BBa_K640000
BBa_K640000 Version 1 (Component)
Codon optimized Luciferase for use in microalgae

BBa_K535006
BBa_K535006 Version 1 (Component)
PFOR -> D. africanus Pyruvate-Ferredoxin OxidoReductase

CFP opt
BBa_K566003 Version 1 (Component)
CFP optimized for E. coli

Mnt opt
BBa_K566008 Version 1 (Component)
Mnt repressor optimized for E. coli

PenI inv
BBa_K566010 Version 1 (Component)
PenI repressor optimized for E. coli (inverted sequence)

BBa_K566007
BBa_K566007 Version 1 (Component)
PenI repressor optimized for E. coli

cI434 opt
BBa_K566011 Version 1 (Component)
cI434 repressor from phage 434 optimized for E. coli cI (+LVA)

cI opt
BBa_K566012 Version 1 (Component)
cI repressor from Lambda phage optimized for E. coli cI (+LVA)

RFP opt
BBa_K566013 Version 1 (Component)
RFP optimized for E. coli (+LVA)

BBa_K615003
BBa_K615003 Version 1 (Component)
E. coli strain for TolC one-hybrid selection system

BBa_K640004
BBa_K640004 Version 1 (Component)
Device for conjugation of plasmids from E. coli to pseudomonas

BBa_K640005
BBa_K640005 Version 1 (Component)
Device for conjugating plasmids from E. coli to pseudomonas

Cph8 gene
BBa_K566026 Version 1 (Component)
Cph8 gene for red-photoreceptor (constitutive expression)

BBa_K615004
BBa_K615004 Version 1 (Component)
Zif268 binding site-His3-URA3 construct for one-hybrid selection

BBa_K823050
BBa_K823050 Version 1 (Component)
luc luciferase, codon optimized for Bacillus subtilis+ RBS+Term

BBa_J100092
BBa_J100092 Version 1 (Component)
Constitutive promoter for M1-162

BBa_J100098
BBa_J100098 Version 1 (Component)
Promoter for the argF gene

BBa_K748007
BBa_K748007 Version 1 (Component)
Biofilm formation device. yddV gene with the IPTG inducible promoter.

BBa_J72186
BBa_J72186 Version 1 (Component)
TrimR, pir expression cassette for genomic integration

BBa_J72209
BBa_J72209 Version 1 (Component)
kanamycin + ampicillin resistant p15A vector for 2ab assembly

BBa_K812000
BBa_K812000 Version 1 (Component)
Biobricked pCS2+ plasmid for frogs and chicken

BBa_K812001
BBa_K812001 Version 1 (Component)
Biobricked pSC2+ plasmid with pElastase promoter for frog use

BBa_K812012
BBa_K812012 Version 1 (Component)
OsTirI Ubiquitinase E3 for AID tagged protein degradation in the presence of auxin

BBa_K812013
BBa_K812013 Version 1 (Component)
GFP-AID OsTirI polysistronic system for auxin detection in tadpole

BBa_K812014
BBa_K812014 Version 1 (Component)
Auxin production device for expression in tadpole

LipA
BBa_K836000 Version 1 (Component)
lipA from B. cepacia (codon usage optimized for E. coli)

DGAT
BBa_K836001 Version 1 (Component)
O-acyltransferase WSD from Acinetobacter sp. (codon usage optimized for R. opacus)

DGAT
BBa_K836002 Version 1 (Component)
O-acyltransferase WSD from Acinetobacter sp. (codon usage optimized for R. opacus) as used

lipA
BBa_K836003 Version 1 (Component)
lipA from B. cepacia (codon usage optimized for E. coli)

gpS
BBa_K836004 Version 1 (Component)
Lysis inhibitor from Enterobacteria phage lambda (codon usage optimized for R. opacus)

BBa_K836005
BBa_K836005 Version 1 (Component)
Lysozyme from Rhodococcus phage RER2 (codon usage optimized for R, opacus)

gpS
BBa_K836006 Version 1 (Component)
Lysis protein S from Enterobacteria phage lambda (codon usage optimized for R. opacus)

nitR
BBa_K836007 Version 1 (Component)
Nitrilase regulator from R. rhodochrous (codon usage optimized for R. opacus)

SEGA
SEGA_collection Version 1 (Collection)
In the Standardized Genome Architecture (SEGA), genomic integration of DNA fragments is enabled by λ-Red recombineering and so-called landing pads that are a common concept in synthetic biology and typically contain features that i) enable insertion of additional genetic elements and ii) provide well-characterized functional parts such as promoters and genes, and iii) provides insulation against genome context-dependent effects. The SEGA landing pads allow for reusable homology regions and time-efficient construction of parallel genetic designs with a minimal number of reagents and handling steps. SEGA bricks, typically synthetic DNA or PCR fragments, are integrated on the genome simply by combining the two reagents (i.e. competent cells and DNA), followed by incubation steps, and successful recombinants are identified by visual inspection on agar plates. The design of the SEGA standard was heavily influenced by the Standard European Vector Architecture (SEVA). SEGA landing pads typically hosts two major genetic “control elements” that influence gene expression on the transcriptional (C1), and translational (C2) level. Furthermore, landing pads contain gadgets such as selection and counterselection markers.

SBOLDesigner CAD Tool
SBOLDesigner Version 3.1 (Agent)
SBOLDesigner is a simple, biologist-friendly CAD software tool for creating and manipulating the sequences of genetic constructs using the Synthetic Biology Open Language (SBOL) 2 data model. Throughout the design process, SBOL Visual symbols, a system of schematic glyphs, provide standardized visualizations of individual parts. SBOLDesigner completes a workflow for users of genetic design automation tools. It combines a simple user interface with the power of the SBOL standard and serves as a launchpad for more detailed designs involving simulations and experiments. Some new features in SBOLDesigner are the ability to add variant collections to combinatorial derivations, enumerating those collections, and the ability to view sequence features hierarchically. There are also some small changes to the way that preferences work in regards to saving a design with incomplete sequences.

Intein_assisted_Bisection_Mapping
Intein_assisted_Bisection_Mapping_collection Version 1 (Collection)
Split inteins are powerful tools for seamless ligation of synthetic split proteins. Yet, their use remains limited because the already intricate split site identification problem is often complicated by the requirement of extein junction sequences. To address this, we augmented a mini-Mu transposon-based screening approach and devised the intein-assisted bisection mapping (IBM) method. IBM robustly revealed clusters of split sites on five proteins, converting them into AND or NAND logic gates. We further showed that the use of inteins expands functional sequence space for splitting a protein. We also demonstrated the utility of our approach over rational inference of split sites from secondary structure alignment of homologous proteins. Furthermore, the intein inserted at an identified site could be engineered by the transposon again to become partially chemically inducible, and to some extent enabled post-translational tuning on host protein function. Our work offers a generalizable and systematic route towards creating split protein-intein fusions and conditional inteins for protein activity control.

Cello E. Coli Parts
Eco1C1G1T1_collection Version 1 (Collection)
These are the Cello parts for E. Coli circuits

rTT+pR
BBa_K093003 Version 1 (Component)
Convergent Promoter System: Forward Module: rTT+lambda pR

Q04510+RFP
BBa_K131018 Version 1 (Component)
Intermediate for the Response circuit

BBa_K101016
BBa_K101016 Version 1 (Component)
Dually repressed promoter with sites for TetR and P22MNT binding

BBa_K125810
BBa_K125810 Version 1 (Component)
slr2016 signal sequence + GFP fusion for secretion of GFP

OriTR
BBa_J01003 Version 1 (Component)
OriT-R (Origin of transfer for the R-plasmid nic region)

pBSEP1
BBa_K090401 Version 1 (Component)
Gram-positive Shuttle Vector for Episomal Expression

BBa_K090403
BBa_K090403 Version 1 (Component)
Gram-positive Shuttle Vector for Chromosomal Integration

BBa_C0361
BBa_C0361 Version 1 (Component)
luxI (+LVA) - Codon-optimised for E.coli

BBa_C0378
BBa_C0378 Version 1 (Component)
lasI (+LVA) - Codon-optimised for E.coli

BBa_C0362
BBa_C0362 Version 1 (Component)
luxR - codon-optimised for E.coli

BBa_J24817
BBa_J24817 Version 1 (Component)
dLaRAP firefly luciferase reporter device for promoters

BBa_J24818
BBa_J24818 Version 1 (Component)
dLaRAP firefly luciferase reporter device for promoters

BBa_J24819
BBa_J24819 Version 1 (Component)
dLaRAP firefly luciferase reporter device for promoters with J23101