Design of the study
Skin samples were collected from two primary sources: 1) Cadavers with neuropathologically confirmed diagnoses of tauopathies and normal controls, and 2) Living patients with clinical diagnoses of AD and PSP. We performed RT-QuIC technique to examine the prion-like seeding activity of pathological tau. Statistical analyses were conducted to assess the sensitivity and specificity of the assay, utilizing different tau substrates to understand the impact on assay performance. All cadaveric skin samples were collected post-mortem and stored according to established protocols to preserve the biochemical properties of the tissue. Living patient samples were obtained through skin biopsies performed in a clinical setting and were immediately transported to the laboratory for analysis.
Ethical statement
All procedures and protocols were monitored and approved by the Institutional Review Boards (IRBs) of University Hospitals Cleveland Medical Center, Banner Sun Health Research Institute, and IRCCS Institute of Neurological Sciences of Bologna. Written informed consent was obtained from all living subjects undergoing skin biopsy or from family members for skin autopsy. For post-mortem sample collection, we obtained the specimens with respect to the wishes of the deceased individuals and their families, following all legal and ethical guidelines. For skin biopsy procedures, all participants provided their informed consent prior to their inclusion in the study.
Reagents and antibodies
Proteinase K (PK) and guanidine hydrochloride (GdnHCl) were purchased from Sigma Chemical Co. (St. Louis, MO, USA). Reagents for enhanced chemiluminescence (ECL Plus) were from Amersham Pharmacia Biotech, Inc. (Piscataway, NJ). Anti-tau mouse monoclonal antibodies RD3 and RD4 (Sigma-Aldrich) against human tau repeating region and sheep anti-mouse (SVM) IgG conjugated with horseradish peroxidase as a secondary antibody (AC111P, CHEMICON International, Inc, Burlington, MD) were used. Antibodies against Phospho-Tau (Thr231) and phospho-Tau (Ser396) were purchased from Cell Signaling Technology (Danvers, MA).
Source of skin samples
A total of 135 autopsy scalp skin samples from AD (n = 46), PSP (n = 33), CBD (n = 5), PiD (n = 6) and non-neurodegenerative controls (NNCs, n = 46) were collected and examined. These samples were obtained from the Arizona Study of Aging and Neurodegenerative Disorders (ASAND)/Brain and Body Donation Program at Banner Sun Health Research Institute through the Biomarkers across Neurodegenerative Diseases Research Grant 2019 (BAND 3) study. The diagnoses of these cases were confirmed via neuropathological examination of autopsied brain tissues at the ASAND. Biopsied skin samples from C7 paravertebral site (5 cm from the midline) of clinically diagnosed AD (n = 16), PSP (n = 8) and normal controls (n = 10) were from the Bellaria Hospital, Bologna, Italy, and the University Hospitals Cleveland Medical Center, Cleveland, Ohio, USA (see neuropathological and clinical information in Tables 1 and 2).
Plasmid constructs cloning
Expression vectors for all six full-length wild-types human tau isoforms were generously provided by Dr. George Bloom of the University of Virginia (originated from the late Dr. Lester “Skip” Binder and Dr. Nicolas Kanaan of Michigan State University) (20, 59). 3RCF construct (three microtubule-binding repeats and cysteine-free construct containing C322S mutation) was first PCR-amplified of 3R repeats sequence from 2N3R tau plasmid and cloned into the same expression vector using Nde I and Xho I restriction sites, followed by site-directed mutagenesis at Cys322 site to Serine using QuikChange Site-directed mutagenesis kit (Agilent, Santa Clara, CA). 4RCF construct (four microtubule-binding repeats and cysteine-free construct containing C291S and C322S mutations) was first PCR-amplified of 4R repeats sequence from 2N4R tau plasmid and cloned into the same expression vector using Nde I and Xho I restriction sites, followed by site-directed mutagenesis at Cys291 and Cys322 sites using QuikChange Site-directed mutagenesis kit. All constructs were designed with a his6-tag at their carboxy-termini to facilitate protein purification and were verified by DNA sequencing.
Engineered tau fragments 3RCF and 4RCF expression and purification
Recombinant 3RCF and 4RCF was prepared as previously described [20]. In brief, plasmids encoding human tau engineered constructs 3RCF and 4RCF were transformed into BL21-DE3 E. coli cells. Overnight starter cultures of BL21-DE3 E. coli cells transformed with recombinant tau plasmids were inoculated into multi-liter LB broth at 1:50 dilution and 100 mg/mL ampicillin. Cultures were incubated at 37°C, shaking until OD600 reached between 0.5 and 0.6. Tau expression was induced using 1 mM IPTG and continued to grow for an additional 4 hours. BL21-DE3 cells containing expressed tau were pelleted and resuspended in 50 mM NaH2PO4, pH 8.0 and 300 mM NaCl (sonication lysis buffer) at a concentration of 20 mL/L of culture preparation and sonicated at 60% power in ten 30-second intervals over 10 minutes. Cell lysates were centrifuged and supernatant containing the protein was applied to Ni-NTA column equilibrated with sonication lysis buffer. The columns were washed with 40-50 times of bed volumes of column buffer (sonication lysis buffer) followed by washing buffer (50 mM NaH2PO4, pH 8, 300 mM NaCl, and 20 mM imidazole). Recombinant protein was then eluted using elution buffer (50 mM NaH2PO4, pH 8, 300 mM NaCl, and 200 mM imidazole). Fractions were tested for protein concentration using 5 μL of protein sample mixed with 10 μL Coomassie Protein Assay reagent (ThermoFisher Scientific). Pooled fractions were concentrated to 4 mL using 10 kDa molecular weight cut-off spin columns (Millipore) and filtered using 0.22 μm low-binding Durapore PVDF membrane filters (Millipore). 3RCF and 4RCF tau proteins were further purified by FPLC using size exclusion Superdex-75 and Superdex-200 columns (GE Healthcare) in 1 x PNE buffer (25 mM PIPES, 150 mM NaCl and 1 mM EDTA, pH 7.0). Final 3RCF and 4RCF proteins were over 90% purity as evaluated by SDS-PAGE. Protein concentrations were quantified by BCA protein assays (ThermoFisher Scientific).
Skin tissue preparation
Skin samples of approximately 30-100 mg in weight and 3-5 mm x 3-5 mm in size, primarily contained epidermis and dermis were collected as previously and prepared described [35, 37]. Briefly, skin tissues were homogenized at a 10% (w/v) concentration in a lysis buffer containing 2 mM CaCl2 and 0.25% (w/v) collagenase A (Roche) in Tris-Buffered Saline (TBS). The samples were incubated in a shaker at 37°C for 4 hours, shaking at 500 rpm, followed by homogenization using a Mini-BeadBeater (BioSpec, Laboratory Supply Network, Inc., Atkinson, NH).
RT-QuIC Analysis
The RT-QuIC assay was modified as previously described with a slight modification [16, 18–20, 60]. In brief, the reaction mix for skin tau was prepared with 10 mM HEPES, pH 7.4, 200 mM NaCl, 10 µM ThT, and 10 µM either 4RCF or 3RCF tau substrate. In a 96-well plate (Nunc), 98 µL aliquots of the reaction mix were added to each well, followed by seeding with 2 µL of diluted skin homogenate (1:200 from 5% homogenate supernatant prepared by centrifugation at 3,000 g for 10 min at 4°C) in 10 mM HEPES, 1 x N2 supplement (Gibco), 1 x PBS and centrifuged at 5,000 g for 5 min at 4 °C. The plate was sealed with a plate sealer film (Nalgene Nunc International) and then incubated at 37°C in a BMG FLUOstar Omega plate reader. The incubation involved cycles of 1 min of orbital shaking followed by a 15-min of rest for the specified duration. ThT fluorescence measurements from bottom read (450 ± 10 nm excitation and 480 ± 10 nm emission) were recorded every 45 min. Each sample dilution contained 4 replicate reactions. The average ThT fluorescence values per sample were calculated using data from all four replicate wells, regardless of whether they crossed the threshold defined by ROC. A sample was considered positive if at least 2 of 4 replicate wells exceeded this threshold.
To quantify tau-SA detected by RT-QuIC, end-point dilution titrations were employed to determine the estimates of the sample dilution that generated positive reactions in 50% of the replicate reactions as the 50% seeding dose or SD50 (usually 2 out of 4 replicates) [15].
Conformational stability immunoassay
The conformational stability immunoassay of RT-QuIC end products was conducted as previously described with a minor modification [61]. Briefly, 20 µL aliquots of end products were mixed with 20 µL of GdnHCl stock solution, resulting in final GdnHCl concentrations ranging from 0 to 3.0 M. After incubating at room temperature for 1.5 hours, samples were precipitated with a 5-fold volume excess of pre-chilled methanol overnight at -20°C. Following centrifugation at 14,000 g for 30 minutes at 4°C, the pellets were resuspended in 20 µL of lysis buffer (10 mM Tris-HCl, 150 mM NaCl, 0.5% Nonidet P-40, 0.5% deoxycholate, 5 mM EDTA, pH 7.4). Each aliquot was digested with 10 µg/mL PK for 30 minutes at 37°C. The reaction was terminated with cOmplete protease inhibitor cocktail (CO-RO, Roche), and the samples were boiled in SDS loading buffer and loaded onto 15% Tris-HCl pre-cast gels (Bio-Rad) for Western blotting analysis.
Western blotting
The samples prepared as described above were separated using 15% Tris-HCl Criterion pre-cast gels (Bio-Rad) in SDS-PAGE. Proteins from the gels were transferred onto Immobilon-P polyvinylidene fluoride (PVDF, Millipore) membranes for 90 minutes at 70 V. To probe with the anti-tau antibodies (RD3, RD4, pT231, or pS396), the membranes were incubated overnight at 4°C with a 1:1,000-1:4,000 dilution of the primary antibodies. After incubation with a 1:4,000-1:5,000 dilution of horseradish peroxidase-conjugated sheep anti-mouse IgG, tau bands were visualized on Kodak film using ECL Plus as instructed by the manufacturer. Densitometric analysis was used to measure the intensity of tau protein bands, which were quantified with UN-SCAN-IT Graph Digitizer software (Silk Scientific, Inc., Orem, Utah).
Filter-trap assay
The filter-trap assay was used to determine the RT-QuIC reaction mixtures with increased ThT fluorescence formed aggregates and to evaluate their sizes as described previously [62]. In brief, the end products of RT-QuIC were mixed with washing buffer containing 2% SDS, 10 mM Tris-HCl, pH 8.0 and 150 mM NaCl for an hour at room temperature. Following incubation, the samples were filtered through a cellulose acetate membrane (Advantec MFS, Dublin, CA). After filtering, the membrane was rinsed with washing buffer to remove unbound proteins and subsequently blocked with 5% BSA in 0.1% Tween-20 in 1 x PBS for an hour. The membrane was then probed with RD3 and RD4 antibodies, followed by incubation with sheep anti-mouse secondary antibody. The proteins on the membrane were visualized using ECL Plus, and the resulting signal was captured using a chemiluminescent imaging system with X-ray/automatic film processor. Densitometric analysis was used to measure the intensity of tau protein dots for the quantitative analysis as mentioned above.
Transmission electron microscopy
Transmission electron microscopy (TEM) images were collected as previously described [20, 63]. Briefly, the skin tau-SAA end product samples at a concentration of 10 µM were maintained in a frozen state until ready for TEM analysis. Before imaging, 2 µL of the sample was applied to a 200 mesh formvar-carbon coated grid and allowed to sit for 5 minutes. The excess sample was gently removed using filter paper. A thorough examination of each grid was conducted to qualitatively assess the presence of oligomers or fibrils. Representative images were taken from 15–20 distinct locations on each grid. The TEM studies were conducted using a JEOL-1400 transmission electron microscope (JOEL United States, Inc., Peabody, MA) at an operating voltage of 120 kV.
Statistical analysis
Experimental data were analyzed using Student's t-test for comparing two groups. McNemar's test was employed to assess marginal homogeneity and differences in agreement. For comparisons between PD versus CBD and PSP, where the sample size allowed, we conducted a paired area under the ROC curve (AUC) analysis to evaluate significant differences in AUC values. Tests adopted a two-sided type II error level of 0.05.