Xiaoya
Liu‡
a,
Hai
Peng‡
bc,
Lisha
Gong‡
be,
Hong
Zhang
bc,
Chenglong
Zhao
bd,
Weiju
Lai
b,
Gang
An
*d and
Xianxian
Zhao
*b
aDepartment of Oncology, The First Affiliated Hospital of Chongqing Medical University, Chongqing, 400016, China
bCentral Laboratory, Chongqing University FuLing Hospital, Chongqing, 408099, China. E-mail: zhaoxian_48hcu@163.com; Tel: +86-18875039819
cCenter of Smart Laboratory and Molecular Medicine, School of Medicine, Chongqing University, Chongqing, 400044, China
dDepartment of Orthopedics, The First Affiliated Hospital of Harbin Medical University, Harbin City, Heilongjiang Province 150000, China. E-mail: abc7231719@163.com; abc7231719@126.com; Tel: +86-0451-85552026
eDepartment of General Practice of Jiangbei Campus, The First Affiliated Hospital of Army Medical University (The 958th Hospital of Chinese People's Liberation Army), Chongqing, 400020, China
First published on 21st November 2024
Cardiovascular disease, intimately linked to dyslipidemia, is one of the leading global causes of mortality. Dyslipidaemia often presents as an elevated concentration of low-density lipoprotein (LDL) and a decreased concentration of high-density lipoprotein (HDL). Therefore, accurately measuring the levels of LDL and HDL particles is crucial for assessing the risk of developing cardiovascular diseases. However, conventional approaches can commonly quantify HDL/LDL particles by detecting cholesterol or protein molecules within them, which may fail to reflect the number of intact particles. In addition, these approaches are sometimes tedious and time-consuming, highlighting the need for a novel method for precise and effective identification of intact HDL and LDL particles. We have devised a technique that allows accurately and sensitively determining the levels of intact HDL and LDL in a sample without the need for isolation. This method relies on antibody-based immobilization and a self-priming hairpin-triggered Cas12a/crRNA signaling strategy. Based on the elegant design, this technique can be employed to directly and precisely measure the concentration of “actual” HDL and LDL particles, rather than the cholesterol content inside HDL and LDL. The approach has detection limits of 12.3 mg dL−1 and 5.4 mg dL−1 for HDL and LDL, respectively, and is also suitable for analyzing lipoproteins in clinical samples. Hence, this platform exhibits immense potential for clinical applications and health management.
Lipoproteins are a collection of compounds composed of lipids and proteins that transport cholesterol throughout the human body.5–7 Lipoproteins, particularly elevated levels of low-density lipoprotein (LDL) and reduced levels of high-density lipoprotein (HDL), are now widely acknowledged as significant risk factors for CVD.8,9 LDL and HDL particles are the primary vehicles for transporting cholesterol in the human bloodstream and play a crucial role in the transfer and metabolism of cholesterol.6,10,11 LDL, composed of the Apolipoprotein B-100 protein (ApoB) and lipid molecules such as cholesterol and triglycerides, is referred to as “bad” lipoprotein due to its tendency to accumulate in blood vessel walls, leading to narrowing of the passageways.12,13 This increases the risk of health issues such as heart attack or stroke. In contrast, HDL, which includes the Apolipoprotein A1 protein (ApoA1) and lipids on its surface, is a beneficial lipoprotein that carries cholesterol and specific phospholipids from the body's tissues to the liver through the bloodstream, where it aids in the elimination of other more detrimental types of cholesterol from the blood.14,15 Therefore, the risk of CVD can be evaluated by quantitatively detecting the LDL and HDL particles.
Currently, there are two major methods for measuring the concentration of LDL/HDL particles.16 One method involves detecting the concentration of cholesterol in LDL/HDL particles using a two-step protocol. In brief, the LDL and HDL particles are initially separated using specific substances like poly(ethylene glycol). Then, enzymes like cholesterol esterase, cholesterol oxidase, and peroxidase are introduced to measure the cholesterol concentration in the LDL/HDL particles (e.g., the Abell–Levy–Brodie–Kendall (ALBK) method17 or the cholesterol oxidase/p-aminophenazone (CHOD–PAP) assay18). This method has been fully integrated into automated analyzers and is extensively utilized in clinical applications to measure the cholesterol levels of LDL/HDL. An alternative method involves identifying the levels of ApoA1/ApoB, which indicate the levels of HDL/LDL concentrations. The enzyme-linked immunosorbent assay (ELISA) is a widely used method for measuring the levels of ApoA1/ApoB. As an illustration, HDL/LDL particles are typically mixed with biotin-conjugated ApoA1/ApoB antibodies and avidin-conjugated horseradish peroxidase (HRP), respectively. By following the prescribed procedure and adding 3,3′,5,5′-tetramethylbenzidine (TMB) solution, the quantity of HDL/LDL can be determined by measuring the absorbance at 450 nm. Both approaches indirectly measure the levels of HDL/LDL by identifying the cholesterol or proteins in HDL/LDL particles. These methods are sometimes tedious and time-consuming. Crucially, lipoproteins consist of both lipids and proteins, and the specific makeup of each lipoprotein differs. Consequently, there is a high demand for a precise and efficient approach for quantifying intact HDL/LDL particles, as opposed to just detecting cholesterol or lipoproteins, as it provides a more reliable assessment of CVD risks.
CRISPR/Cas systems, including CRISPR/Cas9, CRISPR/Cas12a, and CRISPR/Cas13a, have demonstrated a wide range of potential applications in the development of biosensors.19–21 This is due to their ability to accurately recognize genes and efficiently amplify signals. CRISPR/Cas12a systems can precisely identify DNA molecules and then trigger a trans-cleavage reaction, achieving a minimum of 104 turnovers per recognized DNA. However, the application of CRISPR/Cas systems in developing LDL detection approaches is rarely reported. Herein, we propose a novel platform for sensitive and accurate LDL or HDL detection by integrating the antibody-based first identification of LDL or HDL and cholesterol-binding protein-based secondary target check, coupled with self-priming initiated CRISPR-Cas12a assisted signal amplification. By the dual-check of the surface protein of LDL or HDL and the cholesterol molecule, the proposed method offers high selectivity for intact LDL or HDL particles. In addition, the self-priming initiated CRISPR-Cas12a assisted signal amplification enables highly sensitive target detection with a low limit of detection. Taking the merit of high sensitivity and accuracy, the proposed approach has great potential for clinical applications and health management.
All experiments were performed in accordance with the “Guidelines for the ethical management of biological samples in clinical trials” (no. 2022CQSFLZXYYEC-007) and were approved by the ethics committee at “Chongqing University FuLing Hospital”. Informed consent was obtained from the human participants of this study.
000 rpm at 4 °C; the initial procedure involved placing 2 mL of a 0.195 M NaCl solution, with a density (ρ) of 1.006 g mL−1, on top of 4 mL of human serum in a centrifuge tube. After 8 h of centrifugation, the top layer included the fraction of very low-density lipoprotein (vLDL). The lowermost stratum comprising LDL, HDL, and other serum proteins was transferred to a fresh centrifuge tube and then overlaid with 2 mL of a solution containing 0.195 M NaCl and 2.44 M NaBr (with a density of 1.063 g mL−1). Following a 10-hour centrifugation, the LDL fraction was able to be extracted from the uppermost layer. The lower layer, which consisted of HDL and other serum proteins, was transferred to a separate tube containing a solution composed of 0.195 M NaCl and 7.65 M NaBr (with a density of 1.478 g mL−1) in a volume of 2 mL. Following 16 hours of mixing and centrifugation, the uppermost layer containing high-density lipoprotein (HDL) was collected.
Following three rounds of washing, the H1 probe, H2 probe, Cas12a/crRNA, DNA polymerase, and Nb·BbvCI are introduced onto the plate, commencing the process of self-priming-triggered CRISPR-Cas12a-assisted signal amplification. Specifically, the “a” sequence forms a bond with the “a*” region of the H1 probe, unfolding the H probe (Fig. S1†). Thus, the “c” segment binds with the “c*” segment of the H probe, resulting in the formation of a self-primer. With the assistance of DNA polymerase, the “c” portion is elongated using the “a”, “d”, and “e” sections as a template. Consequently, a double-stranded DNA is created, and the “a”-cholesterol-binding-protein is released to unfold a subsequent H1 probe. The enzyme Nb·BbvCI specifically identifies and cleaves the “d*” region, resulting in the creation of a nicking site. By cooperation of DNA polymerase and Nb·BbvCI, a large number of “e*” sequences are produced. The “e*” sequences trigger a subsequent self-priming step by unfolding the H2 probe. The “f” portion in the H2 probe comprises the non-target strand (NTS) of LbCas12a, together with the 5′-TTTA-3′ protospacer adjacent motif (PAM). Following the activation of the “e*” self-priming signal amplification, the hairpin structure (c–c*–e–f) undergoes further extension to become a complete hairpin structure (f*–e*–c–c*–e–f). Subsequently, the recently produced hairpin, which includes the PAM and the Target Strand/Non-Target Strand (TS/NTS) double helix, can activate the LbCas12a/crRNA complex, resulting in the fragmentation of FQ reporters.
The FAM moiety is labeled at the terminus of the “a” sequence to validate the LDL-mediated fixation of the “a”-cholesterol-binding-protein. According to the data presented in Fig. 1C, the fluorescence intensities at 520 nm significantly increased when the LDL was pre-treated with ApoB-antibody@plate. This suggests that the intact LDL is capable of facilitating the binding of the “a”-cholesterol-binding-protein to the plate.
To characterize the selectivity of the platform for intact LDL, the free ApoB protein or cholesterol molecule was added to ApoB-antibody@plate, followed by mixing with the “a”-cholesterol-binding-protein after washing. The result in Fig. 1D showed that both the ApoB protein and cholesterol molecule could induce negligible elevation in fluorescence signals. The above results demonstrated that the established platform could only be applied for the fixation of intact LDL particles.
In order to evaluate the recycling of the “a” sequence, a mixture containing 500 nM of FAM-tagged H1 probe and 5 nM of the “a” sequence was prepared. The fluorescence signals of the H1 probe in Fig. 2B increased when mixed with the “a” sequence, suggesting that the “a” sequence caused the unfolding of the H1 probe. The fluorescence signal was further amplified when the DNA polymerase was introduced into the mixture, suggesting that the addition of the polymerase caused the recycling of “a” sequences and the unfolding of more H1 probes by chain elongation. When the H2 probe was added, there were no notable improvements in the Cy3 signals. This suggests that the H2 probe was in a hairpin structure and did not produce any “e*” sequences. Upon the addition of Nb·BbvCI to the mixture, the intensity of the Cy3 signals significantly amplified, indicating the production of the “e*” sequences and confirming the viability of the self-priming process based on the H2 probe. The gel electrophoresis results also demonstrated the “a” sequence-mediated self-priming and DNA polymerase-assisted chain extension process (Fig. S2†).
The utilization of CRISPR-Cas12a to perform trans-cleavage of the FQ reporters was also examined using a synthetic dsDNA duplex that contained “f” and “f*”. The data presented in Fig. 2C demonstrate that the Cas12a/crRNA system achieves efficient cleavage of FQ reporters at a concentration of 1.5 U L−1, with an incubation time of 30 min.
Subsequently, we evaluated the resistance of the established approach to interference during lipoprotein detection. In clinical settings, the identification of HDL and LDL by traditional methods is often hindered by triglycerides (TG), hemoglobin, bilirubin, and vitamin C (VC) in human serum. Hence, we investigated the potential influence of TG, hemoglobin, bilirubin, and VC on the LDL detection performance of the approach. In addition, the possible inter-interferences between HDL and LDL during the detection process are verified since HDL and LDL have similar structures. We utilized HDL, LDL, TG, hemoglobin, bilirubin, and VC, with concentrations of 0.4 mg mL−1, 1.5 mg mL−1, 1.5 mg mL−1, 160 mg mL−1, 10 mg L−1, and 10 mg L−1, respectively, in healthy human serum as interferents to detect HDL and LDL utilizing the approach. The fluorescence spectroscopy results indicated that there was no significant change in the fluorescence intensity when the interferents were added during the detection of HDL and LDL (Fig. 2D). This suggests that the substances mentioned above do not interfere with the method's response. Furthermore, the detection of HDL and LDL will not be mutually affected, despite their similar structures.
We assessed the sensitivity of the self-priming hairpin-triggered cascade reaction by testing LDL at different concentrations in the multiplex detection system under optimal conditions. To assess the practical diagnostic capability, we measured the LDL concentration in human serum using this method. Initially, we ascertain the concentration of LDL present in the human serum sample by employing an ELISA kit. The sample was considered the LDL standard solution that needed to be diluted to various concentrations. According to the data presented in Fig. 3A, the peak fluorescence intensities rose in direct proportion to the concentration of the target LDL (30–180 mg dL−1). Furthermore, a strong linear correlation was observed when the peak fluorescence intensities were graphed against the logarithm of the corresponding LDL concentration, with an equation of F = 25.29 × CLDL + 178.7 (Fig. 3B). The limit of detection (LOD) was determined to be 12.3 μg dL−1 based on the 3s/slope method, where s is the standard deviation of the blank. The sensitivity of these results is equivalent to or even superior to those obtained from prior isothermal amplification methods for LDL detection. This demonstrates a high level of sensitivity, particularly in the multiplex analytical system.
We also constructed a calibration curve for HDL detection using the proposed approach. The fluorescence spectrum of the approach when detecting different concentrations of HDL was recorded, as shown in Fig. 3C. The results showed a good linear relationship with a linear regression value, R2, of 0.9926 for a concentration range of 10–100 mg dL−1 of HDL (Fig. 3D). The LOD for HDL detection was determined to be 5.4 μg dL−1 using the 3σ/S calculation method, where σ represents the standard deviation and S represents the slope of the linear plot.
Footnotes |
| † Electronic supplementary information (ESI) available. See DOI: https://doi.org/10.1039/d4an01167h |
| ‡ These authors contributed equally. |
| This journal is © The Royal Society of Chemistry 2025 |