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61 protocols using tissue tek

1

Tissue Perfusion and Sectioning for Stroke Analysis

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At 48 hours post-MCAO/R (24 hours post-transplantation), mice were deeply anesthetized and transcardially perfused, first with normal saline, then with phosphate-buffered 4% paraformaldehyde (PFA). Brains were post-fixed in 4% PFA for 24 hours and cryoprotected in 30% sucrose; free-floating coronal sections (30 μm) were prepared using a vibratome (Leica VT1000s, Heidelberg, Germany); frozen sections were embedded in optimum cutting temperature (O.C.T.) compound (Tissue-Tek, Thermo Fisher Scientific, USA) and cut coronally at a 20-μm thickness.
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2

Maxillary Bone Formation Imaging

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Following sacrifice, the maxillae were collected, fixed for 48 h in 4% paraformaldehyde and stored in − 80 °C until being dehydrated in 30% sucrose and were embedded in optimal cutting temperature (O.C.T.; Tissue-Tek, Thermo Fisher, Waltham, MA, USA) and cut into serial 8-μm-thick sections. Cryosections were prepared and imaged with a Keyence BZ-X9000 all-in-one Fluorescence Microscope (Itasca, IL, USA) for MSC tracking (n = 4/group). Surface-based bone formation was quantitated using BIOQUANT image analysis software (n = 4/group) (BIOQUANT Image Analysis Corporation, Nashville, TN, USA) [17 (link)].
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3

Histological Analysis of Tumor Samples

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Tissue which was excised during the initial tumor removal surgery and during the postoperative follow up analysis, was immediately embedded in optimum tissue cutting (OCT) formulation (Tissue Tek, Thermo Fisher Scientific, Waltham, MA) and frozen. Multiple cryosections (8 µm) were obtained from every sample and histological analysis was conducted using hematoxylin and eosin (H&E) staining. A board certified pathologist blinded to the experimental conditions performed all histological analysis.
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4

Aqueous Humor Sampling and Retinal Sectioning

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Aqueous humor samples (n = 5-10/group) were obtained just before eye enucleation using a Hamilton syringe. Samples were stored in a freezer at -80°C until analysis. For frozen sectioning, eyes were enucleated (n = 7-10/group) and fixed in 4% paraformaldehyde, incubated in 30% sucrose and embedded in optical cutting temperature medium (Tissue-Tek; Thermo Fisher Scientific, Cheshire, UK). 10 μm retinal cross-sections were cut.
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5

Tissue Preparation for Retinal and Optic Nerve Analysis

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Retinas and optic nerves were fixed in 4% PFA for 1 (retina) or 2 hours (optic nerves), dehydrated in sucrose, and embedded in Tissue Tek (Thermo Fisher, Waltham, CA, USA). Cross-sections of the retina (10 µm) and longitudinal optic nerve sections (4 µm) were cut with a Cryostat (Thermo Fisher) and mounted on Superfrost slides (Thermo Fisher).
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6

Histological and IHC Evaluation of Chondrocyte-Laden Alginate Beads

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For histology and immunohistochemistry (IHC), unfixed chondrocyte‐laden alginate beads were covered in Tissue‐Tek (Thermo Fisher), snap frozen in liquid nitrogen, and cut in 14–20 μm sections at −20°C using a cryostat. Sections were mounted on Superfrost Plus Gold microscopic slides (Thermo Scientific) and stained with Alcian Blue (pH 1.0) for histological examination or processed for IHC. For IHC, sections were incubated for 2 h with monoclonal antibodies against type II collagen (II‐II6B3, Developmental Studies Hybridoma Bank) or type VI collagen (MAB3303, EMD Millipore). Following incubation, sections were washed in PBS and incubated for 30 min with EnVision (Dako). Finally, sections were incubated with AEC substrate for 10 min and visualized using microscopy. Postprocessing was undertaken using NIS Elements software (Nikon Instruments Europe B.V.).
Control cartilage samples derived from goat ears were embedded in paraffin using standard histological techniques, cut in 5 μm sections, and stained using Alcian Blue, Mayer's Hematoxylin‐Eosin, type II and type VI collagen to assess glycosaminoglycan distribution, morphology, and collagen distribution, respectively (Supporting Information Fig. S1).
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7

Retinal Cell Immunofluorescence Analysis

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After 28 days, eyes were enucleated and fixed for 1 h in 4% paraformaldehyde (n = 7 eyes/group). Following a 30% sucrose treatment, they were embedded in Tissue Tek (Thermo Fisher Scientific). Cross-sections (10 µm thickness) were cut with a cryostat and mounted onto Superfrost Plus (both Thermo Fisher Scientific) or Histobond slides (Paul Marienfeld GmbH&Co KG., Lauda-Königshofen, Germany) for further immunohistological analysis.
Specific immunofluorescent antibodies were used to identify the different cell types in the retina (n = 7/group). Concisely, retinal sections were blocked with a solution containing 20% donkey serum/10% goat serum, and 0.1–0.2% Triton-X in PBS. Then, 1% bovine serum albumin was added in specific stains. The primary antibodies were incubated overnight at room temperature (Table 2). Incubation with corresponding secondary antibodies was performed for 1 h the next day (Table 2). Nuclear staining with 4′,6-diamidino-2-phenylindole (DAPI) was carried out for better orientation on the slides. Negative controls for all stains were obtained by only applying the secondary antibodies.
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8

Bladder Histology Analysis Protocol

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Each bladder was divided in half along the longitudinal axis and embedded in OCT (Tissue Tek, Thermo Fisher Scientific, Waltham, MA) or Neg-50 (Richard Allen Scientific, Thermo Fisher Scientific, Waltham, MA). Sagittal sections (10 µm) were stained with hematoxylin and eosin (H&E). Sections from the center of the bladder with intact mucosa, complete muscle wall, and devoid of artifacts were selected for subsequent analyses. One mouse was excluded because it did not meet these criteria. All analyses were performed by an investigator blinded to the experimental condition of the animals.
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9

Immunostaining of Brain Tissue Sections

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Mice were intracardially perfused with PBS and 4% PFA, fixed with 4% PFA in PBS overnight at 4°C and then cryoprotected in 30% sucrose (Merck Millipore, 107687) in PBS for 48 h. Next, samples were frozen in Optimal Cutting Temperature (Tissue-Tek; Thermo Fisher Scientific, 23–730–571). Sagittal sections (30 µm) were obtained with a CM 1950 Ag Protect freezing microtome (Leica, Solms, Germany). Sections were incubated with the primary antibody 72 h at 4°C in a 0.1 N phosphate buffer containing 1% bovine serum albumin (Sigma-Aldrich, A9418) and 1% Triton X-100 (Sigma-Aldrich, X100). After washing with blocking solution, sections were incubated with donkey Alexa Fluor-conjugated secondary antibody overnight at 4°C (Thermo Fisher Scientific, A-21206 or AP180SA6MI). Finally, sections were washed and mounted with Prolong Gold Antifade (Thermo Fisher Scientific, P36930). Images were taken with a confocal LSM710 META microscope (Carl Zeiss AG, Oberkochen, Germany).
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10

Vastus Lateralis Muscle Biopsy Protocol

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All muscle biopsies were sampled from the vastus lateralis with a 5-mm Bergström needle using asceptic procedures and local lidocaine injection. Any visible adipose tissue was removed from muscle biopsy samples. Muscle tissue was quickly aliquoted, frozen in liquid nitrogen, and stored at −80°C until analysis. For measurement of MPS as the fractional synthetic rate (FSR), muscle samples were immediately rinsed with ice-cold saline and blotted to remove blood before freezing in liquid nitrogen. For immunohistochemical analyses, approximately 20 mg of muscle was oriented and embedded in Tissue Tek at optical cutting temperature (Thermo Fisher Scientific, Waltham, MA) onto a cork and frozen in isopentane cooled in liquid nitrogen.
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