Development of an intensified fed-batch production platform with doubled titers using N-1 perfusion seed for cell culture manufacturing

Abstract

The goal of cell culture process intensification is to increase volumetric productivity, generally by increasing viable cell density (VCD), cell specific productivity or production bioreactor utilization in manufacturing. In our previous study, process intensification in fed-batch production with higher titer or shorter duration was demonstrated by increasing the inoculation seeding density (SD) from ~ 0.6 (Process A) to 3–6 × 10⁶ cells/mL (Process B) in combination with media enrichment. In this study, we further increased SD to 10–20 × 10⁶ cells/mL (Process C) using perfusion N-1 seed cultures, which increased titers already at industrially relevant levels by 100% in 10–14 day bioreactor durations for four different mAb-expressing CHO cell lines. Redesigned basal and feed media were critical for maintaining higher VCD and cell specific productivity during the entire production duration, while medium enrichment, feeding strategies and temperature shift optimization to accommodate high VCDs were also important. The intensified Process C was successfully scaled up in 500-L bioreactors for 3 of the 4 mAbs, and quality attributes were similar to the corresponding Process A or Process B at 1000-L scale. The fed-batch process intensification strategies developed in this study could be applied for manufacturing of other mAbs using CHO and other host cells.

Introduction

Monoclonal antibody (mAb) product development has had great success with over 80 mAbs granted marketing approvals, while the commercial pipeline is robust with over 570 mAbs in different clinical development stages (Ecker et al. 2015; Kaplon and Reichert 2019; Walsh 2018). Global annual sales of mAbs were above $115 billion in 2018 and are predicted to rise above $300 billion in 2025 (Lu et al. 2020). These great achievements are partially due to the higher approval success rates for mAbs than small molecule drug products (Hay et al. 2014; Kaplon and Reichert 2019). Although great progress has been made in mAb process development, the manufacturing cost remains much higher for mAbs than small molecules. In order to reach more patients, reduce supply shortages and compete with biosimilars, reducing mAb manufacturing costs (e.g. by increasing cell culture titer, while maintaining desired quality) remains a major challenge (Du et al. 2019; Kunert and Reinhart 2016; Xu et al. 2018).

Current fed-batch mAb manufacturing platforms are durable and robust and have not yet fully matured (Bielser et al. 2018; Croughan et al. 2015; Kelley et al. 2018; Yongky et al. 2019). From the 1980s to the 2010s, manufacturing titers improved from tens of mg/L to ≥ 3 g/L by cell line engineering (Lin et al. 2019; Wurm 2013), media development (Galbraith et al. 2018; Huang et al. 2010; Xu et al. 2018), and process control improvements (Tang et al. 2020; Xu et al. 2019; Yoon et al. 2003) achieving higher cell specific productivities, increased peak VCDs, and prolonged high productivity durations (Kunert and Reinhart 2016; Li et al. 2010; Rader and Langer 2015; Wurm 2004). Higher titers continue to be reported in recent literature (e.g. 9–10 g/L titer in 14–18 days) (Handlogten et al. 2018; Huang et al. 2010; Takagi et al. 2017), suggesting that potential remains for further increases in productivity and reduction in cost using fed-batch operation.

In order to continue increasing volumetric productivity, many companies are pursuing process intensification, which has been used for decades in the chemical industry with continuous operation methods to improve process yield, increase product value and reduce facility footprints (Moulijn and Stankiewicz 2017; Stankiewicz and Moulijn 2000). Three parameters to increase volumetric productivity in an intensified upstream cell culture process are increasing viable cell densities, enhancing cell specific productivity, and increasing bioreactor utilization in manufacturing (including decreasing the non-productive bioreactor turnaround phase and the less-productive cell growth phase and late production phase) (Chen et al. 2018). Continuous cell culture with perfusion (i.e., perfusion production) has been successfully applied in bioprocessing, mainly to produce cells or viruses (Gallo-Ramírez et al. 2015) and low titer or unstable proteins and enzymes as the intended products (Warikoo et al. 2012). However, perfusion production processes still make up less than 10% of all commercial mammalian cell culture processes in the industry, because of challenges in process development and process characterization, complex operation requirements with high demands on automation and modeling, and the design of most manufacturing facilities for fed-batch operation (Bielser et al. 2018; Croughan et al. 2015; Kelley et al. 2018; Yongky et al. 2019).

The concept of process intensification for fed-batch cell culture has been proposed in several recent studies (Jordan et al. 2018; Yongky et al. 2019). A higher initial seeding cell density (SD) of ≥ 2 × 10⁶ cells/mL in fed-batch production bioreactors can be achieved by implementing N-1 perfusion seed culture, which can achieve a much higher final VCD than conventional batch N-1 seed culture. Essentially, the early growth phase for fed-batch production is moved to the N-1 seed culture step, reducing the overall fed-batch production duration with similar final titer but higher volumetric productivity (Padawer et al. 2013; Pohlscheidt et al. 2013; Yang et al. 2014). Two major advantages of this approach (i.e. fed-batch production with N-1 perfusion) over perfusion production (N) culture are: (1) less perfusion medium is required, decreasing the overall raw material cost, and (2) only small changes at the N-1 seed step are required for implementation in existing fed-batch manufacturing facilities.

In this report, we present the development of an intensified fed-batch platform for production of multiple mAbs using CHO K1 GS cell lines. In our previous study, it was demonstrated that production titer could be significantly improved by increasing SD from ~ 0.5 × 10⁶ to 3–6 × 10⁶ cells/mL in the non-perfusion intensified fed-batch process (Yongky et al. 2019). In this study, we increased industrially relevant titers for multiple mAbs from the non-perfusion intensified fed-batch with 3–6 × 10⁶ cells/mL SD by over 100% by utilizing perfusion N-1 intensified fed-batch with 10–20 × 10⁶ cells/mL SD within a 10–14 day bioreactor duration. It was identified that basal and feed optimization by rebalancing all components was critical for high SD fed-batch culture to achieve high titer. In addition, we present data for the intensified processes scaled up in 500-L bioreactors with quality attributes similar to the previous processes in 1000-L bioreactors.

Materials and methods

Cell line, media and seed expansion

Four CHO K1 GS cell lines, which were created from the same parental CHO K1 GS cell line, were used for the expression of 4 proprietary human mAbs (mAb1, mAb2, mAb3, and mAb4). Proprietary chemically defined seed, basal, and feed media were used (Table 1). In order to simplify medium preparation, shipment and storage for manufacturing, dry powder media were made by medium vendors and then in house liquid basal and feed media were prepared before cell culture runs by dissolving those dry powder media in deionized water. Vial thaw and seed expansion steps for all 4 cell lines were performed using shake flasks (Corning Life Sciences) containing B1 medium with methionine sulfoximine as a selection agent and cultivated in a humidified incubator (Climo-Shaker, Kuhner) using standard conditions of 36.5 °C, 5% CO₂ and 95–150 rpm. Cells were passaged every 3–4 days prior to N-1 seed inoculation.

Table 1 Medium nutrient concentrations used in Process A, Process B and Process C

For scale-up runs, N-2 seed cultures were run in WAVE bioreactors with temperature maintained at 36.5 °C. For a non-perfusion WAVE bioreactor, the N-2 seed cultures were cultivated in 50-L cell bags (GE Healthcare) with a 25-L working volume. Rocking speed was controlled at 26 rpm with a 7° rocking angle. Air and CO₂ gas flow rates were properly controlled to ensure good cell growth for a duration of 3 days. For a perfusion N-2 WAVE bioreactor, the seed cultures were cultivated in 50-L cell bags (GE Healthcare) with a 25-L working volume. Rocking speed was controlled at 28 rpm with a 7° rocking angle. Air and CO₂ gas flow rates were properly controlled to ensure a good cell growth for a duration of 4 days. The perfusion cell bag was equipped with a 0.2-µm filter to perfuse the spent culture medium while retaining the cells. Fresh B1 medium was added continuously and spent culture medium was continuously withdrawn at the same perfusion rates.

N-1 seed cultures

The cells for batch and enriched batch N-1 seed cultures were grown either in shake flasks, 5-L (glass, Sartorius), 20-L (glass, Applikon) or 200-L bioreactors (single-use Xcellerex, GE Healthcare) depending on scales of fed-batch production bioreactors as described in “Results” section. B1 medium with methionine sulfoximine as a selection agent was used for Process A and Process C, and Process B for mAb3 only, while enriched B1 medium with methionine sulfoximine was used for Process B for mAb1 and mAb2. The N-1 bioreactors were run in batch mode for Process A and Process B and in perfusion mode for Process C. For perfusion N-1, an auxiliary alternating tangential flow (ATF) device (Repligen) was connected to the bioreactor to perfuse the culture. Stainless steel ATF-2 units were used in lab-scale N-1 perfusion with 5-L and 20-L bioreactors, while single-use ATF-6 units were used in large-scale N-1 perfusion with 200-L bioreactors. Fresh culture medium was continuously added while spent culture medium was continuously removed at the same rate. Perfusion rate was controlled as a function of VCD as measured by an online capacitance probe (Hamilton). Perfusion was started on Day 1 at a rate of 0.04 nL/cell/day for mAb1, mAb2 and mAb4 and a rate of 0.08 nL/cell/day for mAb3. Temperature and dissolved oxygen were maintained at 36.5 °C and 40%, respectively, and pH controlled with a setpoint of 7.2.

Fed-batch production cultures

Fed-batch production bioreactor runs were performed using 5-L, 500-L (single-use Xcellerex, GE Healthcare) and 1000-L (single-use Xcellerex, GE Healthcare) bioreactors for 14 days unless otherwise specified. Basal and feed media for production cultures are summarized in Table 1. Dissolved oxygen was maintained at 40% and pH was controlled at a setpoint of pH 7.1–7.2 using 1 M Na₂CO₃ and CO₂ gas. Other bioreactor conditions are as described in “Results” section.

In-process cell culture and quality attribute assays

Cell culture broth was sampled from each bioreactor daily and directly analyzed for gases, cell count, nutrients, and metabolites. Offline pH, pCO₂ and pO₂ were measured using a Bioprofile pHOx analyzer (Nova Biomedical). VCD and cell viability were quantified off-line using a Vi-CELL XR automatic cell counter (Beckman Coulter). Glucose, glutamine, glutamate, lactate, and ammonia were quantified using a CEDEX Bio HT analyzer (Roche).

For titer measurements, the cell culture broth was centrifuged at 500–1000g for 5–10 min, and the supernatant was analyzed using a Protein A UPLC method. The normalized titer, expressed as normalized weight/L, was equal to the true titer (g/L) at each time point divided by the average of final (Day 14) Process C titer (g/L) at 500-L scale for mAb1 and mAb3, by the average of Day 10 Process C titer at 5-L scale for mAb2, or by the final (Day 12) Process C titer at 500-L scale for mAb4, respectively. Overall cell specific productivity (normalized weight/cell/day) and overall volumetric productivity (normalized weight/L/day) were calculated based on normalized titers. Overall cell specific productivity and overall volumetric productivity or space time yield were calculated according to the literature (Bausch et al. 2019).

Similar methods as described in our previous report (Yongky et al. 2019) were used for in-process quality attributes. For example, charge variant species (acidic, main and basic) were measured by imaged capillary isoelectric focusing for mAb1, mAb2, and mAb3 and by cation exchange (CEX) liquid chromatography for mAb4. N-Glycan profiles (e.g. G0, G0F, G1F, G2F and Man5) were measured using a commercially available RapiFluor-MS N-Glycan kit from waters. Size exclusion chromatography was used to measure high molecular weight (HMW) and low molecular weight (LMW). Prior to quality measurements, the supernatant samples were purified by Protein A chromatography.

Results

Platform evolution of fed-batch process intensification for mAb manufacturing

In this study, we developed an intensified fed-batch process platform for cell culture manufacturing of stable mAbs. As shown in Table 2, the development of a cell culture platform started from the conventional fed-batch Process A with 0.3–1.5 × 10⁶ cells/mL SD, which typically achieved a normalized titer of 0.1–0.3 (normalized to the titers observed in the intensified Process C). The N-1 seed culture was run in batch mode for the conventional fed-batch Process A (Table 2). Next, an intensified platform fed-batch Process B was developed with 3.0–6.0 × 10⁶ cells/mL SD, which typically achieved a normalized titer of ~ 0.5 (Table 2). The N-1 seed culture was run in a batch mode with enriched seed medium in order to inoculate the production fed-batch culture at a higher SD than in the conventional fed-batch Process A (Table 2). More detailed development data for the non-perfusion intensified fed-batch platform were presented in our previous report (Yongky et al. 2019). In this report, detailed data on the development of a further intensified platform fed-batch Process C are presented with 10–20 × 10⁶ cells/mL SD, which achieved a normalized titer of 1.0 (Table 2). To inoculate the production bioreactors at 10–20 × 10⁶ cells/mL SD, the N-1 seed culture was run in a perfusion mode (Table 2).

Table 2 Cell culture platform evolution from conventional to intensified fed-batch production

In addition to increasing SD, efforts on medium development were required to support the higher SD and the significant titer improvement (Tables 1 and 2). B1 basal and F1 feed were used for Process A, e.g. Process A for production of mAb1 and mAb4 (Table 1). Process B media composed of the same base formulation as B1 and F1 using the same dry powder media, but with typically increased component concentrations compared to the Process A formulations and with varied ratios of the dry powders for the production of the different mAbs (i.e., B1 enriched1 and B1 enriched2; Table 1). Medium development from Process A to Process B was performed by analyzing spent medium data, increasing concentrations of components depleted during the production culture, and enriching or concentrating basal and feed formulations. Using mAb1 as an example, the basal was enriched from Process A to Process B: total amino acids increased from 69 to 99 mM, glucose increased from 6 to 10 g/L and osmolality increased from 300 to 380 mOsm/kg from Process A to Process B (Table 1). Similarly, the feed for mAb1 was enriched from Process A to Process B: total amino acids increased from 344 to 404 mM, glucose increased from 60 to 78 g/L and osmolality increased from 1310 to 1450 mOsm/kg from Process A to Process B (Table 1). In addition to mAb1, Process B basal and feed media were developed with similar strategies for mAb2 and mAb3 production with approximately 6–9 months for each project before 1000-L manufacturing.

In order to support the continued increase in SD from Process B (SD = 3.0 to 6 × 10⁶ cells/mL) to Process C (SD = 10 to 20 × 10⁶ cells/mL), more significant medium development efforts were required rather than simply increasing the concentration of most components. The base formulations for the platform Process C basal (B2) use new dry powder media that were rebalanced when compared to the enriched B1 formulations in Process B. Overall, changes were made to the concentrations of 52 individual components, including addition or removal of some components and increasing or decreasing concentrations for others. For example, the enriched B1 for mAb1 Process B had similar concentrations of total amino acids to the B2 used for mAb3 Process C; however, the concentrations of vitamins, lipids, salts and other components were rebalanced leading to significant differences in final osmolality (Table 1). In parallel, similar rebalance work was carried out to develop a new feed F2 from F1. For example, F2 for Process C and enriched F1 for Process B had similar total amino acid concentrations of ~ 404 mM for mAb1, but F2 had a higher osmolality (Table 1) with changes in the concentrations of more than 30 components. After rebalancing, the new media B2 and F2 or enriched or concentrated derivatives were suitable for the high SD cultures leading to significantly titer improvements when compared to previous processes, as shown in following case studies for production of 4 mAbs.

In addition to SD and medium development, other cell culture process parameters such as feeding strategies and temperature shift played positive roles during process development. A detailed strategy for how to optimize temperature shift conditions is published in our previous report (McHugh et al. 2020). Although temperature shift may not be required for conventional fed-batch with only 0.3–1.5 × 10⁶ cells/mL SD, temperature shift may be required for many intensified fed-batch processes with 3–20 × 10⁶ cells/mL SD. In general, a higher nutrient strength was required to maintain healthy cultures at higher SD, typically leading to an earlier feed start date with a larger feed volume. In addition, since the cell growth phase was shortened in the early stages of the intensified Process C, temperature shift was typically on an earlier day or to a lower temperature for Process C than for Process B. In order to maximize titer for each process, the process parameters for Process B or Process C were optimized in lab before scale-up runs in 500-L or 1000-L bioreactors for each of 4 mAbs, as presented below.

Intensified Process C development for mAb1 production

Comparison of mAb1 Process B in 1000-L bioreactors and Process C in 500-L bioreactors

The large-scale bioreactor performance for N-1 seed and fed-batch production bioreactors, and the in-process quality attributes are presented in Fig. 1 for mAb1 Process B and Process C. The changes made from mAb1 Process B to Process C are summarized in Table 3. For N-1 cultures, the perfusion seed culture achieved a much higher final VCD of about 100 × 10⁶ cells/mL for Process C when compared with the enriched batch N-1 culture which achieved a final VCD of about 16 × 10⁶ cells/mL for Process B (Fig. 1a). Due to the high final VCD for the perfusion N-1 seed, the viability dropped to about 95% on Day 6, while the enriched batch N-1 seed for Process B maintained cell viability above 99% for the entire 4-day duration (Fig. 1b). In the production bioreactor, the VCD for Process C with 16 × 10⁶ cells/mL SD was not only much higher in the beginning of culture than the VCD for Process B, but Process C also maintained higher VCD through the entire 14-day duration (Fig. 1c). Due to lower viability at the end of the perfusion N-1 step for Process C (Fig. 1b), the viability for Process C was slightly lower than in Process B at the beginning of the fed-batch production, but the Process C viability increased and trended similarly to Process B from Day 2 on (Fig. 1d). There was a viability dip in the middle of the run for Process B, which was not seen for Process C (Fig. 1d). The improved cell VCD and viability profiles for Process C may be due to the rebalanced and enriched basal and feed media as cell culture media is generally considered a critical factor in affecting cell growth (Table 1). Importantly, the titer for Process C was approximately doubled compared to the titer of Process B throughout the entire 14-day duration (Fig. 1e), while in-process quality attributes, e.g. charge variant species, N-glycans, and SEC impurities, were similar between Process B and C (Fig. 1f). The doubled titer and volumetric productivity for mAb1 Process C compared with Process B can be attributed to both higher VCD and higher cell specific productivity (Table 4).

Fig. 1

a Viable cell density (VCD) and b cell viability profiles for the batch N-1 seed at 200-L scale for Process B and the perfusion N-1 seed at 200-L scale for Process C; c VCD; d cell viability; e normalized titer, and f in-process quality attribute profiles on Day 14 at harvest for the subsequent fed-batch cell culture performance using Process B in 1000-L bioreactors and Process C in 500-L bioreactors for mAb1 production. The maximum titer on Day 14 for Process C at 500-L scale was normalized as 1 for mAb1. Process B values are reported as average ± standard deviation (n = 5), while Process C values are reported as average ± difference/2 (n = 2)

Table 3 Changes in Process C for different mAb production

Table 4 Cell culture performance comparison between fed-batch Process C and Process A or B for different mAb production on Day 14 unless otherwise specified

It should be noted that Process B had been optimized using 6 runs of high-throughput screening with 96 × 50-mL TubeSpin bioreactors per run and 14 runs of 6–12 lab-scale (5-L) bioreactors per run over more than 6 months before the 1000-L large-scale runs, as described previously. The critical changes from Process B to C, i.e., significantly higher SD at 16 × 10⁶ cells/mL and rebalanced media, resulted in the significant improvement of titer in Process C, which is further discussed in the section below.

Effect of SD and media on mAb1 cell culture performance using different processes in 5-L bioreactors

In order to understand the effects of SD and media on cell culture performance for mAb1 production, a more systematic study was performed with different production inoculation cell densities, media and process conditions using the same N-1 seed source run at perfusion mode (Table 5). To accommodate different SD and medium strengths, feed start dates and temperature shift timing were adjusted for different 5-L bioreactor conditions based on our empirical experience (Table 5). In general, the conditions with higher SD had earlier feed start dates and earlier temperature shifts (Table 5).

Table 5 Experimental design for the study of effects of inoculation cell densities and media on mAb1 production in fed-batch 5-L bioreactors (n = 2)

For Process B medium conditions, the VCD values increased with increasing SD for the first half of the bioreactor duration, and the higher SD cultures reached their peak VCD at an earlier time (solid lines in Fig. 2a). For Process C medium conditions, similar results were observed (dotted lines in Fig. 2a). However, Process C medium conditions had generally lower VCD than Process B medium conditions using the same SD (Fig. 2a), which can be attributed to the fact that Process C media with higher nutrient strength and osmolality (Table 1) inhibits cell growth but increases cell specific productivity (Table 4). The Process A VCD profile with 1.5 × 10⁶ cells/mL SD was between Process B and Process C conditions using 3 × 10⁶ cells/mL SD (Fig. 1a). The different VCD profiles for different conditions were contributed by overall effects of different media, SD, feeding strategies and temperature shift conditions.

Fig. 2

a Viable cell density (VCD) and b normalized titer profiles for the fed-batch cell culture performance using different media (Process A, B and C) and inoculation seeding density (SD) in 5-L bioreactors for mAb1 production. The maximum titer on Day 14 for Process C at 500-L scale was normalized as 1 for mAb1, as described in Fig. 1 legend. Values are reported as average ± difference/2 (n = 2)

There was a clear trend of increasing titer from Process A (dashed line), to Process B (solid lines) and to Process C (dotted lines) (Fig. 2b), which was attributed to the combination of increasing SD and medium optimization (Table 1). Increasing SD alone did not increase final titer, but achieved the final titer at a shorter culture duration for the Process B medium conditions (three solid lines in Fig. 2b). This was in agreement with many other reports that claim that increasing SD significantly shortened the culture duration (Padawer et al. 2013; Pohlscheidt et al. 2013; Yang et al. 2014). Interestingly, the change in media from Process B to Process C alone did not improve titer drastically either, when SD was maintained at the relatively low value of 3 × 10⁶ cells/mL (Fig. 2b). The significant titer improvements observed between the Process B and the Process C platforms require both the increase in SD from 3 to 10–20 × 10⁶ cells/mL as well as the medium concentration and rebalancing efforts that went into generating the Process C media (Fig. 2b). Although there was a minimal effect of SD on final titer using Process B media (solid lines, Fig. 2b), each increase in SD for the Process C medium conditions led to an increase in final titer (dotted lines, Fig. 2b).

Other measured metabolites and process parameters were in safe cell culture ranges for all conditions, including lactate (< 2.5 g/L, Fig. 2b), glucose (2–6 g/L after dropping from the initial value of ~ 9 g/L, Fig. 2d), ammonia (< ~ 6 mM, Fig. 2e), and osmolality (< 500 mOsm/kg, Fig. 2f). The exception was observed for glucose at ~ 10 g/L on Day 4 due to an operation issue for the Process A condition (Fig. 2d), which did not cause lactate buildup (Fig. 2c). Therefore, the differences in VCD (Fig. 2a) and titer profiles (Fig. 2b) were not caused by excessive buildup of these metabolites or osmolality.

Intensified Process C development for mAb2 production

Comparison of mAb2 Process B in 1000-L bioreactors and Process C in 5-L bioreactors

The comparison of Process B and C is shown in Fig. 3 for mAb2 production. The N-1 seed culture for Process C reached much higher final VCD because of perfusion (Fig. 3a), while the cell viability profiles were similar (Fig. 3b).

Fig. 3

a Viable cell density (VCD) and b cell viability profiles for the enriched N-1 seed at 200-L scale (n = 5) for Process B and the perfusion N-1 seed at lab scales (n = 3) for Process C; c VCD; d cell viability, and e normalized titer profiles for the subsequent fed-batch cell culture performance using Process B in 1000-L bioreactors (n = 5), Process B in 5-L satellite bioreactors (n = 4) using the same N-1 seed as 1000-L and Process C in 5-L bioreactors (n = 4) for mAb2 production. The titer on Day 10 for Process C at 5-L scale was normalized as 1 for mAb2. Values are reported as average ± standard deviation (n ≥ 3)

Both 1000-L runs and 5-L satellite runs using the same 200-L N-1 seed for Process B achieved similar VCD (Fig. 3c), viability (Fig. 3d) profiles, and almost exactly the same titer profiles (Fig. 3e). This indicates that there is comparable performance at 5-L and 1000-L scale for mAb2 Process B. In fact, there were not any significant issues during scale up of Process A, Process B and Process C from lab to large scales for all mAbs in this study (data not shown). The VCD in fed-batch production for Process C was much higher than the VCD in the fed-batch production for Process B (Fig. 3c). Although the viability for Process C was slightly lower than Process B, the viability for both processes remained high (above 95%) until Day 10 (Fig. 3d). Process C achieved approximately double the titer of Process B for the entire culture duration (Fig. 3e). The increased titer and volumetric productivity in Process C were mainly attributed to significantly higher VCD in the production stage, since the cell specific productivities were comparable between Process B and Process C (Fig. 3 and Table 4).

The changes from Process B to Process C for mAb2 are shown in Table 3. Similar to mAb1, Process B for mAb2 had been well developed, using many high-throughput runs with 96 50-mL TubeSpin bioreactors per run and lab 5-L runs for about 6 months before mAb2 1000-L runs (data not shown). Two major changes from Process B to Process C, e.g. increased SD at 15 × 10⁶ cells/mL and the rebalanced media with new dry powder media, were not tested during Process B development. The higher SD kept VCD higher at the beginning of cell culture, while rebalanced enriched B2 and rebalanced enriched F2 sustained higher VCD through the entire production bioreactor duration for Process C than Process B.

Effect of different N-1 modes, SD and media on mAb2 cell culture performance in 5-L bioreactors

Although the same platform CHO K1 GS parental cell line was used for the cell line creation of all 4 mAbs, some differences in cell culture performance often exist for production of different mAbs, which could require different media and bioreactor conditions. Therefore, the effect of SDs and different media compositions including the optimized media for the cell lines producing mAb1 and mAb2 were studied for production of mAb2. For the same SD of 15 × 10⁶ cells/mL, condition 1 with B2 enriched2 and 1.3 × F2 enriched2 (i.e., the lead condition for mAb2 Process C) media gave the highest normalized titer at 1.19, while condition 2 with B2 enriched2 and F2 (i.e., the lead condition for mAb1 Process C) and condition 3 with B1 enriched2 and 1.3 × F1 enriched1 (i.e., the lead condition for mAb2 Process B) gave similar normalized titers of 0.78–0.8 (Table 6). The basal for mAb1 and mAb2 Process C (B2 enriched2) had 137 mM total amino acids which was higher than the 118 mM total amino acids in the basal of mAb2 Process B (B1 enriched2). However, the feed for mAb1 Process C (F2) had 404 mM amino acids, which was lower than 446 mM amino acids for the feed of mAb2 Process B (1.3 × F1 enriched1; Table 1). Thus, total amino acid content was higher in the basal for condition 2 (B2 enriched2 and F2) and higher in the feed for condition 3 (B1 enriched2 and 1.3 × F1 enriched1), leading to similar medium nutrient strengths overall and likely contributing to the similar titers observed in these 2 conditions (Table 6). In comparison, the optimized basal and feed media for mAb2 Process C contained the highest amino acid concentrations among all media tested (Table 1), which was a reason why condition 1 achieved the highest titer (Table 6). In comparison to mAb1, the mAb2 cell line required more nutrients for optimal growth and protein production.

Table 6 Normalized titers on Day 14 for mAb2 production using different N-1 seed cultures, production inoculation cell densities (SD) and media in 5-L fed-batch bioreactors

Another interesting phenomenon was that condition 6 with B1 enriched2 and 1.3 × F1 enriched1 (i.e., mAb2 Process B media) achieved much higher titer in comparison to condition 5 with B2 enriched2 and F2 (i.e., mAb1 Process C media), when SD was at 3 × 10⁶ cells/mL using a batch N-1 seed with enriched media (Table 6). This is consistent with the data for mAb1 obtained at the lower SD of 3 × 10⁶ cells/mL suggesting that Process C media may not always be superior to Process B media (Fig. 2). In addition, condition 4 with the perfusion N-1 seed achieved a lower titer than condition 5 with the batch N-1 seed using enriched media, when the fed-batch production was inoculated at 3 × 10⁶ cells/mL with B2 enriched2 and F2 (Table 6). Thus, perfusion N-1 seed may not always be better than the batch seed with enriched media. Overall, it is apparent that there are strong interactions among different cell lines, target proteins, N-1 culture modes, production media and SDs (Table 6), for development of an intensified fed-batch cell culture process for mAb manufacturing. Even with a strong cell culture platform, a few optimization studies are still required to determine optimal growth and production conditions for each new mAb.

Intensified Process C development for mAb3 production

In order to develop a platform-intensified Process C using perfusion N-1 seed cultures, we performed cell culture studies using similar strategies for production of two more mAbs, i.e., mAb3 and mAb4. The comparison of cell culture performance between mAb3 Process B and C in large-scale bioreactors are shown in Fig. 4. Although mAb3 Process B was well developed before 1000-L runs (data not shown), the VCD profile including peak VCD for Process C in 500-L bioreactors were almost doubled over Process B in 1000-L bioreactors (Fig. 4a). Although the cell viability for Process C was slightly lower than Process B in the end of cell culture (Fig. 4b), titer for Process C was doubled (Fig. 4c), while in-process quality attributes, e.g. charge variant species, N glycans and SEC impurities, were similar between Process B and C (Fig. 4d). The twofold increases in titer and volumetric productivity for Process C were mainly attributed to the much higher VCD compared to Process B, while cell specific productivity was similar between Process B and Process C (Table 4 and Fig. 4).

Fig. 4

a Viable cell density (VCD); b cell viability; c normalized titer, and d in-process quality attribute profiles on Day 14 at harvest for the subsequent fed-batch cell culture performance using Process B in 1000-L bioreactors and Process C in 500-L bioreactors for mAb3 production. The maximum titer on Day 14 for Process C at 500-L scale was normalized as 1 for mAb3. Most of the Process B values are reported as average ± standard deviation (n = 3) except that quality attributes are reported as average ± difference/2 (n = 2) because only two Day 14 samples were available for in-process quality assays, while Process C values are reported as average ± difference/2 (n = 2)

The changes from Process B to Process C for mAb3 are shown in Table 3. One of the major differences was N-1 culture mode which changes from batch (Process B) to perfusion (Process C), resulting in much higher final VCD in the N-1 to enable much higher SD in the subsequent fed-batch production bioreactor (Table 3 and Fig. 4a). In addition, rebalanced B2 basal and F2 feed maintained higher VCD during the entire 14-day duration for Process C than Process B, which significantly contributed to the titer improvement.

Intensified Process C development for mAb4 production

The intensified Process C data for mAb4 production, including both 5-L and 500-L runs, were directly developed from Process A (Fig. 5). With previous Process C knowledge from other mAbs, mAb4 Process C was developed in just over 3 months. This shows one advantage of a strong platform in drastically reducing process development timelines. The intensified Process C was successfully scaled up from the 5-L to 500-L bioreactor scale (Fig. 5). Since only one fed-batch run at 500-L scale for mAb4 Process C is available, 5-L run Process C data with 4 replicates at the production bioreactor step is included to demonstrate the reproducibility (Fig. 5). The N-1 perfusion seed culture reached a final VCD of more than 100 × 10⁶ cells/mL for Process C, which was more than tenfold higher than the batch N-1 seed with a final VCD of about 8 × 10⁶ cells/mL for Process A (Fig. 5a). Similar to mAb1, the final viability for mAb4 Process C was slightly lower than the batch seed (Fig. 5b). Due to the high SD at 16 × 10⁶ cells/mL, the VCD profile for Process C was significantly higher than Process A with a SD of only 1.5 × 10⁶ cells/mL, while the 500-L achieved a slightly higher VCD profile than 5-Ls for Process C (Fig. 5c). The cell viability profiles were similar for both Process A at 1000-L and Process C at 500-L for the entire duration, while lower cell viability was observed at 5-L scale (Fig. 5d). Although the VCD increase for mAb4 Process C was not as large as for mAb2 and mAb3, the titer was more than tripled from Process A to Process C (Fig. 5e), while quality attributes were comparable from Process A to Process C (Fig. 5f).

Fig. 5

a Viable cell density (VCD) and b cell viability profiles for the batch N-1 seed at 200-L scale (n = 5) for Process A, the perfusion N-1 seed at 5-L scale (n = 3), and the perfusion N-1 seed at 200-L scale (n = 1) for Process C; c VCD, d cell viability, e normalized titer profiles, and f in-process quality attribute profiles at harvest for the subsequent fed-batch cell culture performance using Process A in 1000-L bioreactors (n = 5), and Process C in 5-L bioreactors (n = 4) and 500-L bioreactor (n = 1) for mAb4 production. The maximum titer on Day 12 for Process C at 500-L scale was normalized as 1 for mAb4. All Process C values at large scale are n = 1, Process A quality attributes are reported as average ± difference/2 (n = 2, because only two Day 14 in-process samples were available), and all other values are reported as average ± standard deviation (n = 3–5)

The changes from Process A to Process C for mAb4 are shown in Table 3. In addition to the changes for N-1 from batch to perfusion, higher SD at 10–20 × 10⁶ cells/mL and rebalanced B2 and F2, the basal was concentrated from B1 with 69 mM total amino acids for Process A to the enriched B2 with 122 mM total amino acids for Process C, while the feed was concentrated from F1 with 344 mM total amino acids for Process A to the enriched F2 with 500 mM total amino acids for Process C (Table 1).

Discussion

To the best of our knowledge, this is the first report to present relatively detailed data on fed-batch platform development which achieved very high titers for production of multiple mAbs within 10–14 days of bioreactor duration (Table 2) through fed-batch process intensification. Although titers are not disclosed in this report, they are comparable to the highest titers reported in the literature (Huang et al. 2010) for each of the 4 mAbs. Overall, limited literature is available for fed-batch process development with very high (~ 10 g/L) fed-batch titers. Since 10 g/L titer on Day 18 for two proteins was reported for the first time (Huang et al. 2010), 9–10 g/L titers were reported for production of one mAb on Day 14 or Day 16 in two other case studies (Handlogten et al. 2018; Takagi et al. 2017). Conventional SDs of ≤ 1.5 × 10⁶ cells/mL were used in the above literature. In this study, however, the main strategies for the intensified fed-batch platform development were to increase the production SD to 10–20 × 10⁶ cells/mL using N-1 perfusion and to redesign basal and feed media for the high SD culture (Figs. 1, 3, 4, 5 and Tables 1, 2). Although only 4 mAbs were presented in this report, the intensified fed-batch platform has been successfully applied for production of additional mAbs with similar high titer range in our biologics pipeline (data not shown).

In addition to increasing titer and reducing manufacturing costs, reducing process development timelines is another goal for the biopharmaceutical industry. It is critical to develop mAb processes as quickly as possible to enable timely regulatory filings for early and late phase clinical trials and market approval due to the highly competitive nature in the biopharmaceutical industry. A strong platform process can significantly reduce the process development time and is important to gain process knowledge and for process-to-process consistency, which can facilitate process scale-up, streamline process transfer to manufacturing, benefit downstream process development, and enable consistent control of quality attributes (Bechmann et al. 2016; Li et al. 2010). In this study, it took approximately 6–9 months to develop intensified Process C strategies for mAb1 and mAb3, but it took approximately 3 months to achieve the same titer range in Process C for mAb2 and mAb4, demonstrating the advantages of a high-titer platform such as the one discussed in this report.

During development of the platform-intensified Process C strategies, there were interactions among many upstream factors, such as SD, nutrient strengths of basal and feed media, feeding strategies, temperature shifts, and CHO cell lines for expression of different mAbs (Fig. 2 and Table 6), even though all CHO cell lines in this study were created from the same platform parental CHO K1 GS cell line. This is in agreement with our previous report (Yongky et al. 2019). The mechanism of titer improvement for Process C was different for different mAbs. For mAb2 and mAb3, the titer increase for Process C was a result primarily of increased VCD, while for mAb1 and mAb4, the titer increase for Process C came from both increased VCD and increased cell specific productivity (Table 4 and Figs. 1, 3, 4, 5). Each mAb needed some individual changes to achieve higher titer than just a platform fit run. Those changes include medium enrichment and concentration, feed amounts and feed timing, and temperature shift conditions, which can be studied with several high-throughput runs using 50-mL TubeSpin bioreactors and lab-scale bioreactors. The basal enrichment and concentration were important for mAb1 and mAb4, while the basal media for mAb3 was leaner to allow faster growth at the beginning but with enriched and concentrated feed in terms of total amino acids and osmolality to maintain high VCD for the rest of the culture duration (Table 2). For mAb2, both basal and feed with the highest nutrient strength produced the highest titer (Tables 2, 5 and Fig. 3). Nonetheless, Process C platform media for production of all mAbs consist of the same base formulations of basal B2 and feed F2, which simplifies the intensified Process C development for different mAbs.

This intensified process has been run successfully for multiple cell lines in manufacturing, with comparable product quality attributes to earlier processes. In general, it is challenging to run replicates at large scale due to material cost and equipment demand. We had only two replicates for Process C quality attributes at 500-L scale for mAb1 (Fig. 1f) and mAb3 (Fig. 4d), which might not be sufficient for effective statistical comparison. Because the reproducibility is not guaranteed to be high with only 2 replicates, we pooled mAb1 and mAb3 data to yield > 3 replicates for the same processes in Fig. 6. Each value was normalized to the Process C value before averaging to enable meaningful comparisons between mAbs. Although the final titer for Process C was doubled compared with Process B, all in-process quality attributes, e.g. charge variant species, N glycan species and SEC impurity profiles were comparable (Fig. 6). Therefore, quality attributes were comparable regardless of the process used in this study.

Fig. 6

Final titer and in-process quality attributes with combined data of mAb1 and mAb3 for Process B (n = 7) and Process C (n = 4). In order to make statistical analysis more effective, average final titer, main peak, G0F, and monomer for Process C at 500-L scale was normalized as 1 for mAb1 and mAb3, respectively

One major potential limitation for large-scale manufacturing using an intensified fed-batch process was reported at N-1 perfusion seed culture step with only 15.8 × 10⁶ cells/mL final VCD achieved using an inclined settler (Pohlscheidt et al. 2013). Overall though, there were not any major challenges during scale up of our N-1 perfusion cultures from 5-L with 1 ATF-2 to 200-L and 500-L N-1 bioreactors using 1 ATF-6 device in this study. Assuming that we can scale up from a 500-L N-1 perfusion process to a 2000-L N-1 bioreactor containing 1700-L of culture volume using 2 ATF-10 devices, the amount of N-1 perfusion culture at 2000-L scale is sufficient to inoculate a large production bioreactor at 20,000-L scale with an initial volume of 10,000 to 14,000-L at SD of 12–17 × 10⁶ cells/mL. Thus, for high-demand biologics, it should be feasible to continue scaling the intensified Process C to a 20,000-L bioreactor while maintaining high titers in the production phase.

The intensified platform fed-batch Process C developed in this study is very effective for mAb manufacturing. Since cell culture titer and production scale are two of the most important parameters to determine manufacturing costs (Kelley 2009; Mir-Artigues et al. 2019), Process C with much higher titers (Table 2) and successful scale up in large-scale manufacturing makes the manufacturing costs lower than in the fed-batch Process A and Process B. Effective mAb manufacturing with higher titer and volumetric productivity, better robustness and lower costs has been a goal for both academia and the biopharmaceutical industry for the last 3 decades. To achieve this goal, both fed-batch and perfusion modes have been intensively studied since the 1990s (Bielser et al. 2018; Kunert and Reinhart 2016; Li et al. 2010). Fed-batch culture, which has not fully matured yet with significant titer improvements continuously being reported, remains predominant in mAb manufacturing (Bielser et al. 2018; Kelley et al. 2018; Yongky et al. 2019). Although both fed-batch Process C and a perfusion production process achieve much higher volumetric productivities than a conventional fed-batch process, the strategy for intensified fed-batch Process C using N-1 perfusion with only a 6-day duration is simpler and more robust in operation than a perfusion production using a larger amount of media and a perfusion device at N production stage over the course of several weeks to months. The advances on the fed-batch intensified cell culture platform in this study further strengthen the advantage of fed-batch over perfusion production.

Conclusion

We have developed a novel platform strategy for cell culture fed-batch process intensification achieving the top titer range (comparable to the highest fed-batch titer reported in literature) for multiple mAbs using 10–20 × 10⁶ cells/mL SD by perfusion N-1 seeds.