Latest revision as of 16:39, 11 August 2011

Seedling protocol

- Weigh in appr. 50mg of arabidopsis seeds in eppendorf tube (one tube per 250 ml erlenmayer flask)
- Wash with 500 µl 70% EtOH for appr. 4-5 minutes per tube (mix well)
- Remove 70% EtOH and replace with 500µl 50% bleach
- Incubate for 20 minutes
- Wash several times with sterile ddH2O to remove bleach x3
- Vernalize seeds for 2-3 days

Prepare sterile medium

- Half strength Murashige salt (2.1g per liter ddH2O)
- Add 0.546g MES salt (buffer) per liter of media
- Adjust pH to 5.7-5.8 using 2M KOH
- add 10g sucrose (normally from 1% solution)
- Add 1% agarose = 10g/litre if making phytogel
- Distribute into erlenmayer flasks (125 ml/250ml flask)
- Autoclave for at least 15 minutes

Some notes

- Growth conditions : flasks on a shaker at appr. 200 rpm at constant light conditions
- Grow seedlings for 5-6 days

Auxin uptake protocol

Overview : synthetic auxin is used to see the effect of Arabidopsis's root growth. Variation in auxin concentrations is applied to see the sensitivity of auxin in arabidopsis.
- To test auxin sensitivity, Arabidopsis seeds were sown onto medium as given above and supplemented with 0, 0.00001, 0.0001, 0.01, 1, 100, 10000uM indole-3-acetic acid (IAA).
- Medium preparation and seed sowing occurred under 0.5 pE m-2 sec-l incandescent light to minimize photooxidation of IAA.
- Growing is done at 23°C in darkness for three days
- After 3 days, hypocotyl and root lengths were measured on 10 plantslreplication. Data were normalized to lengths as a percentage of the control treatment and subjected to analysis of variance.
-Plants were transferred to light for a further six days

Some notes

- Concentrations of IAA causing 50% inhibition of root and hypocotyl growth (Isow) ere calculated for each replication by solving regression equations with y = y intercept + 2.

Glycerol stock protocol

- obtain the bacterial pellet from centrifugation
- resuspend the pellet with _microl dH20
- add _microl of 80% glycerol in each eppendorf.
- mix bacteria in 80% glycerol by resuspending the liquid many times

Plant uptake of E coli

-grow GFP+ E coli to exponential phase
-spin down bacteria (5000rpm for 10min) and take off LB media
-wash twice with wash buffer (5mM MES)
-resuspend in wash buffer so that the bacteria are at OD 30
-put 10 Arabidopsis seedlings into 100ml of growth media each
-add bacteria to plant growth media, add the same amount of wash buffer to the negative control
-image after 12h and 24h

Some notes

- Any work involving E coli will take place in the teaching labs and the plant growth room will only be used to grow plants in individual, sealed flasks: E coli will be added to media in the teaching labs and media change will also take place in the teaching labs to ensure containment of the bacteria.
- To ensure that no E coli get into the water ways in the plant rooms, we will dispose of the bacteria in the teaching labs by filling them into flasks, applying vircon and autoclaving the solution

Auxin concentration gradient effect on plants

-prepare half-MS phytogels (see above)
-mark spots 2cm apart from each other where you are going to plant the seeds
-inject auxin dissolved in 70% ethanol at one of these points. The phytogel is very soft so you can inject the solution directly into the gel using a Gilson pipette. Use concentrations of 0.0001, 0.001 and 0.01 mM of IAA.
-seed DR5 reporter line seeds at distances of 2cm, 4cm, 6cm, 8cm from the auxin.

Split-root auxin uptake

-prepare horizontally split plates. Pour regular half-MS phytogel into one half and phytogel containing 0.0001, 0.001 and 0.01mM phytogel into the other half. Pour only regular phytogel into the control plates.
-Take a DR5 reporter line seedling, previously grown in liquid culture and plant with one half of the roots in one half of the plate and the rest of the roots in the other half.

@@ Line 1: / Line 1: @@
+{{:Team:Imperial_College_London/Templates/Banner}}
+{{:Team:Imperial_College_London/Templates/Menu}}
 <html>
 <h1>Seedling protocol</h1>
 - Weigh in appr. 50mg of arabidopsis seeds in eppendorf tube (one tube per 250 ml erlenmayer flask) <br>
-- Wash with 500 µl 70% EtOH for appr. 4-5 (or 2x2) minutes per tube (mix well) <br>
+- Wash with 500 µl 70% EtOH for appr. 4-5 minutes per tube (mix well) <br>
-- Remove 70% EtOH and replace with 500µl 50% bleach (alternatively 5% Calcium hypochloride) <br>
+- Remove 70% EtOH and replace with 500µl 50% bleach <br>
 - Incubate for 20 minutes <br>
 - Wash several times with sterile ddH2O to remove bleach x3 <br>
@@ Line 11: / Line 13: @@
 Prepare sterile medium
 <br><br>
-- Half strength Murashige salt (2.1g per liter ddH2O) <br><br
+- Half strength Murashige salt (2.1g per liter ddH2O) <br>
-- Add 0.5g MES salt (buffer) per liter of media <br>
+- Add 0.546g MES salt (buffer) per liter of media <br>
 - Adjust pH to 5.7-5.8 using 2M KOH <br>
-- If required add 10g sucrose (e.g. 1% solution) – yes <br>
+- add 10g sucrose (normally from 1% solution)  <br>
 - Add 1% agarose = 10g/litre if making phytogel<br>
 - Distribute into erlenmayer flasks (125 ml/250ml flask) <br>
@@ Line 21: / Line 23: @@
 Some notes<br><br>
-- Growth conditions : flasks on a shaker at appr. 200 rpm. Either under long day or constant light conditions<br>
+- Growth conditions : flasks on a shaker at appr. 200 rpm at constant light conditions<br>
-- Grow seedlings for 5-6 days<br>
+- Grow seedlings for 5-6 days<br><br>
-</html>
-<html>
-<h1>'''Arabidopsis'''<br><br></h1>
+<h1>Auxin uptake protocol</h1>
+Overview : synthetic auxin is used to see the effect of Arabidopsis's root growth. Variation in auxin concentrations is applied to see the sensitivity of auxin in arabidopsis. <br>
+- To test auxin sensitivity, Arabidopsis seeds were sown onto medium as given above and supplemented with 0, 0.00001, 0.0001, 0.01, 1, 100, 10000uM indole-3-acetic acid (IAA). <br>
+- Medium preparation and seed sowing occurred under 0.5 pE m-2 sec-l incandescent light to minimize
+photooxidation of IAA.  <br>
+- Growing is done at 23°C in darkness for three days<br>
+- After 3 days, hypocotyl and root lengths were measured on 10 plantslreplication. Data were normalized to lengths as a percentage of the control treatment and subjected to analysis of variance. <br>
+-Plants were transferred to light for a further six days<br><br>
-Seedling protocol
+Some notes<br><br>
-<br><br>
+- Concentrations of IAA causing 50% inhibition of root and
+hypocotyl growth (Isow) ere calculated for each replication by solving
+regression equations with y = y intercept + 2.<br><br>
-- Weigh in appr. 50mg of arabidopsis seeds in eppendorf tube (one tube per 250 ml erlenmayer flask) <br>
+<h1>Glycerol stock protocol</h1>
+- obtain the bacterial pellet from centrifugation <br>
+- resuspend the pellet with _microl dH20 <br>
+- add _microl of 80% glycerol in each eppendorf. <br>
+- mix bacteria in 80% glycerol by resuspending the liquid many times <br><br>
-- Wash with 500 µl 70% EtOH for appr. 4-5 (or 2x2) minutes per tube (mix well) <br>
+<h1>Plant uptake of E coli</h1>
+-grow GFP+ E coli to exponential phase<br>
+-spin down bacteria (5000rpm for 10min) and take off LB media<br>
-- Remove 70% EtOH and replace with 500µl 50% bleach (alternatively 5% Calcium hypochloride) <br>
+-wash twice with wash buffer (5mM MES)<br>
+-resuspend in wash buffer so that the bacteria are at OD 30<br>
+-put 10 Arabidopsis seedlings into 100ml of growth media each<br>
-- Incubate for 20 minutes <br>
+-add bacteria to plant growth media, add the same amount of wash buffer to the negative control<br>
+-image after 12h and 24h<br><br>
-- Wash several times with sterile ddH2O to remove bleach x3 <br>
-- Vernalize seeds for 2-3 days <br><br>
-Prepare sterile medium<br><br>
-- Half strength Murashige salt (2.1g per liter ddH2O) <br>
-- Add 0.5g MES salt (buffer) per liter of media <br>
-- Adjust pH to 5.7-5.8 using 2M KOH <br>
-- If required add 10g sucrose (e.g. 1% solution) – yes <br>
-- Add 1% agarose = 10g/litre if making phytogel<br>
-- Distribute into erlenmayer flasks (125 ml/250ml flask) <br>
-- Autoclave for at least 15 minutes <br><br>
 Some notes<br><br>
+- Any work involving E coli will take place in the teaching labs and the plant growth room will only be used to grow plants in individual, sealed flasks: E coli will be added to media in the teaching labs and media change will also take place in the teaching labs to ensure containment of the bacteria. <br>
+- To ensure that no E coli get into the water ways in the plant rooms, we will dispose of the bacteria in the teaching labs by filling them into flasks, applying vircon and autoclaving the solution <br><br>
+<h1>Auxin concentration gradient effect on plants</h1>
+-prepare half-MS phytogels (see above)<br>
+-mark spots 2cm apart from each other where you are going to plant the seeds<br>
+-inject auxin dissolved in 70% ethanol at one of these points. The phytogel is very soft so you can inject the solution directly into the gel using a Gilson pipette. Use concentrations of 0.0001, 0.001 and 0.01 mM of IAA.<br>
+-seed DR5 reporter line seeds at distances of 2cm, 4cm, 6cm, 8cm from the auxin.<br><br>
-- Growth conditions : flasks on a shaker at appr. 200 rpm. Either under long day or constant light conditions <br>
+<h1>Split-root auxin uptake</h1>
+-prepare horizontally split plates. Pour regular half-MS phytogel into one half and phytogel containing 0.0001, 0.001 and 0.01mM phytogel into the other half. Pour only regular phytogel into the control plates.<br>
+-Take a DR5 reporter line seedling, previously grown in liquid culture and plant with one half of the roots in one half of the plate and the rest of the roots in the other half.
-- Grow seedlings for 5-6 days <br>
 </html>

Team:Imperial College London/Project/Arabidopsis/Protocols

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