IGEM:IMPERIAL/2007/DNA Constructs: Difference between revisions

Revision as of 06:40, 18 September 2007

Constructs Overview

Here are several tables listing the bricks which we are cloning, constructing and using, with their relevant details.

A new page is currently being developed!

Cloning Table

Status of biobricks cloned and their applications:

I	ID	Part	Description	Status	Ligation Target	Use in Constructs
	02	BBa_I13522	ptet-GFP	XL1, Maxi, Mini, BL21	---	Basic construct for chassis characterization
	11	BBa_E7104	pT7 GFP	XL1, Maxi, Midi, Mini, BL21	---	CBD test construct (pT7)
	30	---	pT7 (strong GFP)	XL1, Maxi, Mini, BL21	---	T7 test-construct
I	18	BBa_T9002	ptet-luxR-plux-GFP	XL1, Maxi, Midi, BL21	---	Basic construct for chassis characterization

	05	BBa_R0040	ptet	XL1, Midi, Mini	DsRedEx	CBD final (ptet), ID AHL sender
		BBa_I719???	pT7	Ready	DsRedEx	CBD final construct (pT7)
	07	BBa_F2620	ptet-luxR-plux	XL1, Midi, Mini	DsRedEx	ID final construct

	21	BBa_J23039	ptet-luxI	XL1, Midi	---	ID sender construct
	24	BBa_R0062	plux	XL1, Midi	DsRedEx	ID construct 2
	25	BBa_J37032	plux-GFP	XL1, Maxi, Midi	---	ID construct 2
	26	BBa_S03119	ptet-luxR	XL1, Midi	---	---

	27	pSB1A3	Empty pSB1A3	Problematic	---	---

	13	BBa_B0015	Double terminator	XL1, Maxi, Midi, Mini	---	General part construction
	17	BBa_I13507	RFP	XL1, Midi	---	Not being used anymore
	19	BBa_B0034	strong RBS	XL1	---	General part construction
	23	BBa_I13504	GFP	XL1, Midi	pT7	General part construction

		BBa_I719???	DsRed Express	Ordered	ptet, plux, pT7	Reporter system for ID, Hrp
		BBa_I719???	HrpR-HrpS	Ordered	???	Hrp regulators
		BBa_I719???	pHrpL	Ordered	???	Hrp promoter
		BBa_I719???	HrpV	Ordered	???	Hrp inhibitor system

Ligation Table

Status of parts ligated and their applications:

I	ID	Part	Description	Status	Parents	Application
		BBa_I719???	pT7 & GFP	Planned	pT7 + BBa_I13504	CBD test construct (pT7)

		BBa_I719???	DsRedEx & pSB1A3	Paused	DsRedEx + BBa_P1010	Biobrick Submission

		BBa_I719???	pT7 & DsRedEx	Planned	pT7 + DsRedEx	CBD final construct (pT7)
		BBa_I719???	ptet & DsRedEx	Planned	BBa_R0040 + DsRedEx	CBD final construct (ptet)
		BBa_I719???	ptet-luxR-plux-DsRedEx	Planned	BBa_F2620 + DsRedEx	ID detector final construct 1
		BBa_I719???	plux-DsRedEx	Planned	BBa_R0062 + DsRedEx	ID detector final construct 2

Legend: I (Information), [Status: XL1 - cloned in XL1-Blue; Maxi - maxiprepped; Midi - midiprepped; Mini - miniprepped; BL21 - cloned in BL21(DE3); status - stocks running low]

Parts from the Registry

Physical information of biobricks:

A

W

G

S

ID

Name

Description

Plasmid

Resist

Copy

Size(B)

Size(T)

Location

Conc.

A

W

G

02

BBa_I13522

GFP under tetracyclin promoter

pSB1A2

AmpR

High

937bp

3016bp

Well 15H, Plate 2

500

A

W

G

05

BBa_R0040

tetracyclin promoter

pSB1A2

AmpR

High

54bp

2133bp

Well 7O, Plate 1

60

A

W

G

07

BBa_F2620

lux promoter, with luxR

pSB1A2

AmpR

High

1061bp

3140bp

Well 6B, Plate 1

80

A

X

G

11

BBa_E7104

T7 GFP

pSB1A2

AmpR

High

826bp

2905bp

Well 13F, Plate 2

100

A

W

G

13

BBa_B0015

Double terminator

pSB1AK3

A+KR

High

129bp

3316bp

Well 1B, Plate 2

100/70

A

G

17

BBa_I13507

RFP

pSB1A2

AmpR

High

861bp

2940bp

Well 16N, Plate 1

80

A

W

G

18

BBa_T9002

GFP under lux promoter with LuxR

pSB1A3

AmpR

High

1945bp

4102bp

Well 19B, Plate 2

460

A

W

19

BBa_B0034

RBS

pSB1A2

AmpR

High

12bp

2091bp

Well 3O, Plate 1

--

A

G

21

BBa_J23039

Constitutive luxI

pSB1A2

AmpR

High

860bp

2939bp

Well 11K, Plate 3

140

A

W

G

23

BBa_I13504

GFP

pSB1A2

AmpR

High

875bp

2954bp

Well 16E, Plate 1

120

A

G

24

BBa_R0062

lux promoter

pSB1A2

AmpR

High

55bp

2134bp

Well 9G, Plate 1

90

A

G

25

BBa_J37032

GFP under lux promoter

pSB1A2

AmpR

High

938bp

3017bp

Well 8D, Plate 3

100/125

A

G

26

BBa_S03119

constitutive LuxR

pSB1A2

AmpR

High

998bp

3077bp

Well 19J, Plate 1

60

A

W

X

27

pSB1A3

pSB1A3 (blank)

pSB1A3

Amp

High

0bp

2157bp

Well 23E, Plate 1

--

W

30

---

T7 with GFP(strong)

---

Kan?

???

---

???

---

150

Our Parts

Physical information of our ligated parts:

A

W

G

S

ID

Name

Description

Plasmid

Resist

Copy

Size(B)

Size(P)

Stock

BBa_I719022

cI with GFP

pSB1A2

AmpR

High

933bp

3988bp

BBa_I791021

luxI coding region under ptet

pSB1A2

AmpR

High

860bp

2939bp

BBa_I791???

DsRed Express under ptet

pSB1A2

AmpR

High

Legend: A (Available), W (Working) [W - working in vivo, W - working in vitro, X - faulty], G (Checked on gel) [G - incorrect size; X - does not appear on gel], S (Sequenced)
Concentrations are given in ng/μl

Part Graveyard

General information on parts we do not like...

A	W	ID	Name	Description	Plasmid	Size	Status	Notes
A	W	01	BBa_E0040	GFP	pSB1A2	720bp	XL1, Mini	Redundant
A		03	BBa_J5528	pBad-GFP	pSB2K3	2093bp	failed-XL1	ara construct abandoned
A		04	BBa_J24677	plux-GFP	pSB1A2	1787bp	XL1, Mini	Wrong GFP ligated
A		06	BBa_I0500	pBad	pSB2K3	1210bp	XL1, Mini, Midi	ara construct abandoned
A	W	08	BBa_F1610	luxI	pSB1AK3	798bp	XL1, Mini, Midi	Substitute part J23039
A	W	09	BBa_R0010	lacI-plac	pSB1A2	200bp	XL1, Mini	Lac construct abandoned
A	W	10	BBa_E1010	RFP	pSB2K3	681bp	XL1, Mini	Substitute part I13507
A		12	BBa_S03550	araC	pSB1AC3	958bp	XL1, Mini, Midi	araC construct abandoned
	W	14	BBa_R0051	pcI	pSB1A2	49bp	Biobrick	pcI construct abandoned
A		15	BBa_J07037	cI-GFP	pSB2K3	912bp	XL1, Mini	No RBS present on this part
A	W	16	BBa_E0240	GFP	pSB1A2	876bp	XL1, Midi	Redundant
	W	20	---	AraC	pSB1AC3	1095bp	Planned	araC construct abandoned
A	W	28	BBa_P1010	pSB1A3 (ccd)	pSB1A3	0bp	failed-XL1	Strain not available
A	W	29	BBa_P1010	pSB1A2 (ccd)	pSB1A2	0bp	---	Strain not available

Construct Diagrams

The original (old) diagrams page was moved to old construct diagrams page. This page also contains the obsolete parts.

CBD Constructs

ptet GFP

Availability: Found in registry as BBa_I13522

pT7 GFP

Availability: Found in resigry as BBa_E7104

ptet DsRed express

Ptet promoting dsRed

Availability: Requires ligation
Promoter can be found in registry as: BBa_R0040
DsRed express is to be ordered from GeneArt

pT7 DsRed express

pT7 promoting dsRed

Availability: Requires ligation
Promoter is being PCRed from plasmid derived externally
DsRed express is to be ordered from GeneArt

ID Constructs

pLux GFP with LuxR

Availability: Found in registry as BBa_T9002

pLux GFP with LuxR

Plux promoting GFP

Availability: Found in registry as BBa_J37032

<<Two more constructs with DsRed express yet to be included>>

@@ Line 1: / Line 1: @@
 ==Constructs Overview==
 Here are several tables listing the bricks which we are cloning, constructing and using, with their relevant details.
+A [[IGEM:IMPERIAL/2007/DNA_Constructs/New|new page]] is currently being developed!
 ===Cloning Table===
@@ Line 37: / Line 39: @@
 |- style="background:#CCFFFF" align="center"
 ||  || 07 || [http://parts.mit.edu/registry/index.php/Part:BBa_F2620 BBa_F2620] || ptet-luxR-plux || <font color=#CC0000>XL1</font>, <font color=#0000FF>''Midi''</font>, <font color=#00CC00>''Mini''</font> || DsRedEx || ID final construct
-|- style="background:#CCFFFF" align="center"
-||  || 14 || [http://parts.mit.edu/registry/index.php/Part:BBa_R0051 BBa_R0051] || pcI || ''Ready'' || DsRedEx || CBD final construct (pcI)
 |- style="background:#CCFFFF" align="center"
@@ Line 48: / Line 47: @@
 |- style="background:#CCFFFF" align="center"
-||  || 24 || [http://parts.mit.edu/registry/index.php/Part:BBa_R0062 BBa_R0062] || plux || <font color=#CC0000>XL1</font>, <font color=#0000FF>''Midi''</font> || --- || ID construct 2
+||  || 24 || [http://parts.mit.edu/registry/index.php/Part:BBa_R0062 BBa_R0062] || plux || <font color=#CC0000>XL1</font>, <font color=#0000FF>''Midi''</font> || DsRedEx || ID construct 2
 |- style="background:#CCFFFF" align="center"
@@ Line 61: / Line 60: @@
 |- style="background:#CCFFFF" align="center"
 ||  || 27 || [http://parts.mit.edu/registry/index.php/Part:pSB1A3 pSB1A3] || Empty pSB1A3 || '''Problematic''' || --- || ---
-|- style="background:#CCFFFF" align="center"
-||  || 28 || [http://parts.mit.edu/registry/index.php/Part:BBa_P1010 BBa_P1010] || pSB1A3 with ccd || ''Paused'' || --- || ---
-|- style="background:#CCFFFF" align="center"
-||  || 29 || [http://parts.mit.edu/registry/index.php/Part:BBa_P1010 BBa_P1010] || pSB1A2 with ccd || ''Paused'' || --- || ---
 |- style="background:#CCFFFF" align="center"
@@ Line 81: / Line 74: @@
 |- style="background:#CCFFFF" align="center"
-||  || 23 || [http://parts.mit.edu/registry/index.php/Part:BBa_I13504 BBa_I13504] || GFP || <font color=#CC0000>XL1</font>, <font color=#0000FF>''Midi''</font> || pcI || ''General part construction''
+||  || 23 || [http://parts.mit.edu/registry/index.php/Part:BBa_I13504 BBa_I13504] || GFP || <font color=#CC0000>XL1</font>, <font color=#0000FF>''Midi''</font> || pT7 || ''General part construction''
 |- style="background:#CCFFFF" align="center"
@@ Line 87: / Line 80: @@
 <!-- BRICKS BEING ORDERED -->
 |- style="background:#CCFFFF" align="center"
-||  ||  || BBa_I719??? || DsRed Express || Ordered || ptet, plux, pcI || Reporter system for ID, Hrp
+||  ||  || BBa_I719??? || DsRed Express || Ordered || ptet, plux, pT7 || Reporter system for ID, Hrp
 |- style="background:#CCFFFF" align="center"
@@ Line 114: / Line 107: @@
 |width="--"%|Application
 |- style="background:#CCFFCC" align="center"
-||  ||  || [http://parts.mit.edu/registry/index.php/Part:BBa_I719022 BBa_I719022] || pcI & GFP || ''Paused'' || [http://parts.mit.edu/registry/index.php/Part:BBa_R0051 BBa_R0051] +  [http://parts.mit.edu/registry/index.php/Part:BBa_I13504 BBa_I13504] || CBD test construct (pcI)
+||  ||  || BBa_I719??? || pT7 & GFP || Planned || pT7 + [http://parts.mit.edu/registry/index.php/Part:BBa_I13504 BBa_I13504] || CBD test construct (pT7)
-|- style="background:#CCFFCC" align="center"
-||  ||  || BBa_I719??? || pT7 & GFP || Proposed || pT7 + [http://parts.mit.edu/registry/index.php/Part:BBa_I13504 BBa_I13504] || CBD test construct (pT7)
 |- style="background:#CCFFCC" align="center"
@@ Line 123: / Line 113: @@
 |- style="background:#CCFFCC" align="center"
-||  ||  || BBa_I719??? || DsRedEx & pSB1A3 || Planning || DsRedEx +[http://parts.mit.edu/registry/index.php/Part:BBa_P1010 BBa_P1010] || Biobrick Submission
+||  ||  || BBa_I719??? || DsRedEx & pSB1A3 || ''Paused'' || DsRedEx + [http://parts.mit.edu/registry/index.php/Part:BBa_P1010 BBa_P1010] || Biobrick Submission
 |- style="background:#CCFFCC" align="center"
@@ Line 129: / Line 119: @@
 |- style="background:#CCFFCC" align="center"
-||  ||  || BBa_I719??? || pT7 & DsRedEx || Planning || pT7 + DsRedEx || CBD final construct (pT7)
+||  ||  || BBa_I719??? || pT7 & DsRedEx || Planned || pT7 + DsRedEx || CBD final construct (pT7)
-|- style="background:#CCFFCC" align="center"
-||  ||  || BBa_I719??? || ptet & DsRedEx || Planning || [http://parts.mit.edu/registry/index.php/Part:BBa_R0040 BBa_R0040] + DsRedEx || CBD final construct (ptet)
 |- style="background:#CCFFCC" align="center"
-||  ||  || BBa_I719??? || pcI-DsRedEx || ''Paused'' || [http://parts.mit.edu/registry/index.php/Part:BBa_R0051 BBa_R0051] + DsRedEx || CBD final construct (pcI)
+||  ||  || BBa_I719??? || ptet & DsRedEx || Planned || [http://parts.mit.edu/registry/index.php/Part:BBa_R0040 BBa_R0040] + DsRedEx || CBD final construct (ptet)
 |- style="background:#CCFFCC" align="center"
-||  ||  || BBa_I719??? || ptet-luxR-plux-DsRedEx || Pending || [http://parts.mit.edu/registry/index.php/Part:BBa_T2620 BBa_F2620] + DsRedEx || ID detector final construct 1
+||  ||  || BBa_I719??? || ptet-luxR-plux-DsRedEx || Planned || [http://parts.mit.edu/registry/index.php/Part:BBa_T2620 BBa_F2620] + DsRedEx || ID detector final construct 1
 |- style="background:#CCFFCC" align="center"
-||  ||  || BBa_I719??? || plux-DsRedEx || Pending || [http://parts.mit.edu/registry/index.php/Part:BBa_R0062 BBa_R0062] + DsRedEx || ID detector final construct 2
+||  ||  || BBa_I719??? || plux-DsRedEx || Planned || [http://parts.mit.edu/registry/index.php/Part:BBa_R0062 BBa_R0062] + DsRedEx || ID detector final construct 2
 |- style="background:#CCFFCC" align="center"
@@ Line 181: / Line 168: @@
 |- style="background:#FFCCFF" align="center"
 || A || W || G ||  || 13 || [http://parts.mit.edu/registry/index.php/Part:BBa_B0015 BBa_B0015] || Double terminator || [http://parts.mit.edu/registry/index.php/Part:pSB1AK3 pSB1AK3] || A+KR ||  High || 129bp || 3316bp ||  Well 1B, Plate 2 || 100/70
-|- style="background:#FFCCFF" align="center"
-||  || W || <font color=#990033>X</font> ||  || 14 || [http://parts.mit.edu/registry/index.php/Part:BBa_R0051 BBa_R0051] || &lambda;cI promoter || [http://parts.mit.edu/registry/index.php/Part:pSB1A2 pSB1A2] || AmpR || High || 49bp || 2128bp || Well 9C, Plate 1 || --
 |- style="background:#FFCCFF" align="center"
@@ Line 213: / Line 197: @@
 |- style="background:#FFCCFF" align="center"
-|| A || W ||  ||  || 28 || [http://parts.mit.edu/registry/index.php/Part:BBa_P1010  BBa_P1010] || pSB1A3 (ccd) || [http://parts.mit.edu/registry/index.php/Part:pSB1A3 pSB1A3] || Amp || High || 675bp || 2832bp || Well 20I, Plate 3 || --
+||  || <font color=#00CC00>W</font> ||  ||  || 30 || --- || T7 with GFP(strong) || --- || Kan? || ??? || --- || ??? || --- || 150
-|- style="background:#FFCCFF" align="center"
-|| A || W ||  ||  || 29 || [http://parts.mit.edu/registry/index.php/Part:BBa_P1010  BBa_P1010] || pSB1A2 (ccd) || [http://parts.mit.edu/registry/index.php/Part:pSB1A2 pSB1A2] || Amp || High || 675bp || 2754bp || Well 20G, Plate 3 || --
-|- style="background:#FFCCFF" align="center"
-||  || <font color=#00CC00>W</font> || G ||  || 30 || --- || T7 with GFP(strong) || --- || Kan? || ??? || --- || ??? || --- || 150
 |- style="background:#FFCCFF" align="center"
@@ Line 293: / Line 271: @@
 |- style="background:#DDDDDD" align="center"
 || A ||  || 12 || BBa_S03550 || araC || pSB1AC3 || 958bp || XL1, Mini, Midi || araC construct abandoned
+|- style="background:#DDDDDD" align="center"
+||  || W || 14 || BBa_R0051 || pcI || pSB1A2 || 49bp || Biobrick || pcI construct abandoned
 |- style="background:#DDDDDD" align="center"
@@ Line 301: / Line 282: @@
 |- style="background:#DDDDDD" align="center"
-||  || <font color=#00CC00>W</font> || 20 || --- || AraC || pSB1AC3 || 1095bp || Planned || araC construct abandoned
+||  || W || 20 || --- || AraC || pSB1AC3 || 1095bp || Planned || araC construct abandoned
+|- style="background:#DDDDDD" align="center"
+|| A || W || 28 || BBa_P1010 || pSB1A3 (ccd) || pSB1A3 || 0bp || failed-XL1 || Strain not available
+|- style="background:#DDDDDD" align="center"
+|| A || W || 29 || BBa_P1010 || pSB1A2 (ccd) || pSB1A2 || 0bp || --- || Strain not available
 |- style="background:#DDDDDD" align="center"

IGEM:IMPERIAL/2007/DNA Constructs: Difference between revisions

Revision as of 06:40, 18 September 2007

Contents

Constructs Overview

Cloning Table

Ligation Table

Parts from the Registry

Our Parts

Part Graveyard

Construct Diagrams

CBD Constructs

ID Constructs

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