The Nextera Mate Pair Library Kit has been discontinued. There will not be a replacement kit.

Nextera Mate Pair Library Prep Kit

This library preparation kit offers a gel-free method for preparing up to 12 kb mate pair libraries with minimal DNA input requirements.Read More...
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Nextera Mate Pair Library Prep Kit (12 indexes, 48 gel-free samples or 12 gel-plus samples)


Product Highlights

The Nextera Mate Pair Library Preparation Kit is an ideal approach for de novo sequencing, genome finishing, and the detection of structural variation. It is compatible with large DNA genomes — even the most complex genomes such as those derived from cancer.

  • Sequence precious samples when limited DNA is available
  • Generate highly diverse libraries with premier data quality
  • Prepare sequencing-ready libraries in less than two days
Requires 10 Times Less DNA Input Than Other Protocols

Both gel-free and gel-plus protocols are available:

  • The gel-free protocol allows mate pair sequencing when limited DNA is available. It is designed for applications such as de novo assembly of small genomes.
  • The gel-plus protocol is ideal for challenging mate pair applications, such as de novo assembly of complex genomes.
Increased Library Diversity and Data Quality

The kit provides identifiable junction sequences for accurate identification of the two halves of the mate pair fragment.

  • Only biotinylates DNA molecules at fragmentation sites, avoiding troublesome internal biotinylation
  • Allows for the creation of millions of unique fragments
  • Increased library diversity generates fewer duplicate reads and premier data quality
Fast and Simple Mate Pair Workflow

The Nextera Mate Pair kit uses TruSeq DNA Library Preparation master-mixed reagents, thereby reducing the number of assay steps and hands-on time required.

  • Fewer pipetting steps simplifies workflow and reduces sample loss
  • Gel-free protocol option and on-bead reactions simplify purification steps and shorten protocol hands-on time

Frequently Purchased Together


Project Recommendations

Instrument Recommended Number of Samples Read Length
NextSeq 550 System 1 sample per run (based on eukaryotic genome finishing) Up to 2 x 150 bp
HiSeq 2500 System 10 to 15 samples per run (dual flow cell; based on eukaryotic genome finishing) Up to 2 x 150 bp

Method-Specific Workflow Example


Customer Stories

Assembling the Kiwi Genome to Understand Unusual Adaptations in Sight, Smell, and Flight

With the Nextera Mate Pair kit, researchers generated up to 13 kb insert-size libraries for de novo sequencing of the kiwi genome on the HiSeq System.

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Supporting Data and Figures