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Fermentation Process Engineer Jobs in California

As our next Principal Engineer, Downstream Process Development (DSP), you will be an integral ... Experience in operating lab and pilot-scale equipment used for processing microbial fermentation ...

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Fermentation Process Engineer information

See California salary details

$48.9K

$90.8K

$140.6K

How much do fermentation process engineer jobs pay per year?

As of Jun 8, 2026, the average yearly pay for fermentation process engineer in California is $90,813.00, according to ZipRecruiter salary data. Most workers in this role earn between $73,500.00 and $101,700.00 per year, depending on experience, location, and employer.

What are some common challenges faced by Fermentation Process Engineers during scale-up from lab to production?

Fermentation Process Engineers often encounter challenges when scaling up processes from the lab or pilot scale to full production, such as maintaining consistent product yields, ensuring sterility, and achieving optimal mixing and oxygen transfer. Differences in equipment size and configuration can affect heat and mass transfer rates, making it necessary to adjust parameters and monitor the process closely. Effective communication with cross-functional teams, including microbiologists and production operators, is crucial to address these issues and implement solutions promptly.

What is the difference between Fermentation Process Engineer vs Microbiologist?

AspectFermentation Process EngineerMicrobiologist
CredentialsBachelor's in Chemical, Biochemical, or related engineering fieldBachelor's or higher in Microbiology or related science
Work EnvironmentIndustrial fermentation facilities, manufacturing plantsResearch labs, clinical or environmental settings
Industry UsageBiotech, pharmaceuticals, food & beverage manufacturingResearch institutions, biotech, healthcare
Common Search IntentOptimizing fermentation processes, scale-upStudying microbial behavior, research

While both roles involve microbiology, the Fermentation Process Engineer focuses on designing, optimizing, and scaling fermentation processes in industrial settings. In contrast, Microbiologists primarily conduct research and study microorganisms, often in lab environments. The engineer's role is more application-driven within manufacturing, whereas microbiologists focus on scientific understanding.

What does a Fermentation Process Engineer do?

A Fermentation Process Engineer specializes in designing, optimizing, and overseeing the industrial fermentation processes used to produce products such as pharmaceuticals, food additives, biofuels, and chemicals. Their responsibilities include scaling up laboratory processes to industrial levels, monitoring process parameters, troubleshooting issues, and ensuring that production meets quality and safety standards. They often work closely with microbiologists, chemists, and production teams to improve yields and efficiency while minimizing costs and environmental impact.

What are the key skills and qualifications needed to thrive as a Fermentation Process Engineer, and why are they important?

To thrive as a Fermentation Process Engineer, you need a strong background in chemical engineering, microbiology, or biotechnology, typically supported by a relevant bachelor's or master's degree. Familiarity with bioreactor systems, process control software, and statistical analysis tools, as well as certifications like Six Sigma or Lean Manufacturing, is highly valuable. Strong problem-solving, teamwork, and communication skills help you collaborate with cross-functional teams and troubleshoot complex processes. These skills are essential to optimize production, ensure product quality, and drive innovation in fermentation-based manufacturing.
What job categories do people searching Fermentation Process Engineer jobs in California look for? The top searched job categories for Fermentation Process Engineer jobs in California are:
What cities in California are hiring for Fermentation Process Engineer jobs? Cities in California with the most Fermentation Process Engineer job openings:
Infographic showing various Fermentation Process Engineer job openings in California as of May 2026, with employment types broken down into 1% Locum Tenens, 96% Full Time, and 3% Contract. Highlights an 92% Physical, 3% Hybrid, and 5% Remote job distribution, with an average salary of $90,813 per year, or $43.7 per hour.
Senior Associate Scientist (Contract), Upstream Polysaccharide Process Development

Senior Associate Scientist (Contract), Upstream Polysaccharide Process Development

Vaxcyte

San Carlos, CA โ€ข On-site

$56 - $62/hr

Other

Posted 22 days ago


Job description

Summary:

The Development organization is comprised of four Process teams: Protein, Polysaccharide, Conjugate Drug Substance (Conjugation), and Drug Product. These Process Development teams are supported by Analytical Development and Formulation Development teams. Vaxcyte is looking for a Senior Associate Scientist (contract) with experience in microbial fermentation and upstream processing to join the Upstream Polysaccharide Process Development team. The candidate will be responsible for collaboration on experimental design and execution of experiments to further develop and optimize upstream processes for polysaccharide manufacturing using microorganisms. The successful candidate will have practical laboratory experience related to microbial fermentation processes and eager to utilize and learn new laboratory skills. The role will require >50% time in the lab and this person will be able to independently detail experimental procedures/results in written and presentation formats. The successful candidate may interface closely with the cross-functional team, write detailed technical reports, present experimental results internally, and may potentially interface with external CMO partners.

Essential Functions:
  • Support in study design, execute, and analyze experiments for upstream polysaccharide for bacterial fermentation (BSL2) and vaccine production processes.
  • Execute experiments to develop the upstream process parameters (e.g., media, feed, pH, temperature, dissolved oxygen, agitation, etc.) and to enhance product yield, quality, and consistency.
  • Perform microbiology related work including plating, colony selection, Gram staining and cell enumeration on microscope.
  • Perform fermentation vessel assembly and script writing for process automation and execute fermentation experiment in shake-flask and lab scale bioreactors.
  • Prepare media and buffer as needed for experiments.
  • Operate and maintain instrumentation for bacterial fermentation and primary recovery (centrifugation, filtration, etc.) of bacterial polysaccharides utilizing aseptic techniques.
  • Support analytical method execution including optical density, residual metabolites and polysaccharide concentration and other relevant analytical techniques.
  • Assist in executing process development studies.
  • Keep accurate and current records of research and/or project related activities in laboratory notebooks and Electronic Lab Notebook.
  • Prepare and review protocol, technical reports, SOPs, and batch records.
  • Present and communicate scientific data and results to internal stakeholders.
  • Be an outstanding teammate and collaborate effectively with cross functional team members.
  • and collaborate effectively with downstream, analytical, and manufacturing teams within Polysaccharide Development and Manufacturing team to ensure seamless technology transfer and process integration.
Requirements:ย 
  • MSc in Chemical/Biochemical Engineering, Biotechnology, or similar degree with a minimum of 3 years of relevant industry experience, or BSc with a minimum of 5 years of relevant industry experience.
  • Experience in handling microorganisms with proper aseptic techniques to perform upstream processing related work in flasks/bioreactors.
  • Hands-on experience and theoretical understanding of key processing operations such as microbial culture, fermentation process, microbial media, and process optimization and relevant analytical technologies; experience with depth filtration, continuous centrifugation is a plus.
  • Develop and optimize scripts for instrumentation, including Ambr systems, to enhance efficiency and automate processes, leveraging programming languages such as Python or R is a plus.
  • Experience with Design of Experiments (DoE) principles and DoE software.
  • Process characterization experience is a plus.
  • Cell banking expertise, colony selection and genetic analysis of recombinant strains is a plus.
  • Proficiency with computer programs such as Microsoft Excel, Word, PowerPoint, Visio and JMP.
  • Working knowledge of GMP requirements.
  • Proven ability to succeed in a cross-functional team environment, effectively managing multiple projects and contributing to team outcomes.
  • Strong interpersonal skills, with excellent written and verbal communication abilities.
Reports to: Senior Scientist, Upstream Polysaccharide Process Development
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Location: San Carlos, CA
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Expected Contract Length:
12months
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Hourly Range: $56.00/hr. - $62.00/hr.
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About Vaxcyte

Sourced by ZipRecruiter

Industry

Biotechnology research and development

Company size

51 - 200 Employees

Headquarters location

San Carlos, CA, US

Year founded

2013