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PARTS

Parts

Overview :

Below is a table with the different parts of SuperBugBuster project, if you need more details, you can contact us at igem.insalyon2023@gmail.com.

Composite parts :

pEDIT1

Name Nickname Type Description Length Status RFC
BBa_K4818104 Composite part pEDIT1 Composite The entry vector of the Gateway system. This plasmid must contain a transfer origin, allowing conjugation with a wide range of bacteria to make our tool applicable to different species. Additionally, this plasmid must provide a carefully chosen replication origin. 2875 bp work 10,23,1000
BBa_K4818105 Plasmide composite part pEDIT1 Composite The entry vector of the Gateway system. This plasmid must contain a transfer origin, allowing conjugation with a wide range of bacteria to make our tool applicable to different species. Additionally, this plasmid must provide a carefully chosen replication origin. 5657 bp work 10,23,1000

pEDIT2

Name Nickname Type Description Length Status RFC
BBa_K4818070 Composite part pEDIT2 Composite The plasmid incorporate an inducible editing system capable of inactivating a specific target gene. 6523 bp work 10,23,25,1000
BBa_K4818071 Plasmide composite part pEDIT2 Composite The plasmid incorporate an inducible editing system capable of inactivating a specific target gene. 9197 bp work 10, 23, 25

pEDIT3

Name Nickname Type Description Length Status RFC
BBa_K4818090 Composite part pEDIT3 Composite This plasmid contain between attL1 and attL2 sites, the guide RNAs (two or four guide RNAs) assembled in tandem, each under the control of an Anhydrotetracycline-inducible promoter. 424 bp work 10,12,23,25,1000
BBa_K4818091 Plasmide composite part pEDIT3 Composite This plasmid contain between attL1 and attL2 sites, the guide RNAs (two or four guide RNAs) assembled in tandem, each under the control of an Anhydrotetracycline-inducible promoter. 2837 bp work 10,23,1000

pEDIT4

Name Nickname Type Description Length Status RFC
BBa_K4818085 Composite part pEDIT4 Composite Plasmid pEDIT4 is the final plasmid enabling the construction of plasmid pEDIT5. This contains the sequence of interest between the attR2 and attL3 recombination sites. 1868 bp work 10,12,21,23,25,1000
BBa_K4818081 Plasmide composite part pEDIT4 Composite Plasmid pEDIT4 is the final plasmid enabling the construction of plasmid pEDIT5. This contains the sequence of interest between the attR2 and attL3 recombination sites. 4588 bp work

pEDIT5

Name Nickname Type Description Length Status RFC
BBa_K4818120 Composite part pEDIT5 Composite Final plasmid 11826 bp work 10,23,1000

Basic parts :

pEDIT1

Name Nickname Type Description Length Status RFC
BBa_K4818000 attR3 Site of LR clonage Mutant version of attR recombination site from bacteriophage lambda, recombination site for the Gateway LR reaction 124 bp work 10,12,21,23,25,1000
BBa_K4818001 CmR Gene Chloramphenicol acetyltransferase, confers resistance to chloramphenicol 660 bp work 10,12,21,23,25,1000
BBa_K4818013 RBS RBS RBS of the CmR gene 6 bp work 10,12,21,23,25,1000
BBa_K4818002 EM7_promoter Promoter of CmR Constitutive synthetic bacterial promoter derived from T7 promoter that drives expression in Escherichia coli 56 bp work 10,12,21,23,25,1000
BBa_K4818003 oriT incP Origin of Transfer Origin of transfer from RP4 plasmid 262 bp work 10,12,21,23,25,1000
BBa_K4818005 ori2 Origin of replication Secondary origin of replication for the bacterial F plasmid; also known as oriS, From the F plasmid 219 bp work 10,12,23,25,1000
BBa_K4818006 repE Gene Replication initiation protein RepE 756 bp work 10,12,21,23,1000
BBa_K4818007 incC Incompatibility region of the bacterial F plasmid, From F plasmid 251 bp work 10,12,21,23,25,1000
BBa_K4818008 attR4 site of LR Clonase Mutant version of attR recombination site from bacteriophage lambda, recombination site for the Gateway LR reaction / From bacteriophage lambda 124 bp work 10,12,21,23,25,1000
BBa_K4818014 RBS RBS RBS of the ccdB gene 5 bp work 10,12,21,23,25,1000
BBa_K4818011 ccdB Gene Toxic component of a type II toxin-antitoxin (TA) system, interfering with the activity of DNA gyrase, inducing it to form a covalent GyrA-DNA complex that cannot be resolved, thus promoting breakage of plasmid and chromosomal DNA. 647 bp work 10,12,23,25,1000
BBa_K4818009 ori pUc Origin of replication High-copy-number ColE1/pMB1/pBR322/pUC origin of replication 589 bp work 10,12,21,23,25,1000
BBa_K4818012 RifR Gene NAD(+)--rifampin ADP-ribosyltransferase Arr-3 [Proteobacteria] NCBI Reference Sequence: WP_001749986.1, confers resistance to rifampicin 452 bp work 10,12,23,25,1000
BBa_K4818106 RBS RBS RBS of the RifR gene 5 bp work 10,12,21,23,25,1000
BBa_K4818101 trc promoter Promoter Strong E. coli promoter; hybrid between the trp and lac UV5 promoters 30 bp work 10,12,21,23,25,1000

pEDIT2

Name Nickname Type Description Length Status RFC
BBa_K4818020 attL4 site of LR Clonase Mutant version of attL from bacteriophage lambda ​​recombination site for the Gateway LR reaction 96 bp work 10,12,21,23,25,1000
BBa_K4818021 T0 terminator Terminator from bacteriophage lambda 95 bp work 10,12,21,23,25,1000
BBa_K4818022 tetR Repressor TetR is the repressor of the tetracycline resistance element; TetR binds to the tetracycline operator tetO to inhibit transcription.This inhibition can be relieved by adding anhydrotetracycline. 768 bp work 10,12,21,23,25,1000
BBa_K4818023 tetR/tetA promoters Promoters overlapping promoters for bacterial tetR and tetA, From the tet operon of Escherichia coli 56 bp work 10,12,21,23,25,1000
BBa_K4818024 tet operator Operator TetR DNA-binding sites, From the tet operon of Escherichia coli 19 bp work 10,12,21,23,25,1000
BBa_K4818025 RBS Ribosome Binding Site RBS strong bacterial ribosome binding site 12 bp work 10,12,21,23,25,1000
BBa_K4818026 dCas9 Gene Catalytically dead mutant of the Cas9 endonuclease from the Streptococcus pyogenes Type II CRISPR/Cas system, RNA-guided DNA-binding protein that lacks endonuclease activity due to the D10A mutation in the RuvC catalytic domain and the H840A mutation in the HNH catalytic domain. The 3 fused proteins dcas9-CDA1-UGI are translated into a single protein thanks to the RBS site placed in front of dCas9 (part nb BBa_K4818025). 4104 bp work 10,23,25,1000
BBa_K4818027 3xFLAG Protein tag Three tandem FLAG® epitope tags, followed by an enterokinase cleavage site 66 bp work 10,12,21,23,25,1000
BBa_K4818029 PmCDA1 Gene Cytidine deaminase / From the sea lamprey Petromyzon marinus 624 bp work 10,12,21,23,25,1000
BBa_K4818030 UGI Gene Uracil-DNA glycosylase inhibitor / From the Bacillus subtilis bacteriophage PBS1 252 bp work 10,12,21,23,25,1000
BBa_K4818102 KanR Gene Aminoglycoside phosphotransferase; aph(3')-Ia; confers resistance to kanamycin in bacteria 810 bp work 10,12,21,23,25,1000
BBa_K4818103 attR1 site of LR Clonase Mutant version of attR from bacteriophage lambda ​​recombination site for the Gateway LR reaction 125 bp work 10,12,21,23,25,1000
BBa_K4818009 ori pUC Origin of replication high-copy-number ColE1/pMB1/pBR322/pUC origin of replication 589 bp work 10,12,21,23,25,1000

pEDIT3

Name Nickname Type Description Length Status RFC
BBa_K4818040 attL1 site of LR Clonase Mutant version of attL / From bacteriophage lambda ​​recombination site for the Gateway LR reaction 100 bp work 10,12,21,23,25,1000
BBa_K4818041 PLtetO-1 Promoter Promoter modified phage lambda PL promoter with tet operator sites From the tet operon of Escherichia coli 50 bp work 10,12,21,23,25,1000
BBa_K4818044 S1-oxa48 gRNA Specific spacer guiding our dCas9-Cytidine base editor to introduce a premature stop codon in place of W25 27 bp work 10,12,21,23,25,1000
BBa_K4818045 gRNA backbone gRNA Guide RNA scaffold for the Streptococcus pyogenes CRISPR/Cas9 system 65 bp work 10,12,21,23,25,1000
BBa_K4818050 S2_oxa48 gRNA S2_oxa48 Specific spacer guiding our dCas9-Cytidine base editor to introduce a premature stop codon in place of R163 27 bp work 10,12,21,23,25,1000
BBa_K4818053 attL2 site of LR Clonase From bacteriophage lambda ​​recombination site for the Gateway LR reaction 100 bp work 10,12,21,23,25,1000
BBa_K4818060 SmR Gene Aminoglycoside (3'') (9) adenylyltransferase, confers resistance to Streptomycin https://www.uniprot.org/uniprotkb/P0AG05/entry 1011 bp work 10,12,21,23,1000
BBa_K4818009 ori pUC Origin of replication High-copy-number ColE1/pMB1/pBR322/pUC origin of replication 589 bp work 10,12,21,23,1000
BBa_K4818102 KanR Gene Aminoglycoside phosphotransferase; aph(3')-Ia; confers resistance to kanamycin in bacteria 810 bp work 10,12,21,23,1000

pEDIT4

Name Nickname Type Description Length Status RFC
BBa_K4818054 attR2 site of LR Clonase Mutant version of attLR / From bacteriophage lambda ​​recombination site for the Gateway LR reaction 125 bp work 10,12,21,23,25,1000
BBa_K4818055 sacB promoter Promoter SacB promoter and control region / From Bacillus subtilis 446 bp work 10,12,21,23,25,1000
BBa_K4818056 SacB Gene SacB levansucrase, secreted levansucrase that renders bacterial growth sensitive to sucrose / From Bacillus subtilis Ref : [1] « sacB - Levansucrase - Bacillus subtilis (strain 168) | UniProtKB | UniProt ». Consulté le: 11 octobre 2023. [En ligne]. Disponible sur: https://www.uniprot.org/uniprotkb/P05655/entry 1422 bp work 10,12,21,23,25,1000
BBa_K4818057 attL3 Mutant version of attL From bacteriophage lambda ​​recombination site for the Gateway LR reaction 96 bp work 10,12,21,23,25,1000
BBa_K4818102 KanR Gene aminoglycoside phosphotransferase; aph(3')-Ia; confers resistance to kanamycin in bacteria 810 bp work 10,12,21,23,25,1000
BBa_K4818009 ori pUC Origin of replication high-copy-number ColE1/pMB1/pBR322/pUC origin of replication 589 bp work 10,12,21,23,25,1000

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