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APPENDIX SUPPLEMENTARY METHODS Study population. Forty-one unrelated patients diagnosed with primary HCM at the University of Naples “Federico II”, Naples, Italy, and 41 healthy subjects recruited from the Milan subsidiary of the blood donor organization Associazione Volontari Italiani Sangue (AVIS) were enrolled in the study. The AVIS subjects were defined as “healthy” based on the absence of any type of cardiovascular disease or familiarity for it; biochemical parameters, medical records, and interviews were consensually obtained. All subjects were investigated using the same study protocol. Control subjects were age- and sex-matched as much as possible with HCM patients. All probands underwent physical examination, electrocardiogram (ECG), two-dimensional echocardiography, Doppler studies, and 24-hour ECG Holter monitoring. The diagnosis of HCM was based on echocardiographic demonstration of a hypertrophic but non-dilated left ventricle (wall thickness >15mm) in the absence of any other cardiac or systemic disorders producing a comparable grade of LV hypertrophy (1). Classification parameters defining HCM status were those established by the American Heart Association guidelines (1). Informed consent was obtained from each patient and the study protocol conformed to the ethical guidelines of the 1975 Declaration of Helsinki, as reflected in a priori approval by the institution's human research committee. Blood collection and RNA isolation. Five ml of peripheral blood was collected in EDTA-containing Vacutainer tubes. The vials were processed within 2 h of collection by centrifugation at 1100 X g at room temperature in a bench top centrifuge for 20 minutes to eliminate all blood cells. The plasma-containing supernatant was extracted without disturbing the interface layer and aliquoted (250 l) into RNase/DNase-free Eppendorf tubes. All samples were stored immediately at -80 C. MiRneasy (Qiagen, Hilden, Germany) isolation kit was used among the five kits tested because in our hands it was the most efficient in terms of RNA recovery and quality. Total RNA from human plasma was then purified using miRNeasy Mini Kit, following the manufacturer’s instructions. An aliquots of 1.5 l of each sample was quantified by Nanodrop 1000 spectrophotometer absorbance (Nanodrop, Wilmington, Delaware, USA). In order to normalize sample-to-sample variation and minimize the spike-in degradation while increasing miRNA recovery, 6 fmol/l of RNA oligonucleotides synthesized by EXIQON (Exiqon A/S, Vedbaek, Denmark) was added to each denatured sample; the spike-in probe was selected based on the absence of any sequences homologous to those of the miRNAs to be measured. In addition, 1l of 1ng/l tRNA was added in the phenol phase during extraction in order to increase the recovery of the isolated RNA. To avoid the limitation of plasma RNA quantifications due to the small concentration of miRNAs in plasma, all samples were eluted into 25l of RNAse-free water; 8 l was then used as a template to generate cDNA. Assessment of circulating miRNAs. Reverse transcription. Reverse transcription reactions were performed using the EXIQON miRNA Reverse Transcription Mercury Universal cDNA synthesis kit (Exiqon A/S, Vedbaek, Denmark) in 20 l as a final volume. PCR System 9700 (Applied Biosystems, Foster City, CA, USA) was used to 1 carry out the RT reactions using the following conditions: 42°C for 60min, 95°C for 5min, hold at 4°C. RT products were stored undiluted at -20°C prior to running the real-time PCR. The Freedom Evo 150 liquid handling system (Tecan Group Ltd., Männedorf, Switzerland) was used for reliably aliquoting reaction mixes for both the generation of reverse transcription and real time PCR detection. Customized panel for the detection of miRNAs. We selected 21 candidate miRNAs previously associated with cardiovascular disease. The miRNA-specific primer sequences were obtained from the Exiqon website (http://www.exiqon.com/microrna-real-time-pcr-primer-sets). In order to perform external normalization, a specific spike-in miRNA was designed. microRNA miR-499-3p miR-499-5p miR-199a-3p miR-199a-5p miR-1 miR-145 miR-16 miR-133a miR-143 miR-155 miR-195 miR-126-3p miR-126-5p miR-208a miR-208b miR-21 miR-26a miR-29a miR-27a miR-30a miR-214 Primer sequence 5′-AACATCACAGCAAGTCTGTGCT-3′ 5′-TTAAGACTTGCAGTGATGTTT-3′ 5′-ACAGTAGTCTGCACATTGGTTA-3′ 5′-CCCAGTGTTCAGACTACCTGTTC-3′ 5′-TGGAATGTAAAGAAGTATGTAT-3′ 5′-GTCCAGTTTTCCCAGGAATCCCT-3′ 5′-TAGCAGCACGTAAATATTGGCG-3′ 5′-TTTGGTCCCCTTCAACCAGCTG-3′ 5′-TGAGATGAAGCACTGTAGCTC-3′ 5′-TTAATGCTAATCGTGATAGGGGT-3′ 5′-TAGCAGCACAGAAATATTGGC-3′ 5′-TCGTACCGTGAGTAATAATGCG-3′ 5′-CATTATTACTTTTGGTACGCG-3′ 5′-ATAAGACGAGCAAAAAGCTTGT-3′ 5′-ATAAGACGAACAAAAGGTTTGT -3′ 5′-TAGCTTATCAGACTGATGTTGA-3′ 5′-TTCAAGTAATCCAGGATAGGCT-3′ 5′-TAGCACCATCTGAAATCGGTTA-3′ 5′-TTCACAGTGGCTAAGTTCCGC-3′ 5′-TGTAAACATCCTCGACTGGAAG-3′ 5′-ACAGCAGGCACAGACAGGCAGT-3′ Measurement of miRNA levels. SYBR green qRT-PCR was performed in 96-well plates at a final volume of 20 l. More precisely, the miRNA level was measured using 1l of forward and reverse miRCURY LNA Universal RT microRNA PCR primers, 10l of Exiqon Syber Green master mix, and 8 l of diluted cDNA (1:40) per reaction (Exiqon A/S, Vedbaek, Denmark). Quantitative RT-PCR reactions were performed in triplicate for all samples; a ±0.2 difference between detected threshold cycle values (Ct) was considered acceptable. The Tecan Freedom Evo 150 system (Tecan Group Ltd. Männedorf, Switzerland) was used for liquid handling. miRNA-208a was also measured with the TaqMan assay (Applied Biosystems, Foster City, CA, USA), according to manufacturer’s guidelines. Specifically, the miRNA level was measured using 10l of TaqMan MasterMix, 1l of primers and 1.33l cDNA, and 7.67l DNase/RNase-free water. qRT-PCR was performed using an ABI Prism 7900 Real-Time PCR instrument with the following amplification profile: denaturation at 95°C for 10 min, followed by 40 cycles of 95°C for 10s, 60°C for 1 min. The Ct was computed with Sequence Detection System software (Applied Biosystems, Foster City, CA, USA). The data were analyzed with automatic settings for assigning baseline. The Ct was defined as the fractional cycle 2 number at which the fluorescence exceeded the given thresholds. miRNA expression levels were normalized to a non-endogenous synthetic spike miRNA (Exiqon ID number: 206999). Assessment of hypertrophy. Trans-thoracic color Doppler and TDI echocardiography. All echocardiographic studies were performed in left lateral decubitus, using a commercially available imaging system (IE 33, Philips, Andover, MA, USA) equipped with a S5 1- to 5-MHz phased array transducer (Philips, Andover, MA, USA). Each patient underwent standard M-mode, two-dimensional, and Doppler echocardiographic studies. M-mode images of the left ventricle (LV) were obtained in the parasternal long axis, and LV end-diastolic and endsystolic diameters were measured just below the mitral valve leaflets tips after alignment of the cursor perpendicular to the LV wall and indexed to the body surface area (LVEDI) according to American Society of Echocardiography guidelines (2). To estimate the extent and distribution of LV hypertrophy, Wigle’s score was obtained (3): this method attributes a score from 1 to 4 to the maximal basal septal thickness, and additional marks if hypertrophy extends to medium and/or apical septum, and/or lateral wall. The extent of LV hypertrophy (hypertrophy index or Spirito-Maron Index) (3) was calculated from the short-axis view at the level of both mitral valve and papillary muscle by dividing the left ventricular wall into four segments (anterior septum, posterior septum, lateral free wall, and posterior free wall), and by adding the maximal wall thickness measured (at either the mitral valve or papillary muscle level) in each of the four ventricular segments. As an additional simple estimate of LV hypertrophy, the maximal wall thickness (MWT) measured at any level in the LV wall was also considered. Apical-view Doppler echocardiography was used to measured transmitral peak flow velocities: mitral peak E velocity at rapid ventricular filling and mitral peak A velocity at atrial contraction, their ratio (E/A), and E wave deceleration time at the mitral tips. At the pulmonary vein level, we measured the ratio between systolic and diastolic peak flow velocities, and the backward flow velocity (Ar). As an estimate of passive diastolic dysfunction, the difference in duration between mitral and backward pulmonary flow (A-Ar) at atrial contraction was calculated. Moreover, pulsed tissue Doppler (TDI) was used to measure the early diastolic velocity at the lateral corner of the mitral annulus (E’), the ratio of the peak early diastolic filling and E’ (E/E’), and the peak systolic velocity. Color Doppler flow imaging was used for semiquantitative assessment of mitral regurgitation, which was graded from mild to severe according to the EAE criteria (4). Left ventricular outflow tract gradient was calculated with the simplified Bernoulli’s equation (P=4v2, where P represents pressure and v represents flow velocity). Particular care was taken to avoid contamination of the left ventricular outflow waveform by the mitral regurgitation jet. Cardiac magnetic resonance. MR studies were performed using a 1.5 Tesla MRI system (Gyroscan Intera, Philips Medical System, Best, the Netherlands) equipped with high performance gradients (maximum gradient amplitude 30 mT/m, maximum slew rate 150 mT/m/ms). Images were acquired with a 5-element cardiac phased-array coil using a vectorcardiographic method for ECG-gating and respiratory gating. After performing a survey scan, LV long axis and 4-chamber horizontal long axis images were acquired using a breath-holding 2D balanced turbo field echo multiphase-multislice sequence (TR/effective TE, 2.8/1.4; matrix, 160X256; slice thickness, 10-mm; flip angle, 500); subsequently, biventricular short-axis images were obtained using 10 slices covering the left ventricle from the apex to the base for evaluation of LV mass. Late gadolinium enhancement images in short-axis orientation were acquired for quantification of myocardial fibrosis 10–15 min after administration of 0.2 mmol/kg/body weight gadopentetate dimeglumine (Magnevist, Bayer HealthCare Pharmaceuticals, Berlin, Germany), using a three-dimensional T1-weighted inversion recovery turbo gradient echo sequence. Echo time was 1.5 ms, repetition time 2.8 ms, flip angle 15°, typical in-plane resolution 1.8 × 2 3 mm, slice thickness 8 mm. Post-processing analysis was performed on a dedicated workstation (Viewforum, Philips Medical System, Best, the Netherlands). Analysis of LV mass was performed choosing the slice with the greatest cardiac diameter of the 2D-balanced turbo field echo multiphase-multislice acquisition in the biventricular short axis; subsequently, the endocardial and the epicardial borders were manually traced, carefully including the papillary muscles, on each end-diastolic and end-systolic frame for each of 10 slices. To assess the presence of myocardial fibrosis, a semi-quantitative evaluation was performed by giving a score from 0 to 4, where 0 = no evidence of fibrosis; 1 = fibrosis between 0–25%; 2 = fibrosis between 25–50%; 3 = fibrosis between 50–75%; and 4 = transmural fibrosis. 4 Online Table 1 Characteristics of the microRNAs Followed in the Study microRNA Cardiomyocyte miRNAs miR-499-3p miR-499-5p miR-1 miR-133a Putative Role Dysregulation Pathology Regulates myosin isoform expression in cardiac myocytes ("myo-miRNA") Upregulated in HCM and HF, expressed 600-fold below miR-499-5p - Upregulated in HCM and HF AMI, HF (10-14) Downregulated in heart defects, arrhythmias Downregulated in HCM, inversely related to cardiac fibrosis and cardiomyocyte hypertrophy AMI, hypertrophy (13,15-17) Regulates myosin isoform expression in cardiac myocytes and skeletal muscle ("myomiRNA") Involved in cardiac development and hypertrophy Involved in cardiac development and regulation of myocardial cell size. Controls myosin heavy chain miR-208 isoform expression ("myomiRNA") and metabolism Fibroblast miRNAs Expressed in human fibroblasts, control angiotensin miR-155 II type 1 receptor, activated during prolonged hypoxia miR-21 Cardiac fibroblasts survival and activation Increases myocardial fibrosis by de-repressing collagen and miR-29 elastin translation in cardiac fibroblasts Smooth-muscle miRNAs Modulates vascular smooth miR-143 muscle cell phenotype miR-145 Promotes smooth muscle differentiation Endothelial miRNAs Regulates cardiomyocyte cell size, protects myocytes against miR-199-3p ischemia/hypoxia-induced apoptosis. Regulates cardiomyocyte cell miR-199-5p size, protects myocytes against Downregulated in cardiac hypertrophy Reference (9-11) AMI, UAP, Takotsubo (13,17-19) cardiomyopathy AMI (11,13,14) Involved in vascular disease and inflammation, Friedreich CAD and T2DM (20-23) ataxia HCM, and hypertension LV fibrosis and a biomarker of Upregulated in cardiac cancers (HCC, (24,25) fibrosis and HF glioblastoma, breast cancer) Downregulated in cardiac fibrosis, profibrillatory, atrial T2DM fibrosis Downregulated in atherosclerosis Downregulated in vascular injuries and atherosclerosis, upregulated in PAH Upregulated in eccentric HCM, impairs sarcomere composition and induces endothelial cell dysfunction Upregulated in eccentric HCM, impairs sarcomere 5 (19,26,27) CAD, ischemic stroke, PAH - T2DM (28-31) (20,28-33) (34-36) (20,34-36) miR-195 miR-126-3p miR-126-5p miR-16 miR-26 miR-27 ischemia/hypoxia-induced apoptosis. Promotes cell division and apoptosis while inhibiting cell proliferation. Controls angiogenesis and maintains vascular integrity Controls angiogenesis and maintains vascular integrity Regulates cell-autonomous angiogenic functions in endothelial cells Induced under hypoxic conditions Promotes pro-angiogenic growth in endothelial cells composition and induces endothelial cell dysfunction Upregulated in HCM Downregulated in CAD and T2DM Downregulated in CAD and T2DM AMI, CAD, T2DM AMI, CAD, T2DM (37) (5,26,38) (5,26,38) Upregulated in HF, reduces angiogenesis - (39) Anti-apoptotic effects - (40) Upregulated in angiogenesis, adipogenesis, inflammation, Atherosclerosis lipid metabolism, oxidative (41-42) obliterans stress, insulin resistance and T2DM Regulates connective tissue Downregulated in HCP and growth factor in (18) HF cardiomyocytes Protects cardiomyocytes Upregulated during ischemic miR-214 against ischemia/reperfusion (43-44) injury and HF injury; inhibits angiogenesis AMI: acute myocardial infarction; CAD: coronary artery disease HCM: hypertrophic cardiomyopathy; HF: heart failure; PAH: pulmonary artery hypertension; T2DM: type 2 diabetes mellitus; UAP: unstable angina pectoris. miR-30 6 Online Figure 1. Relative expression of circulating microRNAs in patients with hypertrophy due to aortic stenosis. Individual-value plots displaying the variability and differences in the plasma level of each miRNA in healthy individuals (right side of plots) and patients with aortic stenosis (AS, left side of plots). Asterisks represent significant p-values (<0.04) obtained with two-sided t-test of miRNA expression in the AS vs. healthy groups. A crossbar on each plot indicates the mean expression level for each group. 7 Online Figure 2. Scatter plots for the correlation of miR-29a with hypertrophy parameters. The circulating level of miR-29a (2−ΔΔCt values) in each HCM patient is plotted against maximum wall thickness assessed by trans-thoracic echography (upper left) or cardiac magnetic resonance (lower left), hypertrophy index (upper right), and left ventricular mass (lower right). r, Pearson correlation coefficient; p, relative computed p-value. 8 Total fibrosis score Online Figure 3. Correlation of the circulating miR-29a level with the extent of myocardial fibrosis in HCM patients. Scatter plot of myocardial fibrosis assessed with gadopentetate–cardiac magnetic resonance. The total score of 10 sections/heart is given on the ordinate, and plotted against 2−ΔΔCt values for circulating miR29a, on the abscissa. r, Pearson correlation coefficient; p, relative computed p-value. 9 SUPPLEMENTARY REFERENCES 1. Gersh BJ, Maron BJ, Bonow RO, et al. 2011 ACCF/AHA guideline for the diagnosis and treatment of hypertrophic cardiomyopathy: executive summary: a report of the American College of Cardiology Foundation/American Heart Association Task Force on Practice Guidelines. Circulation 2011;124:2761-96. 2. Lang RM, Bierig M, Devereux RB, et al. 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