Abstract
Purpose:
To ameliorate tradeoffs between a fixed spatial resolution and signal-to-noise ratio (SNR) for hyperpolarized 13C MRI.
Methods:
In MRI, SNR is proportional to voxel volume but retrospective downsampling or voxel averaging only improves SNR by the square root of voxel size. This can be exploited with a metabolite-selective imaging approach that independently encodes each compound, yielding high-resolution images for the injected substrate and coarser resolution images for downstream metabolites, while maintaining adequate SNR for each. To assess the efficacy of this approach, hyperpolarized [1-13C]pyruvate data were acquired in healthy Sprague-Dawley rats (n = 4) and in two healthy human subjects.
Results:
Compared with a constant resolution acquisition, variable-resolution data sets showed improved detectability of metabolites in pre-clinical renal studies with a 3.5-fold, 8.7-fold, and 6.0-fold increase in SNR for lactate, alanine, and bicarbonate data, respectively. Variable-resolution data sets from healthy human subjects showed cardiac structure and neuro-vasculature in the higher resolution pyruvate images (6.0 × 6.0 mm2 for cardiac and 7.5 × 7.5 mm2 for brain) that would otherwise be missed due to partial-volume effects and illustrates the level of detail that can be achieved with hyperpolarized substrates in a clinical setting.
Conclusion:
We developed a variable-resolution strategy for hyperpolarized 13C MRI using metabolite-selective imaging and demonstrated that it mitigates tradeoffs between a fixed spatial resolution and SNR for hyperpolarized substrates, providing both high resolution pyruvate and coarse resolution metabolite data sets in a single exam. This technique shows promise to improve future studies by maximizing metabolite SNR while minimizing partial-volume effects from the injected substrate.
Keywords: carbon-13, EPI, hyperpolarization, MRI, pyruvate
1 |. INTRODUCTION
Hyperpolarization (HP) via dissolution dynamic nuclear polarization1 overcomes the poor receptivity of 13C nuclei at clinical field strengths by providing a four to five orders of magnitude increase in signal, enabling dynamic imaging of both the injected substrate and downstream metabolites. Metabolic imaging with hyperpolarized substrates has been used to non-invasively image metabolism in cancer2 and diabetes,3 as well as neuroinflammatory disorders4 and liver5 and heart disease.6 It has also shown the potential to both stage disease7,8 and assess treatment response.9
Even with a 50,000-fold increase in polarization, SNR is often a limiting factor when imaging metabolic products, such as 13C bicarbonate from [1-13C]pyruvate, or TCA metabolites from [2-13C]pyruvate, due to low concentrations, slow transport across the cell membrane, limited rates of conversion, and short T1 relaxation times. This results in a 10 to 100-fold difference in signal-to-noise ratio (SNR) between HP 13C-pyruvate and its metabolites,10 yielding a mismatch in the supported spatial resolution11 and a tradeoff between finer spatial resolution and detectability of metabolic products. Obtaining high resolution pyruvate data is especially important to separate the hyperpolarized substrate signal in the vasculature and to minimize partial-volume effects that can confound quantification of cellular metabolism,12–14 but this finer resolution limits detection of metabolites with lower SNR. While flow suppression techniques for hyperpolarized applications13–16 can remove signal from fast flowing vascular spins at coarse resolutions, they also eliminate valuable modeling information that can be obtained from the vascular input function.17
One unique feature of MR among imaging modalities is the relationship between SNR and voxel size. Unlike other imaging modalities, the SNR in MRI is proportional to voxel volume, but retrospective downsampling or voxel averaging after acquisition only improves SNR by the square root of the voxel size.18 Given that the readout duration remains the same, there is, therefore, an SNR benefit to acquiring data at a coarse resolution rather than retrospectively downsampling high resolution data after acquisition. While this cannot be readily exploited with chemical shift imaging since spectral and spatial information is simultaneously encoded for all metabolites, metabolite-selective imaging methods for HP 13C using echoplanar,19,20 spiral,21 or Cartesian22,23 trajectories encode each metabolite independently. This independent acquisition strategy has been previously exploited with variable flip angle approaches24–26 to improve signal from downstream metabolites while reducing radiofrequency (RF)-induced signal loss from the injected substrate. It would also, in principle, enable a variable resolution approach to tailor the spatial resolution to each metabolite.
To explore the potential of acquiring variable-resolution data, in this work we used a metabolite-selective imaging approach to independently excite [1-13C]pyruvate and downstream metabolites. In this approach, a single-band spectral-spatial (SPSP) RF pulse was used to selectively excite each metabolite followed by a single-shot readout to rapidly encode the magnetization. The spatial resolution was tailored for each metabolic product by independently scaling the encoding gradients, yielding high-resolution images for pyruvate and coarser resolution for downstream metabolites, while maintaining adequate SNR for each.
2 |. METHODS
All studies were performed on a 3T MR scanner (MR750, GE Healthcare) with a gradient performance of 50 mT/m maximum gradient strength and 200 T/m/s maximum slew-rate. The single-band SPSP RF pulses were designed using the SPSP RF toolbox, which can be accessed at https://github.com/LarsonLab/hyperpolarized-mri-toolbox/.27
2.1 |. Pre-clinical studies
To assess the efficacy of this approach, two HP [1-13C]pyruvate injections were performed in healthy Sprague Dawley rats (n = 4), separated in time by at least 55 min. All animal studies were conducted under protocols approved by the University of California San Francisco Institutional Animal Care and Use Committee (IACUC). Rats were anesthetized with ~1.5% isoflurane delivered via oxygen gas at 1 L/min and placed on a heated pad throughout the duration of the experiment. Aliquots containing 24 μL [1-13C] pyruvic acid doped with 15 mM trityl radical (Ox063, GE Healthcare) and 1 mM Gd-DOTA were polarized in a HyperSense system (Oxford Instruments, Abingdon UK) operating at 1.35 K and 3.35 T. After 1 h, samples were rapidly dissolved and neutralized with 4 mL of superheated water containing 80 mM NaOH, 40 mM Tris buffer, and 0.3 mM ethylenediaminetetraacetic acid (EDTA). Following rapid dissolution and neutralization, ~2.6 mL pyruvate was injected over 12 s via tail vein cannulation. Imaging began when the injection started.
Hyperpolarized 13C data were acquired with a metabolite-selective imaging approach, using a single-band SPSP RF pulse for excitation (passband full-width half-maximum [FWHM] = 130 Hz, stopband = 868 Hz) and a single-shot symmetric echoplanar readout for encoding.28 Scan parameters were 250 ms repetition time (TR), 24.1 ms echo time (TE), 32 × 24 matrix size (75% partial-Fourier), 1.27 ms echo spacing, 20 total timepoints. A 2 s delay was added to yield a temporal resolution of 3 s and a total scan time of 60 s. A single slice was centered on the kidneys with a slice thickness of 15–20 mm, chosen to be large enough to completely cover one kidney. Pyruvate was excited with a 10° flip angle while the metabolites lactate, alanine, and bicarbonate received a 30° flip angle.
HP MR data from the first injection were acquired with a constant 2.5 × 2.5 mm2 in-plane resolution (field of view [FOV] = 8.0 × 8.0 cm2), while data from the second injection were acquired with the variable resolution approach. Here, pyruvate was acquired at 2.5 × 2.5 mm2, lactate at 5.0 × 5.0 mm2, and alanine and bicarbonate at 7.5 × 7.5 mm2 by varying the FOV. Since each metabolite was acquired independently, this was readily accomplished by reducing Gx and Gy to increase the voxel size, while maintaining the same readout duration and matrix size (Figure 1). All other scan parameters were identical for both injections.
2.2 |. Human studies in healthy volunteers
Brain and cardiac studies were performed in two healthy human volunteer subjects following Institutional Review Board- and Food and Drug Administration Investigational New Drug-approved protocols with informed consent. Samples containing 1.47 g of Good Manufacturing Practice (GMP) grade [1-13C]pyruvic acid (MilliporeSigma Isotec) and 15 mM electron paramagnetic agent (EPA; AH111501, GE Healthcare) were prepared by a pharmacist the morning of the study and polarized using a SPINlab polarizer (GE Healthcare) operating at 5 T and 0.8 K for 3 h. Following dissolution, the EPA was removed by filtration, the solution neutralized with a TRIS-buffered NaOH solution, and the quality control (QC) parameters of pH, pyruvate and residual EPA concentrations, polarization, and temperature were measured prior to injection. In parallel, the integrity of the 0.2 μm sterile filter was tested in agreement with manufacturer specifications prior to injection. After release by the pharmacist, a 0.43 mL/kg dose of ~250 mM pyruvate was injected at a rate of 5 mL/s, followed by a 20 mL sterile saline flush (0.9% sodium chloride, Baxter Healthcare Corporation).
One hyperpolarized 13C brain data set was acquired with the EPI sequence described above using a birdcage coil for RF transmit with an integrated 24 element receiver (Rapid Biomedical, Würzburg, Germany). Scan parameters were 125 ms TR, 30.7 ms TE, 32 × 32 matrix size, ±19.23 kHz bandwidth (BW), 1.064 ms echo-spacing, eight 1.5-cm slices with an axial orientation. Data acquisition started 5 s after the end of saline injection. Pyruvate was excited with a 20° flip angle and acquired at 7.5 × 7.5 mm2 resolution, while the metabolites lactate and bicarbonate received a 30° flip angle and were acquired at 15 × 15 mm2 in-plane resolution. Twenty timeframes were acquired with a 3 s temporal resolution, yielding a total scan time of 1 min. Immediately following imaging, a non-localized spectrum was acquired for QC to confirm the center frequency was set correctly. For anatomic reference, a 1H 3D inversion recovery spoiled gradient recalled (IR-SPGR) data set was acquired with the body coil. Scan parameters were 6.7 ms TR, 2.5 ms TE, 450 ms IR time, 25.6 × 25.6 × 18.6 cm2 FOV, 256 × 256 × 124 matrix (1 × 1 × 1.5 mm3 resolution).
One hyperpolarized 13C cardiac data set was acquired with a metabolite-selective imaging approach, using the aforementioned single-band SPSP RF pulse and a single-shot spiral readout for encoding. Short-axis, cardiac gated data were acquired using a clamshell coil for RF transmit and an eight-channel paddle coil (4 × 2 array) for reception. Integrated bolus tracking, center frequency calibration, and calibration were performed using RT-Hawk29 (HeartVista, Los Altos, CA). Scan parameters were 53 ms TR, 12.6 ms TE, 22 ms readout duration, five 2.1-cm thick slices, 30 timeframes. Pyruvate was excited with a 20° flip angle and acquired at 6 × 6 mm2 in-plane resolution, while lactate and bicarbonate were excited with a 30° flip angle and acquired at 12 × 12 mm2 in-plane resolution. Five slices (one metabolite volume) were acquired per cardiac trigger, yielding a temporal resolution of ~3.5 s and a total scan time of 105 s. For anatomic reference, a spoiled gradient echo (GRE) was acquired using the 1H body coil. Scan parameters were 12.8 ms TR, 2.78 ms TE, 48 × 48 cm2 FOV, 160 × 160 matrix, 16 slices, 6 mm slice thickness.
2.3 |. Reconstruction and analysis
Spiral data were reconstructed using a Kaiser-Bessel gridding method,30 while EPI data were reconstructed using the Orchestra toolbox (GE Healthcare). For pre-clinical studies, EPI data were phase corrected and then interpolated to a Cartesian grid before partial-Fourier reconstruction. For the healthy volunteer EPI brain study, data were phase corrected and then Fourier transformed. For both healthy volunteer data sets, multichannel data were pre-whitened31 and then coil combined using pyruvate to estimate the coil weights.32
For analysis, the peak dynamic SNR and area under the curve (AUC) ratio were determined for each metabolite. Peak dynamic SNR was calculated as the maximum voxel signal from each metabolite timecourse divided by the standard deviation of the noise, which was obtained from a timeframe and slice where no signal was present. The AUC ratio was defined as the total metabolite signal divided by the total pyruvate signal. The AUC for each metabolite was calculated by temporally summing the data and then taking the mean of the ROI signal. The raw signal in the variable resolution data sets was normalized to the voxel volume to allow for quantification between the variable-resolution data sets. Statistical significance was assessed with a paired t-test.
3 |. RESULTS
The metabolite dynamics from the constant resolution rat kidney acquisition at 2.5 × 2.5 mm2 can be seen in Figure 2, illustrating a clear mismatch in SNR between pyruvate and lactate, alanine, and bicarbonate. While pyruvate delivery and perfusion throughout the kidneys was clearly visible with high SNR, bicarbonate was not clearly observable at this spatial resolution. Here, downsampling the bicarbonate data to an effective resolution of 7.5 × 7.5 mm2 (Supporting Information Figure S1B, which is available online) improves SNR and brings bicarbonate above the noise floor (SNR > 4) for three timeframes. Conversely, acquiring the bicarbonate data at 7.5 × 7.5 mm2 using a variable resolution approach (Supporting Information Figure S1C) showed substantially improved conspicuity and further SNR improvement, with nine timeframes above an SNR = 4 threshold. The urea phantom is visible in the bicarbonate images because it is partially excited by the passband of the SPSP RF pulse (~70 Hz separation between urea and bicarbonate at 3T). The physical location of the urea phantom appears to be different because the voxel size was three-fold larger for the variable resolution bicarbonate acquisition, resulting in a three-fold larger chemical shift.
This improvement in SNR when acquiring data at a coarser resolution holds for both lactate (5.0 × 5.0 mm2) and alanine (7.5 × 7.5 mm2) as well. Tailoring the spatial resolution for each metabolite results in improved SNR throughout the entire timecourse (Figure 2). Peak dynamic SNR and AUC ratios are summarized in Table 1. The SNR was significantly improved (P < .05) for each of the variable resolution metabolites, with a 3.5-fold, 8.7-fold, and 6.0-fold increase in SNR for lactate, alanine, and bicarbonate data, respectively. The expected SNR improvements based on voxel volume changes were four-fold, nine-fold, and nine-fold for lactate, alanine, and bicarbonate, respectively. The less than expected improvement in bicarbonate SNR was likely due to the undetectable signal in the constant resolution experiment, with the noise floor limiting the measured SNR gain. There was also a significant difference in the bicarbonate-to-pyruvate ratio between the constant and variable resolution experiments (P < .05). This is due to the noise detection limit improvement in the variable resolution experiment, as the bicarbonate in the constant resolution experiment was indistinguishable from noise (no significant difference between the constant resolution bicarbonate-to-pyruvate or noise-to-pyruvate ratios).
TABLE 1.
Constant resolution | Variable resolution | |||
---|---|---|---|---|
Peak SNR | AUC Ratio | Peak SNR | AUC Ratio | |
Pyruvate | 57.4 ± 21.0 | N/A | 55.3 ± 13.6 | N/A |
Lactate | 4.3 ± 0.8* | 0.143 ± 0.054 | 14.9 ± 2.3* | 0.120 ± 0.034 |
Alanine | 2.4 ± 1.0* | 0.089 ± 0.042 | 20.9 ± 4.7* | 0.070 ± 0.016 |
Bicarbonate | 0.9 ± 0.3* | 0.057 ± 0.031* | 5.4 ± 2.4* | 0.017 ± 0.010* |
Noise ROI | N/A | 0.054 ± 0.030 | N/A | 0.005 ± 0.002 |
Constant resolution data sets were acquired at 2.5 × 2.5 mm2 for all metabolites. For variable resolution data sets, pyruvate was acquired at 2.5 × 2.5 mm2 in-plane resolution, while lactate was acquired at 5.0 × 5.0 mm2 and bicarbonate and alanine at 7.5 × 7.5 mm2. For reference, a noise ROI shows the detectable limit for the constant resolution and variable-resolution at 7.5 × 7.5 mm2. There was a significant difference (*P < .05) between the constant and variable resolution bicarbonate-to-pyruvate ratio, as well as the peak lactate, alanine, and bicarbonate SNR values.
The dynamic timecourse and AUC results from the brain exam can be seen in Figures 3–4 and in Supporting Information Figures S2–S3. The high-resolution pyruvate data acquired at 7.5 × 7.5 mm2 clearly depicts the vasculature, showing strong signal and improved delineation of both the arteries (proximal anterior cerebral circulation) and veins (superior sagittal, transverse, and sigmoid sinuses). Lactate and bicarbonate acquired at a coarser 15 × 15 mm2 resolution show differential metabolism between the gray and white matter, with higher signal seen in the posterior fossa and gray matter structures. Peak dynamic SNR in this variable-resolution experiment was 288.8 for pyruvate, 14.8 for lactate, and 6.3 for bicarbonate. This approach gave sufficient SNR for each metabolite, providing both higher resolution pyruvate and coarser resolution lactate and bicarbonate data sets in a single exam. A variable-resolution acquisition is key to this approach, as lactate and bicarbonate (peak SNR of 14.8 and 6.3, respectively) would be near or below the noise floor if acquired at the higher 7.5 × 7.5 mm2 resolution.
The dynamic timecourse and AUC results from the cardiac exam are displayed in Figures 5–6 and in Supporting Information Figures S4–S5. The pyruvate data acquired at 6.0 × 6.0 mm2 have high SNR in the left and right ventricles (peak SNR = 1208) throughout the timecourse, with strong contrast and clear signal reduction seen between the ventricles and the myocardium. The papillary muscles were also clearly observable at this higher resolution. At the coarser 12.0 × 12.0 mm2 resolution, strong signal was visible from lactate (peak SNR = 50.3) and bicarbonate (peak SNR = 13.4), with bicarbonate signal localized to the myocardium and lactate signal in both the myocardium and blood pool.
4 |. DISCUSSION
In this work, we developed and investigated a variable resolution approach using metabolite-selective imaging with echoplanar and spiral readouts and demonstrated that it mitigates the tradeoffs between a fixed spatial resolution and SNR for hyperpolarized substrates and downstream metabolic products. In pre-clinical studies, this method enabled visualization of bicarbonate metabolism that would otherwise have been below the noise floor at the higher spatial resolution designed for pyruvate. In two healthy volunteer studies, this approach was used to acquire pyruvate data at higher spatial resolution (6.0 × 6.0 mm2 for cardiac and 7.5 × 7.5 mm2 for brain), a substantial improvement over prior brain data nominally acquired at 12 × 12 mm2 Ref. 33 or 15 × 15 mm2 Refs. 28,34 and prior cardiac data acquired at 8.8 × 8.8 mm2.6 This higher resolution enabled unambiguous visualization of cardiac structure and neurovascular features that would otherwise be obfuscated by partial-volume effects if acquired at a coarser resolution and is better suited for comparison and correlation to 1H perfusion metrics.
The same readout gradient waveform and BW were used in the variable resolution studies, with the resolution change accomplished by reducing the encoding gradient strength to increase the FOV. Each metabolite map, therefore, had the same echo-time and echo-spacing/phase accumulation, resulting in identical noise characteristics and sensitivity to off-resonance artifacts. This also obviates any additional quantification concerns arising from potential differences between metabolites. Signal from the variable-resolution data sets were normalized to their respective voxel volume for quantification. Quantification was not impacted, as the lactate-to-pyruvate and alanine-to-pyruvate AUC ratios in the pre-clinical studies were not significantly different between the constant and variable-resolution data sets (P = .33 and P = .24, respectively). Although the acquisition order was not randomized, repeat injections of pyruvate were not expected to influence the AUC ratio given the more than 55-min interval between experiments.35 Prolonged exposure to isoflurane anesthesia at different doses has also been shown to have no observable effect on pyruvate metabolism in the kidneys or liver.36 Nevertheless, care must be taken when using the variable-resolution approach. An improvement in SNR only occurs if there is signal throughout the voxel, so choosing too coarse of a voxel size would provide less than expected SNR gain and will result in partial-volume effects, leading to underestimation of metabolism. In this case, partial volume correction strategies like those used in PET-MR37,38 or super resolution approaches39,40 could be employed to ameliorate these effects. In particular, the higher spatial resolution pyruvate image could be used to constrain the reconstruction for the coarser resolution metabolites, similar in concept to prior 1H diffusion work that combined data acquired at high and low spatial resolution to better estimate the crossing fibers and diffusion parameters.41
Variable resolution acquisitions in healthy human subjects showed cardiac structure and neuro-vasculature in the pyruvate data set that would otherwise be missed due to partial-volume effects and illustrates the level of detail that can be achieved with hyperpolarized substrates in a clinical setting, approaching that of 1H MRSI and some positron emission tomography (PET) radiotracers.42–45 A variable resolution approach would also be beneficial when the biodistribution of metabolites is the primary interest34 or when performing co-polarization studies with inert perfusion agents, such as 13C urea,46 and would provide an opportunity to acquire high-resolution perfusion data for the vascular input function along with metabolic data in a single integrated acquisition. It may also have application in the study of other hyperpolarized nuclei, such as 129Xe, where the gaseous phase magnetization is roughly 100 times higher than the dissolved phase magnetization.47
However, increasing the matrix size to accommodate higher spatial resolution places greater demands on shimming and B0 homogeneity. Signal dropout in the posterior myocardium, most evident in the bicarbonate images, is caused by susceptibility-induced B0 inhomogeneity arising from cardiac veins48 and the lung-heart interface,49 along with both the positioning and sensitivity falloff of the eight-channel paddle coil used in the cardiac volunteer study. This highlights the importance of shimming in these studies and the need to either use a shorter readout duration or incorporate a B0 map into the reconstruction. Moreover, some geometric distortion was seen in the variable-resolution brain study due to the longer echo train length and readout duration, reducing the BW in the blip dimension. This can be overcome with a multi-shot approach (at the cost of an increase in scan time) or by using either a dual-echo50 or an alternating blipped acquisition51 to account and correct for distortion.
5 |. CONCLUSIONS
A variable resolution approach to metabolic imaging can ameliorate tradeoffs between spatial resolution and SNR that limit MRI of hyperpolarized 13C substrates. This technique enables both higher resolution for the injected substrate as well as quantification at a coarser resolution for the lower SNR metabolites, such as bicarbonate, which would be undetectable at the higher resolution. This could improve future pre-clinical and clinical studies by maximizing metabolite SNR and allow for metabolism quantification while minimizing partial volume effects from the injected substrate.
Supplementary Material
ACKNOWLEDGMENTS
This work was supported by NIH grants U01EB026412, R01EB016741, P01CA118816, R01CA183071, and P41EB013598; a Myokardia Inc. Myoseeds award; the UCSF Resource Allocation Program; and an American Cancer Society Research Scholar Grant #131715-RSG-18-005-01-CCE.
Funding information
NIH, Grant/Award Number: P01CA118816, P41EB013598, R01CA183071, R01EB016741 and U01EB026412; American Cancer Society, Grant/Award Number: 131715-RSG-18-005-01-CCE
Footnotes
SUPPORTING INFORMATION
Additional Supporting Information may be found online in the Supporting Information section.
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