User:Michael Verhoeven/Notebook/iGEM 2009 M. Verhoeven Parts

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Project Description/Abstract

  • Bouyant Bacteria Project (BBP)
  • GVP is a cluster of 14 genes involved in gas vesicle production in B. megaterium and has been succesfully expressed in E.coli. Not all genes are of critical importance and at least 8 genes are needed. Our aim is to improve the bouyant capacity of the vesicles in E.coli.

Notes

We are working on part BBa_I750016, a biobrick submitted by Melbourne iGEM 2007 team. The part consists of: gvpB, gvpR, gvpN, gvpF, gvpG, gvpL, gvpS, gvpK, gvpJ, gvpT and gvpU in vector BBa_J61035. The gvpL part contains a 40bp repeat, which is repeated 10 times.

Future directions of Melbourne

  • smaller functional biobrick
→ design primers for ligation strategy to knock out individual genes
  • literature suggests gvpN might be a negative regulator of expression
→ knock-out might produce truly bouyant bacteria
  • phenotype not affected by gvpL insert of repeat
→ why?
  • gvpA and gvpC are to be included in mimimal set of 8 genes according to literature, but they are not present in biobrick
→ does gvpB have a similar function, and can it be substituted by gvpA or gvpC?

Own plan of action

  • test insert length of gvp cluster in biobrick
→ E-genR-X-RBS-part-S-P in vector BBa_J61035
  • check cluster for restriction sites
→ EcoRI, XbaI, SpeI and PstI are not allowed and not present in part
→ other sites might become a problem in future assembly protocols, and need to be silenced
  • add additional parts
→ promotors (constitutive, metal sensitive....)
→ RBS (substitute exsisting one)
→ add gvpA and/or gvpC, knock-out gvpN
  • test initial phenotype with different constitutive promotors


Periodic Table

1 18
1 1
H
2 13 14 15 16 17 2
He
2 3
Li
4
Be
5
B
6
C
7
N
8
O
9
F
10
Ne
3 11
Na
12
Mg
3 4 5 6 7 8 9 10 11 12 13
Al
14
Si
15
P
16
S
17
Cl
18
Ar
4 19
K
20
Ca
21
Sc
22
Ti
23
V
24
Cr
25
Mn
26
Fe
27
Co
28
Ni
29
Cu
30
Zn
31
Ga
32
Ge
33
As
34
Se
35
Br
36
Kr
5 37
Rb
38
Sr
39
Y
40
Zr
41
Nb
42
Mo
(43)
Tc
44
Ru
45
Rh
46
Pd
47
Ag
48
Cd
49
In
50
Sn
51
Sb
52
Te
53
I
54
Xe
6 55
Cs
56
Ba
*
72
Hf
73
Ta
74
W
75
Re
76
Os
77
Ir
78
Pt
79
Au
80
Hg
81
Tl
82
Pb
83
Bi
84
Po
85
At
86
Rn
7 87
Fr
88
Ra
**
(104)
Rf
(105)
Db
(106)
Sg
(107)
Bh
(108)
Hs
(109)
Mt
(110)
Ds
(111)
Rg
(112)
Uub
(113)
Uut
(114)
Uuq
(115)
Uup
(116)
Uuh
(117)
Uus
(118)
Uuo
*Lanthaniden 57
La
58
Ce
59
Pr
60
Nd
(61)
Pm
62
Sm
63
Eu
64
Gd
65
Tb
66
Dy
67
Ho
68
Er
69
Tm
70
Yb
71
Lu
**Actiniden 89
Ac
90
Th
91
Pa
92
U
(93)
Np
(94)
Pu
(95)
Am
(96)
Cm
(97)
Bk
(98)
Cf
(99)
Es
(100)
Fm
(101)
Md
(102)
No
(103)
Lr
Chemische reeksen van het Periodiek Systeem
Alkalimetalen Aardalkalimetalen Overgangsmetalen Hoofdgroepmetalen Metalloïden
Niet-metalen Halogenen Edelgassen Lanthaniden Actiniden

(..) = dit element komt van nature niet (meer) op aarde voor. Alle elementen met hogere atoomnummers dan 111, Roentgenium (Rg), zijn (nog) niet geratificeerd door het IUPAC.



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