To provide greater flexibility in ordering single components for libray preparation, we are moving to a modular configuration. Our existing TruSeq Nano DNA Library Prep Kits (Cat. No. FC-121-4001, FC-121-4002, and FC-121-4003) will transition to TruSeq DNA Nano (Cat. No. 20015964 for 24 samples and Cat. No. 20015965 for 96 samples) for library preparation. Index adapters will be sold separately as TruSeq DNA Single Indexes (Cat. No. 20015960 for Set A and Cat. No. 20015961 for Set B) and TruSeq DNA CD (combinatorial dual) Indexes (Cat. No. 20015949).

TruSeq DNA Nano

Generate whole-genome sequencing libraries and efficiently interrogate samples with limited available DNA. Read More...
Select Product(s)
What products do I need?
Library Prep

TruSeq Nano DNA Low Throughput Library Prep Kit (24 samples)



TruSeq Nano DNA High Throughput Library Prep Kit (96 samples)



Index Adapters

TruSeq DNA Single Indexes Set A (12 Indexes, 24 Samples)



TruSeq DNA Single Indexes Set B (12 Indexes, 24 Samples)



TruSeq® DNA CD Indexes (96 Indexes, 96 Samples)



IDT for Illumina – TruSeq DNA UD Indexes (24 Indexes, 96 Samples)



Product Highlights

TruSeq DNA Nano enables efficient interrogation of samples with limited available DNA. Based on mechanical fragmentation–ligation chemistry, this low-input method delivers high coverage quality and reduced bias for virtually any sequencing application.

  • Designed for low sample input
  • High coverage quality
  • Accelerated library prep
Manual preparation of high-quality libraries in less than a day

TruSeq DNA Nano has been streamlined by replacing gel-based size selection with bead-based selection, enabling researchers to prepare high-quality libraries in less than a day. It is optimized for a variety of read lengths, from 2 × 101 bp to 2 × 151 bp.

Use with limited DNA samples

TruSeq DNA Nano offers excellent results with as little as 100 ng input, eliminating the typical requirement for micrograms of DNA. This enables researchers to study samples with limited available DNA (eg, tumor samples) and helps preserve samples for use in future or alternate studies. In addition to accelerating the workflow, bead-based size selection avoids typical sample loss associated with gel-based selection.

Reduce library bias and coverage gaps

TruSeq DNA Nano reduces the number and average size of typical PCR-induced gaps in coverage. The enhanced workflow reduces library bias and improves coverage uniformity across the genome. These kits also provide excellent coverage of traditionally challenging genomic content, including GC-rich regions, promoters, and repetitive regions. This enables researchers to access more information from each sequencing run. Truseq DNA Nano products are validated for high-quality genomic coverage for virtually any next-generation sequencing application.

Access flexible throughput options
  • TruSeq DNA Nano with Single Indexes supports 24-sample manual processing for low-throughput (LT) studies.
  • TruSeq DNA Nano with 96 CD Indexes  supports 96-sample processing for high-throughput (HT) studies, and can be automated on liquid-handling robots (or processed manually).
  • IDT for Illumina Unique Dual (UD) Indexes (24 or 96*) offer increased plexity that enables accurate assignment of reads and efficient use of the flow cell.

Find an up-to-date list of automation vendors with robotic systems that support the 96-sample workflow

*96 UD Indexes available soon


Method-Specific Workflow Example


Customer Stories

Unmasking the Viral Etiology of Cancer and Immune Disease

Karolinska Institutet researchers use Illumina sequencers to identify novel HPV types associated with non-melanoma skin cancers.

Read More
BRC-Seq Customers Benefit from Streamlined BaseSpace Integrated Workflow

BaseSpace Sequence Hub SRA Submission App enables tracking of samples, from library prep to data analysis, helping BRC-Seq deliver high-quality sequencing data and additional value to its customers.

Read More
Comparison of TruSeq DNA Library Preparation Workflows
Specification Truseq DNA Nano TruSeq DNA PCR-Free
Kit type Truseq DNA Nano LT & HT TruSeq DNA PCR-Free LT & HT
Description Based upon widely adopted TruSeq library prep, with lower input and improved data quality Superior genomic coverage with radically reduced library bias and gaps
Workflow LT kits: Manual workflow
HT kits: Automation-friendly; manual protocols also available
LT kits: Manual workflow
HT kits: Automation-friendly; manual protocols also available
Input quantity 100–200 ng
1–2 μg
Includes PCR Yes No
Assay time 5.5 hours ~5 hours
Hands-on time 4 hours ~4 hours
Target insert size 350 bp or 550 bp 350 bp or 550 bp
Gel-free Yes Yes
Number of samples supported 24 (LT) or 96 (HT) samples 24 (LT) or 96 (HT) samples
Size-selection beads Included Included
Applications Whole-genome sequencing applications, including whole-genome resequencing, de novo assembly, and metagenomics studies
Sample multiplexing Up to 24 single, 96 combinatorial (CD) dual, 24 unique dual and 96 unique dual (UD) combinations (96 UD indexes available soon)
Compatible Illumina sequencers MiniSeq, MiSeq, NextSeq, HiSeq, NovaSeq, HiSeq X, HiScanSQ, and Genome Analyzer systems

Related Products

Image Source
TruSeq DNA PCR-Free

Simple, all-inclusive whole-genome sequencing (WGS) library preparation that provides accurate and comprehensive coverage of complex genomes.

Image Source
Nextera XT DNA Library Preparation Kit

Prepare sequencing libraries for small genomes, PCR amplicons, plasmids, or cDNA in less than 90 minutes, with a low DNA input requirement.