Difference between revisions of "Part:BBa K302012:Experience"

(→‎Characterisation by Team Newcastle 2010)
(→‎Characterisation by Team Newcastle 2010)
 
(30 intermediate revisions by one other user not shown)
Line 11: Line 11:
 
The part was co-transcribed with ''gfp'' fluorescent marker by transcriptional fusion after the ''yneA'' coding sequence.
 
The part was co-transcribed with ''gfp'' fluorescent marker by transcriptional fusion after the ''yneA'' coding sequence.
  
−
We characterised the part first without, and then with, LacI repression (using the integration vector pMutin4 to integrate ''lacI'' into the ''Bacillus subtilis'' 168 chromosome).  
+
We characterised the part first without, and then with, LacI repression (using the integration vector pMutin4 to integrate ''lacI'' into the ''Bacillus subtilis'' 168 chromosome). When testing the part under LacI repression cells were induced with IPTG for two hours.
 +
 
 +
=====Table1:=====
 +
{| border="1"
 +
|-
 +
!Stats:
 +
!168
 +
!''yneA''
 +
!pMutin4 0 μM IPTG
 +
!pMutin4 1 μM IPTG
 +
|-
 +
|Average:
 +
|1.34 μm
 +
|3.53 μm
 +
|1.74 μm
 +
|3.19 μm
 +
|-
 +
|Max:
 +
|2.30 μm
 +
|6.00 μm
 +
|3.62 μm
 +
|9.77 μm
 +
 
 +
|-
 +
|Min:
 +
|0.55 μm
 +
|1.31 μm
 +
|0.88 μm
 +
|1.14 μm
 +
|-
 +
|Median:
 +
|1.33 μm
 +
|3.27 μm
 +
|1.62 μm
 +
|2.66 μm
 +
|-
 +
|Standard Deviation:
 +
|0.32 μm
 +
|1.01 μm
 +
|0.80 μm
 +
|1.56 μm
 +
|}
  
  
 +
=====Figure 1:=====
 
{|
 
{|
−
|'''Graph1''':
 
 
|-
 
|-
 
|Distribution of cell lengths is not normal, so the mean is misleading; we are reporting the median instead.
 
|Distribution of cell lengths is not normal, so the mean is misleading; we are reporting the median instead.
Line 21: Line 62:
 
|[[Image:Teamnewcastle_yneA168.png|600px]]
 
|[[Image:Teamnewcastle_yneA168.png|600px]]
 
|-
 
|-
−
|Graph 1 shows that overexpression (no Lac repression) of the ''yneA'' gene (Δ''amyE'':pSpac(hy)-oid::''yneA'') leads to a longer cell length compared with our control ''Bacillus subtilis 168''.
+
|Figure 1: shows statistics for populations of cells
 +
*overexpression of the ''yneA'' construct (Δ''amyE'':pSpac(hy)-oid::''yneA''(cells with YneA construct but no inhibitory regulation) ) leads to a longer cell length compared with our control ''Bacillus subtilis 168''.
 +
*pMT4_0.0: YneA construct in pMutin4 vector with inhibition and no IPTG (ΔamyE:Pspac(hy)-oid::yneA::pMutin4)
 +
*pMT4_1.0: YneA construct in pMutin4 vector with inhibition and 1.0 μM IPTG (ΔamyE:Pspac(hy)-oid::yneA::pMutin4)
 
|-
 
|-
−
|'''See below''': ''Bacillus subtilis 168'' cells (left),''Bacillus subtilis'' expressing ''yneA''(centre) and ''Bacillus subtilis'' overexpressing ''yneA''(right)
+
|with inhibition cell lengths are comparable to ''Bacillus subtilis 168'' at 0μM IPTG and longer with IPTG induction.
 +
|}
 +
 
 +
 
 +
=====Figure 2:=====
 +
{|
 
|-
 
|-
 
|[[Image:Teamnewcastle_yneA168BS.jpg|300px]][[Image:Teamnewcastle_yneA1.jpg|300px]][[Image:Teamnewcastle_yneA.jpg|300px]]  
 
|[[Image:Teamnewcastle_yneA168BS.jpg|300px]][[Image:Teamnewcastle_yneA1.jpg|300px]][[Image:Teamnewcastle_yneA.jpg|300px]]  
 
|-
 
|-
−
|The images we have taken this data from had very different numbers of cells, so the cells counts are misleading therefore we are reporting the proportions of cells at a given length.
+
|'''Figure 2''': ''Bacillus subtilis 168'' cells (left),''Bacillus subtilis'' expressing ''yneA''(centre) and ''Bacillus subtilis'' overexpressing ''yneA''(right)
 
|-
 
|-
−
|'''Graph2''':
+
|The images we have taken this data from had very different numbers of cells, so the cells counts are misleading therefore we are reporting the proportions of cells at a given length.
 +
|}
 +
 
 +
 
 +
=====Figure 3:=====
 +
{|
 
|-
 
|-
 
|[[Image:newcastle_no induction.jpg|600px]]
 
|[[Image:newcastle_no induction.jpg|600px]]
 
|-
 
|-
−
|Graph 2 shows the percentage of cells at different lengths(μm)uninduced
+
|Figure 3 shows the percentage of cells at different lengths (μm) uninduced
 +
|}
 +
 
 +
 
 +
=====Figure 4:=====
 +
{|
 
|-
 
|-
−
|'''See below''': ''Bacillus subtilis 168'' cells (left) and non-induced cells(right)
+
|Figure 4:''Bacillus subtilis'' 168 cells (left) and non-induced cells (right)
 
|-
 
|-
 
|[[Image:Teamnewcastle_yneA168BS.jpg|300px]][[Image:Teamnewcastle_noindBS.jpg|300px]]   
 
|[[Image:Teamnewcastle_yneA168BS.jpg|300px]][[Image:Teamnewcastle_noindBS.jpg|300px]]   
 
|-
 
|-
−
|'''Graph3''':
+
|}
 +
 
 +
 
 +
=====Figure 5:=====
 +
{|
 
|-
 
|-
 
|[[Image:newcastle_0.2 induction.jpg|600px]]
 
|[[Image:newcastle_0.2 induction.jpg|600px]]
 
|-
 
|-
−
|Graph 3 shows the percentage of cells at different lengths(μm)induced at 0.2mM IPTG  
+
|Figure 5: shows the percentage of cells at different lengths(μm)induced at 0.2mM IPTG  
−
|-
+
|}
−
|'''See below''': ''Bacillus subtilis 168'' cells (left) and cells induced at 0.2mM IPTG(right)
+
 
 +
=====Figure 6:=====
 +
{|
 
|-
 
|-
 
|[[Image:Teamnewcastle_yneA168BS.jpg|300px]][[Image:Teamnewcastle_0.2indBS.jpg|300px]]
 
|[[Image:Teamnewcastle_yneA168BS.jpg|300px]][[Image:Teamnewcastle_0.2indBS.jpg|300px]]
 
|-
 
|-
−
|'''Graph4''':
+
|Figure 6: ''Bacillus subtilis 168'' cells (left) and cells induced at 0.2mM IPTG (right)
 +
|}
 +
 
 +
 
 +
=====Figure 7:=====
 +
{|
 
|-
 
|-
 
|[[Image:newcastle_1IPTG.jpg|600px]]
 
|[[Image:newcastle_1IPTG.jpg|600px]]
 
|-
 
|-
−
|Graph 4 shows the percentage of cells at different lengths(μm)induced at 1mM IPTG  
+
|Figure 7: shows the percentage of cells at different lengths (μm) induced at 1mM IPTG  
 +
|}
 +
 
 +
 
 +
=====Figure 8:=====
 +
{|
 
|-
 
|-
−
|'''See below''': ''Bacillus subtilis 168'' cells (left) and cells induced at 1mM IPTG(right)
+
|[[Image:Teamnewcastle_yneA168BS.jpg|300px]][[Image:Teamnewcastle_1indBS2.jpg|300px]] 
 
|-
 
|-
−
|[[Image:Teamnewcastle_yneA168BS.jpg|300px]][[Image:Teamnewcastle_1indBS2.jpg|300px]] 
+
|Figure 8: ''Bacillus subtilis'' 168 cells (left) and cells induced at 1mM IPTG(right)
 
|}
 
|}
−
 
−
'''Graphs 2,3 and 4 show a greater proportion of cells at a higher concentration of IPTG(1mM IPTG), compared with ''Bacillus subtilis 168'' our control population. '''
 
  
 
===User Reviews===
 
===User Reviews===

Latest revision as of 01:30, 28 October 2010

This experience page is provided so that any user may enter their experience using this part.
Please enter how you used this part and how it worked out.

Applications of BBa_K302012

Characterisation by Team Newcastle 2010

We integrated our part into the Bacillus subtilis 168 chromosome at amyE (using the integration vector pGFP-rrnB) and selected for integration by testing for the ability to hydrolyse starch. Homologous recombination at amyE destroys endogenous expression of amylase. Colonies that are not able to break down starch on agar plate do not have a white halo when exposed to iodine.

The part was co-transcribed with gfp fluorescent marker by transcriptional fusion after the yneA coding sequence.

We characterised the part first without, and then with, LacI repression (using the integration vector pMutin4 to integrate lacI into the Bacillus subtilis 168 chromosome). When testing the part under LacI repression cells were induced with IPTG for two hours.

Table1:
Stats: 168 yneA pMutin4 0 μM IPTG pMutin4 1 μM IPTG
Average: 1.34 μm 3.53 μm 1.74 μm 3.19 μm
Max: 2.30 μm 6.00 μm 3.62 μm 9.77 μm
Min: 0.55 μm 1.31 μm 0.88 μm 1.14 μm
Median: 1.33 μm 3.27 μm 1.62 μm 2.66 μm
Standard Deviation: 0.32 μm 1.01 μm 0.80 μm 1.56 μm


Figure 1:
Distribution of cell lengths is not normal, so the mean is misleading; we are reporting the median instead.
Teamnewcastle yneA168.png
Figure 1: shows statistics for populations of cells
  • overexpression of the yneA construct (ΔamyE:pSpac(hy)-oid::yneA(cells with YneA construct but no inhibitory regulation) ) leads to a longer cell length compared with our control Bacillus subtilis 168.
  • pMT4_0.0: YneA construct in pMutin4 vector with inhibition and no IPTG (ΔamyE:Pspac(hy)-oid::yneA::pMutin4)
  • pMT4_1.0: YneA construct in pMutin4 vector with inhibition and 1.0 μM IPTG (ΔamyE:Pspac(hy)-oid::yneA::pMutin4)
with inhibition cell lengths are comparable to Bacillus subtilis 168 at 0μM IPTG and longer with IPTG induction.


Figure 2:
Teamnewcastle yneA168BS.jpgTeamnewcastle yneA1.jpgTeamnewcastle yneA.jpg
Figure 2: Bacillus subtilis 168 cells (left),Bacillus subtilis expressing yneA(centre) and Bacillus subtilis overexpressing yneA(right)
The images we have taken this data from had very different numbers of cells, so the cells counts are misleading therefore we are reporting the proportions of cells at a given length.


Figure 3:
Newcastle no induction.jpg
Figure 3 shows the percentage of cells at different lengths (μm) uninduced


Figure 4:
Figure 4:Bacillus subtilis 168 cells (left) and non-induced cells (right)
Teamnewcastle yneA168BS.jpgTeamnewcastle noindBS.jpg


Figure 5:
Newcastle 0.2 induction.jpg
Figure 5: shows the percentage of cells at different lengths(μm)induced at 0.2mM IPTG
Figure 6:
Teamnewcastle yneA168BS.jpgTeamnewcastle 0.2indBS.jpg
Figure 6: Bacillus subtilis 168 cells (left) and cells induced at 0.2mM IPTG (right)


Figure 7:
Newcastle 1IPTG.jpg
Figure 7: shows the percentage of cells at different lengths (μm) induced at 1mM IPTG


Figure 8:
Teamnewcastle yneA168BS.jpgTeamnewcastle 1indBS2.jpg
Figure 8: Bacillus subtilis 168 cells (left) and cells induced at 1mM IPTG(right)

User Reviews

UNIQb4399f69012a2e9c-partinfo-00000000-QINU UNIQb4399f69012a2e9c-partinfo-00000001-QINU