1. Preparation of dilutions
The TA solution, a dark brown water-consistency fluid without any visible opalescence or sedimentation was prepared by the manufacturer. It was further centrifuged at 1300 rpm for 5 minutes to remove all eventual particulate inconsistencies. The TA solution originally contained 10g of ZnSeC-Humicin powder dissolved in 100 mL of distilled water. Next the supernatant was sterile-filtered through a 0.22 μm membrane filter. Then, a tenfold diluted stock was prepared from this filtrate using Dulbecco’s Modified Eagle Medium (DMEM, Gibco/ThermoFisher, CA, USA) cell culture medium which stock was also applied to study eventual cytopathogenic effects on a non infected VeroE6 cell culture. Further samples to be tested in the antiviral test were also diluted with DMEM. All sample dilutions were prepared from this filtered 1:10 diluted stock substance.
Final dilutions further tested thus were 100-fold, 500-fold, 1000-fold, 2000-fold, 5000-fold and 7000-fold.
2.2. Cell culture
VeroE6 cell line (ATCC® CRL-1586™) was maintained in DMEM cell culture medium with the addition of 10% m/m Fetal Bovine Serum (FBS, Gibco/ThermoFisher, CA, USA) supplemented with 50 U/ml penicillin and 5 μl/mL streptomycin. The studies after seeding the cells to plates, however, were further performed in FBS-free cell medium for vaccine production (VP-SFM, Gibco/ThermoFisher, CA, USA).
At first, cytopathogenicity of the stock solution in vitro was tested by adding 200 μl of TA stock solution to a plate’s each well with growing, uninfected VeroE6 cells and followed by incubation for 48 hours. For the in vitro effect tests per different TA dilutions, each TA dilution was incubated for 48 hours with the infected cells in the in vitro viral replication assay. 2×105 cells/well VeroE6 cells were grown in 96-well culture plates and the listed various final dilutions of the TA were added to plate wells (cf. 2.1).
2.3. In vitro viral replication assay
SARS-CoV-2 virus B1.1.7 Variant of Concern (“Alpha VOC”), stocked in frozen form at −80°C at the National Biosafety Laboratory isolated from Hungarian samples in January 2021 was cultured in VeroE6 cells and divided into aliquots, which were used for the assays.
Prior to this, the amounts of plaque forming unit (PFU) and Tissue Culture Infective Dose at 50% (TCID50) were determined and the corresponding amounts were set aside as mentioned.
2.4. Test for the inhibition of SARS-CoV-2 replication
To detect viral replication, we examined the supernatants from VeroE6 cells cultured for 48 h in the presence of the TA dilutions. The assay was performed using qRT-PCR and the QuantiNova Probe RT-PCR kit (Qiagen, Düsseldorf, Germany), and the LightCycler 480 Real-Time PCR System (Roche, Basel, Switzerland). RNA extraction was performed using the Roche High Pure Viral RNA Kit (Roche, Basel, Switzerland) according to the manufacturer’s instructions. An additional washing step with a PerkinElmer Chemagic (PerkinElmer, USA) automated extraction instrument was also included (with wash buffer) to remove potential inhibitors of PCR.
We then targeted the N-(nucleoprotein) gene of SARS-CoV-2 virus with Roche Lightcycler 480 RNA Master Hydrolysis Probes (Roche Basel, Switzerland) with primers developed in house, using the Lightcycler 2.0 (Roche) platform. Primers for RNA virus detection were previously validated by the Biosafety Laboratory (troughout at BSL-3) through and in collaboration with, the European Research Infrastructure on Highly Pathogenic Agents (ERINHA).
In the assay VeroE6 cells were incubated using 96-well plate until a monolayer was formed. Each of the TA dilutions to be tested was suspended (vortexed for 30 seconds) and then pipetted immediately. The same 200 μl volume of the TA (throughout all the dilutions) was added to the solution containing the volume of SARS-CoV-2 virus corresponding to 100 TCID50, to detect their virus inhibiting/antiviral ability (see below).
For the citotoxicity assay a spectrophotometer (Omni cell adhesion light spectrometer, Cytosmart, Netherlands) was used. The percentage rate of surface covered by monolayers and of transparent surface (plaques appearing in the absence of cells killed by the virus) in all of the wells of the 96-well cell culture platform were determined.
All tests were made in triplicates. From these the relative parameters of viral inhibition were calculated compared to the viral effect in an infected, untreated cell culture free of TA.
2.4.1. Test protocol
Different experimental groups were applied: the “virus control” group was a positive control, untreated with any TA, to determine the effects of the virus infection. The inhibitory effect of TA dilutions was compared to the result of this group. The cell control group was a negative control, where the effect of just the culturing activities on virus-free cells was measured; the group was also free of the TAs.
Dilution test groups were set up with each TA dilution added to the wells and incubated with the virus as follows. First, the active ingredients were mixed in a 1:1 volumetric ratio with 100 TCID50 SARS-CoV-2 virus suspension. The second, infection phase applied a SARS-CoV-2 virus suspension of 100 TCID50 (0.1 multiplicity of infection, MOI), mixed with the dilutions of the TA in a volumetric ratio of 1:1, which mixture was put on the cell culture and then incubated at 37 °C in 5% CO2 atmosphere for 2 hours in the absence of FBS.
After the infection phase, the infectious virus-containing mixture was removed with an automatic pipette. Immediately after this, an 1:1 mixture of VP-SFM medium and the appropriate DMEM medium dilution of the TA was added to the cell cultures in equally 200 microliter volumes. Incubation with this active ingredient-treated medium lasted for 48 hours. After 48 hours, the virus-containing medium containing the TA was removed from the cells. The removed viral supernatant was ultracentrifuged at 16.000 g and the supernatant was further measured for viral RNA content: The supernatant was subjected to PCR assay to determine the viral RNA content, as previously mentioned, for the N-gene. The supernatant RNA contents were quantified for gene copy numbers and compared to the number of copies measured in the untreated, not inhibited SARS-CoV-2 infected cell cultures to calculate the inhibitory effect.
2.4.2 Mathematical analysis of results
Viral N-gene copy numbers obtained in the triplicates both for inhibitory TA and untreated virus control wells were used as input data. The aim of mathematical data analysis was to determine the inhibitory dilution level at which the number of viral N-gene copy numbers declines to the 50% of virus control (50% inhibitory dilution, Dilution50). Then, this dilution value would serve as the basis to calculate the 50% inhibitory “dose”: the molar concentration for each ingredient (ID50)
The copy numbers were the input for a sigmoidal curve fit using our own in-house developed algorithm and software in Octave mathematical environment.
The sigmoidal function was generalised as (Eq. 1) where M is the maximal viral copy number (at infinite dilution of the added TA i.e. with only infinitesimally small TA content of the plate wells)
a is the dilution value of the TA at 50% of M (Dilution50)
b is the derivate of intermediate transmission.
We then characterised the curve fit and calculated the value of parameter a and its 95% confidence interval. As a further step towards obtaining ID50 values, the active ingredient molar concentrations were determined from the obtained Dilution50 value using the known composition, the applied volume per well, and molar masses of ingredients. This allows the comparison of the TA inhibitory effect, to other in vitro inhibition results of different other molecules or extracts.
3. Results and discussion
In our viral replication inhibition asay, two main findings are reported. The SARS-CoV-2 virus B1.1.7 VOC was used as infective agent (chapter 2.3).
Neither qualitative nor quantitative cytotoxicity was observed in any of the tested TA dilutions on VeroE6 cells.
A dose-dependent inhibition was demonstrated.
The active components of the commercially sourced “ZnSeC-Humicin” nutritional supplement material used for the experiment and their concentrations are summarized in Table 1. The original HS components (65.9 m/m% FA and 0.5 m/m% HA) are compounded with high concentration of Vitamin C (about 40 g/100g) and lower concentration of metal ions (60900 mg/kg Zinc-ion and 23.2 mg/kg Selenium ion according to their recommended daily intake values in human.
The obtained dilution value and other inhibition curve characteristics are presented in Table 2.
Test results show that the humic substances compounded with Zn-Se-ascorbic acid (ZnSeC-Humicin) seemingly exert a significant inhibitory effect on SARS-COV-2 virus replication (Figure 2.) A sigmoidal curve (red continuous line) could be fitted to the triplicate copy number data points (blue squares) for determination of the mean inhibitory dose (ID50) value of the tested HS material. Figure 2. shows a semi logarithmic scale transformation of the sigmoidal function. It was found that the Dilution50 value of ZnSeC-Humicin stock solution is close to 2000 (1740) times dilution.
Molar concentrations of ingredients of ZnSeC-Humicin at dilution in the ID50 value are usually in a 10−9 M (pM) concentration range. The measured relative humidity of the powder was 8.5% m/m thus data were corrected to dry weight in the table. A very low, 70.80 picomol/L concentration of FA and a similarly also very low, femtomolar (49.00-409.00 fM) concentration of HA with 610.00 pM ascorbic acid, 251.00 pM Zn2+ and 7.28 pM of Se− can reduce to half the copy numbers of SARS-CoV-2 virus B1.1.7 variant of concern (“Alpha VOC”) (Table 3.)
4. Conclusions
This proof of concept study shows that the Test Article, a peat extract HS and Zn/Se based nutritional supplement possesses measurable, dose-dependent and robust in vitro inhibitory effects on SARS-CoV-2 infection and replication. Normalized to API molar masses of Humic Acid, a hundred femtomolar range is apparent, while for Selenium, a picomolar range, for Fulvic Acids, the inhibition constants are in the decimal picomolar range while for Ascorbic Acid and Zinc in the hundred picomolar range.
Both fulvic acids and Zinc ions have been proven to exert powerful and dose dependent antiviral effects against HIV, influenza- and coronaviruses. By potentiating the effects of FA with an ascorbic acid complex that can also bind Zn ions, and by increasing cellular antioxidant protection turnover using Selenium for glutathione peroxidase, we postulate a synergistic effect of these ingredients. The main antiviral / replication inhibitory effects are probably exerted by FA and Zn++ ions. As there are now multiple reports on intestinal and even stool-based replication of SARS-CoV-2, the hypothesis of this proof-of-concept study should be further tested in pre-clinical animal models of peroral administration, and in clinical trials. These in vitro results are by no means a direct sign of human clinical applicability with a therapeutic intent, but they do direct us for further investigations on the effects of materials possessing proven in vitro antiviral activity used in combination.
The picomolar concentration ranges also indicate that further in vivo studies should be conducted. These values are at least one magnitude lower than the in vitro inhibition values of almost all other available antiviral molecules.
Acknowledgements
This work was supported by the Higher Education Institutional Excellence Program of the Ministry of Human Resources in Hungary, within the framework of the Therapeutic Development thematic program of Semmelweis University, the European Union’s Horizon 2020 research and innovation program under grant agreement No 739593: HCEMM, supported by EU Program: H2020-EU.4.a. This work was also partly funded by grants from the Hungarian National Research, Development and Innovation Office (Thematic Excellence Program, TKP-BIOImaging, financed under the 2020-4.1.1-TKP2020 funding scheme and Investment to the Future 2020.1.16-Jövő-2021-00013).