Scientist – Molecular Cloning & Automation

Eurofins USA PSS Insourcing Solutions•Boston, MA

3d•Onsite

About The Position

We are seeking a skilled Scientist – Molecular Cloning & Automation to lead plasmid design, DNA assembly, and scalable workflow development. You will apply advanced cloning strategies and build automated solutions to support high-throughput construct generation, ensuring quality, efficiency, and on-time delivery across multiple programs.

Requirements

B.S. with 5+ years, M.S. with 3+ years, or Ph.D. with 2+ years of relevant industry experience in Molecular Biology, Biochemistry, Bioengineering, or a related field
Expert proficiency in Golden Gate, Gibson Assembly, and restriction-ligation cloning, with the ability to select optimal strategies
Strong knowledge of plasmid biology, including origins of replication, selection markers, promoter design, codon optimization, and management of recombination-prone sequences
Hands-on PCR experience, including polymerase selection (e.g., Q5, Phusion), primer design, and troubleshooting challenging amplicons.
Experience managing CRO/vendors for gene synthesis or outsourced cloning
Proficiency with Benchling or similar ELN for construct tracking and QC documentation
Familiarity with sequence design and visualization tools (e.g., SnapGene, Geneious)
Proven ability to manage multiple simultaneous cloning projects and deliver high-quality constructs on timeline
Strong communication skills with a collaborative, cross-functional mindset
Authorization to work in the U.S. without sponsorship

Nice To Haves

Experience programming, validating, and troubleshooting liquid handling platforms (e.g., Hamilton, Beckman, Tecan, Opentrons)
Familiarity with automated colony picking and high-throughput plasmid prep workflows
Experience with pooled oligo cloning, including library design, bias mitigation, and NGS-based QC analysis
Background in lentiviral or pooled library cloning workflows
Experience with long-read sequencing technologies (PacBio or Nanopore)
Exposure to gene therapy applications (AAV, LVV, mRNA, CAR-T) and downstream construct use
Experience supporting IVT template design or mRNA production workflows

Responsibilities

Design and execute end-to-end plasmid workflows, translating protein or guide RNA sequences into verified, production-ready constructs
Select and apply appropriate cloning strategies (e.g., Golden Gate, Gibson Assembly, restriction-ligation) based on construct complexity
Develop, implement, and scale automated workflows for high-throughput plasmid production, including: Liquid handling platforms (Hamilton STAR, Opentrons, Beckman Biomek), Automated colony picking systems (e.g., QPix), High-throughput miniprep processes
Establish and manage tiered QC pipelines (colony PCR, restriction digest, Sanger and/or long-read sequencing) while maintaining accurate construct documentation
Oversee CRO and vendor relationships for outsourced cloning and gene synthesis, including construct submission, timeline management, and QC review
Partner cross-functionally to deliver constructs on time, managing multiple concurrent requests with clear, proactive communication