hygiena KIT230177 Alicyclobacillus Detection LyoKit Instruction Manual
- June 1, 2024
- Hygiena
Table of Contents
hygiena KIT230177 Alicyclobacillus Detection LyoKit Instruction Manual
OVERVIEW
The foodproof® StarPrep® Two Kit is designed for the rapid preparation of DNA from bacteria like Listeria for direct use in PCR. The extracted DNA can be used directly in any PCR application. The StarPrep Two Lysis Buffer eliminates the need for hazardous organic extractions or chaotropic agents. The entire DNA preparation can be performed in a single tube, minimizing handling steps and exposure to hazardous material. The reduced number of handling steps saves time. Transfer steps of DNA-containing extracts are not necessary, thus cross- contamination risks are minimized.
General Information
Number of Reactions
The kit is designed for 96 reactions.
Storage Conditions
Store at 15 to 25 °C.
The components of the foodproof StarPrep Two Kit are guaranteed to be stable
through the expiration date printed on the label.
Applicability
The lysis buffer can be used to prepare DNA from 800 μL sample and is
optimized for the preparation of various types of sample material. The quality
of the DNA obtained with the lysis buffer is suitable for any PCR application.
Kit Contents
A schematic representation of the foodproof StarPrep Two Kit with all its
components.
KIT230177
Container with 42 mL lysis buffer and magnetic stir bar
INSTRUCTIONS
This section provides all information for a seamless DNA extraction from a variety of matrices.
Required Material
Most of the required equipment and reagents are available through Hygiena®.
Please contact us for further information.
It is highly recommended to only use the materials described below to
guarantee the robustness of the method.
Equipment
-
Standard tabletop microcentrifuge capable of a 13,000 × g centrifugal force e.g., Micro Star 17 – VWR -
Heating unit suitable for 1.5 mL tubes e.g., AccuBlock™ – Labnet with heating block
-
Unit for mechanical cell disruption suitable for working with 1.5 mL reaction tubes
e.g., Mortexer™ – Benchmark Scientific
or
Disruptor Genie® – Scientific Industries -
Magnetic stirrer
e.g., Color squid IKAMAG® – IKA®-Werke -
Vortex mixer
e.g., Vortex-Genie® – Scientific Industries
Precautions and Preparations
Follow all universal safety precautions governing work with biohazardous
materials, e.g., wear lab coats and gloves at all times. Properly dispose of
all contaminated materials, decontaminate work surfaces, and use a biosafety
cabinet whenever aerosols might be generated.
For more information, please refer to the appropriate material safety data
sheet (SDS).
The SDS is available online at
www.hygiena.com/sds.
-
Always use filter tips in order to avoid cross-contamination.
-
Mix thoroughly while pipetting the buffer for sample preparation. It is not recommended to use more than 96 reactions. The container must retain some of the reagent. Do not use any more reagent once the minimum level mark on the container has been reached. The mark indicates the minimal allowed pipetting level while the stirrer is not in use.
-
Set the heating unit to 95 to 100 °C.
Workflows
The Standard protocol (2.3.1) describes the DNA extraction from 800 μL
enrichment culture.
Inhibitory effects of the matrix or culture media are reduced by an additional
wash step.
In the Rapid protocol (2.3.2), only a 200 μL sample is taken to minimize
inhibitory effects of the matrix or culture media, without an additional wash
step.
EXTRACTION PROCEDURE A: STANDARD
This protocol describes the DNA extraction from 800 μL enrichment culture that
includes an additional wash step. As a result, it reduces inhibitory effects
of the used matrix or enrichment culture media. It is recommended for
difficult matrices or enrichment culture media, in combination with
lyophilized PCR reagents.
-
SHAKE SAMPLE
Shake enrichment culture gently and let the suspension settle for 5 to 10 min.
-
ADD SAMPLE
Transfer 800 μL sample (enrichment culture supernatant) to a 1.5 mL reaction tube.
Note: Depending on the mechanical disruption unit, it is also possible to use 2 mL reaction tubes.
-
CENTRIFUGE
5 min at 8,000 x g.
Note: Centrifugation at ≥ 13,000 × g is recommended, if the enrichment cultures are totally clear.
If necessary, centrifugation forces should be calculated according to the manual of the centrifuge used. -
REMOVE SUPERNATANT
Discard liquid with a pipette immediately after centrifugation and inactivate appropriately.
Note: Take care that the tip of the pipette is on the opposite side of the pellet during pipetting.
Discard liquid with a pipette immediately after centrifugation and inactivate appropriately.
Note: Take care that the tip of the pipette is on the opposite side of the pellet during pipetting. -
WASH SAMPLE
Transfer 800 μL sterile double-distilled water to wash the pellet.
Resuspend pellet by vortexing or by pipetting gently up and down.
Note: For optimal DNA isolation efficiency, the pellet has to be completely resuspended. -
. CENTRIFUGE
5 min at 8,000 x g.
-
REMOVE SUPERNATANT
Discard liquid with a pipette immediately after centrifugation and inactivate appropriately.
Note: Take care that the tip of the pipette is on the opposite side of the pellet during pipetting.
-
PREPARE LYSIS BUFFER
Place closed lysis buffer container on the magnetic stirrer. Continuously mix lysis buffer at 400 rpm on the magnetic stirrer to keep solution homogeneous. Open the lysis buffer container.
Note: Hold the container when switching on the magnetic stirrer and while pipetting. -
ADD LYSIS BUFFER
Transfer 300 μL lysis buffer to the sample tube and resuspend the pellet by pipetting gently up and down 5 to 10 times.
Note: Pipette carefully and vertically along the lysis buffer container wall, approximately 0.5 cm above the bottom.
Use a 1,000 μL filter tip to transfer lysis buffer to the sample.
For optimal DNA isolation efficiency, the pellet has to be completely resuspended.
-
MECHANICAL DISRUPTION
Place tube in a cell disruption unit and perform disruption:
Disruptor device: 8 min at maximum speed.
Note: The efficiency of disruption depends on the mechanical cell disruption unit.
-
INCUBATE
5 min at 95 to 100 °C in a heating unit.
Carefully remove the reaction tube from the heating unit and allow the tube to sit for 1 min at 15 to 25 °C.
-
MIX
_ Vortex for 2 sec.
_ -
CENTRIFUGE
5 min at 13,000 x g.
Note: If necessary, centrifugation forces should be calculated according to the centrifuge manual used.
SUPERNATANT FOR DETECTION
It is recommended to use 5 μL extract for the foodproofPCR Kits/LyoKits.
Strictly avoid transferring fractions of the sediment to the PCR reaction
becausethis might cause PCR inhibition.
For later analysis, store DNA at -15 to -25 °C.
After thawing, mix briefly by vortexing and centrifuge at 13,000 × g for 5
min.
EXTRACTION PROCEDURE B: RAPID
This protocol describes the DNA extraction from up to 200 μL enrichment
culture.
-
SHAKE SAMPLE
Shake enrichment culture gently and let the suspension settle for 5 to 10 min. -
ADD SAMPLE
Transfer 200 μL sample (enrichment culture supernatant) to a 1.5 mL reaction tube.
Note: Depending on the mechanical disruption unit, it is also possible to use 2 mL reaction tubes. -
CENTRIFUGE
_ 5 min at 8,000 x g.
_
Note: Centrifugation at ≥ 13,000 × g is recommended if the enrichment cultures are totally clear.
If necessary, centrifugation forces should be calculated according to the manual of the centrifuge used. -
REMOVE SUPERNATANT
Discard liquid with a pipette immediately after centrifugation and inactivate appropriately.
Note: Take care that the tip of the pipette is on the opposite side of the pellet during pipetting. -
PREPARE LYSIS BUFFER
Place closed lysis buffer container on the magnetic stirrer.
Continuously mix lysis buffer at 400 rpm on the magnetic stirrer to keep solution homogeneous.
Open the lysis buffer container.
Note: Hold the container when switching on the magnetic stirrer and while pipetting. -
ADD LYSIS BUFFER
Transfer 300 μL lysis buffer to the sample tube and resuspend the pellet by pipetting gently up and down 5 to 10 times.
Note: Pipette carefully and vertically along the lysis buffer container wall, approximately 0.5 cm above the bottom.
Use a 1,000 μL filter tip to transfer lysis buffer to the sample.
For optimal DNA isolation efficiency, the pellet has to be completely resuspended. -
MECHANICAL DISRUPTION
Place tube in a cell disruption unit and perform disruption:
Disruptor device: 8 min at maximum speed.
Note: The efficiency of disruption depends on the mechanical cell disruption unit. -
INCUBATE
5 min at 95 to 100 °C in a heating unit.
Carefully remove the reaction tube from the heating unit and allow the tube to sit for 1 min at 15 to 25 °C. -
MIX
Vortex for 2 sec. -
CENTRIFUGE
_ 5 min at 13,000 x g.
_
Note: If necessary, centrifugation forces should be calculated according to the centrifuge manual used.
SUPERNATANT FOR DETECTION
It is recommended to use 5 μL extract for the foodproof PCR Kits/
LyoKits.
Strictly avoid transferring fractions of the sediment to the PCR reaction
because this might cause PCR inhibition.
For later analysis, store DNA at -15 to -25 °C.
After thawing, mix briefly by vortexing and centrifuge at 13,000 × g for 5
min.
Troubleshooting
| Problem | Possible Cause | Recommendation |
|---|---|---|
| Extract inhibits PCR. | Enrichment culture or sample contains too many PCR | |
| inhibitors. | Perform a subcultivation, e.g., 1:10 dilution in fresh enrichment |
broth. Repeat DNA extraction with reduced sample volume.
DNA extract contains too many PCR inhibitors.| Dilute DNA extract, e.g., 1:10,
or reduce the amount of extracted DNA.
Some of the centrifugation pellet transferred over to the PCR.| Always
centrifuge the DNA sample before performing PCR. Do not allow the filter tip
to have contact with the pellet.
Supernatants are not completely removed.| Remove supernatants completely.
Low DNA yield.| Improper storage of kit components.| Store kit reagents at 15
to 25 °C.G
Enrichment culture contains substances that reduce the DNA extraction
efficiency.| Perform a subcultivation or dilution, e.g., 1:10 in fresh
enrichment broth.
Not enough target organisms in enrichment culture.| Prolong the incubation
phase.
No or insufficient beads in the reaction.| Use correct stirring settings. Do
not pipette more than 96 reactions. Do not use reagent below the minimal level
indicated.
Suboptimal reaction conditions.C| Ensure proper disruption and heating
conditions. Verify heating block is at correct temperature using a
thermometer.
Lid of the reaction tube opens during or after heating.| Reaction tube not
firmly closed.| Ensure that all reaction tubes are firmly closed before
heating. Use lid clips for closing the tubes properly. Use a heating unit that
enables removal of the tubes without directly touching the tube lids.
Support
If you have questions or experience any problems with our products, please contact us:
Our aim is to provide you with a solution as quickly and effectively as possible. We would also like you to contact us if you have any suggestions for improving the product or in case you would like to use our product for a different application. We highly value your feedback.
ADDITIONAL INFORMATION
Quality Control
All products are regularly monitored by our quality control. You can fi nd the
certifi cate of analysis (COA) on our website. If you would like to carry out
your own quality control, you will fi nd the analysis method described in the
certifi cate. Waste Disposal
All contaminated and potentially infectious material, like enrichment cultures or food samples, should be autoclaved before disposal and eliminated according to local rules and regulations. For proper disposal of unused chemicals, please refer to the SDS.
Warranty and Disclaimer of Liability
“Limited Warranty” and “Disclaimer of Liability”: Hygiena Diagnostics GmbH
warrants that this product is free from defects in materials and workmanship
through the expiration date printed on the label and only if the following are
complied with:
- The product is used according to the guidelines and instructions set forth in the product literature;
- Hygiena Diagnostics GmbH does not warrant its product against any and all defects when: the defect is as a result of material or workmanship not provided by Hygiena Diagnostics GmbH; defects caused by misuse or use contrary to the instructions supplied, or improper storage or handling of the product;
- All warranties of merchantability and fi tness for a particular purpose, written, oral, expressed or implied, shall extend only for a period of one year from the date of manufacture. There are no other warranties that extend beyond those described on the face of this warranty;
- Hygiena Diagnostics GmbH does not undertake responsibility to any purchaser of its product for any undertaking, representation or warranty made by any dealers or distributors selling its products beyond those herein expressly expressed unless expressed in writing by an offi cer of Hygiena Diagnostics GmbH;
- Hygiena Diagnostics GmbH does not assume responsibility for incidental or consequential damages, including, but not limited to responsibility for loss of use of this product, removal or replacement labor, loss of time, inconvenience, expense for telephone calls, shipping expenses, loss or damage to property or loss of revenue, personal injuries or wrongful death;
- Hygiena Diagnostics GmbH reserves the right to replace or allow credit for any modules returned under this warranty.
Trademarks
Trademarks
foodproof®, microproof®, vetproof®, ShortPrep®, StarPrep®, RoboPrep® and
LyoKit® are
registered trademarks of Hygiena Diagnostics GmbH.
Hygiena® is a registered trademark of Hygiena.
Other brand or product names are trademarks of their respective holders.
Reference Number
The reference number and original Hygiena Diagnostics GmbH article number:
S 400 08.1.
Change Index
Version 1, December 2019:
New document layout and content.
Revision A, December 2023:
Rebranding and layout
S 400 08.1 20-2 -> INS-KIT230177-2-REVA
Hygiena®
Camarillo, CA 93012
USA
diagnostics.support@hygiena.com
Manufactured by Hygiena Diagnostics GmbH
Hermannswerder 17
14473 Potsdam
Germany
www.hygiena.com
References
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