FAQs - Working with VALIDOGEN

What is the benefit of working with VALIDOGEN?

When you work with VALIDOGEN, you work with a team of experts with more than 15 years of experience in Pichia pastoris strain and process development. Our focus is delivering robust, high-performing strains and processes that accelerate your protein development success.

What makes VALIDOGEN different from a standard protein expression service provider?

Unlike standard providers, everything we do is tailored to your project’s specific needs. By combining our UNLOCK PICHIA® platform with deep scientific expertise, we deliver customized solutions rather than one-size-fits-all services — ensuring the best chance of success for your protein. Our exclusive focus on Pichia pastoris further sets us apart, enabling us to apply unmatched depth of knowledge and optimization to every project.

Who benefits from VALIDOGEN’s services and technologies?

Our services are valuable for a wide range of organizations:

  • Biotech and pharma companies developing biopharmaceuticals.
  • Food and feed companies needing safe, methanol-free protein production.
  • Industrial biotech companies looking for efficient enzyme production.
  • Startups or academic spin-offs seeking proof-of-concept data to move to the next stage.

How does project initiation look like?

Projects typically begin with a discussion of your protein(s) and goals, followed by a tailored proposal outlining possible strategies, timelines, and deliverables. We aim to make the onboarding process clear, collaborative, and efficient.

How does VALIDOGEN de-risk manufacturability?

We optimize strains and processes for scalability, robustness, and reproducibility. A quick, low-cost feasibility study can also confirm early whether your protein will express successfully, helping to reduce risk before full-scale development.

What’s the easiest way to get started?

Simply reach out to us via our contact page. We’ll set up an initial conversation to understand your needs and explore how we can help.

FAQs - Protein expression feasibility studies

How do feasibility studies in Pichia support a go/no-go decision?

Feasibility studies provide a fast and cost-efficient way to check how well your protein can be expressed in Pichia pastoris. They allow you to obtain an early indication of success and a small sample for testing before committing to a larger development project. This reduces risk and supports informed decision-making at an early stage.

What does a Pichia protein expression feasibility study involve?

We create non-optimized stable strains using a few molecular tools from our UNLOCK PICHIA toolbox, test expression at microscale, and if needed, scale up to a 1 L bioreactor for a small protein sample, which can be purified if desired.

Who should do an expression feasibility study?

  • Companies in late lead-finding stages, wanting to evaluate several protein candidates in parallel.
  • Organizations seeking manufacturability assessment, before investing in a full program.
  • Early-stage companies or startups needing proof-of-concept samples to secure funding or move to the next milestone.

What is a typical timeline for a feasibility study?

Feasibility studies are designed to be fast-track projects. Strain development can take as little as 4 weeks, followed by 2–5 weeks for cultivation and purification, depending on requirements.

FAQs - Strain development

How do you boost protein expression in Pichia pastoris?

We leverage our expertise and our proprietary UNLOCK PICHIA® toolbox of promoters, secretion signals, co-expression helper factors, and platform strains. By generating extensive genetic diversity and systematically screening for high-performing strains, we can identify optimal expression solutions for each individual protein.

What is methanol-free Pichia, and what are the benefits of using it?

Methanol-free Pichia pastoris strains are specifically engineered to achieve high-level protein expression without the need for methanol induction. The benefits include:

  • Improved safety by avoiding the handling of methanol, which is toxic and flammable.
  • Simplified processes, as cultivation and induction are easier to manage.
  • Regulatory and application advantages, especially in applications where methanol use is restricted or undesired like food & feed, agriculture, or in large scale production.

How do I decide whether to use methanol-induced or methanol-free expression?

The choice depends on your protein, its intended application, or production site. For food, feed, or similar applications, methanol-free strains may be required. 

In other cases, we recommend evaluating both methanol-induced and methanol-free systems, since performance can vary depending on the specific protein. Our team can design comparative development strategies to identify the best-performing option for your project.

What is the typical timeline for a Pichia pastoris strain development project at VALIDOGEN?

Timelines vary depending on project scope and complexity:

  • Fast-track development: As short as 4 weeks for initial strain generation.
  • Small protein sample provided: Usually within 12 weeks
  • Comprehensive optimization: For full development and optimization packages, timelines can extend to up to 6 months or more, depending on the level of process refinement and characterization required.

What deliverables will I get from a project with VALIDOGEN?

  • Comprehensive reports covering the activities performed and results obtained.
  • Glycerol stocks of the developed expression strains.
  • Small samples generated from cultivations during the project.
  • Expert support and guidance on interpreting results and next steps.

FAQs - Fermentation and protein purification development

What are the benefits of early process development?

Early development enables you to optimize strain performance and fermentation conditions before moving into scale up, or expensive GMP environments. This approach reduces risk, and ensures a smoother, more cost-efficient transition into manufacturing.

What if I already have a Pichia strain – can you optimize the fermentation for it?

Yes. Even if the strain was developed elsewhere, we can apply our expertise in Pichia fermentation to optimize expression levels, productivity, and process robustness. This often results in significantly higher yields and lower costs compared to unoptimized processes.

Will processes developed in your labs scale to manufacturing scale?

Yes. Our development is always performed with scalability in mind. Processes optimized in our labs are designed to transfer smoothly to industrial fermentation facilities, maintaining productivity and product quality at large scale.

Up to which scale do you work? Are you a GMP facility?

We develop processes at scales up to 10 L bioreactors. VALIDOGEN is not a GMP facility — instead, we deliver tech-transfer-ready processes that can be handed over to your selected CDMO for GMP manufacturing. We have undertaken many such transfers. 

What makes a process “tech-transfer-ready” for a CDMO?

A tech-transfer-ready process is one that has been well characterized and optimized, with robust fermentation conditions, reproducible performance, and thorough documentation. This ensures that a CDMO can implement the process at larger scale without additional major development steps.

What methods do you apply to purify proteins produced in Pichia?

We apply a broad range of chromatographic and non-chromatographic purification methods depending on the target protein and its application. Chromatographic techniques typically include ion exchange, hydrophobic interaction, mixed mode, and affinity chromatography, often combined in multi-step strategies to achieve the desired purity and yield.

Which non-chromatographic methods can you apply for purification?

In addition to chromatography, we can apply diafiltration, ultrafiltration, precipitation, and extraction methods as part of the purification workflow. These approaches can simplify the process, reduce costs, or serve as preparatory steps before final chromatographic purification.

What is the typical purity after purification?

Purity levels depend on the protein and intended use. In most cases, our workflows achieve high-purity protein suitable for research and preclinical applications. For industrial enzymes, purification can be tailored to cost-effectiveness rather than maximum purity, while for therapeutic candidates, very high purity levels can be reached through optimized multi-step processes.

FAQs - UNLOCK PICHIA® protein expression technology

What makes UNLOCK PICHIA® different from other Pichia pastoris expression systems?

UNLOCK PICHIA® is VALIDOGEN’s proprietary platform, developed from decades of expertise in Pichia. It stands out because it combines a broad toolbox of genetic elements (promoters, secretion signals, co-expression factors, platform strains) with high-throughput screening and systematic optimization strategies. This enables rapid identification of top-performing strains tailored to each protein’s requirements.
 

Does the UNLOCK PICHIA® platform support methanol-free protein expression?

Yes. UNLOCK PICHIA® includes methanol-free expression systems, eliminating the need for methanol induction. This makes it suitable for sensitive industries such as food & feed, and agriculture, or working at large scale, while maintaining high expression levels.
It stands out because it combines a broad toolbox of genetic elements (promoters, secretion signals, co-expression factors, platform strains) with high-throughput screening and systematic optimization strategies. This enables rapid identification of top-performing strains tailored to each protein’s requirements.
 

Can VALIDOGEN produce glycosylated proteins with human-like glycosylation?

Yes. Through glyco-engineered strains, we can modify the glycosylation pattern of proteins expressed in Pichia pastoris, allowing production of proteins with human-like N-glycosylation, where potential immunogenicity of the product is a concern.

How does UNLOCK PICHIA® optimize Pichia pastoris strains for higher yields?

Optimization is achieved by systematically combining different promoters, secretion signals, helper factors, and strain backgrounds to generate genetic diversity. High-throughput screening then identifies strains with superior expression, secretion, and product quality, leading to significantly higher protein yields.
 

How are genetic tools introduced?

Genetic modifications are typically introduced via molecular cloning and targeted integration of expression cassettes designed to work efficiently in Pichia.

FAQs - Pichia pastoris (Komagataella phaffii)

Why should I use Pichia for recombinant protein expression?

Pichia pastoris is a proven production host that delivers high yields at low cost. It grows on simple media, reaches very high biomass, and can be scaled easily from lab to industrial fermenters. With secretion capability and eukaryotic folding machinery, it bridges the gap between bacterial and mammalian systems.

Why choose Pichia pastoris instead of mammalian systems like CHO cells?

Compared to mammalian cell lines, Pichia offers:

  • Lower cost of cultivation and faster growth.
  • Simpler media requirements without expensive supplements.
  • Faster cell line characterization, enabling quicker progress toward regulatory approval.

Why choose Pichia pastoris instead of bacterial systems like E. coli?

Unlike E. coli, Pichia is a eukaryote and can:

  • Perform post-translational modifications such as disulfide bonds, critical for protein activity and stability.
  • Achieve high-level secretion into the culture medium, simplifying downstream processing.
  • Deliver active, correctly folded proteins—no need for inclusion bodies and complex refolding steps commonly seen in E. coli workflows.
  • Deliver endotoxin-free proteins, reducing purification effort and improving product safety.

Is methanol required for protein expression in Pichia pastoris?

No. While traditional Pichia expression systems use methanol-inducible promoters, methanol-free systems are also available. These eliminate the need for methanol handling and are especially useful in regulated industries such as food & feed, and agriculture, or when working at large scale.

Is Pichia pastoris suitable for production of biopharmaceuticals?

Yes. Pichia has been used to manufacture of approved biopharmaceutical products and is recognized as a reliable and scalable production host. The clinical pipeline shows that it is an attractive host for diverse protein formats such as domain antibodies. It is particularly attractive for biologics requiring high yields and cost-effective production.

Is Pichia pastoris considered a safe production host for food or feed applications?

Yes. Pichia pastoris has obtained GRAS (Generally Recognized as Safe) status for many applications, and is on the EFSA QPS (Qualified Presumption of Safety) list. It is widely considered a safe microbial host for production in the food and feed industries. For some feed applications the supernatant is pure enough that it can be used directly with no downstream processing. 

What types of proteins can be expressed in Pichia?

Pichia is used across industries to produce a wide range of proteins, including antibody fragments (e.g. vHHs/nanobodies), vaccine antigens, serum proteins, therapeutic enzymes, and industrial enzymes. This versatility makes it a go-to system for applications in healthcare, biotechnology, food, feed, and industrial bioprocesses.