A. Apparatus and materials

Oligonucleotides (Table 1) were synthesized and purified by TaKaRa, Inc. (Shiga, Japan). HAuCl₄ ·4H₂ O (99.9%), NaCl, NaH₂ PO₄ ·2H₂ O, and NaH₂ PO₄ ·12H₂ O were purchased from China National Pharmaceutical Group Corporation (Shanghai, China). Pb(OAc)₂, 6-mercapto-1-hexanol (MCH), diethylpyrocarbonate (DEPC), trisodium citrate, ethyl acetate, and other chemicals were all obtained from Sigma-Aldrich (St. Louis, MO, USA). All solutions were prepared with ultrapure water (18.2 MΩ·cm). Transmission electron microscopy (TEM) imaging was performed using H-75000 model (Hitachi, Tokyo, Japan). UV-vis spectra were measured with a U-3900 (Hitachi). Fluorescence measurements were performed on an F-4500 (Hitachi). Cell imaging and fluorescence imaging in cells were conducted using a laser confocal microscope (Leica TCS SP5, Wetzlar, Germany)

B. Preparation of 13-nm AuNPs

Thirteen-nanometer AuNPs were synthesized following classical citrate reduction procedures^[37]. Briefly, 3.5 mL of 1% trisodium citrate was quickly added to a boiling, rapidly stirring 0.01% aqueous HAuCl₄ solution, which changed the solution color from pale yellow to burgundy red. After further boiling for 20 min, the solution was left to cool to 25°C while stirring. The prepared AuNPs were stored at 4°C until use and the size of the AuNPs were determined by TEM imaging.

C. Preparation of polyA-tailed Protmin

The prepared AuNPs were first incubated with polyA-tailed DNAzyme (polyA10-17E) in a 1:200 ratio for 16 h. Next, 1 M of phosphate-buffered saline (PBS, 1 M of NaCl, 100 mM of NaH₂ PO₄ /Na₂ HPO₄, pH 7.4) was added to the mixture 5 times repeatedly at 30-min intervals to achieve a 0.1 M phosphate concentration. The salt solution was incubated for an additional 40 h at room temperature. Next, the solution was centrifuged (13500 rpm, 20 min) and resuspended in 0.1 M PBS (0.1 M of NaCl, 10 mM of NaH₂ PO₄ /Na₂ HPO₄, pH 7.4) three times. The prepared Protmin was resuspended in the reaction buffer (20 mM tris, 100 mM NaCl, pH 7.4, prepared in DEPC-treated water) until use.

D. Calculation of 17E loading on AuNPs

The loading of 17E was determined by attaching FAM-labeled 17E (polyA10-17E-F) onto the 13-nm AuNPs. The concentration of 17E-AuNPs was determined by UV-vis spectroscopy measurements using Beer’s law (for 13 nm AuNPs, ε_{520 nm} = 2.7 × 10⁸ L mol^-1 cm^-1). FAM-labeled 17E was chemically displaced from the surface of AuNPs by MCH treatment (final concentration 10 mM in 0.3 M NaCl, 10 mM phosphate buffer solution, pH 7.4) after 18 h incubation at 37°C with shaking. The released fluorescent DNA was collected via centrifugation and measured with the F-4500. The fluorescence was converted to molar concentrations of probes by comparison to a standard curve, which was prepared using known concentrations of 17E-F under the same conditions. The loading of DNA was calculated by dividing the concentration of fluorescent 17E-F by the concentration of AuNPs. Experiments were repeated three times using fresh samples.

E. Determination of activity of Protmin nanosensor in vitro

The RNA contained substrate strand "Active 17S" was modified with Cy3 label at the 5′ end and BHQ-2 at the 3′ end. The Protmin nanosensor was fabricated as follows. First, active 17S was added to a Protmin solution to a final ratio of 2:1 17S to 17E strand. The solution was heated at 65°C for 5 min, and then cooled at 25°C for 1 h. The solution was stored at 4°C overnight to complete the reaction. Excess 17S was removed by centrifugation and the prepared Protmin nanosensor was washed with reaction buffer three times. Finally, the Protmin nanosensor was diluted to a concentration of 2 nM in the reaction buffer. A series concentration of Pb(OAc)₂ stock solution was added to the Protmin nanosensor. Fluorescence spectra were collected at 540 nm excitation.

F. Pb²⁺ cellular uptake and imaging

Active or inactive Protmin nanosensors were prepared by hybridizing "Active 17S" or "Inactive 17S" with Protmin. HeLa cells were dispersed at a density of 1.0 × 10⁵ cells per well in 24-well microtiter plates to a total volume of 500 μL/well. The plates were maintained at 37°C in a 5% CO₂/95% air incubator for one day. After removing the original incubation medium, HeLa cells were incubated with Pb²⁺ at a final concentration of 200 μM for 12 h to allow sufficient metal ion uptake. The cells were washed thrice using 0.1 M PBS. Next, 600 μL of dulbecco’s modified eagle medium (DMEM) culture medium containing 2 nM active or inactive A10-17ES-AuNPs was added. After 2 h of incubation, the cells were washed using PBS thrice and fresh DMEM was added. Lysotracker Green was added to the cells for another 30 min at a final concentration of 50 nM. Fluorescence images were acquired with a confocal laser scanning microscope.

G. MTT Assay

An MTT assay was carried out to investigate the cytotoxicity of the nanosensor. HeLa cells (1.0 × 10⁵ cells per well) were dispersed in 24-well microtiter plates to a total volume of 500 μL/well. The plates were maintained at 37°C in a 5% CO₂/95% air incubator for one day. After removing the original medium, HeLa cells were incubated with unmodified AuNPs (1 nM) or nanosensor (1 nM and 3 nM) for 3, 6, 12, and 24 h. Next, the medium was replaced with another medium containing MTT (0.5 mg/mL) and cells were incubated for another 4 h incubation at 37°C. After removing the medium, 150 μL DMSO was added to the cells to dissolve the formed formazan. Absorbance at 490 nm in each well was recorded. Cell viability was expressed as the ratio of the absorbance of the cells incubated with AuNPs or the nanosensor to that of cells incubated with only culture medium.

A. Fabrication and working principle of the Protmin nanoprobe

Based on the polyA-tailed DNAzyme specific for Pb²⁺cleavage, we constructed a Protmin nanosensor for Pb²⁺detection in cells. As shown in Fig. 1, Protmin was first prepared by attaching the polyA-tailed DNAzyme onto the surface of AuNPs through polyA-Au binding, extending the DNAzyme block for further reactions. Protmin was then hybridized with the fluorescent 17S substrate strands to fabricate 17ES-AuNP. The substrate strands were labeled with a fluorophore at the 5′ end and quencher at the 3′ end. After attachment to the AuNPs, the fluorophore was quenched by gold and a quencher, resulting in very weak fluorescence. In the presence of Pb²⁺, the substrate strands were cleaved, resulting in the release of short fluorophore-labeled DNA and an increase in fluorescence.

Fig. 1.Full-screen View

(Color online) Schematic illustration of Pb²⁺imaging in living cells based on polyA-tailed protein-mimicking nanoparticles (Protmin).

B. Characterization of Protmin probe

Because the 13-nm AuNP was reported to be an efficient quencher^[38] and intracellular nanocarrier^[26], our design was based on this intracellular nanosensor. TEM images of AuNPs (Fig. 2a) showed that the 13-nm AuNPs were successfully synthesized with good dispersion. The UV-Vis absorption spectra of AuNPs and polyA10-tailed Protmin (AuNPs functionalized with polyA10-tailed DNAzyme) shown in Fig. 2b demonstrated that the maximum optical absorption was shifted from 520 to 524 nm after polyA-tailed DNAzyme assembly on the surface of AuNPs. Because the position of the plasmon band of metal nanoparticles is closely related to the size and surrounding environment,the red shift in spectroscopy confirmed that the AuNPs were successfully functionalized with polyA10-tailed DNAzyme^[39].By using a displacement-based fluorescence method established by Mirkin^[40], each AuNP was estimated to carry 42 ± 2 DNAzyme, which was in accordance with our previous result^[33].

Fig. 2.Full-screen View

(Color online) (a) TEM images of 13-nm AuNPs; (b) UV-vis spectra for unmodified AuNPs (black line) and the Protmin (red line).

C. Pb²⁺ detection of Protmin nanosensor in vitro

We first evaluated the feasibility of using the Protmin nanosensor for Pb²⁺ detection in vitro (Fig. 3a). The curve a in Fig. 3a shows the fluorescence spectrum of free Cy3- and BHQ-2-labeled active 17E solution upon excitation at 540 nm. After hybridization with Protmin, fluorescence was decreased significantly because of efficient quenching by AuNPs (curve b in Fig. 3a). After adding Pb²⁺, the substrate strand was cleaved and the Cy3-labeled short strand was released, increasing the fluorescence of the system (curve c in Fig. 3a). These results indicate that the Protmin nanosensor functioned well in response to Pb²⁺ in vitro. The results of kinetics in Fig. 3b show that the Protmin nanosensor responds rapidly to Pb²⁺ and the fluorescence at 565 nm reached a plateau after 10-min incubation with Pb²⁺, which was 2-fold faster than that of a thiolated DNAzyme-based nanosensor^[29]. These fast-kinetic results may be attributed to the elimination of nonspecific adsorption between gold and DNAzyme by using polyA tails. These results demonstrate the potential for rapid detection by using Protmin-based sensors.

Fig. 3.Full-screen View

(Color online) (a) Fluorescence spectra of Cy3- and BHQ-2 labeled "Active 17S" in solution (curve a), Protmin-based nanosensor in the absence (curve b) and presence (curve c) of 100 nM Pb²⁺; (b) Kinetics of the nanoprobe in the absence (black curve) and presence of 100 nM Pb²⁺. The excitation wavelength was 540 nm.

D. Sensitivity of selectivity of Protmin nanosensor in vitro

To test the sensitivity of the nanosensor, different concentrations of Pb²⁺ (0–2 μM) were added and emission fluorescence were recorded. The fluorescence signal at 565 nm increased as the concentration of Pb²⁺ increased (Fig. 4a). Good linearity was obtained from 5–30 nM. The linear equation was Fluorescence (F_{565 nm}) = 0.6732 C_Pb²⁺ (nM) + 21.66, with a correlation coefficient of 0.9143. The detection limit of Pb²⁺ was calculated to be 5.33 nM. This assay is more sensitive or comparable to other intracellular Pb²⁺ assays^[41-43] because of the high activity of polyA-mediated DNAzyme on AuNPs^[33].To evaluate the selectivity of the nanoprobe for sensing Pb²⁺, other biologically relevant metal ions, including Mg²⁺, Co²⁺, Fe³⁺, Cu²⁺, Zn²⁺, K⁺, and Ca²⁺, were tested. As shown in Fig. 4b, the Protmin nanosensor exhibited 2- to 3-fold higher fluorescence signals for Pb²⁺ than for other metal ions at higher concentrations. Thus, the nanosensor is suitable for evaluation in complex biological systems.

Fig. 4.Full-screen View

(Color online) (a) Fluorescence intensity at 565 nm in the presence of various concentrations of Pb²⁺ (0, 5, 10, 15, 20, 30, 50, 100, 200, 500, 1000, and 2000 nM). Inset: Calibration curve for the fluorescence intensity versus corresponding Pb²⁺ concentration. (b) Specificity of the nanoprobe for Pb²⁺ compared to other metal ions (Mg²⁺, Co²⁺, Fe³⁺, Cu²⁺, Zn²⁺, K⁺, Ca²⁺). The concentration of other metal ions was 50 μM and concentration of Pb²⁺ was 100 nM. The excitation wavelength was 540 nm.

E. Intracellular sensing of Pb²⁺ using Protmin nanosensor

The application of the Protmin-based nanosensor for intracellular Pb²⁺ was tested. The cellular uptake and fluorescence response of the sensor were evaluated using HeLa cells as a model. To evaluate the cytotoxicity of the nanosensor, an MTT (3-(4,5-dimethylthiazol-2-yl)-2,5-diphenyltetrazolium bromide) assay in HeLa cells was performed. The results indicated that the AuNPs (1 nM) and nanosensor (1 and 3 nM) showed low cytotoxicity or side effects in HeLa cells (Fig. 5). Therefore, the nanosensor is a reliable probe for detection in biological samples.

Fig. 5.Full-screen View

MTT assay of HeLa cells. HeLa cells were incubated with unmodified AuNPs (1 nM), nanosensor (1 and 3 nM) for 3, 6, 12, and 24 h. Error bars represent variations between three parallel experiments.

We first treated HeLa cells with 200 μM Pb²⁺ for 12 h to allow sufficient metal ion uptake. According to a previous study^[29], the AuNP-DNAzyme nanoprobe can enter cells through receptor-mediated endocytosis without the use of transfection agents. As shown in Fig. 6a, a red fluorescence signal corresponding to Pb²⁺ was observed. As a control, HeLa cells without treated with Pb²⁺ were also incubated with the nanoprobes and imaged under the same conditions and nearly no fluorescence signal was observed (Fig. 6b). To further confirm that the fluorescence observed in Fig. 6a was because of the activity of DNAzyme, an inactive Protmin nanosensor was prepared by using "Inactive 17S", in which the adenosine ribonucleotide at the cleavage site was replaced with a deoxyribonucleotide. As shown in Fig. 6c and 6d, the inactive probe-treated HeLa cells showed less fluorescence than those with the active probe. Staining of lysosomes of cells (green) showed good colocalization of Lysotracker and Protmin nanoprobes, indicating that the nanoprobes were mainly transported to the lysosomes. These results are consistent with those for other nanoprobes constructed based on DNA-AuNPs^[29,30]. The results demonstrated the successful implementation of intracellular detection of Pb²⁺ by using this Protmin nanoprobe.

Fig. 6.Full-screen View

(Color online) (a, b) Confocal microscopy images of HeLa cells treated (a) with or (b) without Pb²⁺ with active Protmin nanosensor. (c, d) Confocal microscopy images of HeLa cells treated (a) with or (b) without Pb²⁺ with inactive Protmin nanosensor. The red channel is Cy3 fluorescence and green channel is Lysotracker Green fluorescence. The scale bar is 25 μm.