HID-Ion AmpliSeq™ Ancestry Panel

Catalog number: A25642

Applied Biosystems™  Related applications: DNA Sequencing | Ion Torrent™ Next-Generation Sequencing | Sample Prep⁄Extraction for Human Identification

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Description

The HID-Ion AmpliSeq™ Ancestry Panel is one of the first next-generation sequencing solutions for human identification that provides DNA-based investigative leads for forensic casework samples and additional sample information for human identification researchers. Specifically, it helps determine the continental bio-geographic ancestry of a sample owner from pristine or degraded samples.

This pre-designed, ready-to-use panel is comprised of 165 autosomal markers described by Dr. Kenneth Kidd from Yale University (1) and Michael Seldin from University of California Davis (2). The panel design has been optimized for use with degraded or challenging samples using only 1 ng of starting DNA input. The Kidd markers have an average amplicon length of 130 nucleotides and the Seldin markers are 122 nucleotides in length on average.

A concordance study was conducted with 24 control samples for the 55 SNPs discovered by Dr. Kidd, using 1 ng DNA as input. The 24 samples were analyzed on one run of the Ion PGM™ sequencer using an Ion 318™ chip (v2.0). The sequenced reads were analyzed using Variant Caller 4.0 software followed by the HID SNP Genotyper plug-in, both on the Torrent Suite Server. Results from the study demonstrate a concordance rate of 99.77% for the 55 SNPs, at an average read depth of ~1250x per SNP.

Recommended Configuration
Samples per chip: 6 per Ion 314™ chip, 30 per Ion 316™ chip, 59 per Ion 318™ chip (assuming 80% loading and 60% usable reads)
Minimum coverage: for 97% of autosomal SNPs to have >300x, an average of 594x should be targeted. This corresponds to ~98k reads per individual.

References:
1. Kidd et. al. Poster: Better SNPs for Better Forensics: Ancestry, Phenotype, and Family Identification. Shown at National Institute of Justice annual meeting, Arlington VA, June 2012. [View poster]
1. Kosoy R, Nassir R, Tian C, et al. (2009) Ancestry informative marker sets for determining continental origin and admixture proportions in common populations in America. Hum Mutat 30(1) 69–78.
For Research, Forensic, or Paternity Use Only. Not for use in diagnostic procedures.

Specifications

For Use With (Equipment): Ion PGM™ System
Library Type: Targeted Sequencing Library
Workflow Step: Library Generation
Starting Material: DNA
Sequencing Type: Genome & DNA Sequencing
Product Size: 96 reactions
Final Product: PCR Amplicons

Contents & storage

Store in freezer (-5 to -30°C).

Documents

Manuals & protocols