Manual InnuPREP DNA RNA Mini Kit

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Instructions for Use

Life Science Kits & Assays

innuPREP DNA/RNA Mini Kit


Order No.:
845-KS-20800010 10 reactions
845-KS-20800050 50 reactions
845-KS-20800250 250 reactions

Publication No.: HB_KS-2080_e_170719

This documentation describes the state at the time of publishing.


It needs not necessarily agree with future versions. Subject to change!
Print-out and further use permitted with indication of source.
© Copyright 2017, Analytik Jena AG, AJ Innuscreen GmbH

Manufacturer:
AJ Innuscreen GmbH
Robert-Rössle-Straße 10
13125 Berlin
Made in Germany!

Distribution/Publisher: Phone +49 3641 77 9400


Analytik Jena AG Fax +49 3641 77 767776
Konrad-Zuse-Straße 1 www.analytik-jena.com
07745 Jena · Germany [email protected]
Contents

Contents

1. Introduction ............................................................................................. 2
1.1 Intended use .................................................................................. 2
1.2 Notes on the use of this manual ................................................... 3
2. Safety precautions................................................................................... 4
3. Storage conditions .................................................................................. 4
4. Function testing and technical assistance .............................................. 5
5. Product use and warranty ....................................................................... 5
6. Kit components ....................................................................................... 6
7. Product specifications ............................................................................. 8
8. GHS classification .................................................................................... 9
8.1 Hazard phrases ........................................................................... 10
8.2 Precaution phrases ..................................................................... 10
8.3 EU hazard statements ................................................................ 10
9. Recommended steps before starting .................................................. 11
10. General procedure for nucleic acid extraction .................................... 11
11. General notes and safety recommendations on handling RNA ......... 12
12. Protocol 1: DNA and RNA extraction from tissue samples
(up to 20 mg) ..................................................................................... 14
13. Protocol 2: DNA and RNA extraction from eucaryotic cells
(5 x 106 cells) ..................................................................................... 18
14. Protocol 3: DNA and RNA extraction from bacterial cells .................. 21
15. Troubleshooting ................................................................................... 25

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1
Introduction

1. Introduction

1.1 Intended use

The innuPREP DNA/RNA Mini Kit has been designed for the extraction of
DNA and RNA from eukaryotic cells, tissue samples and bacteria. The kit
uses an optimized chemistry resulting in a fast and reliable purification of
RNA with high quality and yield.

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Introduction

1.2 Notes on the use of this manual

For easy reference and orientation, the manual uses the following warn-
ing and information symbols as well as the shown methodology:

Symbol Information

REF
Catalogue number

Content
N Contains sufficient reagents for <N> reactions

Storage conditions
Store at room temperature or shown conditions respectively

Consult instructions for use


This information must be observed to avoid improper use of the kit
and the kit components.
Expiry date

Lot number
The number of the kit charge

Manufactured by
Contact information of manufacturer

For single use only


Do not use components for a second time

Note / Attention
Observe the notes marked in this way to ensure correct function of
the kit and to avoid operating errors for obtaining correct results.

The following systematic approach is introduced in the manual:

 The chapters and figures are numbered consecutively.

 A cross reference is indicated with an arrow (e.g.  “Notes on the


use of this manual" p. 3).

 Working steps are numbered.

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Safety precautions

2. Safety precautions

All due care and attention should be exercised in handling the materials
and reagents contained in the kit. Always wear gloves while handling
these reagents and avoid any skin contact! In case of contact, flush eyes
or skin with a large amount of water immediately.

If the buffer bottles are damaged or leaking, wear gloves and protective
goggles when discarding the bottles in order to avoid any injuries. This kit
could be used with potential infectious samples. Therefore, all liquid
waste must be considered as potentially infectious and must be handled
and discarded according to local safety regulation.

Please observe the federal, state and local safety and environmental
regulations. Follow the usual precautions for applications using extracted
nucleic acids. All materials and reagents used for DNA or RNA isolation
should be free of DNases or RNases.

3. Storage conditions

The innuPREP DNA/RNA Mini Kit should be stored dry, at room tempera-
ture (15 °C to 30 °C). When stored at room temperature, the kit is stable
until the expiration date printed on the label on the kit box.

If there are any precipitates within the provided solutions solve these pre-
cipitates by careful warming. Before every use make sure that all compo-
nents have room temperature.

For further information see chapter “Kit components” ( p. 8).

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Function testing and technical assistance

4. Function testing and technical assistance

The Analytik Jena AG guarantees the correct function of the kit for appli-
cations as described in the manual. This product has been produced and
tested in an ISO 13485 certified facility.

We reserve the right to change or modify our products to enhance there


performance and design. If you have any questions or problems regarding
any aspects of the innuPREP DNA/RNA Mini Kit or other Analytik Jena AG
products, please do not hesitate to contact us. For technical support or
further information in Germany please dial +49 36 41 / 77 94 00. For
other countries please contact your local distributor.

5. Product use and warranty

The kit is not designed for the usage of other starting materials or oth-
er amounts of starting materials than those, referred to in the manual
( “Intended use“ p. 2), ( “Product specifications“ p. 8). Since the
performance characteristics of Analytik Jena AG kits have just been val-
idated for the application described above, the user is responsible for
the validation of the performance of Analytik Jena AG kits using other
protocols than those described below. Analytik Jena AG kits may be
used in clinical diagnostic laboratory systems after the laboratory has
validated the complete diagnostic system as required by CLIA’ 88 regu-
lations in the U.S. or equivalents in other countries.

All products sold by Analytik Jena AG are subjected to extensive quality


control procedures and are warranted to perform as described when used
correctly. Any problems should be reported immediately.

NOTE
For research use only!

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Kit components

6. Kit components

30 °C IMPORTANT
15 °C All kit components are stored at room temperature (15 °C to 30 °C).

10 50 250
Lysis Solution RL 6 ml 30 ml 125 ml

Washing Solution 6 ml 30 ml 2 x 70 ml
HS (conc.)
Washing Solution 3 ml 2 x 8 ml 2 x 40 ml
LS (conc.)
RNase-free 2 ml 6 ml 25 ml
Water
Elution Buffer 2 ml 6 ml 30 ml

Spin Filter D 10 50 5 x 50

Spin Filter R 10 50 5 x 50

Receiver Tubes 40 4 x 50 20 x 50

Elution Tubes 20 2 x 50 10 x 50

Manual 1 1 1

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Kit components

10 50 250
Initial steps Washing Solution HS Washing Solution HS Washing Solution HS
Add 6 ml of Add 30 ml of 96- Add 70 ml of 96-
96-99.8 % ethanol to 99.8 % ethanol to 99.8 % ethanol to
the bottle Washing the bottle Washing each bottle Washing
Solution HS, mix Solution HS, mix Solution HS, mix
thoroughly and keep thoroughly and keep thoroughly and keep
the bottle always the bottle always the bottle always
firmly closed! firmly closed! firmly closed!

Washing Solution LS Washing Solution LS Washing Solution LS


Add 12 ml of Add 32 ml of Add 160 ml of
96-99.8 % ethanol to 96-99.8 % ethanol to 96-99.8 % ethanol to
the bottle Washing each bottle Washing each bottle Washing
Solution LS, mix Solution LS, mix Solution LS, mix
thoroughly and keep thoroughly and keep thoroughly and keep
the bottle always the bottle always the bottle always
firmly closed! firmly closed! firmly closed!

Components not included in the kit


 DNase I; optional

 Lysozyme; optional

 ddH2O

 TE-Buffer (10 mM Tris-HCl; 1 mM EDTA; pH 8.0); optional

 Reaction tubes

 Ethanol (70 %, 96-99.8 %)

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Product specifications

7. Product specifications

1. Starting material:
 Eukaryotic cells (max. 5 x 106)

 Tissue sample (up to 20 mg)

 Bacterial cells (gram+ and gram- bacteria, up to 1 x 109)

2. Time for isolation:


Approximately 15-40 min

3. Typical yield:
 Depending on the kind and initial amount of the starting mate-
rial

 Up to 60 μg RNA and up to 40 μg DNA

4. Binding capacity:
 Approximately: 100 μg RNA

 > 50 μg DNA

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GHS classification

8. GHS classification

Hazard GHS Sym- Hazard Precaution EUH


Component
contents bol phrases phrases
Lysis Solu- Guanidini- 302, 314, 101, 102, 103,
tion RL um thiocya- 412 260,303+361+
nate 353,
25–50 % Danger 305+351+338,
310, 405, 501

Washing Guanidini- 302, 314, 101, 102, 103, 032


Solution HS um thiocya- 412 260, 310, 405,
nate 501,
(conc.)
50–100 % Danger 303+361+353,
305+351+338

CAUTION
DO NOT add bleach or acidic solutions directly to the sample-preparation
waste.

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GHS classification

8.1 Hazard phrases

302 Harmful if swallowed.

314 Causes severe skin burns and eye damage.

412 Harmful to aquatic life with long lasting effects.

8.2 Precaution phrases

101 If medical advice is needed, have product container or


label at hand.
102 Keep out of reach of children.
103 Read label before use.
260 Do not breathe dust/fume/gas/mist/vapors/spray.
310 Immediately call a POISON CENTER/doctor.
405 Store locked up.
501 Dispose of contents/container in accordance with lo-
cal/regional/national/international regulations.
303+361+353 IF ON SKIN (or hair): Take off immediately all contam-
inated clothing. Rinse skin with water/shower.
305+351+338 IF IN EYES: Rinse cautiously with water for several
minutes. Remove contact lenses, if present and easy to
do. Continue rinsing.

8.3 EU hazard statements

032 Contact with acids liberates very toxic gas

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Recommended steps before starting

9. Recommended steps before starting

 Ensure that the Washing Solution HS and Washing Solution LS have


been prepared according to the instruction (→ "Kit components" p. 6)

 Centrifugation steps should be performed at room temperature

 Avoid freezing and thawing of starting materials

10. General procedure for nucleic acid extraction

Lysis of the starting


material

Binding of gDNA on-


to Spin Filter D

Binding of RNA to
Spin Filter R

Washing of the Washing of the


bound gDNA bound RNA

Elution of gDNA Elution of RNA

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General notes and safety recommendations on handling RNA

11. General notes and safety recommendations on handling


RNA

RNA is far less stable than DNA. It is very sensitive to degradation by en-
dogenous RNases in the biological material and exogenous RNases which
are permanently present everywhere in the lab. To achieve satisfactory
qualitative and quantitative results in RNA preparations, contaminations
with exogenous RNases have to be reduced to a minimum in accordance
with the following recommendations:

 Always wear latex or vinyl gloves while handling reagents and RNA
samples to prevent RNase contaminations from surface of the skin or
from dusty laboratory equipment.

 Change gloves frequently and keep tubes closed.

 Keep isolated RNA on ice.

 Reduce preparation time as much as possible.

 Use only sterile, disposable polypropylene tubes throughout the pro-


cedure (these tubes are generally RNase-free.)

 Non-disposable plastic ware should be treated before use to ensure


that it is RNase-free. Plastic ware should be thoroughly rinsed with
0.1 M NaOH, 1 mM EDTA followed by RNase-free water. You can al-
so take chloroform-resistant plastic ware rinsed with chloroform to
inactivate RNases.

 All glassware should be treated before use to ensure that it is RNase-


free. Glassware should be cleaned with detergent, thoroughly rinsed
and oven baked at 240 °C for four or more hours before use. Auto-
claving alone will not inactivate many RNases completely. Oven bak-
ing inactivates RNases and ensures that no other nucleic acids (such
as plasmid DNA) are present on the surface of the glassware. You
can also clean glassware with 0.1 % DEPC (diethyl pyrocarbonate).
The glassware has to be immersed in 0.1 % DEPC solution for
12 hours at 37 °C and then it has to be autoclaved or heated to
100 °C for 15 min to remove residual DEPC.

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General notes and safety recommendations on handling RNA

 Electrophoresis tanks should be cleaned with detergent solution (e.g.


0.5 % SDS), thoroughly rinsed with RNase-free water, rinsed with
ethanol and finally allowed to dry.

 All buffers have to be prepared with DEPC-treated RNase-free


ddH2O.

 Avoid handling bacterial cultures, cell cultures or other biological


sources of RNases in the same lab where the RNA purification will be
performed.

 Do not use equipment, glassware and plastic ware employed for oth-
er applications which might introduce RNase contaminations in the
RNA isolation.

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Protocol 1: DNA and RNA extraction from tissue samples (up to 20 mg)

12. Protocol 1: DNA and RNA extraction from tissue


samples (up to 20 mg)

IMPORTANT NOTE
Please note that up to 20 mg of tissue samples can be processed.
Avoid freezing and thawing of tissue samples!

I. Homogenization of starting material

NOTE
To maximize the final yield of DNA and total RNA a complete homogeni-
zation of tissue sample is important!

For the homogenization of tissue sample it is possible to use commercially


available rotor-stator homogenizer or bead mills. It is also possible to dis-
rupt the starting material using mortar and pestle in liquid nitrogen and
grind the tissue sample to a fine powder.

A. Homogenization of the tissue sample using a rotor-stator ho-


mogenizer

1. Transfer the weighed amount of fresh or frozen starting material


in a suitable reaction vessel for the homogenizer.
2. Add 450 μl Lysis Solution RL.
3. Homogenize the sample.
4. Transfer the homogenized tissue sample into a 1.5 ml reaction
tube and place the sample under Lysis Solution RL for longer
storage at –20 °C or use the sample immediately for isolation of
DNA/RNA following the protocol step II.

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Protocol 1: DNA and RNA extraction from tissue samples (up to 20 mg)

B. Disruption of the tissue sample using a mortar and pestle and


liquid nitrogen

1. Transfer the weighed amount of fresh or frozen starting material


under liquid nitrogen and grind the material to a fine tissue pow-
der.
2. Transfer the powder into a 1.5 ml reaction tube. Don’t allow the
sample to thaw!
3. Add 450 μl Lysis Solution RL and incubate the sample for appro-
priate time for a further lysis under continuous shaking.
4. Finally place the sample under Lysis Solution RL for longer stor-
age at –20 °C or use the sample immediately for isolation of
DNA/RNA following protocol step II.

II. Binding of genomic DNA onto Spin Filter D

1. After lysis spin down unlysed material by centrifugation at maximum


speed for 1 minute. Place a Spin Filter D into a Receiver Tube. Trans-
fer the supernatant of the lysed sample onto the Spin Filter D. Centri-
fuge at 10,000 x g (~12,000 rpm) for 2 minutes.
Do not discard the filtrate, because the filtrate contains the RNA!

NOTE
If the solution has not completely passed through the Spin Filter, centri-
fuge again at higher speed or prolong the centrifugation time.

2. Place the Spin Filter D into a new Receiver Tube. The genomic DNA is
bound onto Spin Filter D. Processing of the Spin Filter D will be con-
tinued after binding of total RNA onto Spin Filter R.

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Protocol 1: DNA and RNA extraction from tissue samples (up to 20 mg)

III. Binding of total RNA onto Spin Filter R

1. Place a Spin Filter R into a new Receiver Tube. Add an equal volume
(appr. 400 μl) of 70 % ethanol to the filtrate from step II. Mix the
sample by pipetting up and down several times. Transfer the sample
onto the Spin Filter R. Centrifuge at 10,000 x g (~12,000 rpm) for
2 minutes.

NOTE
If the solution has not completely passed through the Spin Filter, centri-
fuge again at higher speed or prolong the centrifugation time.

Discard the Receiver Tube with filtrate.

2. Place the Spin Filter R into a new Receiver Tube. The total RNA is
bound on Spin Filter R. Both Spin Filters (Spin Filter D and R) will be
processed in parallel now.

IV. Parallel processing of both - Spin Filter D for isolation of DNA and
Spin Filter R for isolation of RNA

1. Open the Spin Filters D and R, add 500 μl Washing Solution HS to


each, close the caps and centrifuge at 10,000 x g (~12,000 rpm) for
1 minute. Discard the filtrate and re-use the Receiver Tubes.
2. Open the Spin Filters D and R, add 700 μl Washing Solution LS to
each, close the caps and centrifuge at 10,000 x g (~12,000 rpm) for
1 minute. Discard the filtrate and re-use the Receiver Tubes. Place
the Spin Filters D and R again into the Receiver Tubes.
3. Centrifuge at 10,000 x g (12,000 rpm) for 2 minutes to remove all
traces of ethanol. Discard the Receiver Tubes.

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Protocol 1: DNA and RNA extraction from tissue samples (up to 20 mg)

4. Place the Spin Filters D and R each into an Elution Tube. Carefully
open the caps of the Spin Filters D and R, add 100 μl Elution Buffer
to Spin Filter D and 30–80 μl RNase-free Water to Spin Filter R. In-
cubate at room temperature for 1 minute. Centrifuge at 6,000 x g
(~8,000 rpm) for 1 minute.

NOTE
Depending on the extracted yield or the needed concentration of ge-
nomic DNA or total RNA you can also elute with different volumes of Elu-
tion Buffer/RNase-free water. A lower volume of Elution Buffer/RNase-
free Water increases the concentration of DNA/RNA and a higher volume
of Elution Buffer/RNase-free Water leads to an increased yield but a
lower concentration of nucleic acids. Please note, that the minimum of
RNase-free water should be 20 μl.
Store nucleic acids at appropriate conditions (RNA at –80 °C and DNA at
–20 °C)!

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Protocol 2: DNA and RNA extraction from eucaryotic cells (5 x 106 cells)

13. Protocol 2: DNA and RNA extraction from eucaryotic


cells (5 x 106 cells)

IMPORTANT
Please note that up to 5 x 106 cells can be processed.

I. Lysis of cells

Add 400 μl Lysis Solution RL to the cell pellet. Incubate for 2 minutes at
room temperature. Re-suspend the cell pellet completely by pipetting up
and down. Incubate the sample for further 3 minutes at room tempera-
ture.

NOTE
To maximize the final yield of DNA and total RNA a complete disruption
and lysis of the cell pellet is important! No cell clumps should be visible
after lysis step.

II. Binding of genomic DNA onto Spin Filter D

1. After lysis spin down unlysed material by centrifugation at maximum


speed for 1 minute. Place a Spin Filter D into a Receiver Tube. Trans-
fer the supernatant of the lysed sample onto the Spin Filter D. Centri-
fuge at 10,000 x g (~12,000 rpm) for 2 minutes.
Do not discard the filtrate, because the filtrate contains the RNA!

NOTE
If the solution has not completely passed through the Spin Filter, centri-
fuge again at higher speed or prolong the centrifugation time.

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Protocol 2: DNA and RNA extraction from eucaryotic cells (5 x 106 cells)

2. Place the Spin Filter D into a new Receiver Tube. The genomic DNA is
bound onto Spin Filter D. Processing of the Spin Filter D will be con-
tinued after binding of total RNA onto Spin Filter R.

III. Binding of total RNA onto Spin Filter R

1. Place a Spin Filter R into a new Receiver Tube. Add an equal volume
(appr. 400 μl) of 70 % ethanol to the filtrate from step II. Mix the
sample by pipetting sometimes up and down. Transfer the sample
onto the Spin Filter R. Centrifuge at 10,000 x g (~12,000 rpm) for
2 minutes.

NOTE
If the solution has not completely passed through the Spin Filter, centri-
fuge again at higher speed or prolong the centrifugation time.

Discard the Receiver Tube with filtrate.

2. Place the Spin Filter R into a new Receiver Tube. The total RNA is
bound on Spin Filter R. Both Spin Filters (Spin Filter D and R) will be
processed in parallel now.

IV. Parallel processing of both - Spin Filter D for isolation of DNA and
Spin Filter R for isolation of RNA

1. Open the Spin Filters D and R, add 500 μl Washing Solution HS to


each, close the caps and centrifuge at 10,000 x g (~12,000 rpm) for
1 minute. Discard the filtrate and re-use the Receiver Tubes.
2. Open the Spin Filters D and R, add 700 μl Washing Solution LS to
each, close the caps and centrifuge at 10,000 x g (~12,000 rpm) for
1 minute. Discard the filtrate and re-use the Receiver Tubes.
3. Centrifuge at 10,000 x g (~12,000 rpm) for 2 minutes to remove all
traces of ethanol. Discard the Receiver Tubes.

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Protocol 2: DNA and RNA extraction from eucaryotic cells (5 x 106 cells)

4. Place the Spin Filters D and R each into an Elution Tube. Carefully
open the caps of the Spin Filters D and R, add 100 μl Elution Buffer
to Spin Filter D and 30–80 μl RNase-free Water to Spin Filter R. In-
cubate at room temperature for 1 minute. Centrifuge at 6,000 x g
(~8,000 rpm) for 1 minute.

NOTE
Depending on the extracted yield or the needed concentration of ge-
nomic DNA or total RNA you can also elute with different volumes of Elu-
tion Buffer/RNase-free Water. A lower volume of Elution Buffer/RNase-
free Water increases the concentration of DNA/RNA and a higher volume
of Elution Buffer/RNase-free Water leads to an increased yield but a
lower concentration of nucleic acids. Please note, that the minimum of
RNase-free water should be 20 μl.
Store nucleic acids at appropriate conditions (RNA at –80 °C and DNA at
–20 °C)!

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Protocol 3: DNA and RNA extraction from bacterial cells

14. Protocol 3: DNA and RNA extraction from bacterial cells

I. Lysis of bacterial cells

IMPORTANT
Please note that up to 1 x 109 cells can be processed.
We recommend a pre-incubation of bacterial cells with Lysozyme or op-
tionally other bacterial lysis proteins.

Stock solution of Lysozyme for Gram(-) bacteria:


20 mg/ml in water; storage of Lysozyme stock solution in aliquots at
-22 °C to -18 °C

Stock solution of Lysozyme for Gram(+) bacteria:


50 mg/ml in water; storage of Lysozyme stock solution in aliquots -22 °C
to -18 °C

Prepare TE-Buffer: (10 mM Tris HCl / 1 mM EDTA; pH 8.0)

1. Spin down the bacterial cells by centrifugation at 5,000 x g for


2-5 minutes. Discard the supernatant as complete as possible.
2. For Gram(-) bacteria re-suspend the cell pellet in 100 μl TE-Buffer
and add 2 μl of the corresponding Lysozyme stock solution. Pipette
sometimes up and down; the solution should become clear or vis-
cous.
3. For Gram(+) bacteria re-suspend the cell pellet in 100 μl TE-Buffer
and add 6 μl of the corresponding Lysozyme stock solution. Pipette
sometimes up and down; incubate until the solution becomes clear
or viscous.

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Protocol 3: DNA and RNA extraction from bacterial cells

NOTE
The amount of Lysozyme and also the essential time for incubation may
need to be diversified depending on bacterial strains. Read also the
guideline of the Lysozyme supplier. A complete destruction of bacterial
cell walls is important.

3. Add 450 μl Lysis Solution RL to the sample and vortex vigorously or


pipette sometimes up and down. Incubate the sample for further
3 minutes at room temperature.

NOTE
To maximize the final yield of DNA and total RNA a complete disruption
and lysis of the cell pellet is important! No cell clumps should be visible
after lysis step.

II. Binding of genomic DNA onto Spin Filter D

1. After lysis spin down unlysed material by centrifugation at maximum


speed for 1 minute. Place a Spin Filter D into a Receiver Tube. Trans-
fer the supernatant of the lysed sample onto the Spin Filter D. Centri-
fuge at 10,000 x g (~12,000 rpm) for 2 minutes.
Do not discard the filtrate, because the filtrate contains the RNA!

NOTE
If the solution has not completely passed through the Spin Filter, centri-
fuge again at higher speed or prolong the centrifugation time.

2. Place the Spin Filter D into a new Receiver Tube. The genomic DNA is
bound onto Spin Filter D. Processing of the Spin Filter D will be con-
tinued after binding of total RNA onto Spin Filter R.

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Protocol 3: DNA and RNA extraction from bacterial cells

III. Binding of total RNA onto Spin Filter R

1. Place a Spin Filter R into a new Receiver Tube. Add an equal volume
(appr. 600 μl) of 70 % ethanol to the filtrate from previous step II.
Mix the sample by pipetting sometimes up and down.
2. Transfer 650 μl of the sample onto the Spin Filter R. Centrifuge at
10,000 x g (~12,000 rpm) for 1 minute. Discard the filtrate and re-
use the Receiver Tube. Place the Spin Filter R back into the Receiver
Tube. Load the residual sample on the Spin Filter R and centrifuge
again at 10,000 x g (~12,000 rpm) for 1 minute.

NOTE
If the solution has not completely passed through the Spin Filter, centri-
fuge again at higher speed or prolong the centrifugation time.

3. Discard the filtrate and re-use the Receiver Tube. The total RNA is
bound onto Spin Filter R. Both Spin Filters (Spin Filter D and R) will
be processed in parallel now.

VI. Parallel processing of both - Spin Filter D for the isolation of DNA
and Spin Filter R for isolation of RNA

1. Open the Spin Filters D and R, add 500 μl Washing Solution HS to


each, close the caps and centrifuge at 10,000 x g (~12,000 rpm) for
1 minute. Discard the filtrate and re-use the Receiver Tubes.
2. Open the Spin Filters D and R, add 700 μl Washing Solution LS to
each, close the caps and centrifuge at 10,000 x g (~12,000 rpm) for
1 minute. Discard the filtrate and re-use the Receiver Tubes.
3. Centrifuge at 10,000 x g (~12,000 rpm) for 2 minutes to remove all
traces of ethanol. Discard the Receiver Tubes.

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Protocol 3: DNA and RNA extraction from bacterial cells

4. Place the Spin Filter D and R each into an Elution Tube. Carefully
open the caps of the Spin Filters D and R, add 100 μl Elution Buffer
to Spin Filter D and 30–80 μl RNase-free Water to Spin Filter R. In-
cubate at room temperature for 1 minute. Centrifuge at 6,000 x g
(~8,000 rpm) for 1 minute.

NOTE
Depending on the extracted yield or the needed concentration of ge-
nomic DNA or total RNA you can also elute with different volumes of Elu-
tion Buffer/RNase-free Water. A lower volume of Elution Buffer/RNase-
free Water increases the concentration of DNA/RNA and a higher volume
of Elution Buffer/RNase-free Water leads to an increased yield but a
lower concentration of nucleic acids. Please note, that the minimum of
RNase-free Water should be 20 μl.
Store nucleic acids at appropriate conditions (RNA at –80 °C and DNA at
–20 °C)!

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Troubleshooting

15. Troubleshooting

Problem / probable cause Comments and suggestions


Clogged Spin Filter
Insufficient disruption or homo- After lysis centrifuge lysate to pellet debris and
genization continue with the protocol using the superna-
tant.
Reduce amount of starting material.
Little or no DNA or total RNA eluted
Insufficient disruption or homo- Reduce amount of starting material.
genization Overloading reduces yield!
Incomplete elution Prolong the incubation time with Elution Buffer
and RNase-free water to 5 minutes or repeat
elution step once again.
DNA contamination of extracted RNA
Too much starting material Reduce amount of starting material.
Incorrect lysis of starting materi- Use the recommended techniques for lysis of
al cell pellet.
Perform DNase digest of the eluate containing
the total RNA or perform a on column DNase
digest step after binding of the RNA on Spin
Filter R!
Total RNA degraded
RNA source inappropriately han- Ensure that the starting material is fresh!
dled or stored Ensure that the protocol, especially the first
steps, has been performed quickly.
RNase contamination of solu- Use sterile, RNase-free filter tips. Before every
tions; Receiver Tubes, etc. preparation clean up the pipette, the devices
and the working place. Always wear gloves!
Total RNA does not perform well in downstream applications (e.g. RT-PCR)
Ethanol carryover during elution Increase time for removing of ethanol.
Salt carryover during elution Ensure that Washing Solution HS and Wash-
ing Solution LS are at room temperature.
Check up Washing Solution for salt precipi-
tates. If there are any precipitate dissolves
these precipitate by carefully warming.

innuPREP DNA/RNA Mini Kit Issue 07 / 2017


25
engl. 07/17 – Analytik Jena AG, Jena
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