A Fluorescence Anisotropy Method for Protein Concentration Monitoring in Complex Cell Culture Media. R.C. Groza, A. Calvet, and A.G. Ryder. Analytica Chimica Acta, 821, 54-61, (2014). DOI: 10.1016/j.aca.2014.03.007 1 2 3 4 5 6 7 8 9 This is the author version of the paper, the definitive version is the ACA version. A Fluorescence Anisotropy Method for Measuring Protein Concentration in Complex Cell Culture Media. Radu Constantin Groza, Amandine Calvet, and Alan G. Ryder.* Nanoscale Biophotonics Laboratory, School of Chemistry, National University of Ireland, Galway, Galway, Ireland. 10 * Corresponding author: Email: alan.ryder@nuigalway.ie Phone: +353-91-492943. 11 12 Postal address: Nanoscale BioPhotonics Laboratory, School of Chemistry, National University of Ireland, Galway, University Road, Galway, Ireland. 13 14 Running Title: Protein quantification in media using multi-dimensional fluorescence anisotropy. 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 Abstract: The rapid, quantitative analysis of the complex cell culture media used in biopharmaceutical manufacturing is of critical importance. Requirements for cell culture media composition profiling, or changes in specific analyte concentrations (e.g. amino acids in the media or product protein in the bioprocess broth) often necessitate the use of complicated analytical methods and extensive sample handling. Rapid spectroscopic methods like multi-dimensional fluorescence (MDF) spectroscopy have been successfully applied for the routine determination of compositional changes in cell culture media and bioprocess broths. Quantifying macromolecules in cell culture media is a specific challenge as there is a need to implement measurements rapidly on the prepared media. However, the use of standard fluorescence spectroscopy is complicated by the emission overlap from many media components. Here we demonstrate how combining anisotropy measurements with standard total synchronous fluorescence spectroscopy (TSFS) provides a rapid, accurate quantitation method for cell culture media. Anisotropy provides emission resolution between large and small fluorophores while TSFS provides a robust measurement space. Model cell culture media were prepared using yeastolate (2.5 mg mL–1) spiked with bovine serum albumin (0 to 5 mg mL–1). Using this method protein emission is clearly discriminated from background yeastolate emission, allowing for accurate bovine serum albumin (BSA) quantification over a 0.1 to 4.0 mg mL–1range with a limit of detection (LOD) of 13.8 µg mL–1. Keywords: Fluorescence, Anisotropy, Total Synchronous Fluorescence Spectroscopy (TSFS), Bioprocess, Protein. Author Version of paper: Page 1 of 14 A Fluorescence Anisotropy Method for Protein Concentration Monitoring in Complex Cell Culture Media. R.C. Groza, A. Calvet, and A.G. Ryder. Analytica Chimica Acta, 821, 54-61, (2014). DOI: 10.1016/j.aca.2014.03.007 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 1. Introduction Macromolecule production using cell culture requires the use of complex nutrient media to maintain optimal physicochemical conditions for productive growth. Cell culture media have very diverse and complex chemical compositions. Despite the recent trend towards the use of chemically defined media, there are many systems where components like complex biogenic hydrolysates [1] or proteins [2] are key constituents added to improve cell growth. Most media for mammalian cell culture are complex mixtures of components with component concentrations ranging from ppm to 510% w/w, making comprehensive analysis challenging. However, the analysis and control of cell culture media variance is critical in industrial biotechnology. Conventional methods for media monitoring and specific component analysis consist of different hyphenated chromatographic techniques that make routine analysis time consuming and expensive [3, 4]. For measuring protein concentration in media solutions (without purification) the only viable option is to utilise one of the specific colorimetric based assays (e.g. Lowry, Bradford, and BCA assays) [5]. Unfortunately these methods require various degrees of sample manipulation and reagent addition, neither of which are desirable. Vibrational spectroscopy has been used for monitoring compositional changes in cell culture media, but problems can arise with spectral resolution and weak analytical signals in solution [6-10]. This is particularly the case for the macromolecular constituents of media like insulin and serum albumin where concentrations are low, typically 1–10 µg mL–1and 1–5 mg mL–1 [11] respectively. Fluorescence spectroscopy is an attractive alternative for near real time on-line/at-line and nondestructive monitoring of biogenic process and raw materials quality control [12]. This is because some significant constituents of culture media are intrinsically fluorescent, like riboflavin, pyridoxine, and the amino acids phenylalanine (Phe), tryptophan (Trp), and tyrosine (Tyr), and they can be detected at low concentrations (mg–µg/ml) [12-15]. However, the compositional complexity of cell culture media causes problems with fluorophore band overlap. For example, the intrinsic fluorescence a protein like bovine serum albumin (BSA) is dominated by emission from Trp with lesser contributions from Tyr and Phe [16]. This overlap of media amino acid and protein emission makes protein quantification difficult using standard emission spectroscopy. The situation can sometimes be resolved by the use of multidimensional fluorescence (MDF) spectroscopy techniques like Excitation Emission Matrix (EEM) or Total Synchronous Fluorescence Spectroscopy (TSFS) where one interrogates a much wider fluorescence emission space. In EEM measurements, a series of emission spectra are collected, each at a different excitation wavelength. The excitation wavelength changes incrementally so that a multidimensional plot of emission spectra versus excitation wavelength is obtained, the EEM (λex× λem× Iλex,λem) [17]. In TSFS (for example constant-wavelength mode), both excitation and emission monochromators are scanned simultaneously at the same rate (Δλ). By sequentially collecting spectra over a range of Δλ increments > ~10 nm one can generate a multi-dimensional TSFS spectrum (λem× Δλ × Iλem,Δλ) without any large Rayleigh scatter artefacts [18]. The key advantage of TSFS over EEM is the ability to easily avoid Rayleigh scatter artefacts for example when characterising very complex multi-fluorophore mixtures such as crude petroleum oils where light scatter can be a big problem [19]. One disadvantage with MDF-based methods is that data analysis of the complex data generally requires the use chemometric techniques such as multi-way PCA [20] or factor based methods like PARAFAC [21] or MCR [22]. Combining TSFS/EEM data with chemometrics provides a rapid method for the characterization of individual fluorescent components in complex mixtures such as cell culture media and bioprocess broths [12, 15, 23, 24]. In the context of rapid quality control/assessment of protein Author Version of paper: Page 2 of 14 A Fluorescence Anisotropy Method for Protein Concentration Monitoring in Complex Cell Culture Media. R.C. Groza, A. Calvet, and A.G. Ryder. Analytica Chimica Acta, 821, 54-61, (2014). DOI: 10.1016/j.aca.2014.03.007 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 containing media formulation one needs to measure protein concentration rapidly and accurately during media preparation while simultaneously verifying correct gross composition. Gross composition can easily be assessed using EEM [12, 23] and sometimes it is feasible to quantify specific fluorophores using a modified standard addition method [15]. However, this approach only works for a narrow analyte concentration range because of sensitivity to varying inner-filter/matrix effects as composition changes. Therefore for the protein concentration measurements we use another approach and exploit the intrinsic size (strictly speaking, the rotational correlation time) related information in the fluorescence emission. Fluorescence anisotropy characterizes the polarization state of the emitted light, and this in turn can be related to the physical size and/or restricted movement of a fluorophore [25, 26]. Polarization measurements can introduce a new dimension to regular MDF spectroscopy of complex materials that offers a new insight on the origin of the emitting fluorophore [27, 28]. Components in complex mixtures can be differentiated by their hydrodynamic volume and rotational speed [29]. Fluorescence anisotropy as a technique has been applied to the study of protein interactions, protein structure, reaction kinetics that occur with changes in molecule rotational time, changes of local viscosities and protein distribution in cellular membranes [16, 25, 30-34]. However, the method has only rarely been applied to complex biogenic mixture analysis [35-38] and the use of MDF with anisotropy is not common. Polarized EEM fluorescence spectroscopy has been used to study multicomponent fluorescent dyes mixtures and spin-coated polymeric thin films [39-41], but we are unaware of any application to biogenic systems. This study showed how anisotropy incorporated into MDF measurements can accurately characterise and quantify protein in cell culture media. Fluorescence anisotropy discriminates between fluorescence emissions of small molecule media components and the large molecule protein component. Yeastolate (a complex hydrolysate) spiked with BSA was used as a realistic model cell culture media akin photophysically to those used in industrial biotechnology. BSA emission [42-44] overlaps completely with the complex emission of yeastolate which contains appreciable amounts of both Trp and Tyr [12, 24]. 2. Materials and Methods 2.1 Materials: Bacto™ TC and DifcoTM Yeastolate (the water soluble portion of autolyzed yeast) was purchased from BD. Bovine serum albumin (>99%), Rhodamine B (Rh-B), glycerol (99.5%), phosphate buffer saline (PBS) tablets, and Bradford reagent were purchased from Sigma-Aldrich. All materials were used without further purification. Stock yeastolate solution (5 mg mL–1) was prepared by first dissolving 1.25 g yeastolate in sterilized high purity water (250 mL) and then membrane filtering (0.22 µm) before aliquotting under sterile conditions. A sterile, filtered BSA stock solution (10 mg mL–1) was also prepared. 80 different mixture samples were prepared by spiking 2 mL of the yeastolate solution with BSA aliquots varying from 0 to 2 mL. Samples were brought to a final volume of 4 mL by PBS buffer addition. The sample set, had a BSA concentration range of 0 to 5 mg mL–1 with a constant yeastolate concentration of 2.5 mg mL–1. All samples were prepared in triplicate and reproducibility was determined at 0.5 and 4 mg mL–1 BSA by preparing each sample 10 times. A second sample set was prepared in the same manner using PBS buffer in place of the yeastolate solution. All samples were stored at –70ºC to prevent compositional changes in yeastolate and left to defrost overnight prior to analysis. These were then pipetted into 1cm pathlength quartz cuvettes (Lightpath Optical, UK) and sealed under sterile conditions. The same samples were also analysed using the Bradford assay with an excess of 30 parts reagent to one part sample, according to the product technical bulletin (Sigma, Bradford Reagent Technical Bulletin, Product Number B 6916). Author Version of paper: Page 3 of 14 A Fluorescence Anisotropy Method for Protein Concentration Monitoring in Complex Cell Culture Media. R.C. Groza, A. Calvet, and A.G. Ryder. Analytica Chimica Acta, 821, 54-61, (2014). DOI: 10.1016/j.aca.2014.03.007 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 Samples were analysed almost immediately after addition of Bradford reagent directly into the quartz cuvettes. 2.2 Instrumentation and Data Collection: TSFS spectra were collected at 298 K (unless otherwise stated) using an Eclipse Fluorescence Spectrometer (Agilent) fitted with a manual polarizer, and a temperature-regulated Single Cell Cuvette Holder CUV-TLC-50F (Quantum Northwest). In order to produce a fluorescence anisotropy plot, four differently polarized TSFS spectra were obtained for each sample with the excitation and emission polarizer positions set for vertical-vertical (VV), verticalhorizontal (VH), horizontal-vertical (HV) and horizontal-horizontal (HH). TSFS data were obtained for an excitation range of 280–370 nm with a data interval of 1 nm (scan speed of 600 nm/min) and a Δλ interval of 20–150 nm for both monochromators with a Δλ increment of 2 nm. 10 nm excitation/emission slits were used. Each individual TSFS plot was a 66×41 data matrix (total of 2706 spectral points) and the four TSFS measurements took 15 minutes each to collect. Data collection was performed in random order over 2 months. A Shimadzu UV1601 UV-visible spectrometer was used for Bradford assay absorbance measurements at 595 nm (1 cm pathlength quartz cuvettes). 2.3 Data pre-processing and analysis: Data pre-processing and anisotropy calculations were performed using MatLab software (ver. 7.0.1) and in-house written codes. To avoid the use of noisy data in the anisotropy calculations, a minimum threshold of 10% of the HH polarized maximum fluorescence intensity was set. All spectral data points below the threshold were set as missing values. This was done because the relative fluorescence signals in the HV, and VH data were often much lower, and thus noise from the weaker data-points had an adverse effect on the calculated r values. In short, for these weakly fluorescent regions, the anisotropy values were unreliable using the data collection parameters employed. In practice the 10% threshold was found to be effective and enabled the calculation of accurate and reproducible the r-values. A second consideration for implementing the threshold limit was that it enabled a better visual interpretation of the anisotropy TSFS spectra (see supplemental information, SI). The anisotropy value for each selected matrix data point was calculated using the standard anisotropy formula (SI) and then the values used to produce anisotropy based TSFS or EEM matrices. Another practical consequence of the low intensity in the HV data was that for aniso-TSFS measurements wider excitation/emission slits were required to increase the signalto-noise ratio. Alternatively one could have increased the integration time, but this made data collection times longer and reduced sample throughput for the instrumentation used here. 3. Results and Discussion 3.1 Validation of anisotropy measurement method: The first experiments undertaken were to validate the accuracy of the anisotropy measurement across both EEM and TSFS datasets when a 10% threshold limit was implemented. These measurements were performed using a 1 µM solution of Rhodamine B (Rh-B) in a glycerol/water solution (95:05 v/v.) at 283 K. Anisotropy of the Rh-B solution was constant over the excitation range λex = 530–565 nm (λem = 573 nm) with an average rvalue of 0.3916±0.0027 and a relative standard deviation (RSD) of 0.69 % (n = 141). Changes in scan speed (150 to 3000 nm/min) did not produce any significant change in the measurement accuracy. In addition, the anisotropy of 1µM Rh-B solution calculated over this emission range had an excellent linear correlation (R2 = 0.9957) with increasing glycerol concentration (0-40% v/v., n = 5, T = 293 K), see SI. The anisotropy EEM data matrix (λex/λem = 550–590/550–640 nm) had a constant r-value across the entire emission space, apart from the spectral regions which included Rayleigh scatter (see SI). When the anisotropy was calculated for raw EEM data, Rh-B in 95% glycerol had an average rvalue of 0.392±0.017, RSD = 4.33% (n = 1388). The average anisotropy of the same Rh-B solution calculated using raw TSFS data was 0.391±0.009, RSD = 2.30% (n = 1100). The results were in good Author Version of paper: Page 4 of 14 A Fluorescence Anisotropy Method for Protein Concentration Monitoring in Complex Cell Culture Media. R.C. Groza, A. Calvet, and A.G. Ryder. Analytica Chimica Acta, 821, 54-61, (2014). DOI: 10.1016/j.aca.2014.03.007 178 179 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 agreement with published literature values (0.3916±0.0027 for 95:5 glycerol:water at 283 K) [26] and 0.350±0.003 for 90:10 glycerol:ethanol at 293 K [45]. Elimination of Rayleigh scatter reduced measurement error significantly because Rayleigh scatter is highly polarized and thus its inclusion will lead to artificially high r-values [26]. Figure 1: HH polarized TSFS spectra of a) 2.5 mg/mL yeastolate (landscape), b) 2.5 mg/mL yeastolate spiked with 2.5 mg/mL BSA (landscape), c) 2.5 mg/mL yeastolate, d) 2.5 mg/mL BSA, and e) 2.5 mg/mL yeastolate spiked with 2.5 mg/mL BSA, and f) 2.5 mg/mL yeastolate spiked with 5mg/mL BSA. 3.2 Spectral analysis: For cell culture media analysis a relatively broad spectral range was selected to include the emission domains of Trp, Tyr, and Riboflavin. This also led to the inclusion of Raman scatter in the TSFS/EEM data; however, this should not be a significant issue where the samples have a relatively strong fluorescence emission, which is the case with most cell culture media both chemically defined and biogenic hydrolysates [12, 15, 24, 46]. For more weakly emitting media, the TSFS data range could be adjusted to avoid collection of the Raman band arising from the O-H stretching band of water. Rayleigh scattering was avoided in the media TSFS spectra by use of a Δλ setting of >10 nm which both eliminated the need for light scattering removal by computational means Author Version of paper: Page 5 of 14 A Fluorescence Anisotropy Method for Protein Concentration Monitoring in Complex Cell Culture Media. R.C. Groza, A. Calvet, and A.G. Ryder. Analytica Chimica Acta, 821, 54-61, (2014). DOI: 10.1016/j.aca.2014.03.007 197 198 199 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 and improved the anisotropy calculation accuracy. A second TSFS benefit was that data collection was approximately 1.7 times quicker than EEM (for the same spectral region). Yeastolate spiked with BSA produced weaker fluorescent emission intensity than BSA alone in buffer solution at concentrations above 0.5 mg mL–1 BSA due to quenching and inner filter effects (IFE) between all the various components present the complex mixture (see SI). As to which components affect EEM emission, one has to consider not only the fluorophores, but also the nonemitting chromophores, and the quenchers present in the sample matrix. All of these species act in concert and it can be very difficult to separate out individual contributions from a complex sample matrix like cell culture media. For example, the quenchers could be any of the paramagnetic ions present in the media like Cu2+, Zn2+ and Mn2+ [17, 47]. Another important quencher present in yeastolate is free histidine (0.5% w/w according to product technical manual) which can quench emission from both free and bound Trp [48]. To further complicate matters, the quenching rate will be different for every quencher-fluorophore combination. For example free and protein bound fluorophores (e.g. Trp) have different accessibilities and thus will be affected differently by quenchers which are charged or are relatively large [47]. For the non-emissive chromophores there are a wide variety of molecular species present in yeastolate (too many to detail), all of which will either absorb the excitation or emission light to varying degrees. Finally in terms of fluorophores, yeastolate contains a variety of which Trp, Tyr, Phe, FA, and Rf are the most dominant [24]. Identifying specific component effects is not however always required as the cell culture media formulation should have a static composition when used in industrial applications [12]. This means that the fluorescence emission of the small molecule contribution (and all the processes that act on the emission) should be stable and the only variation arises from the variation in protein concentration. 219 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 The HH polarized TSFS spectra (Figure 1) of the model media, yeastolate, and BSA in buffer solution clearly showed the spectral overlap between the emission of free Trp/Tyr amino acids and Trp/Tyr residues in BSA at λex = 290–310 nm and Δλ = 20–120 nm. BSA exhibited, as expected, stronger fluorescent emission with the VV and HH measurements compared to VH/HV, due to its slower rotational speed. The most polarized emission occurs at λex/λem = 300/340 nm which corresponds to Trp emission (blue shifted compared to free Trp in aqueous solution because of incorporation into the more hydrophobic domains of the protein). For yeastolate the maximum intensity in the HH plots occurred in two regions λex/λem = 300/360 nm (closer to free Trp emission [15]) and at λex/λem = 335/425 nm. The latter band could be related to pyridoxine [49], NADH [50], or other fluorophores present in yeastolate. The polarized fluorescence emission spectra displayed very different intensity maxima as the polarizer settings were changed (see SI, Figure S-6) and were significantly lower when compared to unpolarised TSFS data. It was also noticeable that the points of maximum fluorescence intensity changed between the HH/VH and HH/VV plots with the HH data have the best correlation with protein emission. As BSA concentration increased relative to yeastolate, we observed in the HH plots that the λex/λem = 300/360 nm band blue shifted to ~ λex/λem = 300/345 nm and then became more intense relative to the λex/λem = 335/425 nm band. The position of the λex/λem = 335/425 nm band appears to remain relatively constant, with possibly a small red-shift in the excitation wavelength. 237 238 239 240 241 242 The aniso-TSFS plot of pure yeastolate solution (Figure 2a) showed that most of the emission space has negligible anisotropy. For the amino acid emission region (~λex/λem = 290–310/300–430 nm) r = 0.036 ± 0.006, which was due to the small molecular size and high rotational speed of the small molecule fluorophores. There was a small region of slightly higher anisotropy starting at λex/λem = 320 / 360 ± 10 nm which most likely correspond to highly polarized Raman scatter [26] from the OH stretching vibration (~3400 cm-1). We also considered that this artefact could have been caused by Author Version of paper: Page 6 of 14 A Fluorescence Anisotropy Method for Protein Concentration Monitoring in Complex Cell Culture Media. R.C. Groza, A. Calvet, and A.G. Ryder. Analytica Chimica Acta, 821, 54-61, (2014). DOI: 10.1016/j.aca.2014.03.007 243 244 245 246 the presence of some relatively high molecular weight fluorophores in the Bacto grade yeastolate used. However, when ultra-filtered yeastolate (M.W. cut-off <10 kDa, DifcoTM, BD) was tested we observed a similar artefact pattern and concluded that the artefact was related to Raman scattering (see SI). 247 248 249 250 251 252 Figure 2: Anisotropy TSFS contour plots of: a) 2.5 mg/mL pure yeastolate solution, b) 2.5 mg/mL yeastolate spiked with 5 mg/mL BSA; c). yeastolate spiked with 0.5 mg/mL BSA, and d). pure BSA (5 g/L in buffer). Light grey represents the highest measured anisotropy while the white areas represent the no data areas excluded by the 10% threshold limit. 253 254 255 256 257 258 259 260 261 262 263 264 265 266 267 The aniso-TSFS contour plot of the model cell culture media doped with BSA (Figure2b) was very different. Unlike the homogeneous small molecule fluorophore, Rh-B (see SI) it showed significant variations in the anisotropy values across the emission space due to the presence of multiple Trp and Tyr fluorophores in BSA. This anisotropy pattern was also clearly visible in the aniso-TSFS plot for pure BSA in buffer (Figure 2d). The striped pattern observed was generated by a variety of factors the most important of which was Förster Resonance Energy Transfer (FRET) from the Tyr to Trp residues in BSA. A second major factor was the fact that the two Trp residues (Trp-134 and Trp-212) in BSA occupied different environments. Trp-212 in BSA was located in a hydrophobic micro-environment in HSA (sub-domain IIA), while Trp-134 was localized in sub-domain IA, which was more exposed to solvent and thus in a more hydrophilic environment [51]. Thus Trp-212 emission was slightly blue shifted with respect to the Trp-134 emission. The high anisotropy part of the plot related to excitation wavelengths of >300 nm which corresponds to direct excitation of Trp (and proportionally more of the Trp-212 residue). Emission from directly excited Trp will have its polarisation preserved more so that the Trp excited by FRET from the Tyr residues. The emission of each Trp residue was in itself heterogeneous [52], which also contributed to the change in anisotropy Author Version of paper: Page 7 of 14 A Fluorescence Anisotropy Method for Protein Concentration Monitoring in Complex Cell Culture Media. R.C. Groza, A. Calvet, and A.G. Ryder. Analytica Chimica Acta, 821, 54-61, (2014). DOI: 10.1016/j.aca.2014.03.007 268 269 270 271 272 273 274 275 276 277 278 279 280 281 282 283 284 285 286 287 288 289 290 291 292 293 294 295 296 297 298 299 300 301 302 303 304 305 306 307 308 309 310 311 along the vertical λ axis. As the excitation wavelength decreased below ~300 nm, proportionally more excitation of the Tyr residues occurred, and the corresponding emission comprised of both directly excited emission from Trp and Tyr, Trp emission from hetero-FRET, and also Tyr emission via homo-FRET. Thus, as the source of the emission becomes more complex the overall anisotropy decreased. It was also clear that the anisotropy banding in the aniso-TSFS plots was subtly different for the BSA in buffer and when mixed with yeastolate. In the BSA-yeastolate mixtures, the source of emission became more complex and one had to consider the impact of all the additional small molecule fluorophores and quenchers now present. There were a number of processes and interaction pathways possible, each of which influenced the anisotropy pattern: 1). radiative energy transfer between small and large fluorophores, 2). small fluorophores from yeastolate binding to BSA, and 3). non-fluorescent small molecule ligand binding to BSA causing structural changes, which resulted in turn to changed photophysical properties. Ligand binding to BSA and the impact on fluorescence properties is well documented in the literature [47, 53], and outside the scope of this study. For BSA-yeastolate mixtures we also observed a small anisotropy increase outside the amino acid region, with r = 0.041 to r = 0.098 ±0.010 for the λex range between 330 and 370 nm. The source of this increase was identified conclusively, and it may not be entirely possible with a complex poorly characterised media like yeastolate. There were two likely contributing factors; first, the observation was due to a combination of energy transfer and quenching effects that were characteristic of complex multi-fluorophore mixtures. This was partly polarized light emission from BSA being radiatively absorbed and re-emitted by the long wavelength emitting vitamins like pyridoxine which is known to be present. The second explanation was that the partly-polarized emission observed at these longer wavelengths was due to fluorophores absorbed by BSA. These absorbed fluorophores are in a restricted environment and thus displayed a much increased rotational correlation time. For pyridoxine the absorption process (although not the anisotropy change) has been monitored using synchronous fluorescence [54]. Irrespective of which process dominated and the specific species involved, the observation was not significant in the context of the protein quantification assay, but was significant in terms of media characterisation and is the subject of on-going investigations. 3.3 Quantification of BSA in model cell culture media: Since BSA was a multi-fluorophore macromolecule with anisotropy values that were not constant across the entire emission range a data matrix had to be selected that contained sufficient anisotropy variation to produce a representative rvalue. BSA quantification was performed using anisotropy values obtained from the spectral region of maximum protein fluorescence emission (λex = 295–306 nm, Δλ = 30–58 nm, 14×11 data matrix) where the r-value was relatively constant and large. For example the anisotropy values of BSA in buffer solution remained relatively constant (0.223 ± 0.004) over the 0.1 to 5 mg mL–1 concentration range (for a 14×11 data matrix) and were in good agreement with a previously published value of 0.219 ± 0.002 obtained for dansyl-labeled BSA [55]. Anisotropy-TSFS measurements of the cell culture mixtures also showed good reproducibility, with an RSD of 0.89% at 4 mg mL–1 and 5.14% at 0.5 mg mL–1 BSA concentration respectively from 10 replicate measurements on separate samples. When data matrices varying in size from 8×5 to 20×17 centred on the same maximum emission were used, the variation in average r-values was no more than ~2%. While small changes in matrix size did not have major influence on r-value accuracy, it still was critical to specify a fixed region for quantification. Author Version of paper: Page 8 of 14 A Fluorescence Anisotropy Method for Protein Concentration Monitoring in Complex Cell Culture Media. R.C. Groza, A. Calvet, and A.G. Ryder. Analytica Chimica Acta, 821, 54-61, (2014). DOI: 10.1016/j.aca.2014.03.007 312 313 314 315 316 317 318 319 320 321 322 323 324 Figure 3: Comparison between aniso-TSFS and Bradford protein assays for yeastolate spiked with BSA. a) relationship between anisotropy/absorbance of the coloured protein complex with BSA concentration; b) Log-linear plots of BSA concentration versus anisotropy (●) and absorbance () for BSA-yeastolate mixtures and pure BSA in buffer (▲). c) relative standard deviation of both methods versus protein concentration range. Calculated anisotropy (λex = 294-305nm, Δλ=30-58nm, 14×11 data matrix, average from triplicate data). To validate the measurement method we compared the aniso-TSFS method with a common colorimetric method for protein concentration measurements, the Bradford assay. This method was based on the reaction between a dye (Brilliant Blue G) and basic amino acid residues in proteins and required a dye to protein sample volumetric ratio of 30:1. This generated a coloured complex that shifted the absorption maximum of the dye from 465 to 595 nm. For both methods the linear BSA Author Version of paper: Page 9 of 14 A Fluorescence Anisotropy Method for Protein Concentration Monitoring in Complex Cell Culture Media. R.C. Groza, A. Calvet, and A.G. Ryder. Analytica Chimica Acta, 821, 54-61, (2014). DOI: 10.1016/j.aca.2014.03.007 325 326 327 328 329 330 331 332 333 334 335 concentration ranges (Figure 3A) were small with the aniso-TSFS method being ~ 0.1–0.5 mg mL–1 and the Bradford assay 0.1–1.4 mg mL–1 (Table 1). To extend the application of both methods for higher BSA concentrations we applied a semi-log model with a LinLog plot (Figure 3b). In both cases we obtained excellent linear plots (r2>0.99) over the 0.1 to ~4 mg mL–1 concentration range. The Bradford assay measurement accuracy was slightly better at BSA concentrations above 1.5 mg mL–1, but was considerably lower at BSA concentrations below 1 mg/mL compared to aniso-TSFS (Figure 3c). For the aniso-TSFS method, a LOD of 13.8 µg mL–1 was calculated from the semi-log model. Since 1 mg mL–1 was a typical protein concentration for cell culture media this made the aniso-TSFS method an ideal rapid quantification tool, particularly since virtually no sample preparation was required. Method type Photometrical Examples Direct quantification at 280 nm [5] Protein-dye complexation (Bradford, Lowry, BCA) [5] Standard Fluorescence methods [56] SDS-PAGE [57-59] Electrophoretical Chromatographic Affinity chromatography, HPLC-UV, Size Exclusion Chromatography [60, 61] Comments requires pure protein samples. requires relatively high protein conc. non-destructive Reagent addition required. Destructive. LoD/linearity 5 - 100 μg/ml (European Pharmacopoeia 5.0 ) Trace detection possible with pure samples. Susceptible to interference (other fluorophores, pH) Non-destructive after purification. requires protein staining for visualization. semi-quantitative requires extensive sample preparation. 40 ng - 200 µg mL-1 (for Fluoroprofile protein quantitation kit) 0.1 - 1.4 mg mL-1 (Bradford assay) 250fmol BSA (Coomassie R250 staining) 1 µg – 10 mg mL-1 (Protein A HPLC method) 336 337 Table 1: Selection of common methods used for quantifying protein concentration. 338 339 340 341 342 343 344 345 4. Conclusions The increased importance of albumin as a cell culture media supplement has now gained importance [2] and thus for quality control purposes there is a need for a protein quantification method that is fast, accurate, and requires no sample treatment. This study demonstrated the application of MDF anisotropy measurements to the quantification of protein in complex aqueous mixtures. The method is rapid, non-destructive, and requires no sample handling apart from pipetting the sample into a cuvette. Operationally, the TSFS measurement approach was found to be superior to EEM because Author Version of paper: Page 10 of 14 A Fluorescence Anisotropy Method for Protein Concentration Monitoring in Complex Cell Culture Media. R.C. Groza, A. Calvet, and A.G. Ryder. Analytica Chimica Acta, 821, 54-61, (2014). DOI: 10.1016/j.aca.2014.03.007 346 347 348 349 350 351 352 353 354 355 356 357 358 359 360 361 362 363 364 365 366 367 368 369 370 371 372 373 374 375 376 377 378 379 380 381 382 383 384 385 386 387 388 389 390 391 392 393 it intrinsically eliminates the Rayleigh scattering artefacts and was somewhat faster. The aniso-TSFS method was able to clearly discriminate fluorescence emission from the large protein molecule against the complex background emission from small molecule fluorophores. The linear concentration range for aniso-TSFS method is small ~ 0.1–0.5 mg mL–1, but the semi-log range was good over the 0.1–4 mg mL–1 which covers the expected concentration range for most cell culture media. In comparison to competing analytical methods like the Bradford Assay (BA) and A280 absorption spectroscopy method, the aniso-TSFS requires no sample preparation whereas BA requires the addition of reagents and A280 requires a significant amount of sample preparation to remove all the interfering components from the media (Table 1). Furthermore, neither A280 nor BA methods generate any additional detailed “collateral” information for variance analysis. The advantages of using MDF measurements rather than single point or 1D spectral anisotropy measurements are two-fold. First, the aniso-TSFS measurement provides data that can be used for the identification and variance analysis [12, 24] or yield prediction [24], using chemometric analysis. Second, the method provides more in-depth information about molecular composition in terms of fluorophore size and interactions between small and large fluorophores. These two topics are the subject of on-going investigations in our laboratory with a view to deliver a comprehensive MDF based analytical platform for cell culture media analysis. Initially we had also intended to apply multi-way chemometric methods to generate a quantitative model, but since this simpler approach delivers sufficient accuracy there was no need. However, the TSFS data collected in the course of the measurement can be used for other tasks such as ID/variance analysis [12, 24] or productivity prediction [23, 62] both of which have been demonstrated with the closely related EEM measurement method. Apart from the media analysis tasks described above, this aniso-TSFS method can and will be applied to a variety of other protein based systems, for instance we envisage that one could use this for the quantitative analysis of formulated protein therapeutics where intrinsically fluorescent excipients are present. Another application of this method lies in the potential for assessing protein conformational change in-situ without the need to purify the protein for analysis. These and several other unique applications are currently being investigated in our laboratory. 5. Acknowledgements Research was supported by funding from the Irish Research Council ‘EMBARK Initiative’ Postgraduate Scholarship to RCG and the loan of a Cary Eclipse fluorescence spectrometer by Agilent Technologies. 6. Supplemental information available Supporting information is available at http://dx.doi.org/10.1016/j.aca.2013.12.001. References [1] C.F. Shen, T. Kiyota, B. Jardin, Y. Konishi, A. 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