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Pharmacological Research - Modern Chinese Medicine xxx (xxxx) 100183

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Pharmacological Research - Modern Chinese Medicine


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Network pharmacology-based elucidation of bioactive compounds in
propolis and putative underlying mechanisms against type-2 diabetes

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mellitus✰
Emmanuel I. Ugwor a, b, ⁎, Adewale S. James c, Adekunle I. Amuzat b, Emmanuel O. Ezenandu b,
Victory C. Ugbaja b, Regina N. Ugbaja b
a Department of Biochemistry and Molecular Biology, Federal University of Viçosa, Viçosa, Minas Gerais, Brazil

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b Department of Biochemistry, College of Biosciences, Federal University of Agriculture, Abeokuta, Ogun State, Nigeria
c Department of Chemical Sciences, Faculty of Science, Augustine University, Ilara-Epe, Lagos State, Nigeria

ARTICLE INFO ABSTRACT

Keywords: Propolis is a common remedy in Chinese medicine. We have previously demonstrated the anti-diabetic potentials
Nigerian propolis of Nigerian propolis. However, the underlying mechanisms against type-2 diabetes mellitus (T2DM) remain un-
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Network pharmacology clear. This study used network pharmacology-based analysis to unravel the possible mechanisms of NP's anti-
Type-2 diabetes
T2DM activity. Previously identified compounds in NP were retrieved from literature, screened for drug-likeness,
Bioactive compounds
and used to retrieve targets associated with T2DM, from which compound-target, protein-protein interaction,
and target-pathways networks were constructed. Network pharmacology-based and enrichment analyses were
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conducted on the networks. Further, NP's inhibitory activity against targets identified in network analyses was
assessed in-vitro. Library search revealed 202 previously reported compounds in NP; 96 were retained after
screening for drug-likeness. However, only 44 NP compounds interacted with T2DM-associated targets, with 2-
ethyl-1,4-dimethoxybenzene as the most active component. Network analyses revealed 167 putative targets,
with HSP90AA1, JUN, ESR1, STAT3, CYP3A4, PTGS2, RELA, VEGFA, CYP2C9, and PPARG as the core anti-
T2DM targets of NP compounds. Gene ontology analyses indicated that these targets were predominantly lo-
calised in the plasma membrane and cytoplasm and primarily involved in regulatory, signal transduction and cel-
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lular response processes. KEGG pathway enrichment implicated metabolic pathways (involving lipids), AGE-
RAGE, and calcium/cAMP, among others, in the anti-T2DM effects of the compounds. Furthermore, in vitro phar-
macological assessment demonstrated appreciable inhibitory effects of 2-ethyl-1,4-dimethoxybenzene against α-
amylase, α-glucosidase, and HMG-CoA reductase. This study provides holistic mechanistic insights into the anti-
T2DM activities of the constituents of Nigerian propolis.
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1. Introduction ronmental, genetic and epigenetic factors and is associated with several
metabolic diseases, such as obesity and overweight. It is also a risk fac-
Type-2 diabetes mellitus (T2DM) is one of the four major non- tor for heart disease – the leading cause of death globally [5].
communicable diseases that has continually afflicted the global popu- Although T2DM prognosis has improved and several anti-T2DM
lace and has been hallmarked as the epidemic of the millennium [1,2]. therapies have been formulated over the years, its prevalence continues
Globally, the prevalence of T2DM has increased by 49% since 1990. In to surge [6]. Pharmacological agents, such as sulfonylureas, glucagon-
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2019, there were 437.9 million reported cases of T2DM, with the high- like peptide1 agonists, HMG-CoA reductase inhibitors, and α-
est proportion in low- and middle-income countries [3]. T2DM is a glucosidase inhibitors, and lifestyle modification have been the main-
chronic metabolic condition brought on by impaired insulin production stream anti-T2DM therapies [6]. However, these agents are limited by
by pancreatic beta cells and insulin resistance in peripheral insulin- adverse side effects and high costs. Besides, they often target one aspect
sensitive organs [4]. The aetiology of T2DM stems from various envi- of the otherwise multifaceted complications associated with T2DM [7].

✰ Type of Paper: Original article.


⁎ Corresponding author at: Department of Biochemistry and Molecular Biology, Federal University of Viçosa, Viçosa, Minas Gerais, Brazil.
E-mail address: ugworei@funaab.edu.ng (E.I. Ugwor).

https://doi.org/10.1016/j.prmcm.2022.100183
2667-1425/© 20XX

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E.I. Ugwor et al. Pharmacological Research - Modern Chinese Medicine xxx (xxxx) 100183

Conversely, natural products, encompassing herbal remedies, possess compare the chemical space between the screened compounds and
few side effects and have increasingly been exploited by researchers in drugs in a scatterplot.
developing therapeutic agents against T2DM [8].
Propolis is one of the natural products investigated for its efficacy 2.3. Compounds- and disease-associated targets
against T2DM [9–12] and is a common remedy in Chinese medicine
[9]. It is a resinous substance produced by honey bees from mixing their On the one hand, the SMILES of the screened compounds were used
salivary and enzymatic secretions with plant sap, buds, gums, and other to retrieve linked target genes from the Similarity Ensemble Approach
vegetal materials [13]. Propolis is abundant in bioactive compounds, (SEA; http://sea.bkslab.org/) and (Swiss Target Prediction (STP;
such as flavonoids, terpenes, aromatic acids and their esters, which en- http://www.swisstargetprediction.ch/) databases [23]. On the other
dow it with an extensive range of biological properties, including an- hand, using the Homo sapiens mode and “type 2 diabetes mellitus” as

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tioxidant, antibacterial, anti-inflammatory, anti-diabetic and anti- the keyword, T2DM-linked targets were recovered from the DisGeNeT
cancer properties [11,12]. However, the chemical constituent of propo- (https://www.disgenet.org/), Malacards (https://
lis is highly divergent, depending heavily on the bee species, the flora www.malacards.org/), and Kyoto Encyclopedia of Genes and Genomes

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surrounding the collection site, and geographical zones [13]. In Nige- (KEGG; https://www.kegg.jp) databases [18]. Subsequently, overlap-
ria, propolis has purportedly been used to treat ringworm, chickenpox, ping targets between the compound-associated and ND-associated tar-
and measles and manage diabetes [12]. We have previously demon- gets were identified using VENNY 2.1 (https://bioinfogp.cnb.csic.es/
strated the anti-diabetic potentials of Nigerian propolis (NP), including tools/venny/) and used for network construction.
hypoglycemic, hypolipidemic, and hepatoprotective properties, in rats
with streptozotocin-induced diabetes [13]. Other studies have reported 2.4. Network construction and analyses
similar anti-diabetic properties of NP [10,12,15]. However, the under-

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lying mechanisms of NP anti-T2DM effects have not been elucidated. Three networks – compound-target (CT), protein-protein interaction
The varied bioactive components in natural products and their po- (PPI), and target-pathways (TP) networks) – were constructed using Cy-
tential to act synergistically on multiple targets pose limitations to elu- toscape 3.9.1 software (http://www.cytoscape.org/) to visualise the in-
cidating their mechanisms of action [16]. However, recent advances in teraction between the screened bioactive compounds, selected targets,
computer-aided drug designs, such as network pharmacology, now al- and associated pathways [24]. First, the screened compounds and the
low a holistic view of the multicomponent-multi target paradigm of associated overlapping targets were used to construct the CT network.
natural products, thus revealing the putative mechanisms of action Next, the overlapping targets were uploaded onto the STRING database
against different diseases via interacting targets and associated path- (Version 11.5; (https://string-db.org/) to predict the PPI [25]. Protein
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ways [17–19]. Network pharmacology is a scope in systems biology interactions with confidence level > 0.7 within the Homo sapiens mode
that visualises the interactions of the bioactive compound(s) with both were then used to construct the PPI network in Cytoscape. Core com-
the interactome and the diseasome, thus heightening the understanding pounds and targets were identified using the degree algorithm of the
of the multi-target mechanism of the phytochemical constituents of nat-
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CytoHubba plugin in the Cytoscape to analyse the CT and PPI networks,


ural products via a compound–target–pathway-disease network con- respectively. Further, the nodes in the PPI network were aggregated
structs [16,19]. into clusters using the MCODE plugin within Cytoscape with the follow-
Therefore, this study utilised a network-based pharmacology analy- ing parameters: Degree cutoff = 2, Node Score Cutoff = 0.2, and K-
sis to unravel the possible mechanisms of NP anti-T2DM activity and Core = 2. Information about each cluster was fetched directly from the
identify responsible bioactive components. In addition, the inhibitory STRING database using its application programming interface domi-
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activity of NP's bioactive component against some targets identified ciled in Cytoscape.
was also evaluated. The overlapping targets were mapped onto the Comparative Toxi-
cogenomics Database (CTD; http://ctdbase.org/tools/) to extract the
2. Methods canonical pathways highly associated with these proteins. Within CTD,
gene inputs identify pathways involving these genes based on annota-
2.1. Assembling of compounds database for Nigerian propolis tion from the KEGG and REACTOME databases. Non-specific and non-
diabetes-related terms were removed, and the TP network was con-
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A database of ligands in Nigerian propolis was compiled from previ- structed in Cytoscape to present a global view of the interactions be-
ously reported works conducted on the characterisation of propolis tween targets and associated pathways.
within Nigeria. The canonical SMILES of each compound were re-
trieved from PubChem (https://pubchem.ncbi.nlm.nih.gov/). One 2.5. Gene ontology (GO) and KEGG pathway enrichment analyses
compound (riverinol) had no deposition in PubChem, so its SMILES was
deduced from its structure using Marvin JS plugin in SwissADME online The Database for Annotation, Visualization and Integrated Discov-
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server (http://www.swissadme.ch/index.php). ery (DAVID; https://david.ncifcrf.gov/tools.jsp) server was used for en-
richment analyses [16]. The overlapping genes were uploaded onto
2.2. Screening of compounds DAVID, the identifier was OFFICIAL GENE SYMBOL, species was set as
Homo sapiens, and information on the cellular component (CC), biologi-
Compounds were screened based on their absorption, distribution, cal process (BP), molecular function (MF), and KEGG pathways perti-
metabolism and excretion (ADME) properties, bioavailability score, nent to each target were retrieved. Only GO terms and KEGG pathways
and violations of the rules of the Lipinski et al. [20], Veber et al. [21], with a p-value of less than 0.05 and Benjamini value of less than 0.5
and Ghose et al. [22] drug-likeness approaches, which was computed were retrieved. Within the DAVID server, the p-values were adjusted for
on the SwissADME server. Compounds with two or more violations and the false discovery rate (i.e., Q-values) [23]. GraphPad Prism 9.3.1 was
estimated oral bioavailability < 50% were excluded from further used to visualise the top ten most enriched components of the GO and
analyses. In addition, 37 FDA-approved drugs for T2DM were from KEGG enrichment analyses.
DrugBank (https://go.drugbank.com), and their pharmacological prop-
erties were computed with SwissADME (Supplementary File 1). Princi-
pal component analysis (PCA) was conducted on the calculated proper-
ties [17]; the two most significant principal components were used to

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2.6. In-vitro pharmacological validation to identify whether a chemical molecule with a particular pharmaco-
logical or biological activity has chemical and physical qualities, such
The anti-diabetic potentials 2-ethyl-1,4-dimethoxybenzene (identi- as molecular weight, partition coefficient, and the number of hydrogen
fied from network analyses as the most active NP component) were donors and acceptors, which would make it a potential orally active
evaluated by assaying for the inhibitory activity against selected targets drug [20–22]. Only compounds meeting these criteria were used for
identified by network analyses: α-amylase, α-glucosidase, and HMG- further analyses. Ninety-six compounds were included (Supplementary
CoA reductase (HMGR). While 2-ethyl-1,4-dimethoxybenzene (Cat. File 2), while 106 compounds violated these criteria and were ex-
NO.: 3452AA) was procured from Ak Scientific, Inc. (Union City, CA, cluded.
USA), the enzymes and other reagents used for the in-vitro assays were The chemical space occupied by these screened compounds was
products of Sigma-Aldrich (St. Louis, MO, USA). then compared to those of FDA-approved drugs using the two most sig-

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nificant principal components, which explained 53.0% and 26.0% of
2.6.1. Anti-diabetic activity variances, respectively (Fig. 1). Although both groups occupied two dis-
Briefly, 100 μL of the different concentrations (20, 40, 60, 80, tinct clusters, there were clear overlaps between the two groups, further

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100 μg/ml) of 2-ethyl-1,4-dimethoxybenzene or acarbose (Cat. NO.: illustrating the drug-like potentials of the compounds.
A8980) and 500 μl of 20 mM sodium phosphate buffer (pH 6.9) con-
taining 6 mM NaCl and pancreatic α-amylase (10 U/ml; Cat. No.: 3.2. Elucidation of T2DM-associated targets of screened Nigeria propolis
A3176) were incubated at 25 °C for 10 min. The reaction was initiated compounds
by adding 1% starch solution (500 μl, prepared in the same phosphate
buffer) and monitored at 540 nm for 10 min [26]. Network pharmacology-based analysis was used to identify T2DM-
For the α-glucosidase assay, 100 μL of the α-glucosidase solution associated targets of the screened compounds. Targets associated with

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(Cat. No.: G5003) was allowed to equilibrate with 50 μL of 2-ethyl-1,4- each compound were retrieved from SEA (580 targets and STP (927 tar-
dimethoxybenzene or acarbose (20, 40, 60, 80, 100 μg/ml) at 25 °C for gets), while T2DM-associated targets (n = 3395) were retrieved from
10 min. Then, 50 μL of 5 M p-nitrophenyl-α-D-glucopyranoside solu- DisGeNeT, Malacards, and KEGG databases. Comparing these three
tion (in 0.1 M phosphate buffer; pH 6.9) was added, and the reaction data sets, we uncovered 167 overlapping targets (Fig. 2) common to
was monitored at 405 nm for 5 min [27]. both compounds- and disease-associated targets (detailed in Supple-
For HMGR, assay kit (Sigma; Cat. No.: CS1090) containing the cat- mentary File 3).
alytic domain of the human enzyme and other reagents was used for the These common targets were then entered into the STRING database
HMGR inhibitory assay, as previously described [28]. Briefly, 20 μL of to analyse the protein-protein interactions, which comprise direct
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the enzyme (0.5 mg/ml) and 10 μL of 2-ethyl-1,4-dimethoxybenzene or (physical) and indirect (functional) associations, obtained from compu-
simvastatin (Cat. NO.: S6196) were added to the reaction mixture con- tational prediction, inter-organismal knowledge transfer, and associa-
taining 400 μM NADPH and 400 μM HMG-CoA substrate in a final vol- tions culled from other databases [25]. The significant interactions
(with a high confidence level of >0.7) were visualised as PPI-network
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ume of 2 mL of 100 mM potassium phosphate buffer, pH 7.4 (contain-


ing 120 mM KCl, 1 mM EDTA, and 5 mM DTT). The rate of NADPH dis- (Fig. 3A). The PPI network included 135 nodes connected by 371 edges
appearance was monitored at 340 nm for 15 min. The blanks contained after eliminating isolated nodes and edges, with an average node de-
neither 2-ethyl-1,4-dimethoxybenzene nor reference drugs. gree of 4.49. The substantial number of interactions between the targets
Tests were performed in triplicates, and the percentage inhibition suggests that they may be biologically related, and the anti-T2DM ef-
for each enzyme was calculated using the formula below: fects of the compounds may involve multiple targets. The top 10 targets
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(hereafter referred to as core targets) in the PPI network were identified


based on degrees, betweenness, and closeness parameters, following
the analysis of the network with the CytoHubba algorithm (Supplemen-
tary File 4). The core targets were HSP90AA1, JUN, ESR1, STAT3,
CYP3A4, PTGS2, RELA, VEGFA, CYP2C9, and PPARG (Fig. 3B); these
2.7. Data management targets accounted for 47.8% of the total protein-protein interactions
(167 of 371 PPI). Besides, several studies have highlighted the impor-
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Data retrieved or obtained in this study were managed with Mi- tance of these targets to T2DM. Lazaro et al. [34] reported that pharma-
crosoft Excel (2019). Graphs were graphs using GraphPad Prism 9.3.1
(GraphPad Software Inc., CA, USA). GraphPad was used to fit results
obtained from the in-vitro analyses into a dose-response curve to deter-
mine IC50 values.
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3. Results and discussion

3.1. Nigerian propolis compound database

A literature search revealed five previous original researches that


characterised the phytochemical composition of Nigerian propolis
[12,29–32], from which we extracted 202 compounds, compiled in
Supplementary File 1. The compounds were then screened using the
ADME properties, three drug-likeness approaches, and projected oral
bioavailability. A compound's ADME features predict its disposition in-
side an organism, contributing to its pharmacological (or toxicological)
action [33]. The oral bioavailability indicates the fraction of the com-
pound that will reach systemic circulation unchanged following oral Fig. 1. The distribution in chemical space according to principal component
administration, which correlates with its efficacy. Furthermore, the analysis of screened compounds in Nigerian propolis (n = 96) and FDA-
approved drugs (n = 37). The two most significant principal components (PC1
rules of Lipinski, Ghose, and Verber are drug-likeness approaches used
and PC2) were used to compare the chemical space.

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studies have reported the roles of CYP, PTGS2, and VEGFA in diabetes
[38–40]. ESR1 mediates the effects of estrogens on glucose homeostasis
[41].
To provide more mechanistic insights, we clustered the PPI-network
nodes using the MCODE plugin in Cytoscape (Fig. 4); information about
each cluster was fetched directly from the STRING database. Nodes in
cluster 1 were involved in lipids (phospholipids arachidonate, and
eicosanoids) metabolism; cluster 2 nodes are primarily involved in cel-
lular responses to stimuli, such as hypoxia (HIF-1), inflammation
(NFKB1, STAT3, and RELA), heat (HSP90), proliferation (VEGF,

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PDGFRB, PRKCZ and PPARG), and tissue remodelling (MMPs and
VEGFA). Clusters 3 and 4 were involved in signal transduction and alco-
hol metabolism, respectively. Nodes in cluster 5 have been correlated to

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amyloid deposition, while those in clusters 6 and 7 regulate adenylate
cyclase/cGMP downstream signalling and neurotransmitter transport/
activity, respectively. Nodes in cluster 8 share phosphor-amino acids
(e.g., serine, threonine, or tyrosine) motifs and function as adapter pro-
teins.
Interestingly, of the 96 compounds, only 44 had targets common to
T2DM-associated targets (Table 1), whereas 52 compounds had no

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overlap with T2DM targets. The interactions between overlapping tar-
gets and the screened compounds were visualised in a CT network (Fig.
5A), consisting of 221 nodes (44 compounds and 167 targets) and 620
interactions, with an average of 3.52 targets/compound. The overlap of
targets reflects the multi-target characteristics of the bioactive com-
Fig. 2. Venn diagram illustrating the overlapping targets (central) between
pounds. The CT network was subsequently analysed with CytoHubba to
compound-associated disease targets (CAT) obtained from Similarity Ensemble
identify hit compounds (Supplementary File 4). The top 10 compounds,
Approach (SEA) and Swiss Target Prediction (STP) databases, as well as the
based on degree, are presented in Fig. 5B. The most active compound –
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disease-associated targets (DAT).
2-ethyl-1,4-dimethoxybenzene – interacted with 63 targets, followed
cological inhibition of HSP90 ameliorated diabetes-associated compli- by borneol (32). These top compounds accounted for 73.2% of com-
cations, while Yang et al. [35] revealed decreased Hsp90 expression in pound-target interactions (227 of 310).
The overlapping targets were then linked to biochemical pathways
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isolated rat islets exposed to high glucose. They surmised that Hsp90
might be involved in high glucose-induced islet dysfunction. Mean- using the CTD online server; the highly significant T2DM-linked path-
while, the cross-talk between JUN, RELA, and STAT3 has been impli- ways were visualised as a network with the targets and associated path-
cated in the progression of T2DM [36,37]. Clinical and pre-clinical ways represented as nodes and the associations as edges (Fig. 6). In this
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Fig. 3. Protein-protein interaction network (A.) and the top ten (core) type-2 diabetes disease targets (B.) associated with screened compounds in Nigerian propo-
lis. Core targets were identified based on the number of degrees, betweenness, and closeness using the degree algorithm of the CytoHubba plugin within Cy-
toscape (version 3.9.1).

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Fig. 4. Cluster analysis of the targets in the protein-protein interaction network. Cluster analysis was performed with the MCODE plugin within Cytoscape (version
3.9.1) with the following parameters: Degree cutoff = 2, Node Score Cutoff = 0.2, and K-Core = 2.

Table 1
Bioactive compounds in Nigerian propolis against type-2 diabetes mellitus, as identified by network pharmacology analysis.
Rank Compound Parameters* Rank Compound Parameters*
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Degree Betweenness Closeness Degree Betweenness Closeness

1 2-Ethyl-1,4-dimethoxybenzene 63 22,890.92 105.53 23 Gerontoxanthone H 2 647.62 69.66


2 Borneol 32 8453.39 80.53 24 Vesticarpan 2 334.41 71.17
3 3,8-dihydroxy-9-methoxy- 27 7772.28 79.23 25 Calycosin 2 67.46 54.95
pterocarpan
4 Kaempferol 25 5349.30 72.02 26 6-Prenylnaringenin 2 56.79 51.70
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5 Decanoic acid, methyl ester 24 6478.51 76.83 27 Octanoic acid 1 0.00 64.96
6 Resveratol 15 4971.80 70.78 28 a-Copaene 1 0.00 53.89
7 13-Tetradece-11-yn-1-ol 13 2576.47 63.52 29 a-melonol 1 0.00 53.89
8 Broussonin B 10 2469.24 62.07 30 cis-Geraniol 1 0.00 53.89
9 1,5,9,9-tetramethyl-1,4,7- 9 2062.24 61.59 31 Vestitol 1 0.00 53.89
Cycloundecatriene
10 2-(7-Octenyl)oxirane 9 1824.00 63.34 32 Quinine 1 0.00 46.30
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11 4-epi-a-Acoradiene 8 1577.66 55.85 33 Ribalinidine 1 0.00 46.30


12 Dodecanoic acid 7 1566.00 57.46 34 Linalool oxide 1 0.00 45.88
13 Pterocarpan 6 1825.46 55.89 35 Cyclosativene 1 0.00 44.30
14 Lunamarin 6 1737.42 57.18 36 Caryophyllene oxide 1 0.00 43.51
15 Catechin 5 1048.04 51.43 37 Methyl chavicol 1 0.00 42.72
16 4,4-Dipropylheptane 5 127.81 50.29 38 Medicarpin 1 0.00 39.30
17 Benzene, 1-methyl-4-(2-pentenyloxy) 4 989.00 45.42 39 Citral 1 0.00 35.88
18 Naringenin 4 608.45 55.59 40 Flavan-3-ol 1 0.00 34.30
19 Pinocembrin 4 6.00 50.57 41 Humulene-1,2-epoxide 1 0.00 30.86
20 a-Calacorene 3 689.90 55.28 42 Dodecane 1 0.00 1.50
21 Epihedrine 3 252.37 54.36 43 Ethyl 2-(5-methyl-5-vinyltetrahydrofuran-2-yl) propan- 1 0.00 1.00
2-yl carbonate
22 b-Methylnaphthalene 2 1188.00 54.94 44 Heptane, 2,4,6-trimethyl- 1 0.00 1.00
⁎ Parameters were calculated from analysing the compound-target network with the CytoHubba in Cytoscape (version 3.9.1).

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Fig. 5. Compound-target network (A.) and top ten compounds in Nigerian propolis (B.) against overlapping type-2 diabetes disease targets. Compounds are ranked
for bioactivity based on the number of degrees, betweenness, and closeness using the degree algorithm of the CytoHubba plugin within Cytoscape (version 3.9.1).
Green nodes = compounds, blue nodes = targets.
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Fig. 6. Target-pathway network. Dark green nodes = pathway, blue nodes = targets.

way, the 143 targets were mapped to 43 canonical pathways, with 576 and 29.5% were within the cytoplasm, integral component of the mem-
interactions between these components, further highlighting the di- brane, and nucleoplasm, while 14.5% can be found in the mitochon-
verse mechanisms at play in propolis anti-T2DM activity. drion. Regulatory, signal transduction and cellular response processes
Next, the overlapping targets were annotated using DAVID and re- accounted for the top 10 biological processes. These processes are
trieved three GO terms – CC, BP, and MF (Supplementary File 5). The closely related. For example, external/internal stimuli (e.g., insulin or
top 10 terms for each category are presented in Fig. 7. Almost half low glucose levels) can act as molecular signals, which the cell ampli-
(49.4%) of the targets can be found in the plasma membrane; 42.2, 38, fies or transmits, usually involving signalling cascades of protein inter-

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Fig. 7. Top 10 components of Gene Ontology (GO) enrichment analyses of Nigerian propolis compounds’ anti- type-2 diabetes disease targets. (A) Cellular compo-
nent; (B) Biological process; and (C) Molecular function.
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actions, and leads to the regulation of several aspects of the biological


system, in response to the stimuli.
Furthermore, BP annotation indicated that 18.1 and 10.8% of the
overlapping targets were involved in the positive regulation of tran-
scription and apoptosis, while 10.8% and 12.7% were negative regula-
tors of these processes, respectively. Meanwhile, 16.9 and 13.3% were
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involved in G-protein coupled receptor (GPCR) signalling and signal


transduction, while 12.7% and 12.0% were associated with inflamma-
tory and drug response, respectively. These biological processes corre-
spond with MP annotation, revealing that 75.3% of the targets’ func-
tions involved protein binding, a central regulatory and signalling
mechanism. Other functions include binding to DNA, zinc, and ATP,
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protein homodimerisation, kinase, and GPCR activities, all of which are


involved in signalling and regulation. Indeed, T2DM develops from dys-
functional insulin signalling and has been associated with impaired reg-
ulatory and signalling mechanisms [42,43]. Fig. 8. Bubble plot showing top 10 highly enriched pathways obtained from Ky-
KEGG pathways enriched for the overlapping targets were retrieved oto encyclopaedia of Genes and Genomes (KEGG) pathway assessment.
from the DAVID online tool; pathways not associated with T2DM (e.g., NLRI = neuroactive ligand-receptor interaction.
chemical carcinogenesis) or not having P-values less than 0.05 were ex-
cluded (Supplementary File 5). The ten most enriched pathways are [36]. In contrast, cAMP/adenylate cyclase/calcium crosstalk has been
presented in a bubble plot against the fold enrichment (Fig. 8). 31.9% posited as a pharmacological target to enhance β-cell survival/function
of the targets were involved in metabolic pathways, which is unsurpris- and improve glucose homeostasis [46]. Ras and MAPK8 (c-Jun N-
ing given that T2DM is a metabolic disease [43]. Differentially ex- terminal kinase) signalling have been implicated in the orchestration of
pressed genes linked to neuroactive ligand-receptor interaction (12.7% intricate events that lead to chronic low-grade inflammation character-
of targets) have been reported in diabetic patients [44,45]. Advanced istic of T2DM and its microvascular complications [47]. The PI3K-Akt
glycation end products (AGEs) interact with their receptor (RAGE) to pathway is crucial in mediating insulin's metabolic effects. Insulin binds
potentiate crosstalk that amplifies T2DM-associated complications to its receptor, which phosphorylates insulin receptor substrates, pro-

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Fig. 9. Dose-response curve of 2-ethyl-1,4-dimethoxybenzene (left) and reference drug (right) inhibitory activities against α-amylase, α-glucosidase, and HMG-CoA
reductase. The reference drug for α-amylase and α-glucosidase assays was acarbose, whereas simvastatin was used for the HMG-CoA reductase inhibitory assay. Data
are presented as mean ± standard deviation of three independent experiments.

moting the activation of PI3K and Akt downstream. Activated Akt regu- 3.4. Limitations of the study
lates the activity of numerous targets, including kinases, transcription
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factors and other regulatory molecules, one of which involves the A significant limitation of our study is that we did not evaluate the
translocation of glucose transporter-4 (GLUT4) to the membrane [48]. effects of the identified bioactive compounds on cell viability nor their
These network-based analyses provide insights into the targets and effect at the gene/protein level. However, our study provides a pipeline
mechanisms potentially involved in the anti-T2DM effects of Nigerian of propolis compounds that be appraised for their anti-diabetic poten-
propolis. tials via in vivo and clinical studies.

3.3. Inhibitory activities of 2-ethyl-1,4-dimethoxybenzene against key 4. Conclusion


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T2DM-associated targets
The network pharmacology approach, which holistically considers
Furthermore, to validate the anti-T2DM potential of Nigerian propo- the complex interactions in biological systems, was employed to eluci-
lis, we evaluated the inhibitory activity of 2-ethyl-1,4- date the bioactive constituents of Nigerian propolis and provide in-
dimethoxybenzene against α-amylase, α-glucosidase, and HMG-CoA re- sights into the mechanism of their anti-T2DM activity. We identified 44
ductase, compared it to referenced drugs (Fig. 9). HMGR and α-amylase compounds (out of 202) that interacted with anti-T2DM targets, with 2-
CO

are among the 167 overlapping targets associated with NP anti-T2DM Ethyl-1,4-dimethoxybenzene, borneol, 3,8-dihydroxy-9‑methoxy-
activity; acarbose and simvastatin, FDA-approved drugs for managing pterocarpan, kaempferol, decanoic acid, methyl ester, resveratrol, 13-
T2DM, are inhibitors of α-glucosidase and HMGR, respectively. 2-ethyl- tetradece-11-yn-1-ol, broussonin B, 1,5,9,9-tetramethyl-1,4,7-
1,4-dimethoxybenzene showed high inhibitory activity against α- cycloundecatriene, and 2-(7-Octenyl)oxirane as the top ten compounds.
amylase and α-glucosidase, with IC50 values lower than acarbose. Al- On the other hand, HSP90AA1, JUN, ESR1, STAT3, CYP3A4, PTGS2,
though the IC50 value of simvastatin (reference drug for HMGR assay) RELA, VEGFA, CYP2C9, and PPARG were identified as the core anti-
was lower, 2-ethyl-1,4-dimethoxybenzene showed appreciable HMGR T2DM targets (n = 167) associated with Nigerian propolis con-
inhibitory activity (IC50 = 111.2 ± 1.76 µg/ml compared to stituents. The targets were primarily involved in pathways pertinent to
60.54 ± 3.22 µg/ml for simvastatin). These results are concordant lipid metabolism, regulation, and signal transduction, while 49.3% of
with our network analyses and previous reports of propolis from Nige- the targets were localised in the plasma membrane. Thus, we provide
ria [10, 14, 15] and other regions such as China [9], Taiwan [11], Mo- thorough mechanistic insights into the potential anti- T2DM activities
rocco [49], and Brazil [50]. of the Nigerian propolis’ constituents while revealing a pipeline of
bioactive compounds that can be developed for the therapeusis of type
2 diabetes mellitus.

8
E.I. Ugwor et al. Pharmacological Research - Modern Chinese Medicine xxx (xxxx) 100183

Funding plant-based natural products for type 2 diabetes mellitus: from formulation design
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