Yeast Genome Engineering Services

Saccharomyces cerevisiae CRISPR-Cas9 Genome Editing

Custom CRISPR-Cas9 knockout and precise-edit projects in Saccharomyces cerevisiae, from guide design through genotyped clones.

Knockout-first CRISPR-Cas9 editing in S. cerevisiae
In silico guide design with specificity screening
Target-locus genotyping and documented clone handoff

Start a Yeast Editing Project

Scoped yeast editing, from design to clone handoff

Send the target gene, the strain background, and the edit you need; we return a scoping plan with design, screening, and confirmation steps defined before work starts.

Haploid and diploid strain backgrounds reviewed at scoping
Junction PCR screening followed by Sanger confirmation
Off-target review in silico, with targeted amplicon optional

Knockout-first workflow

Genotype-level QC

Case-by-case scoping

Our Approach

A CRISPR-Cas9 catalog service built for yeast, not adapted from other hosts

We combine in silico design, standard yeast transformation, and locus-level genotyping so each project ends with characterized clones and a documented record.

Knockout-first editing in Saccharomyces cerevisiae

Gene disruption is the primary modality we scope, because it is the most direct edit to design, screen, and confirm in a yeast background.

Target gene or region reviewed against the client strain background
Guide RNAs designed in silico and ranked for predicted specificity
Candidate clones screened by junction PCR and confirmed at the target.

Precise edits reviewed case by case

Single-base changes, short tag insertions, and sequence replacements can be scoped when the target locus and repair strategy support them.

Repair or donor template designed only when the scoped edit requires.
Feasibility discussed against locus context and strain ploidy
Screening and confirmation depth defined in the project SOW

Design before bench work

Guides, target coordinates, and any repair template are specified and reviewed before transformation, so the screening plan matches the intended edit.

Genotype-level confirmation

Delivered clones are characterized at the target locus by sequencing, and the resulting genotype is recorded per candidate rather than summarized loosely.

Documented, reproducible handoff

Guides, construct information, screening results, and sequencing data are packaged so the receiving team can trace how each clone was generated.

Deliverables

What you receive at project handoff

The handoff is built around traceable documentation of the edit, the screening path, and the confirmed genotype of each delivered clone.

Standard handoff

Project-scoped documentation and materials as agreed at kickoff.
Guide RNA sequences and design notes for the scoped target loci
Sanger sequencing data confirming the target-locus genotype of delivered clones.
Clone genotype table linking each candidate to its screening outcome

When included in the SOW

Edited S. cerevisiae clones supplied as glycerol stocks
Parent or unedited control strains for side-by-side evaluation
Plasmid or donor template information with construct maps
Targeted amplicon sequencing at predicted off-target sites

Service Scope

Parameters defined case by case in the project SOW

Every yeast editing project is quoted and planned individually; the table below shows the parameters we typically agree on before work begins.

Parameter	Typical project scope
Host and strain background	Client-supplied Saccharomyces cerevisiae strains or a standard laboratory background specified at scoping; auxotrophies and markers reviewed before design.
Edit type	Knockout as the primary modality; precise edits such as single-base changes, short tags, or sequence replacements reviewed case by case.
Target loci and multiplexing	Number of genes or loci to be edited, and whether edits are handled singly or in combination, defined in the project SOW.
Ploidy and allele number	Haploid, diploid, and multi-allelic targets handled with a genotyping plan that reflects the allele number at the locus.
Guide design and specificity review	In silico guide selection against the reference genome, with candidate guides ranked for predicted specificity before construct build.
Repair or donor strategy	Repair templates designed when the scoped precise edit requires them; donor-independent knockouts proceed without a donor construct.
Transformation and selection	Competent-cell preparation, transformation, and plating under the appropriate selection, following standard yeast handling practice.
Screening and target-locus QC	Junction PCR screening followed by Sanger sequencing confirmation at the target locus; screening depth agreed per project.
Off-target assessment	In silico prediction as the default review, with targeted amplicon sequencing at predicted sites added when written into the scope.
Clone and data package	Edited clones, control strains, sequencing data, and the genotype table delivered as specified in the agreed SOW.
Project support	Scientific contact and milestone updates are confirmed with your team during project scoping.

How It Works

From scoping to clone handoff in five defined stages

Each stage produces something the next stage depends on, so design decisions, screening results, and confirmation data stay connected to the same project record.

Feasibility and scoping

We review the target gene or locus, the strain background you intend to use, ploidy, and the edit type requested, then agree on what the project will cover.

Guide and construct design

Candidate guide RNAs are designed in silico against the reference genome, screened for predicted specificity, and paired with an assembly plan for the editing construct.

Repair template setup

Where a precise edit is scoped, a repair or donor template is designed for the target locus; donor-independent knockouts proceed without a template at this stage.

Transformation and colony screening

Competent yeast cells are prepared and transformed, colonies are recovered under selection, and candidates are screened by junction PCR for the intended locus change.

Confirmation, documentation, and handoff

Candidate clones are genotyped at the target locus by Sanger sequencing, off-target review is applied as scoped, and the report and clone package are assembled for delivery.

Typical Applications

Where S. cerevisiae editing projects are commonly used

These are the project types we scope most often; the specific edit strategy and confirmation depth are always agreed per target and per strain.

Gene function and model-organism studies

Saccharomyces cerevisiae is widely used as a model system for gene function and cellular studies, and defined knockout or edited strains support that work with a documented genotype.

Single-gene knockouts in haploid or diploid backgrounds
Precise edits reviewed case by case against the locus
Genotype-confirmed clones for downstream assays

Strain development support

Editing can support strain construction steps in programs that evaluate yeast for production of target molecules, with outcomes depending on the target biology and the wider process.

Knockouts of genes selected by the client
Combined edits when the SOW scopes multiplexing
Parent and edited strains for side-by-side evaluation

Construct and integration study support

Projects that build or test genetic constructs in yeast often need a characterized host edit first, and the editing plan is agreed against the intended construct strategy.

Target-locus editing before downstream construct work
Template design when a scoped precise edit requires it
Sequencing records for each delivered clone

FAQ

Questions buyers ask before starting a yeast editing project

These cover the scope, screening, and handoff points that most often come up during project discussions.

Both options are discussed at scoping. Many projects start from a client-supplied strain, while others use a standard laboratory background that the client specifies. Auxotrophies, ploidy, and any existing selection markers are reviewed before design work starts, so the editing plan matches the strain you intend to use downstream.
Knockout is the primary modality and the most predictable to design and screen. Precise edits such as single-base changes, short tag insertions, or sequence replacements are also reviewed, but they are scoped case by case because feasibility depends on the target locus, the repair strategy, and the screening that will be required to confirm the result.
Ploidy is reviewed during scoping, because more than one allele at the same locus may each need to be edited and confirmed separately. For multi-allelic targets, the project plan states how many alleles are targeted and how candidates are screened, and the genotyping strategy reflects the allele number instead of assuming a single-copy locus.
Candidate clones are screened by junction PCR and confirmed at the target locus by Sanger sequencing, so each delivered clone carries a documented genotype rather than a colony-level assumption. Off-target assessment begins with in silico prediction, and targeted amplicon sequencing at predicted sites can be added when it is written into the project scope.
The standard handoff includes a project report, the guide sequences, construct or template information, target-locus sequencing data, and a clone genotype table. Edited clones are provided as glycerol stocks when that is included in the SOW, and parent control strains can be included if they are requested during scoping.
Combined editing is possible and is scoped case by case, because the number of targets, the strain background, and the screening burden all affect how the project is designed. The SOW states how many loci are edited and how candidates are screened and confirmed before anything is released for delivery.

Scientific Literature

References

Ravn JL, Manfrão-Netto JHC, Schaubeder JB, et al. Engineering Saccharomyces cerevisiae for targeted hydrolysis and fermentation of glucuronoxylan through CRISPR/Cas9 genome editing. Microbial cell factories. 2024;23(1):85. View on PubMed
Nishimura A, Tanahashi R, Oi T, et al. Plasmid-free CRISPR/Cas9 genome editing in Saccharomyces cerevisiae. Bioscience, biotechnology, and biochemistry. 2023;87(4):458-462. View on PubMed
Kreuter J, Stark G, Mach RL, et al. Fast and efficient CRISPR-mediated genome editing in Aureobasidium using Cas9 ribonucleoproteins. Journal of biotechnology. 2022;350:11-16. View on PubMed

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