Yeast knock-in services

Saccharomyces cerevisiae Gene Knock-in Service

Precise knock-in at defined loci in Saccharomyces cerevisiae, from donor design through genotyped clone delivery.

Locus-specific donor and reagent design reviewed with your team before bench work starts.
Colony PCR and junction sequencing document cassette integration at the target locus.
Edited clones arrive with genotype records and strain handling notes for downstream work.

Typical project inputs

Share your strain, target locus, and payload, and we return a scoped design-to-clone plan for review before work begins.

Strain background, ploidy, mating type, and auxotrophic markers
Target locus plus cassette or payload description
Marker, promoter, tag, and junction preferences

S. cerevisiae hosts

Junction sequencing QC

Clone-level genotyping

Our approach

Knock-in design built around your yeast strain and target locus

A defined design-to-clone workflow for integrating donor cassettes at chosen loci, with genotyping evidence at every handoff.

Locus- and strain-aware design

Design starts from your strain background, ploidy, and chosen locus, so cassette architecture and selection strategy are set before any bench work begins.

Target locus and flanking sequence reviewed against your annotation
Cassette architecture, marker choice, and junctions confirmed.
Locus-specific editing reagents designed in silico and shared.

Genotype-first clone selection

Selection markers only indicate a candidate; confirmed clones are those with verified cassette presence and junction sequence at the target locus.

Single-colony isolation and colony PCR screening of candidates
Locus sequencing across cassette junctions for confirmed clones
Allele-level checks when the project scope involves multi-allelic.

Donor cassette design

Payload, regulatory elements, and marker configuration are defined with your team and frozen as a design record before construction.

Transformation and clone recovery

Introduction and selection conditions are matched to the strain background and markers, followed by isolation of individual colonies.

Genotyping and documentation

Scoped per project after consultation.

Deliverables

What you receive at project handoff

Materials, genotype evidence, and documentation packaged in the format agreed during project scoping.

Materials and strains

Edited Saccharomyces cerevisiae clones with confirmed integration at the target locus, in the quantity defined in the SOW.
Glycerol stocks or plate cultures in the shipping format agreed at scoping.
Parent or control strain retained for side-by-side comparison when included in scope.
Donor constructs and construct maps retained in the project record when included in scope.

Data and documentation

Genotype report summarizing colony screening and locus sequencing results.
Design records for the donor cassette and the locus-specific reagents used.
QC summary noting junction or sequence observations flagged during genotyping.
Strain handling and recovery notes for downstream culture and archiving.
Milestone summary reviewed with your scientific contact before shipment.

Service scope

Parameters defined case by case

Each knock-in project is planned against the strain, locus, and payload you provide; the table below shows what is customized during scoping.

Parameter	Typical project scope
Host and strain background	Client-supplied S. cerevisiae strain or a defined lab background selected during scoping; ploidy, mating type, and auxotrophies reviewed before design.
Edit type	Precise knock-in of a donor cassette at a defined locus is the core offering; tag insertion, sequence replacement, and base substitution are scoped case by case.
Target locus	Single or multiple loci as agreed in the SOW after sequence and annotation review with your team.
Donor cassette architecture	Payload, promoter, terminator, and marker configuration defined with you; cassette layout confirmed in writing before construction.
Cassette format and homology	Linear or plasmid-borne donor formats evaluated during design; homology arm length and junction positions selected per locus.
Reagent design	Locus-specific editing reagents designed in silico, with candidate number and screening strategy set per project scope.
Transformation and clone recovery	Introduction route and selection conditions matched to the strain background and markers, followed by single-colony isolation.
Genotyping and QC	Colony PCR screening plus locus sequencing to confirm cassette presence and junction sequence; additional checks when the scope calls for them.
Off-target assessment	In silico prediction is standard; targeted amplicon sequencing at predicted sites can be incorporated when requested.
Ploidy and multi-allelic handling	For polyploid or multi-allelic backgrounds, allele-level genotyping and clone segregation are reviewed during scoping.
Technical support	Named scientific contact at project start; milestone review calls; email response within 1 business day

Workflow

How a knock-in engagement runs

Five stages take the project from sequence review to documented clone handoff, with your approval points built into the front end.

Project scoping

We review strain background, target locus, payload, marker strategy, and downstream use to define the editable scope and acceptance criteria in the SOW.

Design and construct preparation

Cassette and reagent designs are prepared in silico, construct formats are chosen for the locus, and design records are shared for your review before transformation.

Transformation and clone recovery

Constructs are introduced into the agreed host and plated under the appropriate selection, after which individual colonies are picked for screening and archiving.

Genotyping and QC

Colony PCR screens candidates for cassette presence and locus sequencing confirms junction sequence; extra checks are added when the agreed scope calls for them.

Reporting and handoff

Confirmed clones and retained controls are documented in a genotype report with handling notes, then shipped in the format agreed at project kickoff.

Applications

Where yeast knock-in projects are commonly used

Knock-in provides a defined integration event that downstream teams can build on, whether the aim is basic study or strain construction.

Gene function and expression studies

Tagged or reporter cassettes integrated at a native locus let research groups investigate gene function, regulation, and protein behavior in a tractable host.

Epitope or fluorescent tag knock-in at the endogenous locus
Reporter cassette placement for expression studies
Documented genotype for published strain records

Pathway and cassette integration

Metabolic engineering groups use targeted integration to place pathway genes or regulatory elements into defined loci while keeping the surrounding genome intact.

Single or multi-locus integration of pathway genes
Promoter and terminator swaps scoped per construct
Clone-level genotyping before downstream evaluation

Construct assembly in a yeast host

Synthetic biology workflows use knock-in to assemble larger constructs step by step, with each integration event confirmed before the next build stage begins.

Sequential integration of construct modules
Marker strategy planned across build stages
Design records supporting later construct revisions

FAQ

Questions buyers ask before scoping

Practical answers on host choice, confirmation of integration, and what ships at the end of a project.

Yes. Many projects start from a client-supplied Saccharomyces cerevisiae strain. During scoping we review ploidy, mating type, auxotrophies, and growth behavior, since these factors influence transformation strategy, selection, and how clones are isolated and genotyped.
Candidate colonies are screened by colony PCR for the expected junctions, and confirmed clones are verified by sequencing across the cassette boundaries at the target locus. Off-target prediction is done in silico, and targeted amplicon sequencing can be added when your scope requires it.
Projects typically involve integrating a donor cassette carrying a payload, tag, or sequence replacement at an agreed locus. Cassette architecture, marker choice, and format are fixed during design, and anything outside that agreed scope is discussed before it is added to the work.
Strains with more than one allele at the target locus need allele-level attention during cloning and genotyping. We review ploidy at scoping, plan screening that distinguishes allele outcomes, and report which alleles were confirmed in the clones that ship.
You receive confirmed edited clones in the agreed format, plus a genotype report covering screening and sequencing results and handling notes for downstream culture. Retained controls, donor constructs, and design records are included when they are written into the project scope.

Scientific Literature

References

Li H, Liang X, Zhou J. [Progress in gene editing technologies for Saccharomyces cerevisiae]. Sheng wu gong cheng xue bao = Chinese journal of biotechnology. 2021;37(3):950-965. View on PubMed
Ivanov IP, Gaikwad S, Shin BS, et al. Conserved +1 translational frameshifting in the Saccharomyces cerevisiae gene encoding YPL034W. The Journal of biological chemistry. 2025;301(12):110891. View on PubMed
Li H, Ma W, Lyv Y, et al. Glycosylation Modification Enhances (2S)-Naringenin Production in Saccharomyces cerevisiae. ACS synthetic biology. 2022;11(7):2339-2347. View on PubMed

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Saccharomyces cerevisiae Gene Knock-in Service

Typical project inputs

Knock-in design built around your yeast strain and target locus

Locus- and strain-aware design

Genotype-first clone selection

Donor cassette design

Transformation and clone recovery

Genotyping and documentation

What you receive at project handoff

Materials and strains

Data and documentation

Parameters defined case by case

How a knock-in engagement runs

Project scoping

Design and construct preparation

Transformation and clone recovery

Genotyping and QC

Reporting and handoff

Where yeast knock-in projects are commonly used

Gene function and expression studies

Pathway and cassette integration

Construct assembly in a yeast host

Questions buyers ask before scoping

References

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