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Analytica Chimica Acta 709 (2012) 21–31

Contents lists available at SciVerse ScienceDirect

Analytica Chimica Acta


journal homepage: www.elsevier.com/locate/aca

Review

Protein separation by capillary gel electrophoresis: A review


Zaifang Zhu, Joann J. Lu, Shaorong Liu ∗
Department of Chemistry and Biochemistry, University of Oklahoma, Norman, OK 73019, United States

a r t i c l e i n f o a b s t r a c t

Article history: Capillary gel electrophoresis (CGE) has been used for protein separation for more than two decades. Due
Received 28 June 2011 to the technology advancement, current CGE methods are becoming more and more robust and reliable
Received in revised form 2 October 2011 for protein analysis, and some of the methods have been routinely used for the analysis of protein-based
Accepted 7 October 2011
pharmaceuticals and quality controls. In light of this progress, we survey 147 papers related to CGE
Available online 19 October 2011
separations of proteins and present an overview of this technology. We first introduce briefly the early
development of CGE. We then review the methodology, in which we specifically describe the matrices,
Keywords:
coatings, and detection strategies used in CGE. CGE using microfabricated channels and incorporation of
Capillary gel electrophoresis
Proteins
CGE with two-dimensional protein separations are also discussed in this section. We finally present a
Capillary electrophoresis few representative applications of CGE for separating proteins in real-world samples.
Capillary sieving electrophoresis © 2011 Elsevier B.V. All rights reserved.

Mr. Zaifang Zhu earned his Bachelor’s degree of Sci- Professor Shaorong Liu received his PhD degree from
ence in chemistry from Lanzhou University (Lanzhou, Texas Tech University in 1995. After worked as a post-
PR China). He is currently a PhD student in the Depart- doctoral fellow at Northeastern University in 1996
ment of Chemistry and Biochemistry at the University and University of California at Berkeley in 1997, he
of Oklahoma. His research is on exploiting capillary- joined Molecular Dynamics in Sunnyvale, California as
based systems for bioanalysis. a Scientist in 1998 and Manager of Technology Devel-
opment in 2000. Dr. Liu joined Texas Tech University
as an Associate Professor in 2002, and Professor in
2007. Since 2008, Dr. Liu is a Professor in the Depart-
ment of Chemistry and Biochemistry at University
of Oklahoma. His research is focused capillary elec-
trophoresis and microfluidic devices for high-speed
and high-throughput bioanalysis.

Ms. Joann J. Lu received her Master’s degree from


Texas Tech University in 1994. Ms. Lu worked as
a research associate and scientist at Bayor in West
Heaven, Connecticut, Inhale Therapeutic in San Carlos, 1. Introduction
California, and Oculex Pharmaceuticals in Sunnyvale,
California. She is now a Research Scientist in the Sodium dodecyl sulfate-polyacrylamide gel electrophoresis
Department of Chemistry and Biochemistry at Univer-
sity of Oklahoma. Her research is focused on protein (SDS-PAGE, see Table 1 for a list of acronyms used in this paper)
analysis. has been used for size-based separations of proteins for over four
decades [1,2], and it is still the workhorse for protein separations
and analyses in most biological research laboratories. The basic
procedures of this method include: (1) preparing a gel and assem-
bling the gel apparatus, (2) mixing a protein sample with a buffer
containing SDS and cooking the mixture at an elevated tempera-
ture, (3) loading the protein–SDS mixture into the gel inside the
gel apparatus and performing the electrophoresis, and (4) fixing,
staining/de-staining, and quantitating the separated proteins. If
∗ Corresponding author. Tel.: +1 405 325 9013; fax: +1 405 325 6111. SDS is allowed to react with sample proteins completely, the reac-
E-mail address: shaorong.liu@ou.edu (S. Liu). tions should produce SDS–protein complexes having similar charge

0003-2670/$ – see front matter © 2011 Elsevier B.V. All rights reserved.
doi:10.1016/j.aca.2011.10.022
22 Z. Zhu et al. / Analytica Chimica Acta 709 (2012) 21–31

Table 1
List of acronyms.

Acronym Representation Acronym Representation

2D Two-dimensional LIF Laser induced fluorescence


Bis N,N -methylenebis(acrylamide) LOD Limit of detection
CE Capillary electrophoresis LPA Linear polyacrylamide
CGE Capillary gel electrophoresis MALDI Matrix-assisted laser desorption ionization
CIEF Capillary isoelectric focusing MEKC Micellar electrokinetic chromatography
CPA Cross-linked polyacrylamide MS Mass spectrometer
CSE Capillary sieving electrophoresis NDA Naphthalene-2,3-dicarboxaldehyde
CZE Capillary zone electrophoresis PA Polyacrylamide
EDTA Ethylenediaminetetraacetic acid PAGE Polyacrylamide gel electrophoresis
EOF Electroosmotic flow PDMA Polydimethylacrylamide
FITC Fluoresceinisothiocyanate PDMS Poly(dimethylsiloxane)
FQ 3-(2-Furoyl) quinoline-2-carboxaldehyde PEG Poly-(ethylene glycol)
HEC Hydroxyethylcellulose PEO Poly-(ethylene oxide)
HPC Hydroxypropylcellulose PEOX Poly(2-ethyl-2-oxazoline)
HPLC High performance liquid chromatography PMMA Poly(methyl methacrylate)
HRPN Hydrophilic replaceable polymer network PVA Poly(vinyl alcohol)
HV High voltage rCPA Replaceable cross-linked polyacrylamide
IEF Isoelectric focusing rMAbs Recombinant monoclonal antibodies
IgG Immunoglobulin G SDS Sodium dodecyl sulfate
IPG Immobilized pH gradients TOF Time-of-flight

densities (or mass-to-charge ratios). When these complexes are dimension in two-dimensional (2D) separations are also discussed.
electrophoretically separated, their mobilities will depend on their In the application aspect, we present a few separations related to
sizes, with smaller proteins having greater mobilities. The mobility or closely related to practical uses. Table 2 provides a summary of
values decrease linearly with the logarithm of protein molecu- literatures on CGE of proteins based on the sieving matrices used.
lar masses, which is the basic separation principle of SDS-PAGE.
However, the technique is time-consuming and labor-intensive. 2. Methodology
The many manual operations (e.g., gel preparation, sample loading,
staining/de-staining, etc.) are believed to be sources of SDS-PAGE The basic apparatus for CGE is identical to that of capillary
irreproducibilities. zone electrophoresis (CZE) and consists of a capillary column, an
SDS-capillary gel electrophoresis (SDS-CGE), also called capil- on-column detector, and a high voltage power supply. The major
lary sieving electrophoresis (CSE) or capillary gel electrophoresis difference between the two techniques is the separation media: a
(CGE), shows many advantages over classical SDS-PAGE. These sieving matrix is employed in CGE while a background electrolyte
advantages include on-column detection, automated operation, solution is utilized in CZE.
great resolving power, and capability of accurate protein quan-
tification and molecular weight determination [3–8]. The first 2.1. Sieving matrices for CGE
papers on CGE were published in the 1980s [9,10]. As in slab-
gels, agarose and cross-linked polyacrylamide (CPA) were used as Polyacrylamide (PA) has been widely used in slab gel elec-
sieving matrices, and these matrices were prepared directly inside trophoresis of proteins, and consequently it is frequently utilized
the capillary columns. In the early 1990s [11], linear polyacry- in CGE. Initially, PA gels were synthesized in situ inside cap-
lamide (LPA) was introduced to replace CPA, but an in-capillary illaries [10,32,33]. Typically, a capillary column was prepared
polymerization procedure was still used for the gel preparation. by mixing acrylamide (monomer), N,N -methylenebis(acrylamide)
The lifetimes of these columns were limited (usually less than 10 (Bis, cross-linker), ammonium peroxy-disulfate or ammonium per-
runs) [12], and the run-to-run reproducibility was poor. Currently, sulfate (radical initiator), N,N,N ,N -tetramethylethylenediamine
replaceable and water-soluble linear or slightly branched polymers, (TEMED, catalyst) and other background electrolytes, introducing
such as linear polyacrylamide [11–13], poly(ethylene glycol) [11], the mixture into the capillary, and allowing the solution to poly-
poly(ethylene oxide) [14], dextran [15–17], pullulan [18,19] and merize inside the capillary. While this worked in general, problems
cross-linked polyacrylamide [20–22] are used as sieving matrices occasionally arose when PA shrank during polymerization, break-
for CGE [5,11,23–25]. Availability of these polymer matrices has led ing PA gel into segments and/or forming bubbles inside the column.
to improved reproducibility and robustness of this methodology. Additionally, a good column could work well for only the first a few
Recently, CGE has been recognized and established [26] as an runs, as large molecules and particulate materials accumulated at
important tool in biopharmaceutical industry to support analyti- the injection end of the column, which deteriorated and eventually
cal characterization, process development, and quality control of shut down the separation.
therapeutic recombinant monoclonal antibodies (rMAbs) [26–29]. To address this issue, a replaceable sieving polymer – a low
In an effort to make CGE-based methods accepted by biotech- viscous LPA solution – was prepared. This sieving matrix was suc-
nology companies, scientists in various pharmaceutical industries cessfully used for DNA sequencing [34], as well as for protein
and regulatory authorities conducted cross-laboratory research to sizing [12]. Because the sieving polymer inside a separation column
examine the reliability and robustness of the method [30,31]. It is could be replaced after each run, the run-to-run reproducibility was
expected that some CGE methods will soon be used in pharmaceu- improved considerably.
tical and biotechnological industries. In light of this advancement, It should be noted that, when LPA was developed, its low viscos-
we write this paper to review briefly the progress of CGE for pro- ity (or replaceability) was emphasized. This might be why CPA was
tein analysis. We focus mainly on the methodology and application rarely investigated as a replaceable sieving matrix initially, because
aspects of CGE. In the methodology aspect, we review the com- common sense tells that a cross-linked polymer would have a high
mon sieving matrices, wall coatings, and detection strategies used viscosity. In 2005, Lu et al. [35] noticed that, if the degree of cross-
in CGE. CGE performed in microfabricated channels and CGE as one linking was carefully controlled, CPA was an excellent replaceable
Z. Zhu et al. / Analytica Chimica Acta 709 (2012) 21–31 23

Table 2
Literature summary based on sieving matrices used.

Sieving matrix Analyte Reference Comment

In-capillary/channel Standard proteins or mixtures [10,20–22,80,83,90,97,115,139,146] Gradient gel was prepared in Ref. [20].
prepared Infrared laser desorption/ionization
polyacrylamide MS was interfaced with gel
(non-replaceable) electrophoresis chip in Ref. [139]. 2D
gel electrophoresis was performed on
chip in Refs. [90,97,115].
Human and bovine serum albumin [9]
Interleukin-2 and growth factors [80]

Linear polyacrylamide Standard proteins or mixtures [11–13]


Thrombin [117]
Cider proteins [121,122]

Beckman SDS gel Apolipoproteins in human [100] rMabs were labeled with FQ before
high-density lipoproteins separation and detection in Ref. [107].
2D separation was performed in Refs.
[91,99]. Performances of
Beckman–Coulter ProteomeLab and
Agilent 2100 Bioanalyzer were
compared in Ref. [93]. Bechman
SDS-gel goes with their instruments.
Recombinant monoclonal antibodies [30,48,107,127–130]
(rMAbs)
Standard proteins [49,91,145,147]
Protein from E. coli cell [99]
Protein biotoxins [47]
Proteins from soybean [93,125]
Erythrocyte membrane proteins [46]
Myofibrillar proteins (actin/myosin) [120]
Rotavirus-like particles [135]

Agilent 2100 kit Standard proteins [138] Separations on chip were performed in
Refs. [55–57,93,94,138]. Agilent
SDS-gel goes with their instrument.
Glycoproteins and de-N-glycosylated [56,57,94]
human serum glycoproteins
Proteins from soybean cultivars [93]
Monoclonal antibody [55]

Bio-Rad CE-SDS run Polyethylene glycolylated interferon [50,51] Bio-Rad CE-SDS run buffer does not
buffer (PEG-IFN) require coated capillaries for SDS-CGE.
PEG-modified granulocyte-colony [137]
stimulating factor
RuBisCo [53,124]
Monoclonal antibody [52]
Water-/salt-soluble proteins from [54]
bovine and ostrich meat
Slightly cross-linked Standard proteins or mixtures [35,113,116] MALDI-MS was interfaced with CGE in
polyacrylamide Ref. [116].
(replaceable)
Proteins in crude cell extract [35]
E. coli AcrA protein [116]

PEG/dextran Proteins in MCF-7 breast cancer cell [58] The work in Ref. [58] was focused on
selection of an internal standard for
separation. 2D separation was
performed in Ref. [98]. Performances of
PEG, dextran and LPA were compared
in Ref. [11]. Detection limit of sub-pM
were obtained in Ref. [113].
Proteins in Barrett’s Esophagus Tissue [98]
homogenate
Proteins in rat plasma [11]
Proteins in E. coli cell extract [11]
Standard proteins [15–17,81,82,103,104]
Proteins from AtT-20 cellular [141,142]
homogenate
Proteins from Barretts esophagus [143]
homogenate
Tryptic digests [144]
Carbonylated proteins from rat muscle [133]

Pullulan Standard proteins [18,19,24,39,40] 2D separation was performed in Refs.


[18,19,40].
Protein homogenate from D. [18]
radiodurans
Proteins from breast cancer cell [40]
24 Z. Zhu et al. / Analytica Chimica Acta 709 (2012) 21–31

Table 2 (Continued)

Sieving matrix Analyte Reference Comment

Polyethylene oxide Proteins in HT29 human colon [8] Proteins were labeled with FQ before
(PEO) adenocarcinoma cell extract separation and LIF detection in Ref. [8].
Proteins were labeled with SYPRO Red
before separation and LIF detection in
Ref. [74]. 2D separation was performed
in Refs. [89,95].
Casein in milk [74]
Proteins from E. coli cell [95]
Standard proteins [89]

Hydroxypropylcellulose Standard proteins or mixtures [25,38]


(HPC)
Proteins in HT29 human colon [38]
adenocarcinoma cell extract
Poly-N- Standard proteins [140] An acid-labile surfactant was used to
hydroxyethylacrylamide replace SDS in Ref. [140].

Hydroxyethylcellulose Lanthanide chelate-labeled proteins [41] A time-resolved fluorescence detector


(HEC) was used in Ref. [41].

sieving matrix–superior over LPA for protein separations in many Commercial sieving kits are now available to run CGE. These kits
aspects. Using this sieving matrix, CGE was capable of resolving are largely from Beckman–Coulter (www.beckmancoulter.com),
proteins ranging from ∼4 to 250 kD in less than 20 min. Agilent Technologies (www.agilent.com) and Bio-Rad Laboratories
When PA sieving matrices are used to run CGE, capillary walls (www.bio-rad.com) and they are optimized for their CGE instru-
often need to be coated for achieving high quality separations. ments. Beckman SDS Gel was demonstrated to be capable of sizing
Poly(N,N-dimethylacrylamide)-grafted PA, a derivative of PA, was membrane proteins [46], protein biotoxins [47], and antibodies
prepared by Zhang et al. [36], and when this polymer was used [48], but coated capillaries or channels were usually needed to
to sieve proteins, capillary wall coating could be avoided. This achieve good separations [49]. Using Bio-Rad CE-SDS run buffer,
is because poly(N,N-dimethylacrylamide)-grafted PA is capable of Na et al. [50,51] used uncoated fused-silica capillaries for CGE and
coating capillary walls dynamically. separated poly(ethylene glycol)-modified proteins. This kit was
Various polysaccharides form another important type of sieving also employed for quantitative analysis of antibodies [52], RuBisCo
matrices for protein separations. One advantage of polysaccharides in spinach [53], and water-/salt-proteins from bovine and ostrich
is that these polymers do not absorb as much UV light as PA does. meat [54]. Agilent commercialized the first microchip capillary
Ganzler et al. [11] separated SDS–protein complexes using dex- electrophoresis system (Agilent 2100 Bioanalyzer), along with its
tran and poly(ethylene glycol) (PEG). The separated proteins were microchips. Agilent 2100 kit was provided with this instrument
detected at 214 nm in which dextran and PEG are transparent. and utilized for analysis of half-antibody [55] and glycoproteins by
These matrices had moderate viscosities and could be conveniently microchip CGE [56,57]. In these applications, the gel was pipetted
replenished. Luo et al. [17] performed high-throughput protein into the designated reservoirs on a chip and propelled, by use of a
analysis by multiplexed SDS-CGE, and Xu et al. [37] realized separa- syringe, into the chip channels.
tion and characterization of SDS–protein complexes on a microchip
with UV adsorption detection using similar matrices. Hydrox- 2.2. Capillary coatings
ypropyl cellulose (HPC) is another polysaccharide sieving matrix
used in CGE. For example, Hu et al. [38] developed a CGE-laser- The interior walls of capillaries used in CGE are often coated for
induced fluorescence (LIF) method for separating proteins from two purposes: reducing protein–wall interactions and suppress-
HT29 cancer cells. Pullulan [24,39,40] and hydroxyethyl cellulose ing electroosmotic flow (EOF). An uncoated wall can interact with
[41] were used for CGE, as well. proteins electrostatically (if part of the protein molecule is posi-
Other polymers have also been utilized for protein sieving. Yu tively charged) and/or hydrophobically (if a portion of the protein
et al. [42] used poly(vinyl alcohol) (PVA) to perform on-line protein molecule is hydrophobic), and these interactions deteriorate sep-
concentration and separation. Bernard and Loge [43] used poly(2- aration efficiencies. In CGE, the strengths of these interactions are
ethyl-2-oxazoline) for CGE and achieved separation efficiencies of greatly reduced because proteins have reacted with SDS forming
∼10 million plates per meter. Hu et al. [8] used polyethylene oxide hydrophilic and negatively charged SDS–protein complexes. There-
(PEO) to analyze the protein contents in a single HT29 cancer cell fore, wall coating in CGE is used primarily for EOF suppressions.
and obtained protein profiles similar to those determined by other Running CGE at low or zero EOF is important for achieving repro-
methods. ducible results. If one uses an uncoated capillary to run CGE, the
Using dynamic light-scattering, Sumitomo et al. [44] evalu- EOF will carry the sieving matrix from anode to cathode while
ated the mesh size and homogeneity of three sieving polymer SDS–protein complexes migrate in the opposite direction. Some of
solutions, PA, PEO and HPC. Based on their experimental results, the proteins will never pass the detector, unless the EOF is so large
these authors concluded that an optimal sieving polymer for sep- that it brings all SDS–protein complexes to the detector. Usually,
arating proteins ranging from 14.3 to 97.2 kD is a homogeneous this condition cannot be guaranteed. Another problem associated
polymer network with a mesh size of less than 10 nm. Sumit- with EOF is its instability as the wall conditions change. The fluctu-
omo et al. also stated that PEO in solution can aggregate, degrade ation of EOF causes the migration time change, and subsequently
into smaller pieces, and form polymer–micelle complexes with the separations become irreproducible. Including an internal stan-
SDS. This disturbs protein–SDS complexation and impairs the pro- dard in samples can mitigate this problem, as long as the standard
tein separation efficiency. Recently, the same group surveyed the does not interfere with protein peak detections. Pugsley et al. [58]
composition of the separation buffers, and results showed that developed a dye (fluorescently labeled aspartic acid) that worked
Tris–CHES buffer was able to suppress SDS adsorption to PEO and well as an internal standard, because it migrates faster than all
achieve separation of six proteins [45]. fluorescently labeled SDS–protein complexes.
Z. Zhu et al. / Analytica Chimica Acta 709 (2012) 21–31 25

Numerous approaches have been explored to control/suppress


EOF, and the most commonly used approach is to derivatize capil-
lary walls via either dynamic coatings [59–62] or covalent coatings
[63–65]. Progress in the field of polymeric coatings can be found in
a number of reviews [66–68].
A dynamic coating, due to its simplicity, is a convenient way
to modify capillary wall properties. It is normally produced by
putting appropriate additives (often polymers) into SDS-SGE run
buffers (or sieving matrices) and flushing the capillary columns
with these run buffers before separation. Several polymers, includ-
ing polydimethylacrylamide [61], epoxy poly(dimethylacrylamide)
[69–71], and poly(-hydroxyethylacrylamide) [62] were used to cre-
ate a dynamic coating. The exposure of silica surfaces to very dilute
solutions of these polymers causes development of dense poly-
mer layers via hydrogen bonding, electrostatic attractions and/or
hydrophobic forces [72]. The molecular weight of the polymer has
a strong impact on the stability of the coating since the adhesive
forces/energies per chain increase in proportion to the number
of monomer units [73]. Some CGE sieving matrices are excellent
dynamic coating additives [8,51,58,74]. With these matrices, bare Fig. 1. Immunoblot chip. (a) Schematic design of the immunoblot chip for analysis of
capillaries can be used directly for protein separations. native proteins. The sample (2), sample waste (3), buffer (1, 4, 5, 6) and buffer waste
(7, 8) reservoirs are indicated in sketch (not to scale). The middle region of the device
Covalent coatings are generally more stable than dynamic
(indicated as chamber) has a length of 1.5 mm, a width of 1 mm and a depth of 20 ␮m.
coatings. These coatings are obtained by chemically bonding (b) Three separate zones inside the chamber to facilitate protein immunoblotting: a
desired substances to capillary walls. One of the most common large-pore-size protein loading gel on the top, a smaller-pore-size protein separation
coating protocols was introduced by Hjerten [65]. Typically, 3- gel on the bottom-left and an antibody-functionalized blotting gel on the bottom-
(trimethoxysilyl)propyl methacrylate is first attached to a capillary right. Colored dyes were used to visualize the different gel regions.

wall, leaving acrylic groups exposed on the wall surface. The Reprinted from Ref. [85] with permission.

capillary is then filled with a polymerizing solution containing


acrylamide and a polymerization initiator. The free acrylic groups photopatterned different gels inside a microfluidic chamber for
attached to a capillary wall serve as anchors for growing linear poly- protein immunoblotting. Fig. 1 presents the immunoblotting chip.
mer chains. A problem of this coating is that linear molecules cannot Gel-separation was first performed in the vertical dimension, and
cover the capillary wall completely. The poorly covered area will the separated proteins were then transferred to the immunoblot-
adsorb proteins and create EOF. To improve this situation, a CPA ting gel in the horizontal dimension. Electric fields were applied to
coating was developed by Gao and Liu [75] and successfully used the chamber via the parallel microchannels, and the microchannel
for SDS-CGE [35]. arrays were designed such that uniform electric fields were pro-
duced over the chamber area during separation and transfer steps
2.3. Microfabricated channels for CGE in both the vertical and horizontal dimensions.
In 2005, Fruetel et al. [47] reported a hand-held microchip
Microfabricated (or microchip) devices are developed with instrument called ␮ChemLabTM that is capable of performing CZE
a goal to perform and integrate multiple analytical processes and CGE in parallel. The instrument consisted of a microfluidics
(e.g., sample pretreatment, solution distribution/mixing, separa- module, a dual channel LIF detection module, an integrated mul-
tion, detection, etc.) on a chip platform [76,77]. Due to the short tichannel high-voltage power supply, and a main control board
column length and high separation efficiency, microchip CGE is containing the laser diode drivers, user interface, and an embed-
generally fast, typically from a few seconds to a few minutes. Yao ded microprocessor (see Fig. 2a). It has an approximate volume of
et al. [78] is recognized as the first who performed SDS-PAGE in 7 × 8 × 4.5 cubic inches (see Fig. 2b).
a microfabricated channel, and the separations were completed in Microchip devices were originally fabricated on glass sub-
less than 1 min. By combining an on-chip dye staining with an elec- strates [86,87]. Over the past decade, polymeric chips have
trophoretic dilution step (similar to a destaining step), Bousse et al. attracted growing attention, due to the low material and fabrica-
[79] obtained excellent resolutions for microchip CGE of proteins. tion costs. Polystyrene [88], polyesters [88], polycarbonate [89],
On the basis of this work, the first commercial microchip instru- poly(dimethylsiloxane) (PDMS) [90] and poly(methyl methacry-
ment was constructed by Agilent Technologies. In 2004, Han and late) (PMMA) [91] were used to fabricate microchips. Hybrid
Singh [22] and Herr and Singh [80] applied an in-channel pho- materials are also used [49]. All these chips have been tested for
topolymerization approach to prepare CPA gels inside a microchip CGE separation of proteins. Performance of microchip-based gel
channel for SDS-PAGE, and a separation speed of <30 s per run was electrophoresis has been compared with that of capillary-based gel
demonstrated. These authors also prepared a gradient CPA gel for electrophoresis [41,56,57,92–94]. In general, the performances are
on-chip protein sizing [20] and successfully implemented sample comparable, while microchip CGE provides faster separations.
pre-concentration using these photo-patterned gels [21]. Huang
et al. [81] combined isotachophoresis (ITP) to concentrate proteins 2.4. CGE as one separation dimension in two-dimensional protein
for subsequent CGE. Xu et al. [82] performed on-line electroki- analyses
netic supercharging preconcentration on a microchip to improve
method sensitivity. Tsai et al. [83] tested simultaneous separations 2D separation techniques are powerful tools for protein analysis,
of both native and SDS-denatured proteins on a single microchip because the peak capacity of a 2D analysis is the multipli-
with 36 microchannels. Herr et al. [84] recently integrated saliva cation product of the peak capacities of the two individual
pretreatment (mixing, incubation, and enrichment) with subse- dimensions. To realize this resolving power, Chen et al. [90] con-
quent quantitative immunoassays and measured the concentration structed a 2D separation device using reconfigurable PDMS slabs
of endogenous MMP-8 in saliva. More recently, He and Herr [85] in 2002. Four slabs were used to make channels and reservoirs to
26 Z. Zhu et al. / Analytica Chimica Acta 709 (2012) 21–31

Fig. 3. Schematic of a plastic microchip for 2D protein separation.


Reprinted from Ref. [90] with permission.

the 1st-D and the 2nd-D channels were directly connected, the SDS
in the SDS-PEO matrix in the 2nd-D channels would bleed into the
1st-D channel due to molecular diffusion and electric field distor-
tion at the channel intersections during IEF. The presence of SDS
in the 1st-D channel would bind to proteins (which would add
negative charges on the proteins), and therefore ruin the IEF. To cir-
cumvent this problem, the authors filled the 2nd-D channels with
a matrix containing PEO but not SDS. The SDS required for the 2nd-
Fig. 2. ␮ChemLabTM instrument. (a) The ␮ChemLab instrument with the top off D separation was electrokinetically introduced to the matrix after
showing the separation platform, the control panel, the back of the LCD display, and IEF was complete. During the SDS introduction, the protein bands
the battery pack. The instrument is approximately 7 × 8 × 4.5 and weighs 6 lbs. focused based on their pI values were diffused/broadened before
(b) The separation platform houses the microfluidic chip in a compression manifold
they were conjugated with SDS and electrokinetically injected to
that connects the chip to eight fluid reservoirs, two sample injection ports, and a LIF
detection module. The overall size of the platform is approximately 5 × 3 × 4 .
the 2nd-D channels. Thus, some IEF resolution was lost.
Reprinted from Ref. [48] with permission. In 2008, Liu et al. [95] carried out IEF and parallel SDS gel elec-
trophoresis on a similar device. PA gel plugs were patterned via
photopolymerization at various locations to stop hydrodynamic
perform the first dimensional (1st-D) separation–isoelectric focus- flows between reservoirs/channels and thus prevent unwanted
ing (IEF). Then, the middle two slabs containing the IEF-resolved bleeding/mixing. These gel plugs may cause problems when chan-
proteins were inserted into another two pieces of slabs which con- nels require frequent washing.
tained multiplexed channels for the second dimensional (2nd-D) It should be noted that the concept of this 2D separation chip had
separation–CGE. Because of their elastomeric nature, PDMS slabs been discussed earlier [96], but 2D separation results were never
could be attached and detached reversibly without fluid leaking. published.
Although 2D separations were performed, high resolving power In a separate effort, Yang et al. [97] combined capillary isoelec-
was not demonstrated using this device. tric focusing (CIEF) with CGE in a linear format (see Fig. 4a) via a
Griebel et al. [19] fabricated 300 parallel channels (64 mm polyethersulfone dialysis hollow fiber interface. Fig. 4b illustrated
long × 50 ␮m wide × 50 ␮m deep) on a PMMA chip. A 50-␮m open- the detailed structure of this interface. After hemoglobin variants
ing was produced at one end of chip across all these parallel were focused in the CIEF capillary, the catholyte in the reservoir
channels. To prepare for the separation, these parallel channels on the methacrylate plate was replaced by a CGE buffer. The CGE
were filled with 15% (w/v) pullulan. IEF (the 1st-D separation) was buffer also served as a chemical mobilization solution for the CIEF.
performed first on a separate device—a conventional immobilized As voltages were applied to both capillaries, CIEF-resolved pro-
pH gradients (IPG) strip. After IEF, the IPG strip was brought to tein bands were chemically mobilized to the hollow fiber. At the
the opening on the chip for parallel CGE (the 2nd-D) separations. same time, negatively charged SDS continuously migrated into the
However, 2D separation results were not disclosed in this paper. hollow fiber and reacted with the proteins (forming SDS–protein
IEF and CGE were incorporated in the above devices, but they complexes), and the SDS–protein complexes were subsequently
were coupled in an off-line fashion. To implement on-line inte- injected into the CGE capillary for the 2nd-D separation. Because
gration, Li et al. [89] integrated IEF with CGE on a polycarbonate the CIEF-resolved proteins were continuously injected into the CGE
microchip using PEO as their sieving matrix. Fig. 3 presents the capillary, some of the resolving power was sacrificed.
channel layout of this chip: one horizontal channel intersected by Additionally, Michels et al. [18] coupled CGE (the 1st-D) with
eight parallel vertical channels. The IEF was performed in the hori- MEKC (the 2nd-D) by connecting the exit-end of a CGE capillary
zontal channel, and SDS-PEO gel electrophoresis was performed in to the sampling-end of an MEKC capillary. A small gap was left
the vertical channels. Preferably, an SDS-PEO sieving matrix should between the two capillaries and filled with an MEKC running buffer
be filled in the vertical channels before IEF was performed. How- to facilitate electric field application and sample injection for MEKC.
ever, the device as designed had a limitation in this regard. Because Two high voltage (HV) power supplies were used in this work. HV1
Z. Zhu et al. / Analytica Chimica Acta 709 (2012) 21–31 27

microchip. By applying a vacuum to reservoir D while reservoirs


E and F were sealed, a sieving matrix was aspirated into d1 chan-
nel from reservoir C. As soon as the sieving matrix reached point
d2 (as shown in Fig. 5b), the vacuum on reservoir D was removed.
An MEKC buffer was pressurized into d3 channel from reservoirs F
while reservoirs A–C were sealed. A protein mixture was injected
into d1 for CGE. As the first protein peak approached point d2 , appro-
priate voltages were applied to various reservoirs to stop CGE and
effect MEKC. After MEKC was complete, voltages on the reservoirs
were changed to stop MEKC and resume CGE for a short period of
time (e.g., 0.5 s) to allow a fraction of CGE-resolved protein band to
migrate toward point d2 . These operations were repeated until all
CGE-resolved proteins were separated by MEKC. Complex proteins
samples were analyzed using a similar chip and approach [99].

2.5. Detection strategies

UV absorption is the most commonly used detection mode in


Fig. 4. CIEF integrated with CGE in a linear format. (a) Overall arrangement of CE, including CGE [15,100,101]. Proteins can be detected easily by a
experimental setup. (b) Dialysis hollow fiber interface: (1) methacrylate plate, (2) UV absorbance detector, because the peptide bonds between amino
capillaries, (3) Teflon tubes, (4) hollow fiber and (5) buffer reservoir.
acids and aromatic side groups in protein molecules absorb UV light
Reprinted from Ref. [98] with permission.
at 200–220 nm and 280 nm, respectively. Owing to the limited opti-
cal path length, the concentration sensitivities of UV absorption
was used to execute sample injection and separation, and HV2 was detection are normally low, especially when narrow capillaries are
utilized for MEKC. After a period of initial CGE separation, a fixed used.
length (e.g., 10 s migration) of CGE-resolved protein band(s) was LIF detectors are commonly used in CGE to improve
allowed to enter the gap. HV2 was turned on to apply a potential concentration sensitivities. When an LIF detector is used, pro-
to the gap solution so that there was no electric field across the teins need to be fluorescently “labeled”. Proteins have been
CGE capillary (to stop the CGE), while an electric field was created covalently labeled by fluorescent dyes, such as naphthalene-
across the MEKC capillary to inject the proteins in the gap into the 2,3-dicarboxaldehyde (NDA) [102], 3-(2-furoyl) quinoline-2-
MEKC capillary and execute the MEKC separation [note: HV1 was carboxaldehyde (FQ) [8,103,104] and fluoresceinisothiocyanate
on all the time]. When the MEKC separation was complete, HV2 was (FITC) [105,106]. In 2007, Michels et al. [107] reported an improved
turned off for a given period of time (e.g., 10 s) so that more CGE- fluorescent derivatization method for proteins analysis by CGE.
resolved proteins entered the gap. Then, HV2 was turned on again In this assay, rMAbs were derivatized with FQ in the presence
to execute the sample injection and MEKC separation. These opera- of cyanide (CN− ). This technique minimized sample preparation
tions were repeated until the proteins inside the CGE capillary were artifacts and greatly improved detection sensitivity of FQ-labeled
exhausted. This separation technique was successfully applied for rMAbs.
separations of proteins from bacterium Deinococcus radiodurans Covalent labeling method has an intrinsic problem. A protein
[18] and proteins from single mammalian cells [40]. The method molecule usually has a number of sites that can react with a fluores-
was later modified, and the separation speed was improved from 3 cent labeling dye. Because these sites have different reactivities, it is
to 5 h per run to ∼1 h per run [98]. challenging to make all sites to be labeled with the dye. This labeling
In 2006, Shadpour and Soper [91] incorporated CGE with MEKC reaction produces a mixture in which some proteins are un-labeled,
on a PMMA device. Fig. 5a shows the channel layout of the some are fully labeled, while the majority is partially labeled. This
mixture will cause peak-broadening or even multiple peaks in
CE separations [108]. A postcolumn labeling method is often a
good approach to address this problem. In 2009, Kaneta et al. [16]
reported a postcolumn derivatization method for CGE separations
of proteins. The method used a labeling dye of naphthalene-2,3-
dicarbaldehyde in the presence of 2-mercaptoethanol which played
a role of a reducing agent in the derivatization reaction. Recently,
these researchers replaced 2-mercaptoethanol with ethanethiol as
the reducing agent and improved the method limits of detection by
1.4–4.5-fold [109].
Alternatively, proteins can be dynamically labeled with fluores-
cent dyes [110]. In 2001, Jin et al. [111] showed that SDS–protein
complexes could be dynamically labeled with NanoOrange.
NanoOrange does not fluoresce much in aqueous solutions, but
as it binds to a protein–SDS complex, it fluoresces substantially.
Sano et al. [112] took a similar approach for CGE analysis of col-
lagenase. Chiu et al. [74] labeled proteins with SYPRO Red and
accomplished LIF detection using a low-cost He–Ne laser. In 2007,
Wu et al. [113] developed an elegant approach for protein label-
ing. First a pseudo SDS dye was synthesized by attaching an alkyl
Fig. 5. Microchip for 2D protein separation. (a) Geometrical layout of the microchip
used for SDS-␮CGE–MEKC. (b) Fluorescence image of the sieving matrix/MEKC inter- chain to an ionic fluorescent dye (e.g., FITC). Since the long car-
face at the intersection of the SDS-␮CGE and MEKC dimensions. bon chain is equivalent to the dodecyl group while the negatively
Reprinted from Ref. [92] with permission. charged fluorescent group resembles the sulfate group of SDS, the
28 Z. Zhu et al. / Analytica Chimica Acta 709 (2012) 21–31

SDS–protein complexes that could not be analyzed directly by MS].


After the collection, the SDS–protein complexes on the membrane
were washed using an optimized solution to remove SDS while pro-
teins were retained on the membrane. After SDS removal, a MALDI
matrix was introduced onto the membrane for MALDI-TOF–MS
analysis.

3. Applications

In the literatures we surveyed, a lot of the papers still dealt


with standard (or commercially purchased) proteins (see Table 2).
Here, we discuss only a few representative papers closely related
to practical applications.

3.1. Proteins in biological fluids

Analysis of proteins in biological fluids is challenging due to the


complexity of sample media. CGE offers a powerful tool to ana-
lyze these samples. In 2000, Lin et al. [46] used CGE to analyze
erythrocyte membrane proteins in blood samples. The erythro-
Fig. 6. Schematic demonstration of pseudo-SDS dye–protein–SDS complex.
cyte membrane samples were extracted from washed red cells, and
Reprinted from Ref. [114] with permission. spectrin in the samples was removed before CGE run. Erythrocyte
membrane proteins in normal red cell indices or from healthy blood
donors were utilized as controls. The same samples were analyzed
pseudo-SDS dye has the same function as SDS when binding to pro- by both CGE and SDS-PAGE, and similar profiles were obtained.
teins. As a mixture of SDS and pseudo-SDS dye reacts with proteins, In 2008, Obubuafo et al. [117] analyzed thrombin, an impor-
protein molecules are dynamically labeled with some pseudo-SDS tant marker for various hemostasis-related diseases and conditions,
dye. Fig. 6 presents a schematic demonstration of pseudo-SDS by affinity microchip CGE for human plasma samples and also for
dye-protein–SDS complex. Because each protein can be associated rabbit plasma sample. The method employed a PMMA microchip
with many pseudo-SDS dye molecules, the detection sensitivity and used LPA as sieving matrix. Two fluorescently labeled aptamer
can be improved considerably. Using this approach, these authors affinity probes, HD1 and HD22, which bind respectively to throm-
obtained an LOD of 0.13 ng mL−1 and a dynamic range of ∼5 orders bin exosites I and II were investigated. HD22 affinity assays of
of magnitude for CGE analysis of BSA. thrombin produced baseline-resolved peaks with favorable effi-
Fluorescence imagers have also been used as detectors for SDS- ciency due to its higher binding affinity, whereas HD1 assays
CGE [19,90,114,115]. A fluorescence imager is a great tool for early showed poorer resolution of the free aptamer and complex peaks.
stage technology development since it allows researchers to see the Therefore, HD22 was selected in determining the level of thrombin
migration of proteins inside a capillary or a microfabricated chan- in human plasma.
nel. The imaging area depends on the field of view of the imager but In 2011, Debaugnies et al. [118,119] evaluated an automated
normally it will be about a few millimeters to a few centimeters in CGE system, the Experion instrument from BioRad, for its ability
diameter. to separate and quantify the erythrocyte membrane proteins. The
Mass spectrometers (MS) are excellent detectors, because they major erythrocyte membrane proteins were extracted and purified
are capable of identifying proteins. Coupling CGE with an MS, how- from membrane ghosts by centrifugation, immunoprecipitation
ever, is challenging, because MS does not normally have access and electroelution. Analyses were performed using SDS-PAGE and
to CGE resolved proteins. In addition, the SDS in the sieving SDS-CGE to establish a separation profile of the total ghosts. As the
matrix interferes severely with MS detection. To address these SDS-CGE method was able to achieve the same conclusion as with
issues, Lu et al. [116] developed an approach to couple SDS-CGE SDS-PAGE, except for the patient with elliptocytosis, Debaugnies
with matrix-assisted laser desorption ionization time-of-flight MS et al. concluded that the new SDS-CGE method could be proposed
(MALDI-TOF–MS). Fig. 7 presents a schematic diagram of the exper- as an automated alternative method to the labor-intensive SDS-
imental setup for this work. Basically, a PTFE membrane was used PAGE analysis. Kaneta et al. [109] applied CGE with postcolumn
to collect CGE-resolved proteins (so that a MS detector will have derivatization/LIF detection to analyses of two biological samples,
access to these proteins) [note: the collected proteins were actually namely a cell lysate and a milk sample.

3.2. Proteins in food products

Monitoring food safety and food quality has become increas-


ingly important in recent years. Sample preparations are essential
for these analyses. To examine the quality of seafood products,
Sotelo et al. [120] applied CGE for analysis of myofibrillar pro-
teins in fish and squid muscles. A Beckman–Coulter P/ACE 2000
capillary electrophoresis system was used in this work, and the
manufacturer recommended procedure was followed. Myosin and
actin contents in fish and squid muscles were measured, and
these results were comparable to the results from a slab-gel SDS-
Fig. 7. Schematic diagram of experimental apparatus for SDS-CGE and protein col-
lection. (a) SDS-CGE setup with membrane collector; (b) split view of membrane PAGE system. While the resolving powers of the two methods
collector. were comparable, CGE had two significant advantages—automated
Reprinted from Ref. [117] with permission. operations and short separation times. However, P/ACE 2000
Z. Zhu et al. / Analytica Chimica Acta 709 (2012) 21–31 29

could only analyze one sample per run. When a batch of sam- 3.4. Proteins in clinical and pharmaceutical studies
ples was to be analyzed, a technician could run all of them in a
slab gel in one run, and the differences between samples were Recombinant immunoglobulin G4 (IgG4), as well as other IgG
readily recognized by direct lane-to-lane comparisons. If these antibodies, is made up of two light chains and two heavy chains. In
samples were analyzed serially by CGE, results comparisons were a normal human IgG4, disulfide bonds are formed between a light
not as straightforward, especially when the reproducibility was chain (L) and a heavy chain (H), and also between two HL dim-
poor. mers. In an abnormal IgG4, there are no disulfide bonds between
Meat quality can be indicated by the profile and quantity HL dimmers (the dimmers are linked together by only noncovalent
of water-soluble and salt-soluble proteins. Vallejo-Cordoba et al. interactions). Vasilyeva et al. [55] used an Agilent 2100 Bioanalyzer
[54] employed CGE and analyzed these proteins in bovine and to quantitate these HL dimmers of abnormal IgG4 in rMAb samples.
ostrich meats. Briefly, meats were mixed with water or saline The microchip method described in this paper was suitable for ana-
buffer (typically, 0.6 M NaCl/0.01 M phosphate buffer, pH 6.0, 0.5% lyzing samples containing HL from approximately 0.6% to at least
polyphosphates), blended and centrifuged. The filtered super- 5.2% (may be extended up to 80%). The LOD and limit of quantita-
natant, sample buffer, benzoic acid (as internal standard) and tion (LOQ) were determined to be 0.05% and 0.59%, respectively.
mercaptoethanol were mixed, boiled and then cooled down. Pro- Good correlations were obtained between this method and con-
teins in this sample were injected for CGE analysis. CGE separations ventional SDS-PAGE, and between this method and reversed-phase
were carried out on a Bio-Rad CE system (BioFocus 3000), and HPLC.
the manufacturer recommended protocols were followed. Profiles With the increasing therapeutic use of rMAbs, analyzing the
and concentrations of water-soluble and salt-soluble proteins were quality and purity of rMAbs becomes an important and routine
measured successfully in this work. task for rMAb manufacturers. Hunt and Nashabeh [26] developed
Gomis et al. [121] analyzed cider proteins and determined a CGE method for analysis of rMAbs in biopharmaceutical industry.
their relative molecular masses. Various methods were hired to The method included precolumn protein labeling, CGE separation
isolate cider proteins for CGE [122]. Chiu et al. [74] described and LIF detection. 5-Carboxytetramethylrhodamine succinimidyl
a segmental filling method for analysis of SYPRO Red labeled ester was used as a labeling reagent. CGE separations were per-
SDS–proteins by CE-LIF with electroosmotic counterflow of PEO. formed on a Bio-Rad BioFocus 3000 CE system equipped with a LIF
This method was capable of determining casein in cow’s milk below detector. This method was validated according to the guidelines
0.5 mM. of the International Committee on Harmonization and had been
used as part of a control system for the release of an rMAb phar-
maceutical in Genentech Inc. This method was optimized recently
3.3. Proteins in agricultural products [30].
Guo et al. [52] developed a non-reduced SDS-CGE method and
RuBisCo accounts for more than 50% of the soluble protein in used it to study disulfide heterogeneity in IgG2 antibodies. This
chloroplasts and is a key enzyme in the photosynthetic fixation of method was proved to be a powerful tool to get information on
carbon dioxide [123]. An accurate measurement of the quantity of the backbone structure of IgG molecules. Zhang et al. [48] opti-
RuBisCo subunits would provide an indication of a plant’s phys- mized a similar method to analyze mAb1 drug substance under
iological status. Nicolas et al. [53] established a CGE method for both reduced and non-reduced conditions. Lancher et al. [127]
analysis of RuBisCo in Spinach leaves. To prepare samples for this established a generic method for monitoring disulfide isomer het-
method, spinach leaves were freshly harvested and ground in a erogeneity in IgG2 antibodies, and applied this method for purity
chilled mortar with a portion of inert sand and some chilled buffer analysis of reduced and non-reduced IgG2 mAbs [128]. Rustandi
(100 mM Tris–hydrochloride, 0.1 mM EDTA and 1 mM ascorbic acid et al. [129] reported a wide range of applications of CGE for
at pH 8.0). The homogenate was centrifuged, and the supernatant mAb product development, including purity analyses for product
was desalted. This sample was diluted 1:1 with the CE-SDS protein release, product-related impurities during process and cell-culture
sample buffer (CE-SDS Protein Kit: Bio-Rad, Hercules, CA, USA), and development, and product stability evaluation. Cherkaoui et al.
benzoic acid was added as an internal standard (CE-SDS Protein [130] used CGE to evaluate the IgG structural integrity under vari-
Kit) to a final concentration of 50 ␮g mL−1 . After SDS–protein com- ous reduction conditions and track antibody reduction fragments.
plexes were formed, the sample was ready for analysis. An HP3D Carbonyl-modified proteins are considered markers of oxidative
capillary electrophoretic system (Hewlett-Packard, Wilmington, damage in aged tissues and diseases such as Parkinson’s, diabetes,
DE, USA) was used in the work. emphysema, and atherosclerosis [131,132]. Feng and Arriaga [133]
Chen et al. [124] also analyzed RuBisCo from leaves of Vigna developed a carbonyl detection method based on the reaction of
unguiculata. Leaf tissues were ground to a fine powder in liq- Alexa 488 hydrazide with carbonyls and on the separation of the
uid nitrogen. Proteins were extracted from leaf tissue at 0–4 ◦ C in Alexa 488-labeled compounds by CGE with a sheath flow cuvette.
80 mM Tris buffer containing 0.1 M P-mercaptoethanol, 2% (w/v) Because carbonyls on lipids, carbohydrates, and nucleic acids could
SDS, and 15% (v/v) glycerol. The extract was centrifuged and the also react with Alexa 488 [134], yielding products that would inter-
supernatant was used for protein analysis. CGE was performed with fere with the detection of carbonyl-modified proteins, the Alexa
a Bio-Rad 3000 system. Proteins in soybean seeds were also ana- 488-labeled proteins were further labeled with another fluorogenic
lyzed using CGE by Gerber et al. [125]. Blazek and Caldwell [93] reagent – FQ. FQ only reacted with proteins, and its fluorescence
compared SDS-CGE with the lab-on-a-chip technology to quan- showed little spectral overlap with that of Alexa 488. Therefore,
tify the relative amount of 7S and 11S fractions in twenty different protein peaks with fluorescence characteristics of both Alexa 488
soybean cultivars. and FQ belonged to carbonylated proteins. The method was ade-
Marchetti-Deschmann et al. [126] recently evaluated a one-step quate for analyzing nanogram protein samples with femtomole
single-grain wheat extraction process followed by a CGE-on-a-chip levels of carbonyls.
analysis for fast and reliable wheat variety control [119]. Based Mellado et al. [135] described an application of CGE for the anal-
on the results of 15 different wheat varieties grown in Austria, ysis of rotavirus virus-like particles. Particle’s apparent molecular
Marchetti-Deschmann et al. concluded that the CGE-on-a-chip masses and quantities were determined, and these results were
system was a promising alternative for the time-consuming and validated by comparing them with those obtained from traditional
labor-intensive SDS-PAGE for high-throughput food analysis. SDS-PAGE and MALDI-TOF–MS.
30 Z. Zhu et al. / Analytica Chimica Acta 709 (2012) 21–31

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