Parts Collection



Our Parts

This year, the 2022 Edinburgh-UHAS_Ghana iGEM Team decided to make a collection of parts centred around two main themes: Cell Free Systems and JUMP assembly. Across all facets of our project, the final goal is always a cell free device; the biosensors, the hydrogel bioremediation devices and the Silica-immobilised PETases. This collection of parts provides an excellent framework for any teams looking to immobilise enzymes and produce fluorescent aptamers. Furthermore, JUMP assembly (a type IIS assembly method Accepted by iGEM) links together all our parts, as this was the only assembly technique we used for DNA assembly. JUMP combines the modularity of BioBricks and PhytoBricks with the convenience of Golden Gate or MoClo assembly. Having designed all our parts to be JUMP compatible, this part collection also serves as a valuable toolkit for teams looking to use JUMP assembly. We have added many common parts required for synthetic biology, as well as designed new utility parts (See BBa_K4390006-8) to improve modularity even further. This meant that from a relatively small number of basic parts, we were able to assemble a large combinatorial array of composite parts. We hope that future teams will utilize parts in our collection to continue excellent JUMP-assembled synthetic biology work.


Basic Parts for Cell Free Systems with JUMP Assembly

Name Type Description Designers JUMP Type Design Build Test
BBa_K4390001 Terminator L2U2H09 Terminator Maarten van den Ancker T ✓ ✓ ✓
BBa_K4390029 Terminator T7hyb10 terminator Maarten van den Ancker T ✓ ✓
BBa_K4390068 Coding sequence merR (JUMP adapted) N/A (used existing addgene part not on repository) O ✓ ✓
BBa_K4390094 RNA aptamer F30 flanked iSpinach Maarten van den Ancker, Dovydas Samulionis, William McKenny NOC ✓
BBa_K4390096 RNA aptamer F30 flanked Squash Maarten van den Ancker, Dovydas Samulionis, William McKenny NOC ✓
BBa_K4390095 RNA aptamer F30 flanked Broccoli Maarten van den Ancker, Dovydas Samulionis, William McKenny NOC ✓
BBa_K4390069 RNA aptamer 2x Brocolli RNA aptamer Maarten van den Ancker O ✓ ✓ ✓
BBa_K4390016 Tag 6xHis :: TEV protease cleavage site Maarten van den Ancker, Serafina Soehianto, Dev Vaidya N ✓ ✓
BBa_K4390023 Tag Cellulose Binding Domain :: Gly-Ser Linker Serafina Soehianto and Maarten van den Ancker O ✓ ✓ ✓
BBa_K4390034 Coding sequence SpyTag flanked M. edulis Metallothionein Serafina Soehianto and Maarten van den Ancker OC ✓
BBa_K4390064 Coding sequence SpyTagged sfGFP Serafina Soehianto and Maarten van den Ancker OC ✓
BBa_K4390066 Coding sequence SpyCatcher O part Serafina Soehianto and Maarten van den Ancker O ✓
BBa_K4390067 Coding sequence SpyCatcher C part Serafina Soehianto and Maarten van den Ancker C ✓
BBa_K4390025 Tag Si-tag :: Gly-Ser Linker Serafina Soehianto and Maarten van den Ancker NO ✓ ✓
BBa_K4390017 Tag SUMO tag :: Glycine-Serine Linker Dev Vaidya and Maarten van den Ancker O ✓ ✓
BBa_K4390009 Coding sequence Mytilus edulis Metallothionein Dev Vaidya and Maarten van den Ancker C ✓ ✓ ✓
BBa_K4390010 Coding sequence Mytilus galloprovincialis Metallothionein Dev Vaidya and Maarten van den Ancker C ✓ ✓
BBa_K4390011 Coding sequence Callinectes sapidus Metallothionein Dev Vaidya and Maarten van den Ancker C ✓ ✓
BBa_K4390012 Coding sequence Danio rerio Metallothionein Dev Vaidya and Maarten van den Ancker C ✓ ✓
BBa_K4390013 Coding sequence Pseudomonas fluorescens Metallothionein Dev Vaidya and Maarten van den Ancker C ✓
BBa_K4390014 Coding sequence Saccharomyces cerevisiae Metallothionein Dev Vaidya and Maarten van den Ancker C ✓ ✓
BBa_K4390006 Utility JUMP N part spacer Maarten van den Ancker N ✓ ✓ ✓
BBa_K4390007 Utility JUMP O part spacer Maarten van den Ancker O ✓ ✓ ✓
BBa_K4390008 Utility JUMP C part spacer Maarten van den Ancker C ✓ ✓ ✓
BBa_K4390037 Coding sequence E. coli codon optimised Lambda cI Maarten van den Ancker NOC ✓
BBa_K4390031 Tag L2NC Silica Tag (N-terminal) Zhongyi Liang and Serafina Soehianto N ✓ ✓ ✓
BBa_K4390111 Tag L2NC-linker Silica tag (N-terminal) Zhongyi Liang and Serafina Soehianto N ✓ ✓ ✓
BBa_K4390032 Coding sequence MHETase Zhongyi Liang O ✓ ✓ ✓
BBa_K4390074 Coding sequence Tri-PETase Zhongyi Liang O ✓ ✓ ✓
BBa_K4390073 Coding sequence FAST-PETase Zhongyi Liang O ✓ ✓ ✓
BBa_K4390070 Terminator L1U1H08 Synthetic Terminator Zhongyi Liang and Maarten van den Ancker T ✓ ✓ ✓
BBa_K4390072 Coding sequence WT-RolA Zhongyi Liang O ✓ ✓ ✓
BBa_K4390071 Coding sequence Soluble RolA Zhongyi Liang O ✓ ✓ ✓

Best New Basic Part

We chose BBa_K4390006 as our best part, the JUMP N-adapter. We used this part extensively in modularisation, as it allowed us to exclude type N parts from assembly, when we wanted to form transcriptional units using O and C parts we had available. This was especially useful for any tagging, as it meant we could quickly and easily produce untagged parts without having to order in new parts. This part is compatible for all JUMP assemblies, and can be used in any constructs.


Composite Parts for Cell Free Systems with JUMP Assembly

Name Type Description Authors Designed Built Tested
BBa_K4390002 Transcriptional unit ArsR expression construct Maarten van den Ancker, Dovydas Samulionis, William McKenny ✓ ✓ ✓
BBa_K4390003 Transcriptional unit merR mutated expression construct Maarten van den Ancker, Dovydas Samulionis, William McKenny ✓ ✓ ✓
BBa_K4390004 Transcriptional unit merR expression construct Maarten van den Ancker, Dovydas Samulionis, William McKenny ✓ ✓ ✓
BBa_K4390005 Transcriptional unit pbrR expression construct Maarten van den Ancker, Dovydas Samulionis, William McKenny ✓ ✓ ✓
BBa_K4390049 Biosensor Linear Arsenic Biosensor Maarten van den Ancker, Dovydas Samulionis, William McKenny ✓ ✓ ✓
BBa_K4390050 Biosensor Mercury biosensor Maarten van den Ancker, Dovydas Samulionis, William McKenny ✓ ✓ ✓
BBa_K4390051 Biosensor Lead biosensor Maarten van den Ancker, Dovydas Samulionis, William McKenny ✓ ✓ ✓
BBa_K4390097 Biosensor merR controlled iSpinach biosensor Maarten van den Ancker, Dovydas Samulionis, William McKenny ✓
BBa_K4390098 Biosensor merR controlled Squash biosensor Maarten van den Ancker, Dovydas Samulionis, William McKenny ✓
BBa_K4390099 Biosensor merR controlled Broccoli biosensor Maarten van den Ancker, Dovydas Samulionis, William McKenny ✓
BBa_K4390103 Biosensor arsR controlled iSpinach biosensor Maarten van den Ancker, Dovydas Samulionis, William McKenny ✓
BBa_K4390104 Biosensor arsR controlled Squash biosensor Maarten van den Ancker, Dovydas Samulionis, William McKenny ✓
BBa_K4390105 Biosensor arsR controlled Broccoli biosensor Maarten van den Ancker, Dovydas Samulionis, William McKenny ✓
BBa_K4390100 Biosensor pbrR controlled iSpinach biosensor Maarten van den Ancker, Dovydas Samulionis, William McKenny ✓
BBa_K4390101 Biosensor pbrR controlled Squash biosensor Maarten van den Ancker, Dovydas Samulionis, William McKenny ✓
BBa_K4390102 Biosensor pbrR controlled Broccoli biosensor Maarten van den Ancker, Dovydas Samulionis, William McKenny ✓
BBa_K4390106 Biosensor Constitutive iSpinach Maarten van den Ancker, Dovydas Samulionis, William McKenny ✓
BBa_K4390107 Biosensor Constitutive Squash Maarten van den Ancker, Dovydas Samulionis, William McKenny ✓
BBa_K4390108 Biosensor Constitutive Broccoli Maarten van den Ancker, Dovydas Samulionis, William McKenny ✓
BBa_K4390052 Biosensor Arsenic biosensor (in plasmid) Maarten van den Ancker, Dovydas Samulionis, William McKenny ✓
BBa_K4390053 Biosensor Mercury biosensor (in plasmid) Maarten van den Ancker, Dovydas Samulionis, William McKenny ✓
BBa_K4390054 Biosensor Lead biosensor (in plasmid) Maarten van den Ancker, Dovydas Samulionis, William McKenny ✓
BBa_K4390055 Transcriptional unit M. edulis MT expression construct Serafina Soehianto and Maarten van den Ancker ✓ ✓ ✓
BBa_K4390056 Transcriptional unit sfGFP expression construct (JUMP assembled) Serafina Soehianto and Maarten van den Ancker ✓ ✓ ✓
BBa_K4390057 Transcriptional unit His-tagged M. edulis MT expression construct Serafina Soehianto and Maarten van den Ancker ✓ ✓ ✓
BBa_K4390058 Transcriptional unit His-tagged sfGFP expression construct (JUMP assembled) Serafina Soehianto and Maarten van den Ancker ✓ ✓ ✓
BBa_K4390027 Transcriptional unit Si-tagged sfGFP Serafina Soehianto and Maarten van den Ancker ✓
BBa_K4390059 Transcriptional unit Car9-tagged sfGFP Serafina Soehianto ✓
BBa_K4390060 Transcriptional unit L2NC tagged sfGFP Serafina Soehianto ✓
BBa_K4390026 Transcriptional unit SB7-tagged M. edulis Metallothionein Serafina Soehianto ✓
BBa_K4390061 Transcriptional unit Car9-tagged M. edulis metallothionein Serafina Soehianto ✓
BBa_K4390062 Transcriptional unit L2NC tagged M. edulis Metallothionein Serafina Soehianto ✓
BBa_K4390063 Transcriptional unit His-tagged Cellulose binding domain fused sfGFP Serafina Soehianto and Maarten van den Ancker ✓ ✓ ✓
BBa_K4390024 Transcriptional unit Cellulose Hydrogel Metallothionein Expression Serafina Soehianto and Maarten van den Ancker ✓ ✓ ✓
BBa_K4390065 Transcriptional unit His-tagged SpyTagged sfGFP expression construct Serafina Soehianto and Maarten van den Ancker ✓ ✓ ✓
BBa_K4390035 Transcriptional unit SpyTagged His-tagged M. edulis MT Serafina Soehianto and Maarten van den Ancker ✓
BBa_K4390033 Transcriptional unit SpyCatcher Expression Construct Serafina Soehianto and Maarten van den Ancker ✓
BBa_K4390015 Transcriptional unit M. edulis MT expression construct Dev Vaidya and Maarten van den Ancker ✓ ✓ ✓
BBa_K4390018 Transcriptional unit M. galloprovincialis MT expression construct Dev Vaidya and Maarten van den Ancker ✓ ✓ ✓
BBa_K4390019 Transcriptional unit C. sapidus MT expression construct Dev Vaidya and Maarten van den Ancker ✓ ✓ ✓
BBa_K4390020 Transcriptional unit D. rerio MT expression construct Dev Vaidya and Maarten van den Ancker ✓ ✓ ✓
BBa_K4390021 Transcriptional unit P. fluorescens MT expression construct Dev Vaidya and Maarten van den Ancker ✓
BBa_K4390022 Transcriptional unit S. cerevisiae MT expression construct Dev Vaidya and Maarten van den Ancker ✓ ✓ ✓
BBa_K4390038 Transcriptional unit arsR regulated lambda cI expression Dev Vaidya, William McKenny, Maarten van den Ancker ✓
BBa_K4390039 Transcriptional unit pbrR controlled lambda cI expression Dev Vaidya, William McKenny, Maarten van den Ancker ✓
BBa_K4390040 Transcriptional unit merR controlled lambda cI expression Dev Vaidya, William McKenny, Maarten van den Ancker ✓
BBa_K4390041 Transcriptional unit arsR regulated mCherry expression Dev Vaidya, William McKenny, Maarten van den Ancker ✓
BBa_K4390042 Transcriptional unit pbrR regulated mCherry expression Dev Vaidya, William McKenny, Maarten van den Ancker ✓
BBa_K4390043 Transcriptional unit merR regulated mCherry expression Dev Vaidya, William McKenny, Maarten van den Ancker ✓
BBa_K4390044 Transcriptional unit Lambda cI controlled Chloramphenicol resistance Dev Vaidya, William McKenny, Maarten van den Ancker ✓
BBa_K4390045 Circuit SELIS arsR evolution construct Dev Vaidya, William McKenny, Maarten van den Ancker ✓
BBa_K4390046 Circuit SELIS merR evolution construct Dev Vaidya, William McKenny, Maarten van den Ancker ✓
BBa_K4390047 Circuit SELIS mutated merR evolution construct Dev Vaidya, William McKenny, Maarten van den Ancker ✓
BBa_K4390048 Circuit SELIS pbrR evolution construct Dev Vaidya, William McKenny, Maarten van den Ancker ✓
BBa_K4390075 Transcriptional unit C-terminal Car9-tagged FAST-PETase Zhongyi Liang ✓ ✓ ✓
BBa_K4390076 Transcriptional unit C-terminal L2NC-tagged FAST-PETase Zhongyi Liang ✓ ✓ ✓
BBa_K4390077 Transcriptional unit C-terminal L2NC-linker-tagged FAST-PETase Zhongyi Liang ✓ ✓ ✓
BBa_K4390078 Transcriptional unit C-terminal Car9-tagged MHETase Zhongyi Liang ✓ ✓ ✓
BBa_K4390079 Transcriptional unit C-terminal L2NC-tagged MHETase Zhongyi Liang ✓ ✓ ✓
BBa_K4390080 Transcriptional unit C-terminal L2NC-linker-tagged MHETase Zhongyi Liang ✓ ✓ ✓
BBa_K4390081 Transcriptional unit C-terminal Car9-tagged Tri-PETase Zhongyi Liang ✓ ✓ ✓
BBa_K4390082 Transcriptional unit C-terminal L2NC-tagged Tri-PETase Zhongyi Liang ✓ ✓ ✓
BBa_K4390083 Transcriptional unit C-terminal L2NC-linker-tagged Tri-PETase Zhongyi Liang ✓ ✓ ✓
BBa_K4390084 Transcriptional unit N-terminal Car9-tagged FAST-PETase Zhongyi Liang ✓ ✓ ✓
BBa_K4390085 Transcriptional unit N-terminal Car9-tagged Dou-PETase Zhongyi Liang ✓ ✓ ✓
BBa_K4390086 Transcriptional unit N-terminal Car9-tagged Tri-PETase Zhongyi Liang ✓ ✓ ✓
BBa_K4390087 Transcriptional unit N-terminal Car9-tagged MHETase Zhongyi Liang ✓ ✓ ✓
BBa_K4390088 Transcriptional unit Untagged Dou-PETase Zhongyi Liang ✓ ✓ ✓
BBa_K4390089 Transcriptional unit Untagged Tri-PETase Zhongyi Liang ✓ ✓ ✓
BBa_K4390090 Transcriptional unit Untagged FAST-PETase Zhongyi Liang ✓ ✓ ✓
BBa_K4390091 Transcriptional unit Untagged MHETase Zhongyi Liang ✓ ✓ ✓
BBa_K4390092 Transcriptional unit His-tagged WT RolA Zhongyi Liang ✓ ✓ ✓
BBa_K4390093 Transcriptional unit His-tagged Soluble RolA Zhongyi Liang ✓ ✓ ✓
BBa_K4390109 Transcriptional unit Car9 tag expression (control) Zhongyi Liang ✓ ✓ ✓
BBa_K4390110 Transcriptional unit L2NC tag expression (control) Zhongyi Liang ✓ ✓ ✓
BBa_K4390112 Transcriptional unit L2NC-linker tag expression (control) Zhongyi Liang ✓ ✓ ✓
BBa_K4390113 Transcriptional unit N-terminal L2NC-tagged FAST-PETase Zhongyi Liang ✓ ✓ ✓
BBa_K4390114 Transcriptional unit N-terminal L2NC-linker-tagged FAST-PETase Zhongyi Liang ✓ ✓ ✓
BBa_K4390115 Transcriptional unit N-terminal L2NC-tagged Tri-PETase Zhongyi Liang ✓ ✓ ✓
BBa_K4390116 Transcriptional unit N-terminal L2NC-linker-tagged Tri-PETase Zhongyi Liang ✓ ✓ ✓
BBa_K4390117 Transcriptional unit N-terminal L2NC-tagged MHETase Zhongyi Liang ✓ ✓ ✓
BBa_K4390118 Transcriptional unit N-terminal L2NC-linker-tagged MHETase Zhongyi Liang ✓ ✓ ✓


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