Harness the power of Ion Torrent™ technologyGenotyping by sequencing (GBS) has become an important part of genomics-assisted breeding programs. The Ion Proton™ and Ion PGM™ next-generation sequencers offer a fast, cost-effective, and scalable research solution for genetic evaluation. Ion Torrent™ sequencers combined with Ion AmpliSeq™ technology allow you to target your most useful SNPs of interest for greater trait-mapping effi ciency at an economical price per sample, making them an attractive replacement for your existing array of platforms.

Target your genesIon AmpliSeq technology uses ultrahigh-multiplex PCR that offers simple and fast library construction for targeted sequencing of specifi c genes or genomic regions. Custom primers are generated with high specifi city using proprietary software to target just your sequences of interest—up to 5,000 amplicons can be easily prepared in one reaction.

Advantages of GBS on Ion Torrent™ systems:• Speed— rapid sequencing times of

only 2–4 hours enable a quick workfl ow (Figure 1) for fast breeding cycle decisions

• Throughput—scale from thousands of data points to millions/week for quick turnaround

• Quality data—superior SNP calling performance and full sequence information give you more than just the genotype of interest

• Simple—automatable library preparation helps reduce hands-on time and minimizes potential errors

• Flexible—customize and design each panel to a specifi c need

Customize targets Construct library Prepare template Run sequence Analyze data

Ion AmpliSeq Designer

Ion AmpliSeq Panels

Ion AmpliSeqDNA Library Kit

Ion Chef System OR

Ion OneTouch 2 System

Ion Proton SequencerOR

Ion PGM Sequencer

Torrent Suite Software

Ion Reporter Software

Figure 1. The Ion AmpliSeq workflow takes as little as 1.5 days from DNA to annotated variants using the Ion Chef system.

Improve livestock breeding with genotyping by sequencing

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Design for any genomeUse the powerful but easy-to-use Ion AmpliSeq™ Designer to design and order custom research panels. This free assay design portal (Figure 2) connects you directly to our assay design pipeline. Select your targets of interest or enter your specifi c genomic content online, and we will design and create a customized Ion AmpliSeq Research Panel just for you.

Research panels can be designed against a number of preloaded genomes, or for any other organism by uploading your own private reference sequence (Figure 3). Private references are stored securely using 128-bit SSL encryption. Simple, secure, and powerful—you will be able to design for any custom reference genome.

To start creating your designs today, go to ampliseq.com.

For questions regarding Ion AmpliSeq technology or designing panels for livestock, email christopher.adams@thermofi sher.com.

Ordering information

Workfl ow step Product Quantity Cat. No.

Multiplex samples IonCode 384 Barcode Kit 3,840 rxns Contact rep

Construct library Ion AmpliSeq Kit 2.0—GBS 5,000 rxns† Contact rep

Prepare template Ion PI Hi-Q Chef Kit 8 rxns A27198

Run sequence Ion PI Chip Kit v2 BC 8 chips 4484270

† Range of sizes available for pilot and production projects.

Find out more at thermofi sher.com/gbs

For Research Use Only. Not for use in diagnostic procedures. © 2015 Thermo Fisher Scientifi c Inc. All rights reserved. All trademarks are the property of Thermo Fisher Scientifi c and its subsidiaries unless otherwise specifi ed. CO125636 0915

Figure 2. The Ion AmpliSeq Designer is a powerful in silico tool for designing high-specifi city primers for targeted sequencing and SNP detection.

Cow(bosTau7)

Chicken(galGal4)

Figure 3. Several preloaded genomes are available, or use the option to upload a custom reference sequence through the Ion AmpliSeq Designer.

Human(hg19)

Maize(Zea_mays.AGPv3)

Pig(susScr3)

Mouse(mm10)

Rice(rice_v7)

Sheep(oviAri3)

Soybean(Glyma1.1)

Tomato(SL2.50)

Customreference

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