In this work we synthesized and performed an in-depth biological and biophysical characterization of the peptide BcI-1003 previously identified from B. cordobae specie (see supplementary and Figure S1). The synthesis was carried out using the solid phase synthesis by the Fmoc method, as C-terminal amide, given that amidation is a common feature of many AMPs isolated from frogs (Dourado et al. 2007; Gomes et al. 2007)
In silico analysis of structural, physicochemical and stability parameters of the synthetic peptide BcI-1003
The amino acid sequence and additional characteristics of peptide BcI-1003 are listed in Table 1. BcI-1003 consists of a polypeptide chain of 9 amino acid, with a net charge of + 5 at pH 7, and has a hydrophobic amino acids percentage (Hy/total aa) of 11.11%. According to Protparam tool (Gasteiger et al. 2005), BcI-1003 has a grand average of hydropathicity (GRAVY) of -1.911 and an aliphatic index of 0.00, so it is considered as a hydrophilic peptide. These results are in concordance with the low retention capacity of BcI-1003 in a C18 column (Rt: 6.57 min) observed in the RP-HPLC analysis (Figure S2). The proteolytic stability prediction of BcI-1003 in an intestine environment was analyzed in silico by Protparam (Guruprasad et al. 1990) and HPL online tools (Gorris et al. 2009). For both methods, BcI-1003 showed a high proteolytic stability, given by an instability index of < 40 and a half-life (sec) > 1.0. The prediction of the secondary structure of BcI-1003 is shown in Fig. 1. The result showed that is a not structured peptide random coil.
Table 1
Physicochemical characterization of peptide BcI-1003
Peptide
|
Sequence
|
MW(g/mol)
|
Net charge at pH 7
|
Hy/total aa^
|
Gravy*
|
Rt (min)°
|
Instability index*
|
Half life (sec)~
|
Toxicity
|
ToxinPred†
|
ToxIBTL⁑
|
BcI-1003
|
GSKKTKCPR-NH2
|
1003.27
|
+ 5
|
1/9 (11.1%)
|
-1.911
|
6.57
|
21.9
|
1.797
|
Non-toxic
|
Non-toxic
|
*calculated with Protparam tool https://web.expasy.org/cgi-bin/protparam/protparam. °Rt: time retention. ^Hy/total aa: % of hydrophobic amino acids in the whole sequence. ~calculated with HPL tool (http://crdd.osdd.net/raghava/hlp/pep_both.htm). †calculated with ToxinPred server (https://webs.iiitd.edu.in/raghava/toxinpred/index.html). ⁑calculated with ToxIBTL server (https://server.wei-group.net/ToxIBTL/index.html). |
Alzheimer’s multi-target analysis
To study the capability of the peptide BcI-1003 to act as a multi-target agent on AD, we evaluated its activity against four representative pathological pathways. In this sense, the inhibition assay against cholinesterases (AChE and BChE) and MAO-B enzymes, and the antioxidant activity were performed. The biological activity was expressed as IC50 or EC50 values, defined as the concentration of sample that produces 50% of biological activity. The results are showed in the Table 2 and Figure S3. Regarding, the cholinesterases inhibitory activity, the peptide showed to be active against BChE with an IC50 value of 669 ± 12 µM, while no evidence of activity against AChE was found at the tested range. The results are in concordance with previous work, where we reported the activity of the complete skin extract of B. cordobae against cholinesterases enzymes (Spinelli et al. 2019). On the basis of these results, growing evidence suggests that BChE rather than AChE plays a key role in the hydrolysis of the neurotransmitter acetylcholine, because during AD progression, the AChE level decreases extensively in the brain, while BChE activity is maintained in a higher level. Hence, discovering BChE inhibitors is a strategy that may increase the amount of acetylcholine (Greig et al. 2005; Hartmann et al. 2007). Cholinesterases and MAOs are enzymes that are closely associated with the AD symptomatology and progression. The modulation of both enzymes offers an important chance to alter the course of AD. More than 15 years of intensive research has led to the identification of an important number of dual inhibitors, where some present positive outcomes in clinical trials (Knez et al. 2017). In 2019 we reported the first study of amphibian extracts with the capability of inhibiting the activity of MAO-B and cholinesterases enzymes (Spinelli et al. 2019; Spinelli et al. 2021). In this sense, the amphibian peptide BcI-1003 showed the potential to inhibit MAO-B with an IC50 value of 570.19 ± 8 µM. The in-vitro enzymatic inhibition studies were backed by molecular dynamic studies. For BChE, the results showed that BcI-1003 residues interact by hydrogen bound with both Asp70 and Tyr332 (Fig. 2), which constitute the peripherical anionic site (PAS) (Bajda et al. 2013). The PAS site is the region involved in non-catalytic processes and non-cholinergic functions of ChEs (Kryger et al. 1999). Through the PAS, ChEs act as a chaperone in the aggregation process of Aβ, accelerating the deposition of the amyloid plaques (Sadeghi et al. 2020). The inhibition of the PAS site is considered to be a promising strategy for the treatment of AD, since PAS inhibitors can potentially reduce the hydrolysis of ACh and deaccelerate the aggregation of Aβ at the same time (Pohanka 2011). Regarding the MAO-B in sillico studies, they showed that the enzyme-peptide complex is stabilized by several interactions. Notoriously, the Cys7 of the peptide interacts with Tyr435 of the MAO-B by a π-sulphur interaction (see Fig. 2). The residue Tyr435 is located at the aromatic cage of the MAO-B and plays a key role in the catalytic process (Li et al. 2006). Recently, Mathew et al. (2021) reported the strong competitive MAO-B inhibitor TM1 (a chalcone-thioester derivate) which interacts mainly with Tyr435 (Mathew et al. 2021). On the other hand, the antioxidant activity of the peptide was evaluated using the DPPH assay (Memarpoor-Yazdi et al. 2013). The ROS (reactive oxygen species) are one of the most important stress factors for amphibian naked skins. As an organ directly exposed to ROS from the environment as well as endogenous sources, skin is a candidate to oxidative stresses, so as result has developed an efficient antioxidant defense system (Yang et al. 2009). In this work, BcI-1003 showed a potent antioxidant activity with an effective concentration 50 (EC50) value of 7.24 ± 0.5 µM, a value that it is in the order of activity of the ascorbic acid. In addition, we observed a rapid colour change when performing the DPPH bioassay due to a fast capture of the free radical. These results could be attributed to the Cys7 in the sequence of BcI-1003. Several reports have demonstrated that the presence of cysteine, a reductive residue, in the peptide sequence strongly contributes to the antioxidative activity, but also is the determinant residue for rapid radical scavenging (Liu et al. 2010; Wang et al. 2017). On the other hand, the presence of basic residues such as Lysine or Arginine have shown improvements in the antioxidant capacity of peptides (Yang et al. 2009). Out of the four AD therapeutic target studied, this was the most modulated by BcI-1003. The central nervous system cells are considered as one of the more vulnerable to oxidative stress by ROS (Olmez and Ozyurt 2012). Extensive studies demonstrated that the Aβ aggregates, as well as the MAO-B, exacerbated oxidative deamination increasing the ROS levels in neuronal cells, therefore intensifying the damage in AD. Accumulated evidence showed that the antioxidant agents act as neuroprotectors, reducing the toxic effects of oxidative stress and helping to improve cognition in AD patients (Knez et al. 2018). Moreover, several peptides of 3 to 20 amino acids demonstrated neuroprotective activity, acting as scavengers of free radicals such as H2O2 (Elias et al. 2008; Arasu et al. 2017; Shalgum et al. 2019; Prabha et al. 2022). Here, out of the four AD therapeutic targets studied, the antioxidant activity was the most strongly modulated by BcI-1003, being this peptide a hopeful neuroprotective agent. The peptide BcI-1003 has been shown to have the ability to act on three key therapeutic targets of AD, inhibiting the activity of BChE and MAO-B enzymes, and showing a powerful and rapid antioxidant capability. Previous studies have shown that the modification of key residues to natural sequences managed to increase inhibitory activities of enzymes, as well as confer new activities (Sanchis et al. 2020; Sanchis et al. 2022). This kind of strategy could be a useful tool to improve the activity of the natural peptide BcI-1003 against BChE and MAO-B.
Table 2
Biological activities of BcI-1003 against Alzheimer’s Disease targets
|
IC50 (µM)
|
EC50 (µM)
|
|
AChE
|
BChE
|
MAO-B
|
DPPH
|
BCI-1003
|
N.I.
|
669 ± 12
|
570 ± 8
|
7.24 ± 0.51
|
Rivastigmine
|
34 ± 6
|
0.08 ± 0.00
|
-
|
-
|
Selegiline
|
-
|
-
|
0.01 ± 0.00
|
-
|
Ascorbic acid
|
-
|
-
|
-
|
3.5 ± 0.2
|
(N.I.): non-inhibitory activity. All values were expressed as IC50/EC50 ± SD. The IC50/EC50 values were determined by regression analyses of three replicate determinations. |
Antimicrobial activity
To evaluate the antibacterial activity of peptide BcI-1003, the minimal inhibitory concentration (MIC) and minimal bactericidal concentration (MBC) values were determined against clinically isolated drug-resistant strain of gram positive and negative bacteria. The results are shown in Table 3. The MIC and MBC values was expressed in µM. BcI-1003 inhibited the grown of the two meticiline-resistant S. aureus strains, with MIC values of 127.6 and 63.8 µM, and of the E. coli MDR-1 strain, with a MIC value of 8.0 µM. While against K. neumoniae strain, a naturally resistant bacterial, wasn´t active in all range of concentration tested. For both S. aureus strains, BcI-1003 had a bacteriostatic mode of action (MBC > 127.6 µM), while against E. coli strain showed a bactericidal activity, with MBC value of 127.6 µM. BcI-1003 exhibited a high cationicity (net charge of + 5) but lack of hydrophobicity and helicity, also presented a considerably higher antibacterial activity against the E. coli strain. This suggest that hydrophobicity and helicity seem to be less important parameters for activity against this gram-negative bacterium. Previously, we observed the same behaviour for peptide P2-Hp-1935, isolated from the frog Boana pulchella. This peptide presented a high cationicity (+ 5), but low percentage of hydrophobic amino acids (35%) and helicity, showing was more active against gram negative bacteria than gram positive ones (Siano et al. 2014). In general, the major AMPs contain a significant proportion of hydrophobic amino acid residues and have a positive net charge (ranging from + 2 to + 9). The cationic residues are electrostatically attracted to negative components of the bacterial wall and membrane, and the hydrophobic residues facilitate interactions with fatty acyl chains and subsequently caused the disrupting of the integrity of the bacterial membrane (Zasloff 2002). However, several reports indicate that for antimicrobial activity against gram-negative bacteria, structural requirements of AMPs are less rigorous, while a stabilized amphipathic alpha-helical conformation is an important parameter for activity against gram-positive bacteria (Giangaspero et al. 2001). In addition, numerous strains of gram-negative bacteria are susceptible to non-helical and unstructured cationic peptides, suggesting that inhibitory activity against gram-negative bacteria is mostly influenced by electrostatic interactions (Dathe et al. 1997; Giangaspero et al. 2001). In 2015, Nacif-Marçal reported the isolation and characterization of a novel antibacterial peptide from Hypsiboas semilineatus, Hs-1 (FLPLILPSIVTALSSFLKQG) (Nacif Marçal et al. 2015). This peptide had 55% of hydrophobic amino acids and a net charge of + 1 at pH 7, with a propensity to form an amphipathic alpha helix. It showed a selective spectrum of action against gram positive bacteria (MIC values ranging from 11.7 to 46 µM). The authors suggested that the lack of inhibitory activity against gram negative bacteria could be due to the low cationicity of Hs-1.
Table 3
Antimicrobial activity of peptide BcI-1003 against gram (+) and (–) bacteria.
|
Clinical isolated strain
|
MIC (µM)
|
MBC (µM)
|
Gram (+) bacteria
|
Staphylococcus aureus MR-1
|
127.6
|
> 127.6
|
Staphylococcus aureus MR-2
|
63.8
|
> 127.6
|
Gram (–) bacteria
|
Escherichia coli MDR-1
|
8.0
|
127.6
|
Klebsiella pneumoniae Kb-1
|
> 127.6
|
> 127.6
|
Circular Dichroism (CD) Analyses
BcI-1003 CD spectra recorded in different media are shown in Fig. 3. In H2O the peptide adopted a random coil conformation, as expected for short linear peptides. These data are consistent with a minimum at 198 nm. In 2,2,2-trifluoroethanol (TFE)/H2O (50% v/v), an alpha-helix inductive solvent, and in presence of neutral dipalmitoylphosphatidylcholine (DPPC) vesicles, that simulate eukaryotic membranes, the peptide was preferentially unordered. However, in presence of dipalmitoylphosphatidylglycerol (DPPG) vesicles, that mimic the bacterial membrane, BcI-1003 was partially structured, with a spectrum consistent with a β-structure, showing a minimum around 213 nm. This suggests that the peptide interacts electrostatically with the negatively charged DPPG vesicles, which induce the adoption of a secondary structure conformation.
Toxicological profile
The knowledge of the cytotoxic activity of a compound is of great importance because this could be a limiting factor for its applicability. In this sense, the hemolytic activity against human healthy erythrocytes was determined (Figure S4). Notably, BcI-1003 demonstrated to be non-hemolytic, with hemolysis values below 10% at the assayed concentrations. In addition to the hemolysis results, the in-silico analysis by ToxinPred (Gupta et al. 2013) and ToxIBTL (Wei et al. 2022) confirmed that the peptide BcI-1003 is non-toxic (see Table 1).