Currently, there are no truly free open source synthetic biology toolkits for engineering yeast. This inhibits innovation and restricts access to these powerful organisms as platforms for biotechnology. The Open Yeast Collection is a free and open DNA toolkit for engineering Saccharomyces cerevisiae and Pichia pastoris, enabling anyone to have a complete and robust toolkit to build new metabolic pathways or produce enzymes and proteins of interest.
Saccharomyces cerevisiae (brewers yeast) is one of the most useful microorganisms to humans with usage in brewing beer, making wine, and baking bread. In addition to these traditional uses, this yeast has been instrumental in biotechnology, being one of the primary model organisms used for industrial fermentation of bioengineered metabolic pathways. Pichia pastoris (Komagataella pastoris) is a species of methylotrophic yeast is frequently used as an expression system for the production of heterologous proteins.
What can it be used for?
The Open Yeast Collection is a foundational and enabling framework for contributing to the creation of an open, sustainable and equitable bioeconomy. More specifically Open Yeast Collection permits the building of plasmids from free, reusable and redistributable genetic parts for genetically modifying Saccharomyces cerevisiae or for the production of heterologous proteins in Pichia. The plasmids can be used for basic education and research (e.g. protein-protein interactions via yeast-2-hybrid) or for building multi-enzyme metabolic pathways to create a wide variety of natural/commodity chemicals as well as fine and specialized chemicals such as pharmaceuticals. This will appeal to a wide variety of users from educators & students, community-based & academic researchers and bio-entrepreneurs.
What is included?
The Open Yeast Collection contains one (1) 96-well plate holding 92 DNA parts as raw plasmid DNA, each in the standard FreeGenes level 0 pOpen-v3 plasmid and are all AmpR.
19 Yeast Promoters
14 CDS (genes), 2 secretion tags, 1 nuclear localization signal
9 Yeast Terminators
8 Yeast Selection Markers
7 Pairs of 5' and 3' homology regions for genome integration
3 Yeast Origins and 1 Origin of Transfer
14 Left and Right Assembly Connectors for level 2 multi-gene assembly
2 E. coli selection merkers and 2 origins of replication
3 Assembly bridges for optional bypassing of assembly positions.
Where I can find more information?
Open Biofoundry is the new home for information on the Open Yeast Collection. Watch and contribute to make the collection flourish.
The Reagent Collaboration Network Forum hosts scientists from across the world seeking to support each other in accessing reagents for research and diagnostics, through sharing and partnership.
John Dueber's Yeast Toolkit, released under the restrictive UBMTA, inspired the Open Yeast Collection. The two toolkits use different assembly standards but understanding YTK helps you to understand OYC.
A Highly Characterized Yeast Toolkit for Modular, Multipart Assembly
This product is designed by Scott Pownall, PhD, with assistance from Isaac Larkin, PhD, on the Pichia parts.
These parts are made available under the unilateral OpenMTA
The Open Yeast Collection contains one (1) 96-well plate holding 92 DNA parts as raw plasmid DNA.
Plate map is found: here.
This kit is included in kit plate 2 of the 2022 iGEM distribution. The plate map for kit plate 2 of the iGEM 2022 distribution can be found here.
Shipped as purified and dried down plasmid DNA stained with Cresol Red in one 96-well plate. Each well contains approximately 50 ng of DNA. Cresol Red will not impact plasmid transformation. Some or all of these items are for use only as permitted by a research exemption.
Genes
| Gene | Name | Freegenes ID |
|---|---|---|
| Sc-pAdh1 | S. cerevisiae promoter Adh | BBF10K_000034 |
| Sc-pCCW12 | S. cerevisiae promoter CCW12 strong | BBF10K_000037 |
| Sc-pCUP1 | S. cerevisiae promoter CUP1 inducible | BBF10K_000039 |
| Sc-pCYC1 | S. cerevisiae promoter CYC1 | BBF10K_000046 |
| Sc-pHis3 | S. cerevisiae promoter His3 | BBF10K_000068 |
| Sc-pLeu2 | S. cerevisiae promoter Leu2 | BBF10K_000078 |
| Sc-pMF2 | S. cerevisiae promoter MF2 | BBF10K_000079 |
| Sc-pMFA1 | S. cerevisiae promoter MFA1 | BBF10K_000084 |
| Sc-pMFalpha2 | S. cerevisiae promoter MFalpha2 | BBF10K_000094 |
| Sc-pRPL18B | S. cerevisiae promoter RPL18B | BBF10K_000106 |
| Sc-pSAC6 | S. cerevisiae promoter SAC6 | BBF10K_000107 |
| Sc-pSte5 | S. cerevisiae promoter Ste5 | BBF10K_000129 |
| Sc-pTDH3 | S. cerevisiae promoter TDH3 | BBF10K_000134 |
| Sc-pTrp1 | S. cerevisiae promoter Trp1 | BBF10K_000151 |
| Sc-pUra3 | S. cerevisiae promoter Ura3 | BBF10K_000152 |
| AB_Sc-pCCW12 | S. cerevisiae promoter CCW12 strong (AB enhanced) | BBF10K_000163 |
| AB_Sc-pCYC1 | S. cerevisiae promoter CYC1 (AB enhanced) | BBF10K_000167 |
| AB_Pp-pGAP | Pichia GAP Promoter (enhanced) | BBF10K_000180 |
| AB_Pp-pAOX1 | Pichia AOX1 Promoter (enhanced) | BBF10K_000181 |
| ScLYS2 | S. cerevisiae cds LYS2 | BBF10K_000195 |
| ScMET17 | S. cerevisiae cds MET17 | BBF10K_000196 |
| ScAUR1 | S. cerevisiae cds AUR1 | BBF10K_000199 |
| Cre | S. cerevisiae cds Cre recombinase | BBF10K_000207 |
| FLP | S. cerevisiae cds FLP recombinase | BBF10K_000210 |
| GPP synthase | S. cerevisiae cds GPP synthase | BBF10K_000211 |
| GGPP synthase | S. cerevisiae cds GGPP synthase | BBF10K_000217 |
| FPP synthase | S. cerevisiae cds FPP synthase | BBF10K_000227 |
| 4S-limonene-synthase | S. cerevisiae CDS 4S-limonene-synthase | BBF10K_000238 |
| limonene-3-hydroxylase | S. cerevisiae cds limonene-3-hydroxylase | BBF10K_000243 |
| S-linalool synthase | S. cerevisiae cds LIS (S-linalool synthase) | BBF10K_000246 |
| carveol dehydrogenase | S. cerevisiae cds carveol dehydrogenase | BBF10K_000256 |
| ScGal4-DNA-AD | S. cerevisiae cds-Gal4-DNA-Activation-Domain | BBF10K_000327 |
| ScGal4-DNA-BD | S. cerevisiae cds Gal4 DNA-Binding-Domain | BBF10K_000329 |
| N1N2_SV40_NLS | N1N2 SV40 Nuclear Localization Signal (NLS) | BBF10K_000335 |
| Pp_aMF_sec_tag | Pichia aMF Secretion Tag | BBF10K_000355 |
| Pp_aMF_noEAEA_sec_tag | Pichia aMF_noEAEA secretion tag | BBF10K_000357 |
| Sc-tUBX6 | S. cerevisiae terminator UBX6 | BBF10K_000385 |
| Sc-tENO1 | S. cerevisiae terminator ENO1 | BBF10K_000392 |
| Sc-tENO2 | S. cerevisiae terminator ENO2 | BBF10K_000401 |
| Sc-tPRM9 | S. cerevisiae terminator PRM9 | BBF10K_000406 |
| Sc-tSSA1 | S. cerevisiae terminator SSA1 | BBF10K_000412 |
| Sc-tTDH1 | S. cerevisiae terminator TDH1 | BBF10K_000416 |
| Pp-tAOX1 | Pichia terminator AOX1 | BBF10K_000418 |
| AConL-start-rev | assembly connector left start-rev | BBF10K_000420 |
| AConL-start | assembly connector left start | BBF10K_000424 |
| AConL1 | assembly connector left 1 | BBF10K_000429 |
| AConL2 | assembly connector left 2 | BBF10K_000432 |
| AConL3 | assembly connector left 3 | BBF10K_000439 |
| AConL4 | assembly connector left 4 | BBF10K_000440 |
| AConL5 | assembly connector left 5 | BBF10K_000441 |
| AConR1 | assembly connector right 1 | BBF10K_000442 |
| AConR2 | assembly connector right 2 | BBF10K_000443 |
| AConR3 | assembly connector right 3 | BBF10K_000444 |
| AConR4 | assembly connector right 4 | BBF10K_000445 |
| AConR5 | assembly connector right 5 | BBF10K_000446 |
| AConR-end | assembly connector right end | BBF10K_000447 |
| AConR-end-rev | assembly connector right end-rev | BBF10K_000448 |
| ScHR5'-LEU2 | S. cerevisiae target 5'-Homology Region LEU2 | BBF10K_000449 |
| ScHR3'-LEU2 | S. cerevisiae target LEU2 3'-Homology Region | BBF10K_000450 |
| ScHR5'-URA3 | S. cerevisiae target 5'-Homology Region URA3 | BBF10K_000451 |
| ScHR3'-URA3 | S. cerevisiae target URA3 3'-Homology Region | BBF10K_000452 |
| ScHR5'-HO | S. cerevisiae target 5'-Homology Region HO | BBF10K_000453 |
| ScHR3'-HO | S. cerevisiae target HO 3'-Homology Region | BBF10K_000454 |
| PpHR5'-NTS | Pichia NTS 3'-Homology Region | BBF10K_000455 |
| PpHR3'-NTS | Pichia NTS 5'-Homology Region | BBF10K_000456 |
| PpHR5'-RGI2 | Pichia RGI2 3'-Homology Region | BBF10K_000457 |
| PpHR3'-RGI2 | Pichia RGI2 5'-Homology Region | BBF10K_000458 |
| PpHR5'-ENO | Pichia ENO 3'-Homology Region | BBF10K_000459 |
| PpHR3'-ENO | Pichia ENO 5'-Homology Region | BBF10K_000460 |
| PpHR5'-AOXTT | Pichia AOXTT 3'-Homology Region | BBF10K_000461 |
| PpHR3'-AOXTT | Pichia AOXTT 5'-Homology Region | BBF10K_000462 |
| Sc2micron | S. cerevisiae target ori 2micron origin | BBF10K_000463 |
| ScARS_CEN | S. cerevisiae target ori ARS_CEN | BBF10K_000464 |
| Pichia PARS | Pichia (Komagataella pastoris) origin | BBF10K_000465 |
| oriT | S. cerevisiae target oriT | BBF10K_000466 |
| ScADE2-marker | S. cerevisiae marker-cassette-ADE2 | BBF10K_000467 |
| ScHIS3-marker | S. cerevisiae marker-cassette-HIS3 | BBF10K_000468 |
| ScHygro-marker | S. cerevisiae marker-cassette-Hygro | BBF10K_000469 |
| ScKanR-marker | marker-cassette-KanR | BBF10K_000470 |
| ScLEU2-marker | marker-cassette-LEU2 | BBF10K_000471 |
| ScNAT-marker | marker-cassette-NAT | BBF10K_000472 |
| ScTRP1-marker | marker-cassette-TRP1 | BBF10K_000473 |
| ScURA3-marker | marker-cassette-URA3 | BBF10K_000474 |
| ScZeo-marker | marker-cassette-Zeo | BBF10K_000475 |
| OYC-bridge-AGAC-CGAA | OYC-bridge-AGAC-CGAA | BBF10K_000476 |
| OYC-bridge-AGAC-GCAA | OYC-bridge-AGAC-GCAA | BBF10K_000477 |
| OYC-CamR | OYC-resistance-CamR | BBF10K_000479 |
| OYC-SpecR | OYC-resistance-SpecR | BBF10K_000480 |
| OYC-high-copy-origin | OYC-high-copy-origin | BBF10K_000481 |
| OYC-eforRed-dropout | OYC-eforRed-dropout-cassette | BBF10K_000482 |
| pWV01-ori | pWV01-ori | BBF10K_000484 |
Download all of this information as a CSV from our GitHub.
Bionet
The bionet enables open peer-peer exchange of functional biomaterials and associated data. This product may also be available from bionet nodes that are more convenient to you. Here are other bionet nodes who may be willing to provide you this specific product.| Name | Contact | Country |
|---|---|---|
| Nicole Prandi | jcm80 {at} cam {dot} ac {dot} uk | United Kingdom |
| Benjamin Chavez | chavez {at} ipk-gatersleben {dot} de | Germany |
| Kevin Correia | kevin {at} kedalionlabs {dot} com | Netherlands |
| Prince Samoh | Samohprince.edem {at} gmail {dot} com | Ghana |
| Dongyan Niu | ruina.bao {at} ucalgary {dot} ca | Canada |
| Piero Beraun | piero.beraun {at} utec {dot} edu {dot} pe | Italy |
| Elizabeth Bilsland | bilsland {at} unicamp {dot} br | Brazil |
| Mikhail Khvochtchev | mikhail.khv {at} mahidol {dot} edu | Thailand |
| Ellen Jorgensen | ejorgensen {at} biotechwithoutborders {dot} org | United States |
| Scott Pownall | scott {at} opensciencenet {dot} org | Canada |
| Patricia Squitiero | https://openinsulin.org/ | United States |
| Emiliano Emiliano | emilianovilardo {at} gmail {dot} com | Argentina |
| Wapouo Fadanka Stephane | mboalab {at} gmail {dot} com | Republic of Cameroon |
| Peter Rootes | root0059 {at} umn {dot} edu | United States |
| Joey Riepsaame | joey.riepsaame {at} path {dot} ox {dot} ac {dot} uk | United Kingdom |
| Andrew Gray | andrewg {at} bioq {dot} org {dot} au | Australia |
| Caroline Huang | NA | Canada |
| Danielle Pedrolli | danielle.pedrolli {at} unesp {dot} br | Brazil |
| David Chiasson | david.chiasson {at} smu {dot} ca | Canada |
| Libby Sharpe | libby.sharpe {at} leomail {dot} tamuc {dot} edu | United States |
| Amir Kashani | NA | Canada |
| Cihan Aydin | cihan.aydin {at} medeniyet {dot} edu {dot} tr | Turkey |
| Mariela Escobar | maru {at} michroma {dot} co | Argentina |
| Josephine Labos | N/A | Philippines |
| Benjamin Arias | barias {at} alumni {dot} usfq {dot} edu {dot} ec | Ecuador |
| Jordan Gonzalez | jgonzalez {at} thecitizensciencelab {dot} org | United States |
| Aleksandr Shilovich | mercurialbadger {at} yandex {dot} ru | Russia |
| Michael Miller | michael.j.miller {at} uon {dot} edu {dot} au | Australia |
| Andrei Berasneu | a.berasneu {at} kleverlab {dot} pl | Poland |
| Watanyu Bunsermyos | watanyu.bu {at} ku {dot} th | Thailand |
| LUN CUI | luncui {at} cczu {dot} edu {dot} cn | China |
| Jehovani Lopez | info {at} genspace {dot} org | United States |
| William Fried | uscigem {at} usc {dot} edu | United States |
| Emma Kirby | emmakirby573 {at} gmail {dot} com | Canada |
| Andrei Berasneu | andreyberesnevson {at} gmail {dot} com | Poland |
| Katherine Baney | katherinebaney {at} gmail {dot} com | United States |
| Moritz Venne | moritz.venne {at} web {dot} de | Germany |
| Muzaffar Muminov | muminov.imbio {at} gmail {dot} com | Uzbekistan |
| Aishwarya Venkatramani | NA | United Kingdom |
| Maira Goytia | mgoytia {at} spelman {dot} edu | United States |
| Juan Sebastian Alvarez | juan.alvarez1 {at} ucalgary {dot} ca | Canada |
| Marc Juul | marc {at} juul {dot} io | United States |
| Tocvic Meng | Tocvic Meng \ Email: tocvic.meng {at} holocyte {dot} com \ website https://gmexpression {dot} com/ | Australia |
| Meng Lu | menglu {at} iastate {dot} edu | United States |
| Matias Cabeza | matiascabeza {at} gmail {dot} com | Argentina |
| mehmet tardu | mtardu {at} gmail {dot} com | Turkey |
| Elliot Medina | elliot.medina {at} moffitt {dot} org | United States |
| Sarah Ware | sarah.ware {at} bioblaze {dot} org | United States |
| Rolando Perez | rcperez {at} alumni {dot} stanford {dot} edu | United States |
| Yi Zhang | www.pharmozyme.com | United States |
| Maya Bendifallah | maya.bendi {at} gmail {dot} com | France |
| Stijn Tobias de Vries | stijn.vries {at} mpi-marburg {dot} mpg {dot} de | Germany |
| Shobha KrupaRani | pshobha {at} ccmb {dot} res {dot} in | India |
| Kristel Alman | kristel.alman {at} ut {dot} ee | Estonia |
| Kabir Husain | kabirh {at} uchicago {dot} edu | United States |
| Charlie Gilbert | charlie.gilbert {at} colorifix {dot} com | United Kingdom |
| Nick McGregor | mcgregn2 {at} gmail {dot} com | Canada |
| Tim Dobbs | tim.dobbs {at} cri-paris {dot} org | France |
| Dayananda Chandrappa | nanda.daya {at} gmail {dot} com | India |
| Tal Globus | bio {at} talglobus {dot} com | United States |
Download all of this information as a CSV from our GitHub.