Senior Computational Microbiologist - 100%

CellX Biosolutions AG; Schlieren; On-site; CHF 160,000 - 230,000; Full time

Benefits offered by this job

Stock option package

Competitive salary

Startup culture

Job summary

CellX Biosolutions AG in Schlieren near Zürich is seeking a Senior Computational Microbiologist to build and lead our in-house computational microbiology capability. You will work with sequencing data and omics streams to understand PFAS degradation and design predictive pipelines for strain performance.

This role bridges computation and the wet lab. You will supervise a Laboratory Technician, collaborate with R&D to move products from lab to field, and shape data-informed product development.

Qualifications

• PhD in Bioinformatics, Computational Biology, Microbial Genomics, or related field.
• Senior-level research experience in microbiology with computational and experimental work.
• Strong programming skills and experience with workflow managers.
• Experience applying AI/ML methods to biological data.
• Excellent English, leadership experience preferred.

Responsibilities

• Lead the development of an in-house computational microbiology capability.
• Design and implement a pipeline for genome assembly, annotation, and comparative genomics.
• Build metabolic models to predict PFAS degradation across strains.
• Design experiments to validate predictions and supervise wet-lab activities.
• Collaborate with R&D for field deployments and regulatory support.

Skills

Senior-level microbiology

Programming (Python/R)

Workflow management (Nextflow/Snakemke

Education

PhD in Bioinformatics/Computational Biology/Microbial Genomics

Tools

Nextflow

Snakemake

Python

R

Job description

Senior Computational Microbiologist - 100%

CellX Biosolutions AG Vacant since : 30.10.2026 Number of jobs : 1 8952 Schlieren (ZH) 100% From 01.01.2027 Permanent Registration requirement

At CellX Biosolutions AG, an innovative ETH spin-off, we develop microbial solutions to degrade persistent environmental pollutants such as PFAS and pesticides. Our mission is to bring the world's first commercial bacterial solution for PFAS remediation from the lab into real-world industrial application.

Role OverviewWe are looking for a Senior Computational Microbiologist to build and lead our in-house computational and molecular microbiology capability from the ground up. You will establish a mechanistic and metabolic understanding of how our bacterial strains and communities degrade PFAS and other persistent chemicals. You will translate this understanding into a computational pipeline that predicts strain performance and guides the rational design of synthetic microbial communities for specific use-cases.This role bridges computation and experiment. You will work hands-on with sequencing data (Illumina, Oxford Nanopore & PacBio) as well as other omics and analytical data streams. You will also design the experiments that validate computational predictions in our strains. You will supervise a Laboratory Technician who supports wet-lab and sequencing workflows. This is a senior, high-impact, 100% onsite role with the freedom and responsibility to shape CellX's data-inferred product development as we move from the lab to the field.

Main Responsibilities

Team leadership & supervision

• Supervise and mentor our Laboratory Technician involved in the project, coordinating wet-lab, cultivation, and sequencing workflows (Illumina, Oxford Nanopore, PacBio) to ensure high-quality data for downstream analysis
• Set priorities and quality standards for sample preparation, sequencing, and data handover between wet lab and bioinformatics

Bioinformatics pipeline development-Design, build, and maintain an in-house bioinformatics pipeline covering genome assembly, annotation, and comparative genomics from short-read and long-read sequencing data-Evaluate and integrate the best available tools and methods, including AI/ML approaches, for genome mining, functional annotation, and strain characterization-Ensure the pipeline is reproducible, scalable, and not limited to current technologies, so it can incorporate new sequencing and omics data types as they become relevant

Metabolic understanding & PFAS degradation-Establish a metabolic-level understanding of how our bacterial strains degrade PFAS, identifying the genes, enzymes, and pathways involved-Build and apply genome-scale metabolic models to predict degradation capability and metabolic potential across strains

Experimental validation & strain development-Design and run experiments, including genetic tools and functional assays, to validate predicted degradation genes and pathways-Develop genetic tools for non-model environmental bacteria to support strain characterization and improvement

Predictive modeling & synthetic community design-Design and implement models that predict and learn from strain-level genomic and functional data to prioritize the most promising strains-Develop a framework to guide how synthetic microbial communities should be assembled per use case, based on predicted strain function and interaction potential

Collaboration, field & regulatory support-Work closely with our R&D team to align bioinformatics outputs with experimental and pilot-project needs-Monitor applied strains in pilot and field deployments-Contribute technical documentation for regulatory and biosafety approval of our microbial products-Contribute bioinformatics analyses and insights to internal reports and, where relevant, client deliverables

Your Profile

Required qualifications-PhD in Bioinformatics, Computational Biology, Microbial Genomics, or a related field

• Senior-level experience (typically 5+ years) in microbiology research, combining computational and experimental work-Strong programming skills (Python and/or R) and experience with workflow managers (e.g. Nextflow, Snakemake)-Hands-on experience applying AI/ML methods to biological or genomic data (e.g. function prediction, genome mining, metabolic modeling)-Solid understanding of microbial physiology and metabolism, including enzymatic transformation and degradation pathways-Experience supervising, mentoring, or leading junior team members-Excellent English skills (C1 or higher)

Preferred qualifications-Direct experience in the PFAS field, or with biodegradation of other recalcitrant/xenobiotic pollutants-Experience designing or modeling synthetic microbial communities/consortia-Familiarity with long-read sequencing data (Oxford Nanopore, PacBio)-Experience with regulatory documentation or field trials of applied microorganisms-Prior experience in a startup or applied biotech environmentA note: research indicates that women and individuals from marginalized groups tend to apply only when they meet all of the criteria. If you believe you're qualified, but don't necessarily check every box, please submit an application.

We offer-A senior, high-impact role shaping CellX's computational and molecular microbiology capability from the ground up-Cutting-edge scientific environment at the intersection of microbiology, genomics, and environmental biotechnology-Competitive salary and a stock option package-Collaborative startup culture with fast decision-making, a high level of responsibility, and the opportunity to shape the world's first commercial bacterial solution for PFAS remediation

• Work location 8952 Schlieren (ZH)
• Additional information on the place of work Work model: 100% onsite
• Workload 100%
• Employment start 01.01.2027
• Employment duration Permanent

• Qualification skilled
• Work experience More than 3 years
• Education Doctorate from a university or equivalent

• English Orally : Very good knowledge Written : Very good knowledge

• By online Online form