This protocol describes an efficient and reproducible approach for mouse brain histological studies, including perfusion, brain sectioning, free-floating immunostaining, tissue mounting, and imaging.
Immunohistochemical staining of mouse brains is a routine technique commonly used in neuroscience to investigate central mechanisms underlying the regulation of energy metabolism and other neurobiological processes. However, the quality, reliability, and reproducibility of brain histology results may vary among laboratories. For each staining experiment, it is necessary to optimize the key procedures based on differences in species, tissues, targeted proteins, and the working conditions of the reagents. This paper demonstrates a reliable workflow in detail, including intra-aortic perfusion, brain sectioning, free-floating immunostaining, tissue mounting, and imaging, which can be followed easily by researchers in this field.
Also discussed are how to modify these procedures to satisfy the individual needs of researchers. To illustrate the reliability and efficiency of this protocol, perineuronal nets were stained with biotin-labeled Wisteria florbunda agglutinin (WFA) and arginine vasopressin (AVP) with an anti-AVP antibody in the mouse brain. Finally, the critical details for the entire procedure have been addressed, and the advantages of this protocol compared to those of other protocols. Taken together, this paper presents an optimized protocol for free-floating immunostaining of mouse brain tissue. Following this protocol makes this process easier for both junior and senior scientists to improve the quality, reliability, and reproducibility of immunostaining studies.
The prevalence of obesity and associated comorbidities has reached epidemic levels, causing a tremendous socioeconomic burden1,2. Various mouse models have been developed to better understand the biological processes responsible for obesity3,4. Because central mechanisms are important for the regulation of energy homeostasis in these animal models, neuroanatomical studies of mouse brains have become a necessary technique in this field. However, the quality, reliability, and reproducibility of brain histology techniques vary considerably among laboratories and even researchers within the same laboratory for various reasons (e.g., antibodies, tissues, treatments, species, research objectives). Therefore, it is necessary to establish a general protocol for histological studies of the mouse brain, including perfusion, brain sectioning, free-floating immunostaining, tissue mounting, and imaging. Meanwhile, beginners can quickly learn, master, and adjust this protocol to satisfy their individual needs.
Immunohistochemical staining is an established method that has been used extensively to visualize specific cell types, mRNAs, and proteins in a variety of tissues (e.g., brain and peripheral tissues)5,6. More specifically, an antigen of interest can be labeled by a specific primary antibody and a corresponding secondary antibody linked to an enzyme (e.g., chromogenic immunohistochemistry) or a fluorescent dye (fluorescein isothiocyanate)6. As an example of the utility of these techniques, β-endorphin [one peptide encoded by pro-opiomelanocortin (POMC)] and c-fos (a marker of neuronal activity) were stained in the arcuate nucleus. Deletion of tryptophan hydroxylase 2 (an enzyme integral to serotonin synthesis) in the dorsal raphe nucleus was shown to decrease c-fos expression in POMC neurons in the arcuate nucleus7. In addition, the distribution of vitamin D receptor mRNA was mapped in the mouse brain via in situ hybridization (RNAscope)8. This paper presents a reliable and efficient method with a step-by-step workflow for free-floating immunostaining, aiming to improve the quality and reproducibility of histological studies of the mouse brain.
C57BL/6J mice of both sexes (8-16 weeks of age) were used in the present study. Care of all animals and all procedures were approved by Baylor College of Medicine's Institutional Animal Care and Use Committees.
1. Perfusion
NOTE: Steps 1.1 – 1.6 are performed in a fume hood.
2. Cryosectioning (coronal sections)
3. Free-floating WFA staining and anti-AVP immunostaining
4. Mounting
5. Coverslipping
6. Imaging
The flow chart of this protocol is briefly illustrated in Figure 1. This laboratory's cryosectioning procedure is demonstrated in Figure 2A, in which 5 brain samples were sectioned simultaneously. The mounting of brain sections is shown in Figure 2B, and a fully mounted slide with brain sections is illustrated in Figure 2C. In Figure 3, representative fluorescence immunohistochemistry images of a mouse brain section with co-staining of WFA and AVP at lower and higher magnification at Bregma -0.82 mm. AVP signals were observed in the paraventricular nucleus and the supraoptic nucleus. WFA signals were observed in the perifornical area of the anterior hypothalamus and the reticular nucleus.
Figure 1: Flow chart of fluorescence immunohistochemistry with mouse brains. Following complete anesthesia, a mouse is perfused with saline and then 10% NBF. The brain is carefully removed and cut into sections after fixation and dehydration. The sections were incubated with WFA followed by Streptavidin-Dylight 488 after three washes with PBS. The brain sections were blocked and then incubated with a primary anti-AVP antibody. Then, the sections were washed 3 times with PBS followed by incubation with the secondary antibody, Alexa Flour 594 donkey anti-rabbit IgG (H+L). The brain sections were mounted on slides and coverslips placed on the slides with antifading mounting medium with DAPI before imaging. Abbreviations: NBF = neutral buffered formalin; WFA = Wisteria florbunda agglutinin; PBS = phosphate-buffered saline; AVP = arginine vasopressin; DAPI = 4′,6-diamidino-2-phenylindole. Please click here to view a larger version of this figure.
Figure 2: Photos illustrating practical cryosectioning and mounting in the laboratory. (A) Build up a base on top of the plate with 30% sucrose to hold all samples horizontally, cut the tissues into sections (25 µm/section) and collect the sections into a 48-well cell culture plate filled with phosphate-buffered saline. (B) Submerge a slide in the dish with one end slightly tilted with a stand. Place each row of sections under the air-buffer interface and lower the buffer to bring the sections out of the buffer until the bottom of the slide. The white line indicates the interface of buffer and air. (C) A fully mounted slide with brain sections. Please click here to view a larger version of this figure.
Figure 3: An example of double immunofluorescence staining. (A–D) Microscopic images showing the distribution of WFA (red, A), AVP (green, B), DAPI (blue, C), and merged (D) in coronal mouse brain sections at Bregma -0.82 mm. Scale bars = 200 µm. (E–H) Higher magnification microscopic images of the white boxes in A–D, respectively. Scale bars = 100 µm. Abbreviations: 3V = third ventricle; PeFAH = perifornical area of the anterior hypothalamus; PVH = paraventricular nucleus; RT = reticular nucleus; SON = supraoptic nucleus. Please click here to view a larger version of this figure.
This protocol provides an established method for neuroanatomical studies of the mouse brain, including perfusion, tissue sectioning, free-floating immunostaining, tissue mounting, and imaging. However, a few key details essential for consistent and reliable results must be optimized.
The quality of perfusion is critical for successful staining. Staining results might be affected if blood remains in the brain, given that blood cells (e.g., red blood cells) can generate an artificial 'positive' staining10. We infer the presence of a brownish-gray liver to indicate a high quality of perfusion, which usually results in blood-free brains. The automated perfusion pump used in this protocol helps to perfuse one animal successfully within a short period. Insufficient fixation will generate soft and fragile brain sections in the subsequent procedures, while over fixation will reduce the sensitivity of antigen reactions due to the enhanced formaldehyde cross-linking of proteins. Different conditions were tested, and overnight fixation at 4 °C was sufficient for post-fixation of mouse brains. In addition to 10% NBF used in the present protocol as a fixative buffer, 4% (w/v) of freshly prepared paraformaldehyde (PFA) in PBS has also been extensively used for tissue fixation11.
Regarding cryosectioning, the thickness of sections needs to be decided depending on the specific needs. For instance, RNAscope studies require a thickness of 14 µm instead of 25 µm, commonly used in free-floating staining. Meanwhile, RNAscope studies require that all procedures are performed in RNAase-free solutions to preserve the integrity of the target mRNAs. Some researchers also use a section thickness of 30-40 µm for a variety of staining procedures. Conventional cryosectioning (i.e., optimal cutting temperature (O.C.T.) compound-embedded samples) allows for much thinner (e.g., 10 µm) brain sections that might be crucial for intracellular structures or other applications. The cryosectioning strategy presented here does not necessarily involve O.C.T. compound-embedding of brain samples and allows for 14-40 µm sections. There may be no significant difference for 3,3-diaminobenzidine (DAB) staining using 25 or 40 µm thick brain sections. However, thinner sections offer better-quality fluorescence images.
The benefit of the strategy presented here is that multiple brain samples (up to 5 brains) can be cut at one time. However, the limitation of this method is that brain samples need to be cut within 1 week after dehydration because submersion in 30% sucrose for too long is more likely to cause protein degradation and other issues. To avoid this potential issue, these brain sections can be transferred into the cryoprotectant buffer and stored at -20 °C. For free-floating staining, the duration of incubation and concentration of both primary and secondary antibodies should be optimized in pilot studies. Generally, overnight incubation at 4 °C or room temperature with mild shaking is appropriate for most primary antibodies, if not instructed otherwise by manufacturers. For secondary antibodies, incubation at room temperature for 1-3 h works well in most situations. However, these details must be optimized for various circumstances. For example, for c-fos staining, we typically incubate the brain sections with a concentration of 1:1,000 overnight at 4 °C for immunofluorescence staining. However, using the same antibody for c-fos DAB staining, we prefer to incubate brain sections with a concentration of 1:5,000 for 48 h at 4 °C.
A cocktail of primary antibodies and secondary antibodies might be used for double-staining to speed up the procedure. More specifically, two different primary antibodies from different species (e.g., one is from rabbit, the other one is from guinea pig, chicken, or mouse) are mixed before incubation, as are the corresponding secondary antibodies. The choice of secondary antibody is dependent on the primary antibody. If the primary antibody is from rabbit, the secondary antibody must be anti-rabbit, for example, donkey anti-rabbit or goat anti-rabbit. The selection of blocking serum depends on the secondary antibody, for example, normal donkey serum will be used if the secondary antibody is from donkey. Antigen retrieval is suggested if the immunostaining still does not work even if all guidelines have been followed strictly.
Mounting and coverslipping of brain sections must be performed in a very delicate manner. The whole process requires no wrinkles, folds, or air bubbles. It will take several trials to determine the optimal exposure time for imaging. We recommend the same exposure time for the same antibody across different sections, which is essential for comparing the signal intensities among different animals or groups. It is reasonable that exposure time might not be the same for different antibodies, even in the same section. For example, the exposure time for DAPI might be shorter than the c-fos signal in most cases.
A few procedures presented in the protocol are helpful to improve both reliability and efficiency throughout the whole process. 1) Using an automated perfusion pump for perfusion can considerably shorten perfusion time and significantly improve tissue quality. 2) This cryosectioning strategy enables slicing multiple brain samples simultaneously, which is much more efficient than conventional practice. This method is also easy for new researchers to learn and master. 3) For free-floating staining, as brain samples are stained in suspension, antibodies can penetrate the sections from both sides. We optimized the incubation strategy by placing all sections from one sample/series into a 1.5 mL microcentrifuge tube for primary and secondary antibodies, which saves antibodies, particularly when we need to stain brain samples in bulk. Another benefit of the free-floating approach is that it can be modified and applied to other histochemical staining methods (e.g., chromogenic IHC, hematoxylin and eosin, cresyl violet) in addition to immunofluorescence staining12.
However, one limitation of free-floating staining is that very thin sections can be difficult to handle. An on-slide staining method might be considered if only a few sections need to be collected and stained immediately, as is frequently the case in clinical pathology. We also tested the on-slide staining method using brain sections generated from this protocol, and it worked well. To do this, mount the brain sections onto slides, wait for the sections to dry, and follow a traditional frozen section on-slide staining protocol. 4) Mounting free-floating sections on the slides can be tedious for certain researchers, especially for beginners. We use a fine paintbrush to gently coax sections onto the slide at the air-buffer interface and then use a transfer pipette to gently remove the buffer to lower the air-buffer interface as mounting advances from the top to the bottom of the slide. Although time-consuming, this strategy is friendly to beginners. Experienced experimenters can mount all the brains sections onto the slides in PBS at one time and only remove the buffer to bring the slide out after the last section is mounted. 5) Finally, we use a scanner for imaging, which is more efficient than fluorescence microscopy, especially when there are a large number of slides for imaging. The scanner enables scanning up to 12 slides in one batch with a 20x magnification. Alternatively, standard fluorescence microscopy can be employed in certain circumstances, for example, when a specific cluster of neurons in the brain must be showcased with a higher magnification (e.g., 40x or even 60x)13,14.
In conclusion, this paper presents an established methodology for histological studies of mouse brains that has been proven to be reproducible, reliable, and efficient. The protocol will help generate optimal and consistent histological results among different researchers and laboratories and serve as a reference for beginners to learn this technique.
The authors have nothing to disclose.
The investigators were supported by grants from the NIH (K01DK119471 to CW; P01DK113954, R01DK115761, R01DK117281, R01DK125480, and R01DK120858 to YX), USDA/CRIS (51000-064-01S to YX), and American Heart Association Postdoctoral Fellowship (#829565) to LT.
Alexa Flour 594 donkey anti-rabbit IgG (H+L) | Invitrogen | A21207 | |
30% Sucrose | VWR | 470302 | 30 g Sucrose dissoved into 100 mL of PBS |
Neutral Buffered Formalin | VWR | 16004-128 | 10%, 25 °C, pH 6.8-7.2 |
1 mL Sub-Q Syringe | BD | 309597 | |
48 Well Cell Culture Plate | Corning | 3548 | |
6 Well Cell Culture Plate | Corning | 3516 | |
Antifading mounting media with DAPI | Vector Laboratories | H-1200 | |
Autoclavable plastic desiccator | Thermo Scientific Nalgene | 5315-0150 | |
AVP antibody | Phoenix Pharmaceuticals | H-065-07 | |
Cell Strainer | Corning | 431752 | |
Cryoprotectant buffer | User preference | Not applicable | 20% glycerol, 30% ethylene glycol, and 50% PBS |
Isoflurane | Covetrus | 11695-6777-2 | |
Leica DFC310FX microscope | Leica | Not applicable | |
Microscope Slide Boxes (50-place) | VWR | Not applicable | |
PBT | User preference | Not applicable | 2.5 mL of Triton X-100 dissolved into 1000 mL of PBS |
Perfusion two automated Perfusion System | Leica | 39471005 | |
Phosphate-buffered saline (PBS) 20x | VWR | VWRVE703-1L | 25 °C, pH 7.3-7.5, 1x composition:137 mM NaCl, 2.7 mM KCl, 9.8 mM Phosphate buffer |
Slideing Microtome Microm HM450 | ThermoFisher | Microm HM450 | |
Sodium Chloride | RICCA Chemical | 7220-32 | 0.9%, 25 °C, pH 7.4 |
Streptavidin Protein, DyLight 488 | ThermoFisher | #21832 | |
Triton X-100 | Sigma-Aldrich | 089k01921 | |
WFA antibody | Sigma-Aldrich | L1516 | |
Zeiss Axio Z1 Scanner | Zeiss | Not applicable | |
Zen 3.1 software | scanner software |