Praveen
Nedumpully-Govindan
a,
Esteban N.
Gurzov
bc,
Pengyu
Chen
d,
Emily H.
Pilkington
e,
William J.
Stanley
bc,
Sara A.
Litwak
b,
Thomas P.
Davis
ef,
Pu Chun
Ke
*e and
Feng
Ding
*a
aDepartment of Physics and Astronomy, Clemson University, Clemson, SC 29634, USA. E-mail: fding@clemson.edu
bSt Vincent's Institute of Medical Research, 9 Princes Street, Fitzroy, VIC 3065, Australia
cDepartment of Medicine, The University of Melbourne, St. Vincent's Hospital, Melbourne, Australia
dDepartment of Mechanical Engineering, University of Michigan, Ann Arbor, MI 28109, USA
eARC Center of Excellence in Convergent Bio-Nano Science and Technology, Monash Institute of Pharmaceutical Sciences, Monash University, 381 Royal Parade, Parkville, VIC 3052, Australia. E-mail: pu-chun.ke@monash.edu
fDepartment of Chemistry, University of Warwick, Gibbet Hill, Coventry, CV4 7AL, UK
First published on 24th November 2015
Human islet amyloid polypeptide (hIAPP or amylin) aggregation is directly associated with pancreatic β-cell death and subsequent insulin deficiency in type 2 diabetes (T2D). Since no cure is currently available for T2D, it is of great benefit to devise new anti-aggregation molecules, which protect β-cells against hIAPP aggregation-induced toxicity. Engineered nanoparticles have been recently exploited as anti-aggregation nanomedicines. In this work, we studied graphene oxide (GO) nanosheets for their potential for hIAPP aggregation inhibition by combining computational modeling, biophysical characterization and cell toxicity measurements. Using discrete molecular dynamics (DMD) simulations and in vitro studies, we showed that GO exhibited an inhibitory effect on hIAPP aggregation. DMD simulations indicated that the strong binding of hIAPP to GO nanosheets was driven by hydrogen bonding and aromatic stacking and that the strong peptide–GO binding efficiently inhibited hIAPP self-association and aggregation on the nanosheet surface. Secondary structural changes of hIAPP upon GO binding derived from DMD simulations were consistent with circular dichroism (CD) spectroscopy measurements. Transmission electron microscopy (TEM) images confirmed the reduction of hIAPP aggregation in the presence of GO. Furthermore, we carried out a cell toxicity assay and found that these nanosheets protected insulin-secreting NIT-1 pancreatic β-cells against hIAPP-induced toxicity. Our multidisciplinary study suggests that GO nanosheets have the potential to be utilized as an anti-aggregation nanomedicine itself in addition to a biosensor or delivery vehicle for the mitigation of T2D progression.
A number of studies have targeted different stages of hIAPP aggregation with an ultimate goal of preventing the aggregation and reducing its corresponding cytotoxicity. For example, naturally occurring polyphenols such as EGCG (green tea), curcumin (turmeric) and resveratrol (grape skin) display anti-oxidation and anti-aggregation properties.6–8 Zinc ions, which are present in hIAPP-storing β-cell granules, exhibit concentration-dependent promotion and an inhibition effect on hIAPP aggregation,9 implicating that carefully determined zinc supplementation may be useful for managing T2D.10 Similarly, insulin, which is co-stored and co-secreted with hIAPP, has an inhibitory effect on peptide aggregation.11 Some amylin variants and mutants are not only non-aggregating, but also inhibitors of wild type hIAPP.12–14 We have recently used computer simulations combined with experimental methods to delineate the effects of many of these agents on hIAPP aggregation.15–17
Another promising avenue of anti-aggregation research is the use of engineered nanoparticles. Nanoparticles’ large surface-to-bulk ratio and easiness for surface modification make them attractive anti-aggregation agents or carriers of such agents. It is known that nanoparticles exhibit both aggregation promotion and inhibitory effects, depending on their chemical composition, physicochemical properties and the nature of the proteins involved.18–20 One of the most promising nanoparticles for biomedical applications is graphene oxide (GO) nanosheets.21 The effects of carbon-based nanoparticles including GO nanosheets on amyloid-β peptide have been studied by several groups,22–25 demonstrating the inhibitory effect of such nanostructures on amyloid-β peptide aggregation. Since the inhibitory effects vary from case to case, we propose to investigate whether GO exhibits any inhibitory effect on hIAPP aggregation. Recently, molecular dynamics simulations indicated that carbon nanoparticles including graphene (but not GO) strongly bind and inhibit the aggregation of amyloidogenic motif of hIAPP (residues 22–28).26,27 However, the hydrophobic graphene often needs to be functionalized/oxidized in order to achieve bioavailability. To our best knowledge, there are no reported experimental or computational studies on the effect of GO on the aggregation of full-length hIAPP which has direct biological and medicinal relevance. Herein, we combined computer simulations with biophysical and in vitro studies, which synergistically demonstrated that GO strongly bound to hIAPP and inhibited its aggregation. The strong binding was governed by hydrogen bonding, and to a lesser extent, hydrophobic interaction between GO and hIAPP. Furthermore, our toxicity assay on insulin-secreting NIT-1 cells revealed that GO protected the cells against hIAPP-induced toxicity. Our results suggest that the inhibitory effect of GO on peptide aggregation is rather generic and not limited to amyloid-β alone, and that GO has the potential for use not only as a nanoparticle carrier,28,29 but also as an hIAPP aggregation inhibitor.
Thioflavin T (ThT) assay is a major tool for quantifying amyloid fibril formation, but it was not used in this study due to the stacking between the aromatic moieties of ThT and GO to skew experimental observations. The binding of hIAPP and GO was instead further confirmed by Raman spectroscopy. As shown in Fig. 1F, hIAPP (purple trace) displayed the prototypical amide peak30 at 1642.9 cm−1, while the D (impurity) and G (primary mode due to sp2 bonded carbon atoms) bands of GO,31 were determined at 1337.7 cm−1 and 1613.9 cm−1, respectively (gray trace). In comparison, mixing GO and hIAPP at a weight ratio of 1:1 rendered a spectrum characteristic of both the D band of GO and the amide peak of hIAPP (orange trace). Upon mixing GO with hIAPP at a GO:hIAPP weight ratio of 1:5, the amide peak was lost, while the spectrum of the mixture more closely resembled the D band of GO (blue trace). The loss of the hIAPP spectral identity with the increasing percentage of the peptide suggests a change in the hIAPP structure, which was evidently induced by GO–hIAPP binding.
When simulations were initiated by placing the hIAPP randomly around a 32.6 Å × 38.1 Å GO nanosheet in a 100 Å cubic simulation box under periodic boundary conditions, the peptide was found to bind the GO nanosheet in ten independent simulations within 50 ns, suggesting a strong binding affinity between the two species. Even though the time hIAPP chains took to make an initial contact with the GO in different simulations varied due to diffusion, hIAPPs remained bound until the end of the simulations. Noticeably, GO binding considerably reduced the helical content of hIAPP to ∼10%, accompanied by an increase of coil structure to ∼62% (Fig. 2). We carried out circular dichroism (CD) spectroscopy measurements to experimentally examine the protein secondary structure in the presence or absence of nanomaterials.40 A reduction of the helical content from ∼39% to ∼21% with a corresponding increase of the coil content from ∼24% to ∼36% was observed when GO nanosheets were added to hIAPP (Fig. 2B and Fig. S1 in the ESI†), matching the same trends as observed in the DMD simulations. Therefore, our experimental and computational studies suggested that the GO nanosheets indeed strongly bound hIAPP and caused losses in the peptide secondary structure. To understand how the peptide bound the nanosheet, we computed the binding frequency of each hIAPP residue with GO over the last quarter of the simulations where the peptides were GO-bound (Fig. S2 in the ESI†). Both N- and C-terminal residues, 1–4 and 32–37 respectively, displayed higher binding frequencies than other residues in the middle. Many of these terminal residues as well as the residues in the middle that displayed high binding frequencies (e.g. Q10, N14, H18, N22, S28) were polar, which could bind the hydroxyl groups of GO via hydrogen bonds (Fig. 2D). Importantly, aromatic residues including F15, H18, F23, and Y37 also displayed high GO-binding frequencies, albeit lower than hydrophilic residues. Therefore, hydrogen bonding and aromatic-stacking were determined as the driving force for hIAPP–GO binding.
To study how GO binding affected the hIAPP–hIAPP interaction and thereby hIAPP aggregation, we simulated multiple (2, 4 and 6) hIAPPs in the presence and also in the absence of a GO nanosheet. For each molecular system, we performed ten independent simulations where the peptides were randomly positioned around the nanosheet initially. A representative snapshot of six hIAPPs with a GO nanosheet from the simulations is illustrated in Fig. 3A. As the number of hIAPP chains increased, the total number of GO–hIAPP contacts was increased as expected, but the per chain contact number was decreased (Fig. S3 in the ESI†). More importantly, with increasing number of hIAPPs, the helical structure content loss due to GO binding was partially recovered and correspondingly the random coil content was reduced (Fig. 3B). For the largest system that we simulated (six hIAPP molecules with GO), the average helical content was ∼25% compared to ∼10% in the hIAPP1–GO and ∼30% in the hIAPP alone systems. Interestingly, the secondary structure contents upon multiple peptides binding with GO in the DMD simulations were more consistent with the corresponding values in the experimental measurement (Fig. 2B). There are two reasons for this recovery of the secondary structure content. First, as more hIAPPs were added, not all of them had room to bind GO as suggested by the decreased average number of GO-contacts per chain (Fig. S3 in the ESI†). Secondly, the hIAPP–hIAPP association may also stabilize the α-helix as observed previously.16,41
Fig. 3 (A) A snapshot showing the binding of six hIAPPs to GO. hIAPPs clearly are more helical than in Fig. 2A. (B) The secondary structure contents (per chain) of multiple hIAPPs binding to GO nanosheets. The (C) total and (D) amyloidogenic inter-peptide contact number as a function of the number of hIAPPs. The contact numbers are consistently smaller in the presence of GO nanosheets. |
We computed the hIAPP–hIAPP contact number as an indicator for hIAPP self-association. We found that, both in the absence and in the presence of GO, the contact number averaged over independent simulations increased as the number of hIAPPs was increased (Fig. 3C and D). However, compared to the hIAPP alone (no GO nanosheet) case, the hIAPP–hIAPP contact number was significantly smaller in the presence of GO nanosheets (Fig. 3C). This is because hIAPP had a strong affinity to bind the GO nanosheets through both hydrogen bonding and aromatic interactions, effectively reducing the hIAPP–hIAPP interactions. Residues 22–29 of hIAPP are particularly prone to aggregation, and are known as the amyloidogenic sites of the peptide.42,43 In addition to the total contact number, we also calculated the amyloidogenic contact number, defined as the inter-chain contact number between residues 22–29 (Fig. 3D). We found that, similar to the total contact number, the average amyloidogenic contact number was also significantly smaller in the presence of GO nanosheets. More importantly, the reduction of the amyloidogenic contact number upon GO-binding (by ∼71%) was much greater compared to the total contact number (∼31%) (Fig. 3D). Our simulations thus indicate that strong binding and sequestering of hIAPPs by GO nanosheets caused a reduction in the hIAPP–hIAPP association, especially in the amyloidogenic region, thereby reducing peptide aggregation on the nanosheet surface.
In previous computational studies concerning the interactions between graphene (not GO) and hIAPP 22–28 (i.e. the amyloidogenic region), a strong binding governed by aromatic pi–pi stacking was observed.26,27 Due to the strong binding between peptides and graphene, the peptides adopted coil-like structures by maximizing interactions with the graphene sheet rather than with themselves. In our simulations of hIAPP binding with GO, we found that hydrogen bonding was the driving force while aromatic stacking also contributed significantly to the binding (Fig. S2 in the ESI†). The N-terminal helix of hIAPP was mostly retained and residues 22–29 bound less frequently to GO compared to the two termini of the peptide. This difference was due to the amphiphilic structural properties of GO. According to our simulation study with different hIAPP to GO concentration ratios, the average number of contacts between GO and the peptide featured a high-to-low transition near ∼3 hIAPP chains per GO nanosheet (Fig. S3, ESI†). These results suggest an optimal GO concentration for hIAPP aggregation inhibition, corresponding to a GO:hIAPP mass ratio of ∼0.75 or a GO surface area of 8.3 nm2 per hIAPP chain.
It is worth examining whether other anti-aggregation molecules have similar inhibition mechanisms. A set of small-molecule polyphenols exhibit anti-aggregation properties against several amyloidogenic proteins including hIAPP.6–8 Recently, we showed that polyphenolic curcumin and resveratrol inhibit hIAPP aggregation by stabilizing “off-pathway” hIAPP oligomers, where the small molecules formed a nanosized core and peptides bind to the surface.16 The stabilizing factors for the nano-assembly included inter-molecular hydrogen bonds and π–π stacking between aromatic residues such as Phe15 and Phe23 of hIAPP and the phenols, the same interactions important for hIAPP aggregation inhibition by GO. The strong binding of peptides with either the GO nanosheet or the polyphenol nanocluster resulted in reduced hIAPP self-association and subsequent inter-chain β-sheet formation (Fig. 3). As a result, the peptide oligomers in the molecular complex could not serve as the conformational template for the conformational conversion of incoming peptides and the growth of amyloid fibrils.34,46 The prevention of hIAPP self-association and aggregation by competitive binding has also been observed in protein-based inhibitors such as mutant hIAPPs,12 insulin11 and rIAPP.47
GO nanosheets have been shown in the literature to have great potential for drug delivery.28,29 The good water solubility, large surface area and biocompatibility may be further exploited for delivering small molecules such as polyphenols and other hIAPP aggregation inhibitors. The surface of GO may also be functionalized for cell and tissue targeting.48,49 Since our study has demonstrated the anti-aggregation properties of GO, these planar nanostructures with great flexibility in size and surface modification may have an added advantage both as a drug delivery vehicle with specific targeting and also an anti-aggregation medicine. Due to the complex architecture of pancreatic islets and cell signaling within the islets, however, there remain hurdles to be overcome by future studies towards the delivery of bare or functionalized GO ex vivo and in vivo. These efforts may be especially focused on tailoring the physicochemical properties of GO and GO derivatives for specific pancreatic targeting.
In summary, we investigated the inhibitory effects of GO nanosheets on hIAPP aggregation. Our simulation results showed that hIAPP strongly bound GO sheets due to the both hydrogen bonding and aromatic interactions. A reduction of the helical contents and an increase of the random coil structure of hIAPP were observed in the presence of GO, both in experiments (CD) and in DMD simulations. DMD simulations of multiple hIAPPs with and without GO nanosheets further vindicated that GO-binding prevented hIAPP aggregation. This binding between hIAPP and GO was confirmed by Raman spectroscopy. Our TEM study confirmed the reduced hIAPP aggregation in the presence of GO nanosheets. Furthermore, GO nanosheets protected insulin-producing NIT-1 cells from hIAPP-induced toxicity, likely through the disruption of hIAPP fibrillation. Therefore, our multiscale and multidisciplinary studies combining in silico and in vitro approaches point to the promise of GO as a nanotechnology for the treatment of T2D.
Footnote |
† Electronic supplementary information (ESI) available: Experimental and computational methods; Fig. S1 – CD spectra; Fig. S2 – residue-wise contact frequencies of a single hIAPP with a GO nanosheet; and Fig. S3 – GO–hIAPP contact number per chain as a function of the number of hIAPP chains. See DOI: 10.1039/c5cp05924k |
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