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Nrecon version 1

Manufactured by Bruker
Sourced in Belgium, United States

NRecon version 1.6.6 is a software tool developed by Bruker for the reconstruction of micro-computed tomography (micro-CT) data. It provides users with advanced image reconstruction capabilities to process and analyze their micro-CT scans.

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11 protocols using nrecon version 1

1

Micro-CT Analysis of Root Canal Obturation

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Each tooth was mounted on a custom-made holding device for imaging in a micro-CT scanner (Skyscan 1172, Bruker-microCT, Kontich, Belgium) operating at 100 kV, 100 mA, 360° rotation, 1.5° rotation steps, and 7.9-µm voxel size. Imaging was performed both before and after the obturation procedure. The resultant images were rendered in a proprietary software (NRecon version 1.6.6, Bruker-microCT) to obtain 3D pre- and post-obturation records of each specimen. The 3D images were imported into MeVisLab version 2.5 (MeVis Medical Solution SA, Bremen, Germany) for volume measurement. Each canal was arbitrarily divided into 2 mm segments beginning from the apical terminus of the root filling, and the volume fraction of gutta-percha present within the prepared canal space in each segment was calculated using the MeVisLab software.
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2

μCT Scanning of Ethanol-Fixed Specimens

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Fixed specimens were immersed in 70% ethanol and μCT scans were performed at a resolution of 20 μm/pixel using a Skyscan 1174 (Bruker Corporation, Kontich, Belgium). Scanning settings were: 50 kV, 800 mA, 3000 ms exposure time, 360° scan, 0.5 mm aluminium filter, 0.3° rotation angle, averaging three frames. Three-dimensional reconstructions were performed using NRecon version 1.6.6 (Bruker Corporation).
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3

Micro-CT Analysis of Bone Regeneration

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Bone regeneration was measured by ex vivo micro-CT scans (SkyScan 1076; Bruker micro-CT N.V., Kontich, Belgium) on isolated grafted radius at 12 weeks postoperatively. Individual bony blocks containing the implants and the surrounding tissues were obtained after euthanizing rabbits, and fixed in 4% formaldehyde solution for two weeks. Ex vivo micro-CT images were acquired at 30 μm resolution (voltage: 70 kV, current: 141 μA, 1.0 mm Al filter, rotation step: 0.6) and then reconstructed using volumetric reconstruction software NRecon version 1.6.6 (Bruker micro-CT N.V., Kontich, Belgium). Bone regeneration was expressed as bone volume (BV), total volume (TV) and percent bone volume (BV/TV) using CTAn software (ver 1.13, Bruker micro-CT NV, Kontich, Belgium).
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4

Evaluating Mouse Knee Integrity

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Left hindlimbs of 14-week-old mice were harvested. X-rays of knee joints were taken with a Faxitron X-ray machine (Edimex) to evaluate the integrity and calcification of the knee surface. Besides, the knee joints were also scanned with 2 K resolution, 10-μm voxel size, 0.5 Al filter at 60 kV, and 167 μA. Images were reconstructed using NRecon version 1.1.11 (Bruker micro-CT) and analyzed using CTAn, v1.15 (SkyScan1176 in vivo micro-CT; Bruker).
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5

Femoral Microarchitecture Analysis in Mice

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Left hindlimbs of 12-week-old mice were harvested and soaked in neutral formalin. Bone morphology and microarchitecture were assessed at the distal femoral metaphysis for trabecular parameters. Femurs were scanned with 2 K resolution, 10-μm voxel size, 0.5 Al filter at 60 kV, and 167 μA. Trabecular bone in the 1000 μm above the growth plate and extending proximally for 1000 μm was measured for analysis. Images were reconstructed using NRecon version 1.1.11 (Bruker micro-CT) and analyzed using CTAn, v1.15 (SkyScan1176 in vivo micro-CT; Bruker).
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6

Micro-CT Analysis of Mandible Morphology

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MicroCT analysis of fixed mandibles was performed using a Skyscan 1174v1.2 (Bruker Corporation, USA) at 50 kVp, 800 μA and a resolution of 16.7 mm. Sagittal two-dimensional sections were obtained with NRecon version 1.6.9.8 (Bruker Corporation, USA) and three-dimensional reconstruction was done using Avizo/Amira 9.5.0 (FEI Visualization Sciences Group, France).
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7

Micro-CT Analysis of Mandible Morphology

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MicroCT analysis of fixed mandibles was performed using a Skyscan 1174v1.2 (Bruker Corporation, USA) at 50 kVp, 800 μA and a resolution of 16.7 mm. Sagittal two-dimensional sections were obtained with NRecon version 1.6.9.8 (Bruker Corporation, USA) and three-dimensional reconstruction was done using Avizo/Amira 9.5.0 (FEI Visualization Sciences Group, France).
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8

Micro-CT Analysis of Rat Knee Joints

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Rat knee joints were scanned using a SkyScan 1276 Micro-CT (Bruker, Kontich, Belgium) and NRecon version 1.6 software (Bruker). Data were then analyzed using the CTAn version 1.9 software (Bruker), and a three-dimensional model was generated in CTVol version 2.0 (Bruker). Quantitative morphometry indexes based on three-dimensional morphometry were determined using microtomographic data. Bone volume (BV), BV/total tissue volume (BV/TV), trabecular number (Tb.N), trabecular thickness (Tb.Th), and trabecular separation (Tb.Sp) were determined for the region of interest between the proximal tibia growth plate and tibial plateau.
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9

Micro-CT Analysis of Condylar Bone

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To assess differences in the density of subchondral bone and the degree of bone resorption, the condylar bone was cleared of marrow and soft tissue and then fixed overnight in 70% ethanol (15 (link)). The specimens were then scanned at a slice thickness of 18 µm using a Skyscan 1176 micro-CT device (Skyscan, Kontich, Belgium) at 50 kV and 456 µA. Images were reconstructed and analyzed using NRecon version 1.6 and CTAn version 1.31.8.1 software (Bruker, Billerica, MA, USA). The area of condylar cartilage and subchondral bone in the sample was defined as the region of interest (ROI). A total of five consecutive images from the ROI were used for three-dimensional reconstruction and analysis.
The parameters analyzed included the trabecular bone volume per total volume (BV/TV), trabecular number (Tb.N), trabecular separation (Tb.Sp) and trabecular thickness (Tb.Th). The operator who performed the scanning analysis was blinded to the group identity of each sample.
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10

Imaging Techniques for Osteoarthritis Assessment

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Knee joint images were captured by X-ray (MX-20, Faxitron X-ray, Corp., Lincolnshire, IL, United States) and SkyScan 1276 Micro-CT (Bruker, Kontich, Belgium) and NRecon version 1.6 software (Bruker) and Ingenia3.0 T MRI system (Philips, United States). The rats were anesthetized by intraperitoneal injection of pentobarbital sodium (40 mg/kg) and fixed in supine position. The bilateral ankles were fixed on the tray with adhesive tape. The lens was focused at an appropriate focal length on the knee joint of the rat and the exposure time was set to apropriate minutes to ensure a clear image. The extent of osteoarthritis was assessed by imaging findings, including joint space narrowing and articular surface calcification, as well as articular cartilage damage, according to the imaging scoring system used in previous literature with macroscopic score which was based on surface roughness and erosin. Using imaging techniques, we quantified the tibial plateau or femoral condyle surface by calculating the ratio of the lesion area to the total surface area. Both the tibial and femoral joints were evaluated based on a maximum score of 10 (Gerwin et al., 2010 (link); Kohn et al., 2016 (link); Lin et al., 2021 (link)). The scoring was performed by two experienced observers who were blinded to the study groups.
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