Quantitative digital in situ senescence-associated β-galactosidase assay
© Shlush et al; licensee BioMed Central Ltd. 2011
Received: 3 September 2010
Accepted: 15 April 2011
Published: 15 April 2011
Cellular senescence plays important roles in the aging process of complex organisms, in tumor suppression and in response to stress. Several markers can be used to identify senescent cells, of which the most widely used is the senescence-associated β-galactosidase (SABG) activity. The main advantage of SABG activity over other markers is the simplicity of the detection assay and the capacity to identify in situ a senescent cell in a heterogeneous cell population. Several approaches have been introduced to render the SABG assay quantitative. However none of these approaches to date has proven particularly amenable to quantitative analysis of SABG activity in situ. Furthermore the role of cellular senescence (CS) in vivo remains unclear mainly due to the ambiguity of current cellular markers in identifying CS of individual cells in tissues.
In the current study we applied a digital image analysis technique to the staining generated using the original SABG assay, and demonstrate that this analysis is highly reproducible and sensitive to subtle differences in staining intensities resulting from diverse cellular senescence pathways in culture. We have further validated our method on mouse kidney samples with and without diabetes mellitus, and show that a more accurate quantitative SABG activity with a wider range of values can be achieved at a pH lower than that used in the conventional SABG assay.
We conclude that quantitative in situ SABG assay, is feasible and reproducible and that the pH at which the reaction is performed should be tailored and chosen, depending on the research question and experimental system of interest.
Cellular senescence (CS) is a term used to describe the process wherein somatic cells of complex eukaryotic organisms progressively lose replicative capacity. The relationship between CS and organismal aging is still unclear although recent studies in non-human and human primates have strongly implicated a correlation between organismal and cellular aging [1, 2]. Overall, recent studies have suggested that CS is a final common pathway resulting from activation of the cellular DNA damage response (DDR) by various stressors that converge on the p53 and/or pRB pathways. Different DDR inducing stimuli can lead to various types of CS. Among those most thoroughly investigated is the activation of DDR by telomere attrition which leads to cell cycle arrest termed replicative senescence (RS) or telomere-initiated CS [3–5]. Other well studied forms of CS include oncogene-induced senescence [6–8], cell structure induced senescence related to dysfunctional Lamin A , and stress-induced premature senescence (SIPS), the latter most thoroughly studied in relation to oxidative stress [10–12]. These various triggers of CS might not necessarily be mutually exclusive. Furthermore, DDR might not be the exclusive mechanism for triggering CS as protein damage, epigenetic changes  and additional processes have also been implicated [5, 14]. In complex long-lived organisms CS is considered to be a tumor suppressor mechanism similar to apoptosis and autophagy . However, in contrast to apoptosis and autophagy, which are irreversible and lead to cell death, senescent cells maintain partial metabolic functionality without dividing, and have been shown to have the capacity to revert back to a proliferative state .
Several markers of senescence have been described . Among others these include G1 cell cycle arrest detected by lack of DNA replication, cytological markers such as senescence-associated heterochromatin foci (SAHF), senescence-associated DNA-damage foci, as well as cell structure changes such as cell size and lysosomal β-galactosidase activity detected at pH 6.0 defined as senescence-associated β-galactosidase (SABG) activity [16, 17]. Since first reported, SABG activity has been the most extensively utilized biomarker for CS both in in situ[16, 18–20] and in in vitro studies (reviewed in ). In many studies the identification of cells as being senescent rests solely on the SABG assay. The popularity of this method can be attributed to its simplicity and apparent specificity for CS regardless of the initiating trigger, as well as the ability to visualize senescent cells in a heterogeneous population .
Despite the extensive utilization of the SABG assay for CS determination, the origin of SABG activity and its role in CS were unknown for several years following its initial description. A number of studies have proposed that lysosomal β-galactosidase activity increases in senescent cell up to a degree that surpasses a threshold level that renders the activity detectable at a suboptimal pH 6.0 [21, 22]. A later study clearly demonstrated that the SABG activity arises from the lysosomal β-galactosidase 1 (GLB1) gene product . In senescence cells, both the mRNA and the protein levels of this gene are significantly elevated, and the enzymatic activity increases concomitantly . Furthermore, the enhanced enzymatic activity in senescence can be measured both at the optimal pH for activity - pH 4.5 as well as at the suboptimal pH 6.0. These findings demonstrate that the significantly increased SABG activity at senescence is the basis for the activity detected at the suboptimal pH 6.0, and therefore used as a marker for senescence .
The extent of the senescence-induced increase in lysosomal β-galactosidase can be measured by Western blotting or soluble enzymatic activity , however the activity of β-galactosidase is most easily and robustly detected by histochemical staining with X-gal serving as a substrate . In addition to age related accumulation of lysosomal β-galactosidase in senescent cells probably due to the increased lysosomal content in the cell, other yet unknown factors such as functional differences in senescent lysosomes may contribute to the very high levels of β-galactosidase observed by SABG staining at pH 6.0 .
Despite its ease and utility, concerns have arisen regarding the specificity and reproducibility of the SABG assay. Studies that question the specificity of the SABG assay as a CS marker have found SABG activity in quiescent cell cultures , confluent non-transformed fibroblasts cultures [25, 26] and in serum starved cells . Other concerns relate to the nature of the semi-quantitative measure. Previously described scoring has been based on experimentalist-dependent determination of a given cell as being positively or negatively stained, and may not be anchored in reproducible criteria. Furthermore, the intensity of blue staining in positive cells may be difficult to quantify, such that cells with strong, moderate, or weak blue staining may all be recognized as equally positive. This renders the method insensitive to subtle effects of various stressors on CS, and might contribute to the inconsistency in replicating SABG assay results in skin biopsies .
The foregoing motivated us to develop a quantitative in situ SABG assay, which could be more easily applicable and reproducible in the study of CS both in vitro and in situ. We have utilized the framework of the widely utilized protocol of the in situ SABG assay , and applied digital-image processing in order to perform quantification of the assay staining. In addition, we have also varied the pH of the assay to broaden the range of histochemically detectable activity. We show validation of this quantitative in situ SABG assay on cultured human foreskin fibroblasts and frozen kidney biopsies from normal and diabetic mice, stained under different assay conditions. The values derived from this analysis are termed β-galactosidase activity values (BGAVs) and are highly sensitive and reproducible.
Image processing of the standard SABG assay
To apply this analysis to primary human fibroblasts aged in culture and in order to determine the preferred analysis strategy, we stained and calculated CSI/BSI and BGAVs for two different primary fibroblast cell lines, FSE and BJ, at various population doublings (PDs). We applied normality tests for these values, and found higher normal distribution indices for BGAVs versus CSI/BSI (Figure 1C). The Shapiro-Wilk W (SWW) BGAVs of 250 FSE cells at PD 38 was higher than the CSI/BSI ratio of the same cells, yielding a better fit to a normal distribution. Nevertheless, in most instances the BGAVs did not fit a normal distribution according to either Shapiro-Wilk W or Kolmogorov-Smirnov normality tests, and therefore in our statistical analysis we used the Kolmogorov Smirnov test, rather than the Student's t-test, which assumes normal distribution.
The first scoring of BGAVs was performed on images captured 8 hours following the start of the incubation with the X-Gal staining solution, immediately after stopping the staining reaction by washings with PBS, as described in "Methods". In order to examine whether the BGAVs change as a function of the time elapsed since the staining was completed, we continued to measure the mean BGAV of 250 cells at different time points following staining. We observed a parabolic behavior of the mean BGAV over time, peaking at 16 hours after the termination of the staining reaction (Figure 1D). The BGAVs reached a plateau 40 hours after the staining reaction was terminated and remained stable for as long as two months. We have chosen the values attained at the plateau stage as more reliable and stable markers for quantifying the degree of SABG staining and proceeded to acquire all our images at least 40 hours after completion of staining.
BGAVs in Cellular Senescence pathways
The effect of pH on BGAVs
The effect of cell density on BGAVs
In situ SABG assay
Cellular senescence is a final common pathway for a number of DDR pathways, and appears to play a major role in normal aging, acute stress conditions, and possibly as a tumor suppressor mechanism [5, 14]. Despite its wide relevance to both normal tissue kinetics, and organismal aging, CS lacks definitive well-characterized and easily measured biomarkers. Senescence-associated β-galactosidase staining has been the most widely used technique to characterize senescent cells, however several recent studies highlight a number of caveats using this assay [25, 26, 35]. A major limitation of the SABG assay is the subjective assignment of cells as being positively or negatively stained. As a result, new quantitative SABG assays have been developed. These methods include measurement in cell extracts of the conversion rate of 4-methylumbelliferyl-D-galactopyranoside (MUG) to the fluorescent hydrolysis product 4-methylumbelliferone (4-MU)  and a method based on the levels of fluorescein di-(β)-D-galactopyranoside in the suspension buffer . A quantitative chemiluminescent assay has also been recently reported , as well as FACS staining of SABG . All these methods have yielded promising results for a quantitative measure of SABG, but are not designed for in situ quantification of SABG activity. We have used the platform of the original SABG assay  as the basis for developing an in situ reproducible quantitative assay. The digital image-analysis we describe herein enables the quantification of SABG staining in uniform units, and distinguishes different degrees of staining. In addition, our analysis suggests that SABG staining is not influenced by cell density up to a certain degree of confluence in either pre-senescent or senescent cells (Figure 5).
A further modification and validation of this assay is varying the pH at which the assay is carried out to include pH 4.0, at which biochemical activity of the GLB1 product is significantly higher . The original description of SABG assay at pH 6.0 was meant to generate a threshold at which only cells with senescence-dependent accumulation of the enzyme (now known to be the GLB1 gene product) and consequently higher activity stain positively. Qualitative SABG assay at a higher pH might be simpler and faster for interpretation when striking qualitative differences are being assessed. However, staining at pH 4.0 renders the assay more sensitive to subtle changes, such as occur under conditions of metabolic stress, as demonstrated by the intensity of the staining after treatment with hydrogen peroxide. SABG staining at pH 4.0 also enabled identification of CS in kidney samples of diabetic mice that was not evident at pH 6.0. While pH 4.0-4.5 is the optimal pH for SABG activity, [36, 40], without the digital analysis, subjective scoring will lose its utility for determination of CS as most cells will seem to be positively stained. Thus, in conclusion the pH of the assay should be adjusted in accordance with the biological question.
An evident advantage of a histochemical assay over a fluorimetric approach, as described by Yang and Hu , is the capacity for in situ quantification to shed light on CS at the level of individual cells and not only at the level of a whole cell population. Furthermore, the main innovation in our method is the ability to quantify in situ mixed cellular tissue sections and evaluate the SABG activity in specific cell types. Since many tissues are constituted of various types of cells, only the in situ staining can provide insights into the type of cells in a mixed population demonstrating high SABG activity.
As noted above, in situ visualization of SABG in diabetic mouse kidneys was possible only when the SABG assay was performed at pH 4.0. Previous SABG activity studies on in situ samples  have shown a qualitative increase in SABG activity in tissues from elderly patients even at pH 6.0. However no such staining was evident at pH 6.0 in the kidneys of the diabetic mice in the current study. Other studies in which SABG assay was used as a marker for CS in tissues have also frequently yielded conflicting results , and it has been suggested that activity is not causally related to CS induction . In this study we have confirmed by an independent assay that indeed the kidneys of the diabetic mice harbor senescent cells. Herein we suggest that the ambiguity related to the SABG staining as a CS marker in tissues might have been the result of measurement of SABG activity at a high and suboptimal pH. However, once again we emphasize that extending the assay to the more sensitive pH of 4.0 must be coupled with quantification of staining to achieve interpretable results.
Utilization of an objective quantitative measurement of SABG activity by digital image analysis has proved to be accurate and reproducible in detecting cellular senescence derived by several stimuli. The increased SABG activity observed among in situ tissue sections from diabetic mouse kidneys was observed only when the assay was performed at a physiologic pH 4.0, and the analysis was enabled due to the use of computer aided image analysis. A major advantage and novelty of this approach in comparison to other qualitative and quantitative SABG methods is the ability to analyze tissue sections in the study of in situ senescence.
Cell culture conditions
Human primary foreskin fibroblasts (FSE)  and BJ  (obtained from Woodring Wright, University of Texas, Southwestern Medical Center, TX, USA) were cultured and brought to replicative senescence as described previously .
H202 treatment of cells
FSE cells were exposed to H2O2, diluted in PBS, at different concentrations (0-100 μM). Following incubation with H2O2 cells were washed with PBS and grown for an additional 48 hours in culture medium prior to staining. Control cultures at the same population doubling followed the same schedule of medium changes without exposure to exogenous H2O2.
Senescence associated β-galactosidase assay
Cells were seeded 48 hours prior to staining at 2-4 × 104 cells/well in six well plates. This cell density ensures that the staining is performed before the cultures reach confluence. SA-β-Gal staining was performed as previously described with minor modifications . Briefly, the cells were washed with cold PBS, and fixed for 5 min with 0.5% glutaraldehyde diluted in cold PBS. After fixation, cells were washed in PBS and incubated for 8 hours at 37°C in staining solution containing 1 mg/ml 5-bromo-4-chloro-3-indolyl-β-D-galactoside (X-Gal) (Roche) and the rest of the components described in . For staining at different pH values, 0.1 M citric acid and 0.2 M Na2HPO4 solutions were mixed at appropriate proportions. For pH 4.0 - 38.6 ml of 0.2 M Na2HPO4 were mixed with 61.5 ml of 0.1 M citric acid, and for pH 6.0 - 63.2 ml of 0.2 M Na2HPO4 were mixed with 36.9 ml of 0.1 M citric acid. Following the incubation period at 37°C, cells were washed 3 × 5 minutes with cold PBS and stored in PBS at 4°C until images were collected.
For analysis of the effect of cell density on SABG activity, FSE cells from two different PDs (42 and 46) were seeded at increasing densities ranging from 20 × 103/well to 250 × 103/well (in 6-well plates), and cultured until the well containing the highest cell density reached confluence.
Diabetic animal model
Two-month-old C57Bl/6 mice were injected intra-peritoneal for 5 consecutive days with the pancreatic islet β cell toxin, STZ, at a concentration of 50 mg/kg dissolved in 50 mM citrate buffer pH 4.5. Blood glucose levels were monitored once a week with DM being defined as a consistent blood glucose level higher than 200 mg/dl. Mice were sacrificed at 3 time points (7 weeks after injection, 9 weeks after injection and 13 weeks after injection). The experiment was repeated twice for the 9- and 13-week time points. Anesthesia was carried out by injection of a mixture of ketamine and xylazine. Kidneys were removed and embedded in optimal cutting temperature compound (Tissue-Tek, Sakura), snap-frozen in liquid nitrogen-cooled methylbutane and stored at -70°C. The institutional animal care and welfare committee approved these experimental protocols.
In-Situ SABG staining
Frozen kidney sections were cut at 6 μm and kept on dry ice until further processed. Slides were fixed with 2% formaldehyde/0.2% glutaraldehyde in PBS for 5 minutes. After washing with ice cold PBS, slides were incubated over night at 37°C with SA-β-Gal staining solution previously described . Following staining, slides were incubated for 48 h in ice cold PBS, and then were counterstained with eosin, dehydrated, and mounted as described .
Microscopy, image analysis and BGAV analysis
Analysis of tissue-culture cells
Color images of SABG stained tissue culture cells were captured on a Nikon eclipse TS100 inverted microscope using a 10× objective and a Nikon Coolpix E995 digital camera 40-48 hours post staining. In several cases, specific wells were photographed several times at different intervals after staining was completed (8 hours to 2 months) to determine whether BGAVs change over time.
Quantitative analysis of the images was performed using a Matlab application for cell marking (SegmentGui) and color analysis (detailed instructions and download appear on website http://md.technion.ac.il/pictures/storage/45/47.zip). A minimum of 250 randomly chosen cells was marked manually for each measurement point.
Analysis of stained tissues
The images of stained tissues were captured on a BX51 Olympus microscope using a 20× objective with an Olympus DP70 digital camera controlled by analySIS software (Soft Imaging System). Image acquisition was performed with the following fixed color settings: red = 0.36, green = 0.92, blue = 0.85, offset = 504, and exposure time of 6.8 ms.
Analysis of BGAVs was performed on whole renal tubules (Figure 6). At least 50 tubules were analyzed from each mouse (DM and control) at each of the 3 time points. Experiments were carried out in duplicates for the DM mice at the 9- and 13-week time points.
The distributions of SABG values were compared to a normal distribution by the use of Shapiro Wilk W normality test. Since most distributions deviated significantly from a normal distribution (see "Results"), we used the two sample Kolmogorov Smirnov test to calculate distribution differences between the different cell samples and for calculation of the p values.
Immunofluorescence analysis of γ-H2AX foci
The staining of the mouse kidney tissue with antibodies for γ-H2AX was carried out as described previously . Briefly, 8 μM sections were cut from the frozen kidney biopsies and immediately fixed for 20 minutes in freshly prepared 4% paraformaldehyde diluted in PBS. Following the fixation, the tissue sections were permeabilized for 20 minutes with PBST (PBS + 0.2% Triton X100). Sections were blocked for 1 hour in blocking solution consisting of PBS + 4% BSA at room temperature (RT) and incubated over night at 4°C with anti-γ-H2AX (S139, Upstate; Chicago, IL) diluted 1:750 in blocking solution. The following day, the slides were washed 3 × 5 minutes in PBST at RT, and incubated with a secondary antibody (Cy3- conjugated donkey anti-rabbit antibody) for 1 hour at RT, Slides were then washed 3 × 5 minutes in PBST at RT and mounted with Vectashield containing DAPI (H-1200, VECTOR LABORATORIES). Fluorescence signals in stained tissue were analyzed using laser scanning confocal microscopy (LSM 510 Meta Confocal, Carl Zeiss Inc. Germany). Nuclei were scored for the number of γ-H2AX foci present in each nucleus. Differences in number of foci between diabetic and control tissues were compared by Pearson's chi-square test.
We thank Maty Tzukerman for her helpful discussions and suggestions, Woodring Wright for providing us with BJ cells and Shiri Kalet-Litman for her help in the experiments with the diabetic mice. We are grateful to Sagi Abelson and Annie Rebibo-Sabbah for their technical help and to Ayala Ofir for her help with the confocal microscopy. This research was supported by the Israel Science Foundation (grant No. 542/05) (S.S.), the Deborah Grant (grant No 2007646) (K.S., L.S., S.S.), the Arthur and Rosalinde Gilbert Estate grants and the Sidney Kremer Kidney research Fund at the Technion (K.S).
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