Chromatography

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Overview

Chromatography is a technique for the separation of molecules or components within a mixture using a stationary phase and a mobile phase. This section describes a basic chromatography system, how to build a system for evolving research needs, standard protein purification methods (size exclusion, ion exchange, hydrophobic interaction, affinity, multimodal or mixed-mode, and reversed-phase chromatography), and how to choose the right media for your application.

Chromatography Systems

Depending on the needs of your application, chromatography can be performed in a simple, gravity-fed, open column, in a centrifuge tube, or in an automated, fully plumbed, and pump-driven system.

A typical automated chromatography system has four parts: a pump, an injection valve, a column, and a detector. The pump delivers the mobile phase such as a solvent or buffer. The injection valve allows a defined amount of sample to be pumped onto the column. The column holds the stationary phase media, also called column packing or resin. The detector is a real-time monitoring device, which allows the researcher to determine the amount of components in the eluate as they are eluted from the column.

Schematic diagram of a chromatography system

A basic column chromatography system using a pump and detectors.

As research needs evolve, many enhancements can be made to this basic setup such as the addition of an autosampler; a fraction collector; multiple detectors to monitor conditions such as temperature, conductivity, and pressure; and a variety of injection valves to automate sample delivery and manage multiple columns.

Chromatography is routinely used for two primary purposes: analytic work (identifying and determining the amounts of various components in a sample, for example, in metabolomics, forensics, and food testing) and preparative work (the purification of single components for further study or use as final products, for example, antibody-based therapeutics).

Preparative chromatography is a widely used laboratory technique for the enrichment or isolation of a specific component from a mixture. Preparative chromatography systems nearly always involve a fraction collector and/or a valve arrangement to allow the collection of discreet fractions of the eluate over time.

Analytic chromatography commonly utilizes a method known as high-performance liquid chromatography (HPLC — generally performed at high pressure and thus alternatively known as high-pressure liquid chromatography). HPLC has become the technique of choice for the identification, quantification, and purity analysis of both small molecules and proteins. When paired with detection systems such as a mass spectrophotometer, sample components can be separated, identified, and quantified in a matter of minutes.

Bio-Rad offers a complete line of laboratory-scale instruments that are flexible, upgradeable, and easy to use. For assistance with selecting an optimal system configuration, please use the chromatography system configuration tool below.

Column Chromatography for Protein Purification

Biomolecules can be divided into four broad categories: amino acids (proteins and peptides), nucleic acids (DNA and RNA), carbohydrates (sugars, cellulose, and similar semipolar organic compounds), and lipids (fats, fatty acids, and sterols — mostly nonpolar hydrocarbon-based organic compounds).

Column chromatography is especially important in protein purification. Proteins are complex and fragile molecules that often must maintain their conformation to retain biological activity. Nucleic acids, lipids, and carbohydrates require no special handling and can often be separated and analyzed using many techniques; in contrast, proteins require gentler handling and may undergo denaturation or unfolding when subjected to the harsher conditions used to purify other classes of molecules. Thus, column chromatography is the principal method for protein purification.

Bio-Rad offers a wide range of media for diverse research needs. Use the table below to select the best media for your application.

What Molecules Can Be Purified by Chromatography?

Flow chart for selecting chromatography media

Chromatography Media Selection Guide

  Suitability**  
Media Type Packaging
Format*
Analytical
Scale
Pilot/
Preparative
Scale
Process
Scale
Application
Anion Exchange Chromatography Media
AG® 1 B, GC ++++ ++ + Strong exchanger. Separation of low MW peptides, nucleotides, inorganic ions using different crosslinkages; high selectivity for anions such as chloride; gravity or low-pressure use
AG MP-1M B, GC ++++ ++ + + Strong exchanger. Macroporous, equivalent to AG 1 for MW >1,000,000; gravity or low pressure use
Bio-Rex™ 5 and
AG 4-X4
B, GC ++++ ++   Weak exchanger. Used to remove organic acids from sugars; adsorption of mineral acids; gravity or low-pressure use
UNO® Q MPC ++++     Strong exchanger. High-resolution biomolecule separation at high flow rates; pH stability 2–12
Macro-Prep®
High Q
B, C +++ ++++ + Strong exchanger. High-capacity biomolecule separation; unique surface chemistry allows contaminant removal; pH stability 1–10
Macro-Prep
25 Q
B ++++ ++++ + Strong exchanger. Similar to Macro-Prep High Q but 25 µm particle size allows higher-resolution separation; unique surface chemistry allows contaminant removal; pH stability 1–10
Macro-Prep DEAE B, C +++ ++++ + Weak exchanger. High-capacity biomolecule separation; unique surface chemistry allows contaminant removal; pH stability 1–10
UNOsphere™ Q B, C ++++ ++++ ++++ Strong exchanger. High-productivity, high-capacity biomolecule separation; pH stability 1–14
Aminex® HPLC ++++     High-pressure separation of carbohydrates, sugars, and small organic molecules; delivers industry-standard performance (U.S. Pharmacopeia)
Cation Exchange Chromatography Media
AG 50W B, GC ++++ ++ + Strong exchanger. Lower degree of crosslinkage, useful for peptide and nucleotide separation; higher crosslinkages useful for small peptide and metals separation or cation removal; gravity or low-pressure use
AG MP-50 B, GC ++++ ++ + Strong exchanger. Macroporous equivalent to AG 50W for MW >1,000,000; gravity or low pressure use
Bio-Rex MSZ 501 B ++++ ++ ++ Same as AG 50 but with more uniform bead size; large bead size (650 µm) makes it ideal for large-scale (column or batch) industrial applications
Bio-Rex 70 B ++++ ++ ++ Weak exchanger. High capacity for high MW (>1,000,000) solutes; can be used for purification and fractionation of peptides, proteins, enzymes, and other cationic molecules. Amenable to large-scale purification
Chelex® 100 B, GC ++++ ++ + + Weak exchanger. Chelating resin removes metals and is suitable for PCR applications; can also be used for ultrapurification of buffers and ionic reagents; gravity or lowpressure use. Available in molecular biology and biotechnology grades
UNO S MPC ++++     Strong exchanger. High-resolution biomolecule separation at high flow rates; pH stability 2–12
Macro-Prep
25 S
B ++++ ++++ + Strong exchanger. Similar to Macro-Prep High S, but 25 µm particle size allows higher-resolution separation; unique surface chemistry allows contaminant removal; pH stability 1–10
Macro-Prep
High S
B, C +++ ++++ + Strong exchanger. High-capacity biomolecule separation; unique surface chemistry allows contaminant removal; pH stability 1–10
Macro-Prep CM B +++ ++++ + Weak exchanger. High-capacity biomolecule separation; unique surface chemistry
allows contaminant removal; pH stability 1–10
UNOsphere S B, C ++++ ++++ ++++ Strong exchanger. High-capacity biomolecule separation; pH stability 1–14
UNOsphere Rapid S B, C ++++ ++++ ++++ Strong exchanger. Similar to UNOsphere S but with enhanced chemistries to overcome the pH shift that occurs with conductivity transitions and faster equilibration times; pH stability 1–14
Nuvia™ S B, C ++++ ++++ ++++ Strong exchanger. Similar to UNOsphere S but surface modification allows extremely high-capacity biomolecule separation; pH stability 1–14
Specialty Ion Exchange Chromatography Media
AG 11 A8 B ++++ ++ + Ion retardation — contains cation and anion exchange sites that weakly interact with mobile ions; can be used for desalting nonionic molecules with water elution, for example, removing SDS from proteins and the adsorption of mineral acids
AG 501-X8 B ++++ ++ + Mixed bed, consists of equivalent amounts of AG 1-X8 and AG 50W-X8. May be used to deionize water, urea, formamide, and acrylamide to provide extremely pure reagents
Bio-Rex MSZ 501 B ++++ ++ ++ Mixed bed, consists of equivalent amounts of Bio-Rex MSZ 1 and Bio-Rex MSZ 50 media. Monosized ion exchange; desalting of water and nonelectrolytes. Ideal for large-scale industrial applications
Size Exclusion (Gel Filtration) Chromatography Media
Bio-Gel® P B, C, SC, GC ++++ ++++   Separation of molecules by size; desalting and buffer exchange; availability of several particle size ranges with MW exclusion limits ranging from 100 to 100,000 D; pH stability 2–10
Bio-Beads™ S-X B ++++ ++++   Fractionation of low MW organic polymers and other hydrophobic substances in nonpolar solvents from 400–14,000 D
Affinity Chromatography Media
UNOsphere SUPrA™ B, C ++++ ++++ ++++ Antibody purification; Fc-fusion purification from large volumes of feed/cell culture; development and commercial-scale mAb purification process applications
Affi-Gel® protein A B, C, GC ++++ ++++   IgG purification from ascites, serum, and culture fluid; low-pressure media
Affi-Prep® protein A B, C ++++ ++++ ++ IgG purification from ascites, serum, and culture fluid; pressure-stable media
Affi-Gel Blue B, C, SC ++++ ++++   Albumin removal and enzyme purification; Cibacron Blue F3GA dye covalently attached; purification of proteins with dinucleotide fold
DEAE Affi-Gel Blue B, C, GC ++++ ++++   Albumin and protease removal for IgG purification; Cibacron Blue F3GA dye covalently attached to DEAE Bio-Gel A
CM Affi-Gel Blue B ++++ ++++   Albumin and protease removal for IgG purification; Cibacron Blue F3GA dye covalently attached to CM Bio-Gel A
Affi-Gel heparin B ++++ ++++   Purification of coagulation factors, plasma proteins, and enzymes including nucleases, lipases, and proteases; binding specificity for a variety of enzymes and other proteins
Profinity™ IMAC B, C ++++ ++++ ++ Purification of proteins tagged with histidine residues
Profinia™ GST C ++++ ++++ ++ GST-tagged protein purification
Profinity eXact™ B, C, SC ++++ ++++ ++ One-step affinity tag purification and on-column cleavage
Affi-Prep polymyxin B ++++ ++++ ++++ Removal of endotoxins; pressure-stable media; can be sanitized with NaOH
Affi-Gel boronate B ++++ ++   Affinity for low MW molecules containing cis-hydroxyl (cis-diol) groups; separation of AMP from cyclic AMP

Profinity epoxide

B ++++ ++++ ++++ Affinity coupling; coupling of nucleophiles such as hydroxyl (–OH), amino (–NH2), or thiol (–SH) groups; based on UNOsphere base matrix for superb pressure/flow characteristics
Affi-Gel 10 B ++++ ++++   Affinity coupling; immobilization of ligands with –NH2 groups, coupling of proteins with pI 6.5–11; low pressure media
Affi-Gel 15 B ++++ ++++   Affinity coupling; immobilization of ligands with –NH2 groups, coupling of proteins with pI < 6.5; low-pressure media
Affi-Gel Hz B ++++ ++++   Affinity coupling; immobilization of IgG molecules via their Fc region
Affi-Gel 102 B ++++ ++++   Affinity coupling of ligands with –COOH groups via EDAC coupling chemistry
Hydroxyapatite and Fluoroapatite Chromatography Media
CHT™ Type I B, C, MPC ++++ ++++ ++++ Antibody purification (higher capacity than Type II); virus purification/removal; DNA purification/removal; aggregate and endotoxin removal; Fab purification
CHT Type II B, C ++++ ++++ ++++ Antibody purification; removal of albumin from feedstream; Fab purification
CFT™ B, C ++++ ++++ ++++ Similar properties to CHT but exhibits greater stability in the lower pH range (5.5); suitable for Fab purification
Bio-Gel HT B ++++ +++   Purification of proteins, nucleic acids and other biomolecules; crystalline hydroxyapatite less mechanically stable than CHT (ceramic hydroxyapatite)
Bio-Gel HTP B ++++ +++   Similar to Bio-Gel HT but in powder form
DNA grade Bio-Gel HTP B ++++ +++   Similar to Bio-Gel HTP with smaller particle size; selectivity for dsDNA; separation of ss- and dsDNA
Hydrophobic Interaction Chromatography Media
Macro-Prep Methyl B ++++ ++++ + Separation of proteins based on relative hydrophobicity; pH stability 1–10
Macro-Prep
t-butyl
B ++++ ++++ + Separation of proteins based on relative hydrophobicity; pH stability 1–10

* B, bottle; C, cartridge (1 ml or 5 ml); GC, gravity column; SC, spin column; HPLC, high-pressure column; MPC, medium-pressure column.
** +, low suitability; ++, moderate suitability; +++, suitable; ++++, high suitability.

Prepacked Analytical-Scale Chromatography Media Cartridges by Application

Application / Media Media Type Chemistry Capacity
Protein and Plasmid Purification
Macro-Prep High Q Strong anion exchange –N+(CH3)3 ≥37 mg BSA
UNOsphere Q Strong anion exchange –N+(CH3)3 180 mg BSA
UNOsphere S Strong anion exchange –SO3 60 mg human IgG
Macro-Prep DEAE Weak anion exchange –HN+(C2H5)2 > 35 mg protein
UNOsphere Rapid S Strong anion exchange –SO3 Human IgG: 60 mg/ml*
CFT ceramic fluoroapatite Fluoroapatite Ca10(PO4)6F2 Lysozyme: 14–21.5 mg/g
CHT ceramic hydroxyapatite Hydroxyapatite Ca5(PO4)3OH2 Human IgG: 25–60 mg/ml*
Protein Purification
Nuvia S Strong cation exchange –SO3 110 mg/ml IgG
Macro-Prep High S Strong cation exchange –SO3 ≥49 mg human IgG
UNOsphere Rapid S Strong cation exchange –SO3 Human IgG: 60 mg/ml*
CFT ceramic fluoroapatite Fluoroapatite Ca10(PO4)6F2 Lysozyme: 14–21.5 mg/g
CHT ceramic hydroxyapatite Hydroxyapatite Ca5(PO4)3OH2 Human IgG: 25–60 mg/ml*
IgG Purification
DEAE Affi-Gel Blue Affinity Cibacron Blue
F3GA and DEAE
0.2–1.0 ml serum
Antibody Purification
Nuvia S Strong cation exchange –SO3 110 mg/ml IgG
Affi-Prep protein A Affinity Protein A 8–10 mg mouse monoclonal IgG1
16–23 mg human IgG
CHT ceramic
hydroxyapatite Type I
,
40 µm
Hydroxyapatite Ca5(PO4)3OH2 25–60 mg human IgG
CHT ceramic
hydroxyapatite Type II
,
40 µm
Hydroxyapatite Ca5(PO4)3OH2 15–25 mg human IgG
CFT ceramic fluoroapatite Fluoroapatite Ca10(PO4)6F2 Lysozyme: 14–21.5 mg/g
UNOsphere SUPrA Affinity rProtein A Human IgG: 30 mg/ml*
Affinity-Tagged Protein Purification
Profinity IMAC Affinity Iminodiacetic acid ≥15 mg recombinant
protein tagged with hisidine residues
Profinia GST Affinity Glutathione ≥10 mg recombinant
GST-tagged protein
Desalting, Buffer Exchange
Bio-Gel P-6 Gel filtration Polyacrylamide 10–22% CV
Purification of Serum Proteins, Enzymes
Affi-Gel Blue Affinity Cibacron Blue Cibacron Blue
F3GA
0.2 ml serum
11 mg albumin
Monoclonal Antibody Purification
Nuvia S Strong cation exchange –SO3 110 mg/ml IgG
UNOsphere SUPrA Affinity rProtein A Human IgG: 30 mg/ml*
CHT Type I, 40 µm Hydroxyapatite Ca5(PO4)3OH2 Human IgG: 25–60 mg/ml
UNOsphere Q Strong cation exchange –N+(CH3)3 BSA 180 mg/ml*

* Binding capacity based on bulk media; check individual instruction manuals for run conditions and specifications.

Common Chromatography Method Elements

Chromatographic methods used in protein purification usually involve direct binding or interaction with the stationary phase via affinity, ion exchange, or hydrophobic interactions. Size exclusion chromatography (SEC), also referred to as gel filtration or gel permeation, is the only method that does not involve direct binding.

In all purification methods, there are common elements to a chromatography run.

  • The column is equilibrated in a mobile phase or buffer to ensure uniform column conditioning
  • The sample is applied — with a pipet in an open column, with an injection valve and loop in a plumbed system or, in the case of a large sample volume, with a pump
  • Proteins of interest are eluted from the column using isocratic or gradient flow of the mobile phase
  • The proteins are detected in the eluate using a detector. An optical absorbance detector is often used to measure the light absorbed at specified wavelengths by molecules in the eluate stream. The most common wavelengths used are in the UV range:
    • 190–230 nm, for peptide bonds
    • 280 nm, for the aromatic rings found in some amino acids
  • The recorded absorbance values are plotted against time or volume as a chromatogram
  • The chromatogram is a record of the run and is also used to analyze protein characteristics such as size, charge, and concentration, providing an indicator of column packing quality or other separation issues
  • Finally, the proteins eluted from the column are collected in a fraction collector for subsequent analysis.

A typical absorbance chromatogram

A typical absorbance chromatogram.

 

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