Jackson Immuno Research Inc.
specializing in secondary antibodies and conjugates
Jul 13 16

Chromogenic Detection for Western Blot, IHC, and ELISA

M Lewis
Colorimetric Immunostaining

Chromogenic substrates are used in colorimetric detection. They are simple and easy to use. Suitable for most immunotechniques – from immunohistochemistry to Western blotting and ELISA, they offer a very cost-effective method of detection.

Chromogenic substrates can be used in a number of immunohistochemical applications from staining tissue with IHC through to Western blotting. The chromogenic substrate is added to a blot or tissue previously incubated with an enzyme-conjugated antibody (typically horseradish peroxidase (HRP) or alkaline phosphatase (AP)), which converts the substrate to a colored precipitate. Signal development is arrested by simply washing off the substrate. The precipitate is visible to the naked eye, and on a Western blot, it can be detected without special equipment as a colored band. The chromogenic precipitate can be seen on the tissue under a normal light microscope when used for immunohistochemistry (IHC). Colorimetric detection is easy to use, although it may require optimization or additional staining to improve signal over background in samples expressing low antigen.

Colorimetric conjugates

Figure 1: Indirect colorimetric detection. A. Reporter enzyme-conjugated secondary antibody detects the primary antibody for the protein of interest. B. Chromogenic substrate is added to the antibody-antigen complex. C. The reporter enzyme conjugate catalyzes the conversion of the chromogenic substrate to a colored insoluble precipitate, visible by eye on the blotting membrane.



Chromogenic reagents are available for the different reporter enzymes, HRP, AP, GOD (Glucose oxidase) and β-Gal (β galactosidase). The substrates are available in different colors and sensitivities. Depending on the assay, a soluble or insoluble substrate can be chosen.

Alcohol insoluble chromogens are appropriate for Western blotting and IHC where counterstains or mounting media are used. The soluble dyes are better suited to ELISA and plate based assays.

Western blotting and dot blotting

When used in Western blotting or dot blotting, the chromogenic substrate appears as colored band or spot on the membrane at the locations of the immobilized antigen-antibody complexes (Figures 2 & 3). The blot can be developed until the signal of the bands reach the intensity required, this allows for a good level of sensitivity as the development of the blot can be observed directly and the reaction halted immediately by washing off the substrate. The developed membrane can then be imaged or stored for subsequent use. Samples with low sample concentration (low antigen) may require extended development, which may lead to higher background, obscuring bands.


Colorimetric Western blot

Figure 2: A colorimetric Western blot. Heavy (HC 50 kDa) and light (LC 25 kDa) chains of reduced and SDS-denatured mouse IgG were separated by SDS-PAGE and detected on Western blots using Peroxidase-Goat anti-Mouse IgG (H+L) and visualized with TMB chromogenic substrate.

Mouse Subclass Dot blot JIR

Figure 3: Dot blot showing the specificity of Goat anti-Mouse IgG Fcγ subclass specific antibodies. 100 ng of mouse IgG subclass were applied to 5 nitrocellulose membranes and blocked with 5%(w/v) BSA in PBST.  Each membrane was probed with individual HRP goat anti-mouse subclass specific antibodies (115-035-205 IgG1, 115-035-206 IgG2a, 115-035-207 IgG2b, 115-035-208 IgG2c, 115-035-209 IgG3). The blot was developed using TMB substrate (Moss, Inc.).


Colorimetric ELISA measures the optical density of a soluble colored product which is usually proportional to the amount of analyte present in the sample, allowing relative quantification of the analyte. Like other immunotechniques, ELISA requires optimization of timing and development conditions to obtain accurate and reproducible assays.



Figure 4: Chromogenic substrates can be used for ELISA, the color change can be detected by a plate reader which measures the light absorbance of the sample. Sample concentration can be determined by comparison to a standard curve generated with a with a positive control. The 96 well microplate format lends itself to automation and replicates.


Colorimetric detection can be a very sensitive method for the immunostaining of tissue and cells. Different substrates offer different sensitivities and colors to aid identification, multiple antigen recognition is possible as colors can be distinguished from one substrate and another. A number of counterstains are available which can be used to increase contrast so that the IHC staining appears stronger.  Figure 5 shows the brown color of 3,3’ diaminobenzidine (DAB staining) in combination with hematoxylin counter-staining of nuclei.

IHC staining with JIR

Figure 5: Anti-GFP immunohistochemical staining using Biotin-SP conjugated Donkey anti-Rabbit IgG (H+L) Secondary antibody followed by HRP streptavidin: (A) At 4 weeks post-transplantation, no GFP signal could be detected in the in vivo specimens. (B) GFP expressing cells were visualized by brown staining in the positive control; Signal was visualized using the chromogenic substrate 3,3’ diaminobenzidine (DAB) substrate (Envision kit; DakoCytomation, Glostrup, Denmark) for 10 min at room temperature. Nuclei were counter-stained with hematoxylin.


Reporter Enzymes (conjugated to antibody)

The most commonly conjugated reporter enzymes are horseradish peroxidase (HRP) from the horseradish plant Armoracia rusticana, and alkaline phosphatase (AP) from calf intestines, although Glucose oxidase (GOD) and ß-D-Galactosidase from E.coli can also be used. HRP and AP both offer different benefits depending on the application requirements. HRP  is a small 40 kDa molecule which usually binds to an antibody in a ratio of 4:1. Its small size means good intracellular penetration and it’s less likely to cause steric hindrance with the antigen/antibody complex. AP is slightly larger (86 kDa) which may cause steric interference but the substrate-converting reaction is linear, which may mean the detection incubation could be extended and potentially be more sensitive. AP also removes the possibility of non-specific staining of tissues with high levels of endogenous peroxidases – a limiting factor in HRP.

Chromogenic substrates

Each reporter enzyme can be used with a number of different chromogenic substrates which are available in a variety of specifications and formats offering different sensitivities, some common ones are summarized in the table below.


Enzyme Solubility Substrate Precipitate color Sensitivity
AP Insoluble BCIP & NBT (5-Bromo-4-Chloro-3-Indolyl Phosphate (BCIP) & Nitro blue Tetrazolium) Blue/purple High
AP Soluble Fast Red TR (4-Chloro-2-methyl benzenediazonium) Red/orange High
HRP Insoluble DAB (3,3’-Diaminobenzidine) Brown Medium
HRP Soluble1 TMB (3,3′, 5,5;-tetramethylbenzidine) Dark blue High
HRP Soluble CN (4-chloro-1-naphthol) Blue purple Low
HRP Insoluble CN/DAB Black High
HRP Soluble ABTS (2,2′-azino-bis(3-ethylbenzothiazoline-6-sulphonic acid) Green Low
HRP Soluble OPD (o-phenylenediamine dihydrochloride) Yellow Medium
AP Soluble PNPP (p-Nitrophenyl Phosphate) Yellow High
β -Gal Insoluble X-Gal (5-Bromo-4-Chloro-3-indolyl-B-D-Galactopyranoside) Blue
GOD Low solubility t-NBT (2,2′,5-5′-tetra-p-nitrophenyl-3,3′ -(3,3′ -dimethoxy-4,4′-biphenylene)-di tetrazolium chloride) Black/Brown High

Table 1: Commonly used colorimetric substrates.

  1.  TMB in the presence of peroxide and HRP can be precipitated into membrane.
  2. T-NBT may be used in combination with BCIP.



Alberts B et al (1994) Molecular biology of the Cell. 3rd Ed. Garland press. London

Kalyuzhny A (2016) Immunohistochemistry – Essential Elements and Beyond.  Springer International Publishing Switzerland.

Roitt et al (2005) Immunology. 6th Ed. Mosby. Spain

Comments are closed.

  • Recent Posts

    • We’d like to hear from you!

      Download PDF We want to hear from you, our loyal Jackson ImmunoResearch customers! Complete our customer satisfaction survey, and we’ll send you an exclusive JIR T-shirt! We want to hear …Read More »
    • What is an Antibody?

      Download PDF Antibodies are complex proteins produced by mammalian B cells during the adaptive immune response. Their unique ability to bind a broad array of targets with high specificity and …Read More »
    • Secondary detection: Indirect detection set-up

      Download PDF Secondary detection, also known as indirect detection, has two important advantages over direct detection. These are its capacity for signal amplification, which can increase researchers’ chances of identifying …Read More »
    • Top 10 Tips for ELISA

      Download PDF Enzyme-linked immunosorbent assay (ELISA) remains one of the most popular immunoassay techniques due to its ease of use, high sensitivity, and ability to provide quantitative results. It can …Read More »
    • We’d like to hear from you!

      Download PDF As we reflect on 2023, we want to hear from our loyal Jackson ImmunoResearch customers. Complete our customer satisfaction survey and we’ll send you an exclusive JIR T-shirt! …Read More »