Product Class: Kit

NEBNext® Ultra™ II DNA PCR-free Library Prep Kit for Illumina®


Catalog #E7410

Product Introduction

Don’t be biased! The NEBNext Ultra II DNA PCR-free Library Prep Kit for Illumina offers an amplification-free workflow for DNA-seq based on the streamlined and reliable Ultra II workflow. Starting with as little as 250 ng of DNA, get the high-quality, high-yield libraries that you need without PCR bias.

  • Save time with an optimized PCR-free workflow, reduced hands-on time and automation compatibility
  • Generate high quality libraries without an amplification step using inputs from 250 ng to 1,000 ng
  • Benefit from improved library uniformity
  • Use with the NEBNext Multiplex Oligos for Illumina (Unique Dual Index UMI Adaptors DNA Set 1) or other Illumina-compatible index adaptors with a 3’ single T overhang

Note: If your input DNA is not sheared, we recommend the NEBNext Ultra II FS DNA PCR-free Library Prep Kit for Illumina, which fragments, end repairs, and dA-tails DNA, all in a single tube with no cleanups or transfers

 

Product Information

Description

The NEBNext Ultra II DNA PCR-free Library Prep Kit contains the enzymes and buffers required to convert a broad range of sheared DNA input amounts into libraries for next-generation sequencing on the Illumina platform, all without an amplification step. The fast, user-friendly workflow requires minimal hands-on time, resulting in excellent library yields and GC coverage without requiring PCR. 

Advantages

  • Enjoy flexible input amounts from 250 ng to 1,000 ng of sheared DNA
  • Get more of what you need with reliably high library yields
  • Prepare PCR-free libraries with a broad range of sample types 
  • Save time with streamlined workflows, reduced hands-on time, and automation compatibility
  • Use with the NEBNext Multiplex Oligos for Illumina (Unique Dual Index UMI Adaptors DNA Set 1) or other Illumina-compatible index adaptors with a 3’ single T overhang

A separate version of the NEBNext Ultra II DNA PCR-free Library Prep Kit is available with sample purification beads.

Figure 1: NEBNext Ultra II DNA PCR-free Library Prep Kit generates libraries with higher yields

A. PCR-free libraries were prepared with NA19240 genomic DNA (Coriell Institute) using NEBNext Ultra II DNA PCR-free and Illumina TruSeq® PCR-free library prep kits and size selected for 350 bp inserts. DNA inputs were 1 µg.

B. Libraries of 150-200 bp inserts were prepared using NEBNext Ultra II DNA PCR-free and Roche Sequencing Kapa HyperPrep library prep kits coupled with Covaris shearing without size selection. NEBNext Unique Dual Index UMI Adaptors DNA Set 1, IDT for Illumina (TruSeq DNA UD Indexes) and Kapa Dual-Indexed Adaptors were used for the NEBNext, Illumina, and Kapa kits, respectively, following manufacturers' recommendations.



Figure 2: NEBNext Ultra II DNA PCR-free Library Prep provides uniform genome coverage with human DNA


NEBNext Ultra II DNA PCR-free libraries have even more genome coverage than Illumina DNA PCR-free libraries. Sequencing libraries were prepared according to the manufacturer’s recommendations from 250 ng of NA19240 cell line DNA and sequenced on a single NovaSeq 6000 S4 v1.5 flow cell (PE 2x150 bp). Reads were adaptor trimmed (fastp 0.20.0), aligned to the Telomere-to-Telomere chm13 reference (draft 1, bwa-mem 0.7.17), and duplicate marked (samblaster 0.1.24). 2.8B reads were randomly sampled from each bam (sambamba view -s 0.6.8) Coverage of primary, pass-filter assignments was assessed using mosdepth (v0.3.1, -F 772) and plotted for autosomes or the mitochondrial genome (inset). Expected coverage (num_reads*read length/genome size) is indicated).

This product is related to the following categories:
DNA Library Prep for Illumina,
Automation for NEBNext® NGS Library Prep Products,
Next Generation Sequencing Library Preparation Products,

Properties & Usage

Protocols, Manuals & Usage

Protocols

  1. Where can I find protocols for using the NEBNext Ultra II DNA PCR-free Library Prep Kit for Illumina?
  2. Where can I find protocols for using NEBNext® DNA Library Prep reagents?

Manuals

The Product Manual includes details for how to use the product, as well as details of its formulation and quality controls.

FAQs & Troubleshooting

FAQs

  1. What is the main application of the NEBNext Ultra II DNA PCR-free Library Prep Kit?
  2. What additional reagents do I need to complete the Ultra II DNA PCR-free workflow?
  3. Can degraded samples be used for Ultra II DNA PCR-free library prep?
  4. What type and how much starting material do I need to use when preparing libraries with the NEBNext Ultra II DNA PCR-free Library Prep Kit?
  5. What methods of shearing do you recommend for the NEBNext Ultra II DNA PCR-free workflow?
  6. For what type of sample prep/library construction can I use the NEBNext Ultra II DNA PCR-free Library Prep Kit for Illumina?
  7. What do I do if I see a precipitate in the Ultra II End Prep Reaction Buffer?
  8. Following the End Prep steps of the NEBNext Ultra II DNA PCR-free workflow, can the reactions be kept at 4˚C?
  9. The ligation reaction is very viscous. What will happen if it is not mixed properly?
  10. Which NEBNext Oligos can be used with NEBNext Ultra II DNA PCR-free Library Prep Kit?
  11. Following the Adaptor Ligation step, can the reactions be kept at 4˚C?
  12. Can I use the NEBNext Ultra II DNA PCR-free Library Prep Kit to prepare libraries for sequencing on Ion Torrent sequencing instruments?
  13. How do I quantify my PCR-free libraries?
  14. Can I assess PCR-free library quality on a BioAnalyzer and/or TapeStation?
  15. Can I use this NEBNext PCR-free kit with adaptors from vendors other than NEB?
  16. Are these reagents available in a customized format, larger format or 96 well formats?

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.