Product Class: Kit

Monarch® PCR & DNA Cleanup Kit (5 μg)

  • Catalog # T1030 was discontinued on December 02, 2024

Product Introduction

Quickly and easily purify high quality DNA from PCR and other enzymatic reactions.

  • Elute in as little as 6 μl
  • Prevent buffer retention and salt carry-over with optimized column design
  • Save time with fast, user-friendly protocols
  • No need to monitor pH
  • Protocol modification allows for ssDNA purification, oligonucleotide purification, and purification of other small DNA fragments
  • Buffers and columns available separately
  • Significantly less plastic used when compared with other kits 
  • Responsibly-sourced and recyclable packaging

Check out our Technical Note containing comprehensive insights into measuring and analyzing nucleic acids.

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Featured Videos

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    Monarch® PCR & DNA Cleanup Kit Protocol

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    Tips for using the Monarch® PCR & DNA Cleanup Kit

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    How to recycle your Monarch® Kit components

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Product Information

Description

The Monarch PCR & DNA Cleanup Kit rapidly and reliably purifies up to 5 μg of concentrated, high-quality DNA from PCR and other enzymatic reactions. The kit utilizes a bind/wash/elute workflow with minimal incubation and spin times. The columns ensure zero buffer retention and no carryover of contaminants, enabling elution of sample in volumes as low as 6 μl. The buffers provided have been optimized, and do not require monitoring of pH. Eluted DNA is ready for use in restriction digests, DNA sequencing, ligation and other enzymatic manipulations. Designed with sustainability in mind, Monarch kits use significantly less plastic and responsibly-sourced, recyclable packaging. The protocol can also be modified to enable the purification of smaller DNA fragments, including oligonucleotides and ssDNA.

View our videos on protocols, tips, and recycling Monarch.

 

APPLICATIONS
PCR cleanup DNA from PCR reactions can be purified after amplification to remove polymerases, primers, detergents, dNTPs, etc.
Enzymatic reaction cleanup Restriction enzymes and modifying enzymes such as ligases, kinases, nucleases, phosphatases are efficiently removed, allowing for effective desalting and concentration of the DNA sample.
cDNA cleanup DNA/RNA complexes can be purified post-reverse transcription/amplification to enable removal of the RT and polymerase as well as nucleotides.
Labeling cleanup Unincorporated radiolabeled or fluorescently labeled nucleotides can be removed from the DNA substrate
Plasmid cleanup Plasmid preps from unknown sources may contain inhibitors and unwanted contaminants. Purification and concentration can be easily achieved using this kit.
Oligonucleotide cleanup ssDNA oligonucleotides (≥ 18 nt) and dsDNA fragments (≥ 15 bp) can be purified using the Oligonucleotide Cleanup Protocol.


Monarch DNA Cleanup Column Design
Monarch DNA Cleanup Column Design

Monarch columns are designed for performance
Monarch columns are designed for performance. Monarch columns are designed without a frit, which eliminates buffer retention and the risk of carryover contamination, providing fast, worry-free DNA purification.
Monarch columns are designed without a frit, which eliminates buffer retention and the risk of carryover contamination, providing fast, worry-free DNA purification.

Specifications

DNA Sample Type: DNA from PCR and other enzymatic reactions (e.g., restriction digests, kinase reactions, ligations).
ssDNA or dsDNA oligonucleotides from enzymatic reactions can also be purified using the Oligonucleotide Cleanup Protocol.
Binding Capacity: up to 5 μg
DNA Size Range: ~50 bp to 25 kb 
DNA ≥  15 bp to 25 kb (dsDNA) and DNA ≥ 18 nt to 10 kb (ssDNA) can also be purified using the Oligonucleotide Cleanup Protocol.
Typical Recovery:

DNA (50 bp to 10 kb): 70–90%
DNA (11–23 kb): 50–70%
ssDNA ≥  18 nt and dsDNA ≥ 15 bp: 70-85%
Elution Volume: ≥ 6 μl
Purity: A260/280 > 1.8 and A260/230 > 1.8
Protocol Time: 5 minutes of spin and incubation time
Compatible Downstream
Applications:		 ligation, restriction digestion, labeling and other enzymatic
manipulations, library construction and DNA sequencing.

Monarch PCR & DNA Cleanup Kit (5 µg) Protocol 
Monarch PCR & DNA Cleanup Kit (5 µg) Protocol

Monarch PCR & DNA Cleanup Kit (5 μg) performs equivalently to the leading supplier
Monarch PCR & DNA Cleanup Kit (5 μg) performs equivalently to the leading supplier. Preps were performed according to recommended protocols. 1 μg of a 3 kb DNA fragment was incubated with 1 μM primers and OneTaq® Quick-Load® 2X Master Mix (NEB #M0486). DNA was eluted in 20 μl (NEB) and 40 μl (Qiagen) Elution Buffer. Half of the total elution volume was digested with 5 units of DraIII-HF® (NEB #R3510). The digest and the unused portion of the elution were resolved on a 1% w/v agarose gel along with a representative sample of the starting material.
Preps were performed according to recommended protocols. 1 μg of a 3 kb DNA fragment was incubated with 1 μM primers and OneTaq® Quick-Load® 2X Master Mix (NEB #M0486). DNA was eluted in 20 μl (NEB) and 40 μl (Qiagen) Elution Buffer. Half of the total elution volume was digested with 5 units of DraIII-HF® (NEB #R3510). The digest and the unused portion of the elution were resolved on a 1% w/v agarose gel along with a representative sample of the starting material. 
Monarch PCR & DNA Cleanup Kit (5 μg) removes low molecular weight primers from dsDNA samples
Monarch PCR & DNA Cleanup Kit (5 μg) removes low molecular weight primers from dsDNA samples. Three independent amplicons (267 bp, 520 bp, 1003 bp) were spiked with two oligonucleotides (16-mer, 24-mer) to a final concentration of 1 μM. Half of each mix was purified with the Monarch PCR & DNA Cleanup Kit (5 μg) following the included protocol. Equivalent fractions of the original mixture and the eluted material were resolved on a 20% TBE acrylamide gel at 100V for one hour and stained with SYBR Green II.
Three independent amplicons (267 bp, 520 bp, 1003 bp) were spiked with two oligonucleotides (16-mer, 24-mer) to a final concentration of 1 μM. Half of each mix was purified with the Monarch PCR & DNA Cleanup Kit (5 μg) following the included protocol. Equivalent fractions of the original mixture and the eluted material were resolved on a 20% TBE acrylamide gel at 100V for one hour and stained with SYBR Green II.
This product is related to the following categories:
Discontinued (<3 years),

Properties & Usage

Features

  • Elute in as little as 6 μl
  • Prevent buffer retention and salt carry-over with optimized column design
  • Save time with fast, user-friendly protocols 
  • No need to monitor pH
  • Buffers and columns available separately
  • Responsibly-sourced and recyclable packaging
  • Significantly less plastic used when compared with other kits

Product Notes

  1. The kit should be stored at room temperature. Always keep buffer bottles tightly closed and keep columns sealed in the enclosed zip-lock bag. For information regarding the composition of buffers, please consult the Safety Data Sheets. Proper laboratory safety practices should be employed, including the use of lab coats, gloves and eye protection.

FAQs & Troubleshooting

FAQs

  1. Can I purchase Monarch® buffers and columns separately?
  2. Can I use water to elute the DNA when using the Monarch Kits?
  3. What is the smallest volume of elution buffer that can be used with the Monarch DNA Cleanup Column?
  4. What is the composition of each buffer provided with the Monarch PCR & DNA Cleanup Kit (5 μg)?
  5. What is the maximum binding capacity of the Monarch DNA Cleanup Column provided with the Monarch PCR & DNA Cleanup Kit (5 μg)?
  6. What factors affect my (A260/A230)?
  7. What size primers can be effectively removed from a PCR reaction?
  8. Can the Monarch PCR & DNA Cleanup Kit (5 μg) be used to purify RNA?
  9. Do you have any recommendations for purification of ssDNA?
  10. Are the columns in the Monarch PCR & DNA Cleanup Kit (5 μg) the same as the ones in the Monarch DNA Gel Extraction Kit?
  11. What size of DNA can be purified with the Monarch DNA Cleanup Columns?
  12. After purification, I see a faint additional band running below the expected size on a gel. What happened?
  13. Are Monarch spin columns compatible with Vacuum Manifolds?
  14. Can I use the Monarch DNA & PCR Cleanup Kit to purify oligonucleotides and other short DNA fragments?
  15. If I need to clean up more than 5 μg of DNA, is there another higher capacity column alternative to the columns included in the Monarch PCR & DNA Cleanup kit (NEB #T1030)?
  16. I notice that I'm applying force to fit the column into a collection tube. Should I be doing this? What collection tubes are compatible with columns?

Troubleshooting


Low DNA Yield
  • Reagents added incorrectly. Check protocol to ensure correct buffer reconstitution, order of addition for buffers, and proper handling of column flow-through and eluents.
  • Incomplete elution during prep. Ensure the DNA Elution Buffer is delivered directly to the center of the column so that the matrix is completely covered and elution is efficient. Larger elution volumes and longer incubation times can increase yield of DNA off the column at the cost of dilution of the sample and increased processing times. For typical fragments below 10 kb, the recommended elution volumes and incubation times should be sufficient, unless the maximal yield is desired. For the purification of larger fragments, heating the DNA Elution Buffer to 50°C prior to eluting and extending the incubation time after buffer addition to 5 minutes can improve yield. Additionally, multiple rounds of elution can be employed to increase the amount of DNA eluted, at the expense of dilution of the sample.
Low DNA Performance
  • Ethanol has been carried-over. Ensure final wash spin time is 1 minute to ensure complete removal of the wash buffer from the column, and be careful when transferring the column to a new tube for elution step to ensure column tip does not contact column flow-through.
  • Trace amounts of salts that produce low OD260/230 ratios can also be carried over during the elution step. Be careful when transferring column to new tube for elution step to ensure the column tip does not contact column flow-through.

Tech Tips

Monarch PCR & DNA Cleanup Kit protocol
Learn how to isolate DNA from your enzymatic reactions, including PCR, using the Monarch PCR & DNA Cleanup Kit (5 µg).
Monarch_PCRCleanupProtocol_VideoThumb
Tips for using the Monarch PCR & DNA Cleanup Kit
Optimize your DNA isolation from PCR and other enzymatic reactions with our quick tips for using the Monarch PCR & DNA Cleanup Kit.
monarch_pcrcleanuptips_videothumb
How to recycle your Monarch Kit components
Learn how you can easily recycle all of the components in your Monarch Kits.
Monarch_HowToRecycle_VideoThumb

Quality, Safety & Legal

Quality Assurance Statement

Quality Control tests are performed on each new lot of NEB product to meet the specifications designated for it. Specifications and individual lot data from the tests that are performed for this particular product can be found and downloaded on the Product Specification Sheet, Certificate of Analysis, data card or product manual. Further information regarding NEB product quality can be found here.

Specifications

The Specification sheet is a document that includes the storage temperature, shelf life and the specifications designated for the product. The following file naming structure is used to name these document files: [Product Number]_[Size]_[Version]

Certificate Of Analysis

The Certificate of Analysis (COA) is a signed document that includes the storage temperature, expiration date and quality controls for an individual lot. The following file naming structure is used to name these document files: [Product Number]_[Size]_[Version]_[Lot Number]

Safety DataSheets

The following is a list of Safety Data Sheet (SDS) that apply to this product to help you use it safely.

Legal and Disclaimers

Products and content are covered by one or more patents, trademarks and/or copyrights owned or controlled by New England Biolabs, Inc (NEB). The use of trademark symbols does not necessarily indicate that the name is trademarked in the country where it is being read; it indicates where the content was originally developed. The use of this product may require the buyer to obtain additional third-party intellectual property rights for certain applications. For more information, please email busdev@neb.com.

This product is intended for research purposes only. This product is not intended to be used for therapeutic or diagnostic purposes in humans or animals.

New England Biolabs (NEB) is committed to practicing ethical science – we believe it is our job as researchers to ask the important questions that when answered will help preserve our quality of life and the world that we live in. However, this research should always be done in safe and ethical manner. Learn more.

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