xGen™ for Element Biosciences™
Trusted IDT xGen NGS chemistries for emerging sequencers
Are you working on Element Biosciences platforms? IDT has solutions such as adapters, universal blockers, and library amplification primer mixes that are designed specifically for sequencing on any Element AVITI™ System.
xGen NGS—made platform-agnostic
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IDT has several solutions available for customers sequencing on the Element AVITI System. These products support both WGS and targeted (hybridization capture) sequencing workflows.
- IDT is the leading provider for high-purity PCR-indexing solutions for NGS—and we are now proud to offer adapters for sequencing on the Element AVITI System.
- In house contamination testing ensures our indexing primers produce sequencing libraries that meet the highest quality standards
- Barcodes designed with edit distance in mind to minimize any sequence errors from PCR or sequencing that might impact demultiplexing
- IDT is the first to offer stocked universal blocking oligos for the Element system, designed specifically for their native adapters
Product details
Table 1. xGen for Element Biosciences library prep compatibility table.
| xGen Stubby Adapter-UDI Primers for Element | |
|---|---|
| xGen Broad-Range RNA Library Prep Kit | |
| xGen RNA Library Prep Kit | |
| xGen DNA Library Prep (MC or EZ) Kit | ✓* |
| xGen DNA Library Prep (MC or EZ) UNI Kit | ✓ |
| xGen ssDNA & Low-Input DNA Library Prep Kit | |
| xGen Methyl-Seq Library Prep Kit | |
| xGen cfDNA & FFPE DNA Library Prep Kit | |
* Can be used if the stubby adapter included in the library prep kit is swapped out for the xGen Stubby Adapter for Element
Use xGen Stubby Adapter-UDI Primers for Element products to perform indexing PCR on NGS libraries that require TA-ligation (using the included stubby adapter) for Element Biosciences-compatible library construction workflows that support indexing by PCR. Note, when using an IDT library prep kit, the xGen Stubby Adapter for Element should be used instead of the adapter supplied in the IDT library prep kit. For other commercial library prep workflows, refer to your library prep kit protocol for further instructions prior to using these products.
xGen Stubby Adapter-UDI Primers for Element are available in two reaction sizes (16 and 96). xGen Stubby Adapter for Element is loaded in a multi-use tube and the xGen UDI Primers for Element are loaded into single-use, 96-well plates containing a pierceable seal. The unique dual index (UDI) has a barcode length of 9 nucleotides. Each well contains one specific index pair for indexing one sample. The xGen Universal Blockers for Element and xGen Library Amplification Primer Mix for Element are both delivered in multi-use tubes.
Sample multiplexing:
- For a 4-plex pool, use wells A1–D1
- For a 8-plex pool, use any column except column 6
- For a 12-plex pool, use any row
- For a 16-plex pool, use columns 1 and 2
- For a 24-plex pool, use columns 1, 2, and 3
If you have specific questions, please contact us.
xGen products for Element Biosciences offer several benefits:
- IDT is a leading provider of NGS indexing products, so you can be confident in the quality of your xGen Stubby Adapter-UDI Primers for Element.
- IDT is first to offer a stocked universal blocking oligo designed specifically for Element Biosciences libraries.
- Prevent adapter cross-hybridization—adapter sequences are ligated to all library fragments, both on-target and off-target, before enrichment. These adapter sequences can hybridize with each other during enrichment, creating a "daisy-chain" effect, with off-target fragments being captured alongside on-target fragments, which can impact sequencing efficiency. xGen Universal Blocking Oligos for Element bind to the Element-specific adapter sequences on a designated strand to help prevent adapter cross-hybridization.
- Universal blocking oligos reduce workflow steps by not requiring barcode-specific strand blocking; removing workflow steps help reduce error; less materials to store.
- xGen Library Amplification Primer Mix for Element receives functional testing to ensure high performance library amplification in post-capture PCR.
Table 2. Product specifications.
| Indexing option | xGen Stubby Adapter-UDI Primers for Element |
|---|---|
| Sample index length | 9 nucleotide indexes |
| Concentration | 15 µM (stubby adapter), |
| Shipping container | Tube (stubby adapter), Single-use plates (primers) |
| Reactions | 1 reaction per adapter |
| Platform compatibility | Element AVITI |
Resources
Frequently asked questions
Can I use the xGen™ Stubby Adapter (catalog # 10005974/10005924) in place of the xGen Stubby Adapter for Element?
No, these two stubby adapters are not cross‑compatible—they are platform‑specific.
What is the difference between xGen™ Library Amp Primer Mix for Element and other library amplification mixes, such as xGen Library Amplification Primer Mix?
xGen Library Amp Primer Mix for Element can be used for amplification of libraries made from the xGen Stubby Adapter-UDI Primers for Element and is not compatible with other sequencing platforms. The xGen Library Amp Primer Mix for Element is used for PCR amplification during the hybridization capture enrichment workflow.
For customers not using an AVITI™ Cloudbreak system*, subsequent library circularization must be performed using the Elevate™ Library Circularization Kit (Element Biosciences catalog # 830-00001) prior to sequencing on the Element Biosciences platform.
* Off‑sequencer circularization is not required for libraries run on an AVITI Cloudbreak system.
Can universal or standard blocking oligos be used with libraries made from xGen™ Stubby Adapter-UDI Primers for Element?
No. Only xGen Universal Blockers for Element should be used for hybridization capture of libraries prepared using xGen Stubby Adapter‑UDI Primers for Element. Other xGen blocking oligos available from IDT are not compatible with Element‑specific libraries.
How will my xGen™ Stubby Adapter-UDI Primers for Element be delivered?
xGen Stubby Adapter for Element is delivered in a multi-use tube at 15 µM.
xGen UDI Primers for Element are delivered premixed at 10 µM each in a single‑use plate and sealed with a pierceable seal. Each well contains a specific unique dual index (UDI) for indexing one sample.
What plate sealing guidelines should I follow when fewer than 16 or 96 libraries are prepared?
You should use an adhesive plate seal over the punctured but unused wells to prevent future cross‑contamination. Do not heat‑seal the plate twice.
What are the sequences for the xGen™ Stubby Adapter-UDI Primers for Element?
Sequences for the xGen™ Stubby Adapter‑UDI Primers for Element can be obtained from our Applications Support team. Index sequences are available in the 'Resources' section.*
* Sequences are provided under license to IDT by Element Biosciences and may be subject to terms and conditions. Not for commercial resale.
What is the shelf life and recommended storage conditions for the xGen™ Library Amp Primer Mix for Element?
Store the xGen Library Amp Primer Mix for Element at –20°C. The date of manufacture is included on the product label and its corresponding Certificate of Analysis (CoA), which can be found by searching by batch/lot number on the product label. IDT recommends using the products within 1 year of the date of manufacture.
What is the shelf life and recommended storage conditions for the xGen™ Universal Blockers for Element?
Store the xGen Universal Blockers for Element at –20°C. The date of manufacture is included on the product label and its corresponding Certificate of Analysis (CoA), which can be found by searching by batch/lot number on the product label. IDT recommends using the products within 1 year of the date of manufacture.
What is the shelf life and recommended storage conditions for the xGen™ Stubby Adapter-UDI Primers for Element?
Store xGen Stubby Adapter‑UDI Primers for Element at –20°C.
The date of manufacture is included on the product label and its corresponding Certificate of Analysis (CoA), which can be found by searching by batch/lot number on the product label. IDT recommends using the products within 1 year of the date of manufacture.
Which sequencing platform should be used for the xGen™ Stubby Adapter-UDI Primers for Element?
The xGen Stubby Adapter‑UDI Primers for Element generate Element‑compatible NGS libraries and should be sequenced on an Element Biosciences instrument.
What amount of xGen™ Stubby Adapter-UDI Primers for Element should I use for library prep?
The amount can vary depending on the library prep workflow. We recommend checking your specific protocol for the exact input range.
What buffer should I use to dilute the xGen™ Stubby Adapter for Element?
We recommend using a buffer made of 10 mM Tris, 0.1 mM EDTA, and 100 mM NaCl, pH 8.0 (such as the IDT NGS Adapter Buffer, catalog # 10006743) to dilute the xGen Stubby Adapter for Element.
Keeping the adapters duplexed requires a buffer with a high salt concentration.
Are either the xGen™ Stubby Adapter or UDI Primers for Element methylated?
No, neither the xGen Stubby Adapter nor UDI Primers for Element are methylated.
Do the xGen™ Stubby Adapter-UDI Primers for Element contain UMIs?
No, neither the xGen Stubby Adapter nor UDI primers for Element contain UMIs.