Knight:Beta-galactosidase assay - Revision history

Reshma P. Shetty at 00:37, 7 February 2008

Reshma P. Shetty — Thu, 07 Feb 2008 00:37:54 GMT

←Older revision		Revision as of 00:37, 7 February 2008
Line 7:		Line 7:
	*1M magnesium sulfate (MgSO<sub>4</sub>)		*1M magnesium sulfate (MgSO<sub>4</sub>)
	*1% hexadecyltrimethylammonium bromide (CTAB)		*1% hexadecyltrimethylammonium bromide (CTAB)
-	*10% sodium deoxcholate (light-sensitive, stored at 4°C)	+	*1% sodium deoxcholate (light-sensitive, stored at 4°C)
		+	**I used to use 10% but the stock solution seemed to go funky over time.
	*1M NaH<sub>2</sub>PO<sub>4</sub>		*1M NaH<sub>2</sub>PO<sub>4</sub>
	*o-nitrophenyl-β-D-Galactoside ONPG (solid)		*o-nitrophenyl-β-D-Galactoside ONPG (solid)
Line 20:		Line 21:
	*4μL 1M MgSO<sub>4</sub>		*4μL 1M MgSO<sub>4</sub>
	*160μL 1% CTAB		*160μL 1% CTAB
-	*8μL 10% sodium deoxycholate	+	*80μL 1% sodium deoxycholate
	*10.8 μL beta-mercaptoethanol		*10.8 μL beta-mercaptoethanol

Reshma P. Shetty: Knight:Beta-galacosidase assay moved to Knight:Beta-galactosidase assay: misspelling

Reshma P. Shetty — Wed, 24 Oct 2007 16:57:49 GMT

Knight:Beta-galacosidase assay moved to Knight:Beta-galactosidase assay: misspelling

←Older revision

Revision as of 16:57, 24 October 2007

Reshma P. Shetty at 17:13, 15 October 2007

Reshma P. Shetty — Mon, 15 Oct 2007 17:13:11 GMT

←Older revision		Revision as of 17:13, 15 October 2007
Line 1:		Line 1:
-	This protocol is directly derived from Sean Moore's [[Beta-Galactosidase Assay (A better Miller)]]. Please go there for the original protocol. This protocol just contains specifics regarding stock solutions I've made.	+	This protocol is directly derived from [[User:Smoore\|Sean Moore's]] [[Beta-Galactosidase Assay (A better Miller)]]. Please go there for the original protocol. This protocol just contains specifics regarding stock solutions I've made.

	==Materials==		==Materials==

Reshma P. Shetty: /* Materials */

Reshma P. Shetty — Mon, 15 Oct 2007 17:08:34 GMT

Materials

←Older revision		Revision as of 17:08, 15 October 2007
Line 7:		Line 7:
	*1M magnesium sulfate (MgSO<sub>4</sub>)		*1M magnesium sulfate (MgSO<sub>4</sub>)
	*1% hexadecyltrimethylammonium bromide (CTAB)		*1% hexadecyltrimethylammonium bromide (CTAB)
-	*10% sodium deoxcholate	+	*10% sodium deoxcholate (light-sensitive, stored at 4°C)
	*1M NaH<sub>2</sub>PO<sub>4</sub>		*1M NaH<sub>2</sub>PO<sub>4</sub>
	*o-nitrophenyl-β-D-Galactoside ONPG (solid)		*o-nitrophenyl-β-D-Galactoside ONPG (solid)

Reshma P. Shetty: /* Permeabilization Solution */

Reshma P. Shetty — Mon, 15 Oct 2007 17:08:10 GMT

Permeabilization Solution

←Older revision		Revision as of 17:08, 15 October 2007
Line 20:		Line 20:
	*4μL 1M MgSO<sub>4</sub>		*4μL 1M MgSO<sub>4</sub>
	*160μL 1% CTAB		*160μL 1% CTAB
-	*8μL sodium deoxycholate	+	*8μL 10% sodium deoxycholate
	*10.8 μL beta-mercaptoethanol		*10.8 μL beta-mercaptoethanol

Reshma P. Shetty: New page: This protocol is directly derived from Sean Moore's Beta-Galactosidase Assay (A better Miller). Please go there for the original protocol. This protocol just contains specifics regar...

Reshma P. Shetty — Mon, 15 Oct 2007 17:07:45 GMT

New page: This protocol is directly derived from Sean Moore's Beta-Galactosidase Assay (A better Miller). Please go there for the original protocol. This protocol just contains specifics regar...

New page

This protocol is directly derived from Sean Moore's [[Beta-Galactosidase Assay (A better Miller)]]. Please go there for the original protocol. This protocol just contains specifics regarding stock solutions I've made.

==Materials==
*500mM dibasic sodium phosphate (Na2HPO4)
**1M Na2HPO4 seems to come out of solution in my hands.
*4M potassium chloride (KCl)
*1M magnesium sulfate (MgSO4)
*1% hexadecyltrimethylammonium bromide (CTAB)
*10% sodium deoxcholate
*1M NaH2PO4
*o-nitrophenyl-β-D-Galactoside ONPG (solid)
*1M sodium carbonate (Na2CO3)

See [[Talk:Knight:Beta-galacosidase assay]] for stock solution recipes.

===Permeabilization Solution===
For 2mL:
*400 μL 500 mM Na2HPO4
*10μL 4M KCl
*4μL 1M MgSO4
*160μL 1% CTAB
*8μL sodium deoxycholate
*10.8 μL beta-mercaptoethanol

(You need 80 μL per sample.)

===Substrate solution===
For 10mL
*1.2mL 500mM Na2HPO4
*400μL 1M NaH2PO4
*10 mg ONPG
*27 μL β-mercaptoethanol

(You need 600 μL per sample.)

==Protocol==
#Grow cultures under whatever conditions you wish to test.
#During growth
##Make permeabilization solution.
##Pre-measure 80 μL aliquots of permeabilization solution into 1.5 mL microfuge tubes and close them.
#Measure Abs600 of cultures and RECORD IT!
#Remove a 20 μL aliquot of the culture and add it to the 80 μL of permeabilization solution.
#*The sample is now stable for several hours. This allows you to perform time-course experiments.
#*Also include a blank (solutions-only) sample for zero'ing the spec later.
#Make substrate solution.
#Warm samples and substrate solution to 30°C
#Start timer counting up.
#Every 15 secs, add 600 μL of substrate solution to a sample tube.
#Note the time of addition.
#After sufficient color has developed, add 700 μL of 1M Na2CO3, mix well.
#Note the stop time.
#Once all reactions are complete, transfer the tubes to a microfuge and spin for 10 minutes at full speed.
#Gently remove tubes from centrifuge.
#Measure the absorbance at 420nm and 550nm. (Use UV-Vis protocol on [[Nanodrop]]).

Calculate Miller Units as:

<math>1000 * \frac{(Abs_{420})}{((Abs_{600} \text{ of culture sampled})*(\text{volume } [0.02 \text{ mL}])*(\text{reaction time}))}</math>

or

<math>1000 * \frac{(Abs_{420} - 1.75*Abs_{550})}{((Abs_{600} \text{ of culture sampled})*(\text{volume } [0.02 \text{ mL}])*(\text{reaction time}))}</math>

where:

*Abs420 is the absorbance of the yellow o-nitrophenol,
*Abs550 is the scatter from cell debris, which, when multiplied by 1.75 approximates the scatter observed at 420nm,
*''t'' = reaction time in minutes,
*''v'' = volume of culture assayed in milliliters,
*Abs600&dagger; reflects cell density.

==Comments on the assay==
*'''[[User:Reshma P. Shetty|Reshma]] 11:28, 15 October 2007 (CDT)''': Miller recommends a culture with OD600 = 0.28 to 0.70. However, he claims that overnight cultures can also be used but that exponentially growing cells give more precise assays <cite>Miller-1992</cite>.

* When is the reaction done? I never found a good answer for this in the literature. If I let a reaction go to completion, I measured an Abs420 of ~2-3. Of course, this is out of the reliable range of the spectrophotometer, but it gives an indication of how far the reaction can go. I got reproducible data when the yellow color was just detectable before adding the stop solution up to about the color of LB broth before stopping. Remember, you need the substrate to saturate the enzyme during the course of the reaction, so don't let them go too far. I routinely make three separate measurements for each culture and average them.
**'''[[User:Reshma P. Shetty|Reshma]] 11:28, 15 October 2007 (CDT)''': Miller recommends that the OD420nm reading should ideally be 0.6-0.9 <cite>Miller-1992</cite>.

==References==
<biblio>
#Zhang-JBC-1995 pmid=7538113
// (from which this assay was derived)
#Miller-1972 isbn=0879691069
// (original Miller assay)
#Miller-1992 isbn=0879693495
</biblio>

[[Category:Protocol]]
[[Category:Escherichia coli]]