Biosafety
Revision as of 09:05, 3 October 2012 by Jeancury (Talk | contribs) (→More information about biosafety)
Contents
More information about biosafety
- Quick links of pubmed research :
- [http://www.ncbi.nlm.nih.gov/pubmed?term=biosafety%20gmo biosafety gmo]
- [http://www.ncbi.nlm.nih.gov/pubmed?term=biosafety%20synthetic%20biology biosafety synthetic biology]
- [http://www.ncbi.nlm.nih.gov/pubmed?term=issue%20synthetic%20biology issue synthetic biology]
We encourage you to do this kind of research as part of your bibliography for whatever research you are working on.
- Here is the link an openwetware page that aims at being improved by the community. The idea is to improve biosafety practices in synthetic biology, through this report, trying to raise the good questions, all together.
->[http://openwetware.org/wiki/How_safe_is_safe_enough:_towards_best_pratices_of_synthetic_biology How safe is safe enough?]
- The link toward the biosafety recommendation page of iGEM:
[igem.org/safety Safety page]
Semantic Containment
Here are parts that would add a semantic containment to genes, or parts that would allow the cell to read semantic containments gene.
| Name | Type | Description | Length |
|---|---|---|---|
| BBa_K1479017 | Protein_Domain | just for test | 100 |
| BBa_K1479018 | Protein_Domain | Just for test | |
| BBa_K2086001 | Coding | Serine Repeat Antigen (SerA) | 1233 |
| BBa_K914000 | RNA | pLac-supD-T | 241 |
| BBa_K914009 | Translational_Unit | P1003* Ser133->Amber Codon | 967 |
| BBa_K914011 | Intermediate | supD-T - intermediate | 178 |
| BBa_K914012 | Plasmid_Backbone | pSB1A2 with 1 amber mutation | 2079 |
| BBa_K914018 | Translational_Unit | P1003** Kan resistant gene with 2 Amber Codon | 967 |
Kill switch
Here are parts that could trigger cell death through disruption at the level of the protein and the cell.
| Name | Type | Description | Length |
|---|---|---|---|
| BBa_K1074011 | Composite | PsdpRI+RBS+SDP | 2207 |
| BBa_K117000 | Coding | Lysis gene (promotes lysis in colicin-producing bacteria strain) | 144 |
| BBa_K1172901 | Coding | Alanine racemase from ''E. coli'' | 1080 |
| BBa_K1172902 | Device | alanine racemase (''alr'') under the control of the P''tac'' promoter | 1134 |
| BBa_K1172908 | Device | Part 1 of the Biosafety-System Lac of Growth (pRha lacI alr) | 2509 |
| BBa_K1172909 | Device | Biosafety-System araCtive (AraC) | 3281 |
| BBa_K1172911 | Device | Biosafety-System Lac of Growth (lacI) | 3600 |
| BBa_K1172912 | Device | Part 1 of the Biosystem TetOR alive (pRha TetR alr) | 2042 |
| BBa_K1184000 | Coding | KillerRed | 723 |
| BBa_K1197007 | Composite | IPTG dependent B.subtilis Kill Switch construct | 2006 |
| BBa_K1223001 | Project | P.A.S.E. 1 cassette | 2148 |
| BBa_K1223002 | Project | P.A.S.E. 2 cassette | 1210 |
| BBa_K1405008 | Composite | A Kill Switch with "memory" time repressed by IPTG | 2926 |
| BBa_K1616005 | Coding | Holin/endolysin reversed - RBS and double T7 terminator | 1379 |
| BBa_K1616013 | Coding | ccdB reversed - RBS and double T7 terminator | 575 |
| BBa_K1639022 | Composite | pCons-TetR-pTet-TevProtease Suicide Switch | 1546 |
| BBa_K1767001 | Composite | P(Lac)IQ RBS Aiia RBS LuxR term term luxpR | 1818 |
| BBa_K1767002 | Composite | P(Lac)IQ RBS Aiia RBS LuxR ter ter luxpR RBS tetR ter ter | 2666 |
| BBa_K1767003 | Composite | P(Lac)IQ RBS Aiia RBS LuxR ter ter luxpR RBS tetR ter ter P(tetR) RBS mRFP1 ter ter | 3597 |
| BBa_K1767004 | Composite | P(Lac)IQ RBS LuxR ter ter luxpR RBS tetR ter ter | 1892 |
| BBa_K1819008 | Device | Promoter test circuit to analyze the kill switch efficiency | 2725 |
| BBa_K1820024 | Generator | Phage inducible promoter 1997 +RBS+FspI + term | 1160 |
| BBa_K1820025 | Generator | p2001-native RBS-Fsp1-B0015 | 1209 |
| BBa_K1914000 | Coding | E. coli Codon Optimised KillerOrange(EOKO) | 717 |
| BBa_K1914001 | Device | pT7- E. coli optimised - KillerOrange (EOKO) | 926 |
| BBa_K1914003 | Device | pT7- E. coli optimised - KillerRed (EOKR) | 929 |
| BBa_K1919100 | Device | The device consist of temperature promotor and hokD coding gene. | 1112 |
| BBa_K2040122 | Coding | KillerRed + NLS | 744 |
| BBa_K2086002 | Composite | PyeaR - SerA | 1499 |
| BBa_K2150103 | Coding | 1204 toxin CDS | 507 |
| BBa_K2150104 | Coding | 6249 toxin CDS | 319 |
| BBa_K2232025 | Composite | mazEF switch | 1006 |
| BBa_K2292002 | Coding | Toxin-antitoxin mazEF | 584 |
| BBa_K2292006 | Composite | MazEF kill switch | 877 |
| BBa_K2486026 | Composite | pGadA-MazF kill switch | 769 |
| BBa_K2616002 | Coding | Temperature Kill Switch | 938 |
| BBa_K2660006 | Coding | N-Cas9 | 3459 |
| BBa_K2660007 | Coding | C-Cas9 | 648 |
| BBa_K2757000 | Composite | Art-175 fused with N-terminal DsbA 2-19 signal peptide and unidirectional pTet | 1008 |
| BBa_K2757001 | Composite | Art-175 fused with N-terminal DsbA 2-19 signal peptide and bidirectional pTet | 1065 |
| BBa_K2817006 | Composite | PcspA-RBS-mazF | 535 |
| BBa_K2896001 | Coding | Thylakoid-bound SuperNova (for S. elongatus PCC 7942) | 846 |
| BBa_K2919000 | DNA | ghoT toxin from E. coli K12 | 174 |
| BBa_K302034 | Translational_Unit | mazEF toxin-antitoxin cluster | 607 |
| BBa_K302035 | Device | Sucrose-limitation induced kill switch | 1006 |
| BBa_K3036004 | Composite | Cold triggered kill switch | 649 |
| BBa_K3036008 | Coding | RelB with degradation-promoting tag RepA | 1758 |
| BBa_K3096052 | RNA | CRISPR Array targeting the Plasmid DNA of the glucose dependent Exendin-4 expression system | 147 |
| BBa_K3096054 | Composite | Cas3 Nuclease under the control of the AraC promoter pBAD | 2803 |
| BBa_K3096055 | Composite | Type I CRISPR/Cas system surveillance complex Cascade ABCDE under the control of the AraC promoter | 4487 |
| BBa_K3190601 | Composite | pGAL1-BI-I: BI-I CDS under inducible promoter | 1181 |
| BBa_K3215013 | Composite | Tse2 Repressed by Arabinose Kill Switch | 1950 |
| BBa_K3215016 | Composite | MazF repressed by IPTG Kill Switch | 2886 |
| BBa_K3237029 | Composite | nucA | 1754 |
| BBa_K3273001 | Coding | Serratia marcescens nucA nuclease | 801 |
| BBa_K3273008 | Composite | Composite ADH2/TDH3 nucA | 1849 |
| BBa_K3273009 | Composite | Composite HXT6 Bax | 2039 |
| BBa_K3273010 | Composite | Composite MET 25 nucA | 1113 |
| BBa_K3317053 | Coding | NucD | 540 |
| BBa_K3317059 | Composite | NucE lysis construction | 308 |
| BBa_K3317060 | Composite | NucD | 572 |
| BBa_K3317061 | Composite | tetR repressed killswitch | 1504 |
| BBa_K3378002 | Regulatory | Ferrous iron sensetive promoter fhuA1 | 55 |
| BBa_K3512001 | Coding | ccdB Toxin | 306 |
| BBa_K3588014 | Composite | MazE-MazF Hypoxia induced kill switch | 2211 |
| BBa_K3634012 | Composite | Glucose-Mediated Death Sensor | 566 |
| BBa_K3755043 | RNA | Sok RNA | 66 |
| BBa_K3755045 | Coding | Hok/Mok protein | 217 |
| BBa_K3755046 | Composite | Double Regulated(trp+lac) Kill Switch | 2352 |
| BBa_K3848004 | Composite | Lactate regulated kill switch | 2837 |
| BBa_K4133006 | Coding | Repressor protein CtsR_Lp (Lactobacillus plantarum WCFS1) for Lactobacillus casei | 468 |
| BBa_K4133007 | Regulatory | PclpC_Lp repressible promoter (Lactobacillus plantarum WCFS1) | 59 |
| BBa_K4133008 | RBS | RBS_Lp (Lactobacillus plantarum WCFS1) | 14 |
| BBa_K4133009 | Coding | Repressor protein CtsR_Lc (Lactococcus lactis) for Lactobacillus casei | 456 |
| BBa_K4133010 | Regulatory | PclpC_Lc repressible promoter (Lactococcus lactis) | 72 |
| BBa_K4133011 | RBS | RBS_Lc (Lactococcus lactis) | 12 |
| BBa_K4133012 | Coding | LysKB317 (Endolysin) for Lactobacillus casei | 894 |
| BBa_K4202000 | Coding | mazE(codon optimization for Bacillus subtilis) | 249 |
| BBa_K4202001 | Coding | mazF(codon optimization for Bacillus subtilis) | 421 |
| BBa_K4202045 | Generator | Sucrose regulated kill switch in Bacillus subtilis | 1291 |
| BBa_K4345020 | Composite | 5' UTR of hsp17 with ccdA fused to sfGFP | 1197 |
| BBa_K4345023 | Composite | 5' UTR of rpoH with ccdA fused to sfGFP | 1395 |
| BBa_K4345024 | Composite | 5' UTR of prfA with ccdA fused to sfGFP | 1277 |
| BBa_K515104 | Composite | J23100 promoter - Antiholin | 488 |
| BBa_K515106 | Composite | J23103 promoer - RBS B0034-RFP E1010 - Holin K112805 - endolysin K112806 | 1973 |
| BBa_K5480009 | Composite | Y38-DpnI-TrrnB | 2353 |
| BBa_K628006 | Composite | Protegrin-1 Kill Switch | 353 |
| BBa_K879917 | Plasmid_Backbone | LacO ori | 2072 |
| BBa_K879918 | Plasmid_Backbone | TetO ori | 2074 |
XNase
Here are parts that could trigger cell death through disruption at the level of the DNA or RNA.
| Name | Type | Description | Length |
|---|---|---|---|
| BBa_K1172904 | Coding | Rnase Ba (Barnase) from Bacillus amyloliquefaciens | 339 |
| BBa_K131000 | Generator | ColE2 Operon | 2640 |
| BBa_K1479016 | Promoter | -- No description -- | |
| BBa_K1479017 | Protein_Domain | just for test | 100 |
| BBa_K150009 | Generator | ColicinE1 Producer Controlled by 3OC6HSL Receiver Device | 3180 |
| BBa_K526001 | Coding | ptrc*-Dpn | 1552 |
| BBa_K914001 | Composite | pLac Colicin E2 Immunity protein | 345 |
| BBa_K914002 | Intermediate | repressilator RBS Colicin E2 Immunity protein | 282 |
Physical Containment
