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Future Trends in Forensic DNA Technology Seminar Series Introduction Human Identification Life Technologies

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HID University Seminar Series Intro & Evolution of Forensic DNA

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Page 1: HID University Seminar Series Intro & Evolution of Forensic DNA

Future Trends in Forensic DNA Technology Seminar Series

Introduction Human Identification Life Technologies

Page 2: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 2

GROUNDED in Science INSPIRED by Scientists DRIVEN by Innovation

1 Company / 8 Trusted Brands / 600,000+ Citations

Page 3: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 3

Quick Facts

Page 4: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 4

Media Recognition

Ranked #9 in 2012

Red Dot 2012 Award for Excellence In Product Design

Ranked #15 in 2012

Ranked Among “The 50 Most Innovative

Companies in 2012”

Austin Plant Awarded Best Plant in 2012

318 Chip Awarded for Design & Engineering

In Embedded Technologies

Page 5: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 5

Ion Semiconductor Sequencing Rapid, Benchtop Sequencing for All

Page 6: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 6

This is Why We’re Here

“When you are in prison, and you are told that you’ve got to be

there for the rest of your life - for something you didn’t do –

DNA testing said otherwise”

Herman Atkins, Exonerated February 2000

“the new super toxic E. Coli strain was decoded in just two hours – a marvel to scientists”

June 2011

“Whole-genome sequencing has enabled doctors to provide the

Beery twins with a simple, highly effective treatment for a

rare condition”

June 2011

Freedom for the Innocent Solutions to Epidemics Life Changing Medicine

Page 7: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 7

This is Why We’re Here

Reported rapes have fallen to the lowest level in 20 years as DNA evidence helps send more rapists to prison

USA Today, October 7, 2009

Page 8: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 8

Combating Human Trafficking A Major Global Problem

An estimated 600,000 to 820,000 men, women, and children are trafficked across international borders each year, approximately 80 percent are women and girls and up to 50 percent are minors – US State Department

The human trafficking phenomenon affects virtually every country, including the United States – Hillary Clinton, US Secretary of State

12.3 million adults and children in forced labor, bonded labor, and commercial sexual servitude at any given time…. estimated 56 percent of all forced labor victims are women and girls – International Labor Organization (United Nations)

Page 9: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 9

Use of DNA Testing to Prevent Human Trafficking

In January 2011, more than 70 people including 25 children from Haiti arrived at an airport in Bolivia from Lima. Visa problems stopped them on their way to Brazil or Argentina

Bolivian Police suspicions opened an investigation. The Bolivia Forensic Research Institute, a DNAProkids laboratory, performed DNA testing using Bode swabs and the Identifiler® Direct kit

All the children were being trafficked: 13 were returned to their families in Haiti who were searching for them

Route Taken to Bolivia from Haiti

Page 10: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 10

Page 11: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 11

Customer Product Communication System

A web-based system that ensures the timely delivery, and real-time reporting, of important technical product information to appointed contacts at each North America customer site. Launched in North America October 2011

Communication about critical product quality issues affecting specific HID customers: product retirement, product discontinuation, new software version or patch release, user bulletin, and non-critical technical updates

Not a marketing channel!

To sign up, go to: http://marketing.appliedbiosystems.com/mk/get/ HID_Product_Notification_Sign_Up

Page 12: HID University Seminar Series Intro & Evolution of Forensic DNA

Minor Manufacturing Changes to the AmpFSTR® PCR Amplification Kits

New Vendor Qualification Program

Page 13: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 13

Minor Modifications to Several AmpFSTR® Kits

Manufacturing of the AmpliTaq Gold® enzyme and 10X PCR Buffer II components transitioning from Roche to Life Technologies

− Both components in the following kits: Profiler®, Profiler Plus®, Profiler Plus® ID, SGM Plus®, COfiler®, Identifiler®, Yfiler® & MiniFiler™ Kits

− The buffer component only in the Identifiler® Direct Kit (this kit already contains the AmpliTaq Gold® enzyme manufactured by Life Technologies)

− Manufacturing of both components by Life Technologies will be conducted according to the same specifications used previously by Roche.

− All other kits already contain both the buffer and enzyme components manufactured by Life Technologies

Page 14: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 14

Minor Modifications to Several AmpFSTR® Kits

Our internal studies show the kits containing the components manufactured by Roche and Life Technologies to be interchangeable − The buffer and enzyme components manufactured by Life Technologies

have already been tested rigorously during developmental validation of the Identifiler® Plus, NGM™ and NGM SElect™ Kits

User Guides and/or Product Inserts for each of the affected kits will be updated to include our internal developmental validation studies demonstrating no substantive difference in performance compared to previous versions

A full revalidation should not be necessary; however, laboratories should determine their own implementation requirements

Page 15: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 15

Minor Modifications to Several AmpFSTR® Kits

Transition Process − Expected to commence in September 2012 − New and current versions will be available simultaneously for approximately 3

months to allow customers to transition smoothly − All kits will maintain the same kit names and part numbers

> The first batch of kits containing buffer and enzyme components manufactured by Life Technologies can be distinguished from earlier versions by the letters “NF” after the lot number

Why are we doing it? − To exercise greater control over the quality of key raw materials − To prevent formulation or QC issues which affect kit performance − To better maintain reagent supply

Page 16: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 16

Forensic News Spring 2012 Edition

− www.appliedbiosystems.com/forensicnews − The latest information on human identification applications,

product updates, unique laboratory applications and new technologies

Includes articles on: − Tools for Improved DNA Extraction Efficiency

− Expanding the Capabilities of Direct Amplification

− Sample Collection Solutions from Life Technologies

− Coming Soon...The World's Most Powerful STR Kit

− Identifiler® Plus Kit Increases Success Rate of DNA Typing from Challenging Casework Samples by as much as 30%

− MiniFiler™ Applications to Human Identification and Forensic Casework Analysis

− Case Study: Y Testing at Court—AmpFSTR® Yfiler® Kit Drives the Success of Y Chromosomal Analysis in Forensic Genetics

− Considerations for the Evaluation of Plus Stutter for AmpFSTR® PCR Amplification Kits in Human Identification Laboratories

Page 17: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 17

ACTIVATE (Touch)

AIM (Autoscan)

RESULTS (COA info)

New Life Tech App – Technical Document App “Coming Soon” to an App Store near you

Sample - Search for COA

Page 18: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 18

Thank You!! © 2012 Life Technologies Corporation. All rights reserved. The trademarks mentioned herein are the property of Life Technologies Corporation or their respective owners.

Page 19: HID University Seminar Series Intro & Evolution of Forensic DNA

Human Identification, Life Technologies

Evolution of Forensic DNA

Page 20: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 20

A look back… 10 years ago

9/11 WTC Attacks

CSI only in 2nd Season, but surging in popularity

Page 21: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 21

A look back… 10 years ago

Fragmented, Inefficient Forensic DNA Workflow − Manual Processes − Quantiblot − GeneScan®/Genotyper® Software

Minimal Use of Y-STRs

Limited options for analyzing heavily degraded samples

Global DNA Databases in their infancy (except for the UK)

Page 22: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 22

Common beliefs I encountered…

“Automation cannot work for forensic DNA casework.”

“Manual Organic Extraction is the only trusted method for casework.”

“Automated data analysis with advanced software (e.g. expert systems) is impossible.”

“Analysis of lesser felonies i.e. property crimes is not practical.”

Page 23: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 23

~1 in 1018 (quintillion)

Disc

rimin

atio

n Po

wer

Increased Discrimination and Sensitivity/Robustness

Bone sample amplified using the NGM™ Kit

Bone sample amplified using the Identifiler® Kit

Mea

n Pe

ak H

eigh

t (RF

U)

Page 24: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 24

Today Increased Integration and Efficiency…….

Increased Efficiency

Ease of Use Success with Difficult Samples

Simplified Interpretation

Higher Throughput

Streamlined Workflow

Page 25: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 25

Streamlined Workflows for Single Source Samples

NGM SElect™ Express Kit

Identifiler® Direct Kit

Prep-n-Go™ Buffer

Page 26: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 26

Total Time to Result = ~10-58 hrs

Sample Preparation

Quantitation/ Normalization Amplification Detection Analysis

Time to Result

(hrs/per 6-16 samples) 1-48 2 3.5 0.75 2-3

Dependent on sample type and method

Improved Efficiency for Casework Samples

Page 27: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 27

Total Time to Result = ~10-58 hrs

Sample Preparation

Quantitation/ Normalization Amplification Detection Analysis

Time to Result

(hrs/per 6-16 samples) 1-48 2 3.5 0.75 2-3 Time to Result

(hrs/per 13 samples) 1-3 2 1.5 0.55 1-2

Total Time to Result = ~6-9 hrs

Improved Efficiency for Casework Samples

Page 28: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 28

Evolution of STR Technology

1996 2012

Triplexes

Green I

Blue

Profiler Plus®

Profiler®

Profiler Plus® ID

COfiler®

SGM Plus®

Identifiler®

SEfiler™

Larger Multiplexes

Yfiler®

SEfiler™ Plus

MiniFiler®

Enhanced Capability

NGM™

NGM SElect™

NGM SElect™ Express

Identifiler® Plus

Identifiler® Direct

Optimized for Application

Expanded “Global”

Multiplexes

AmpFSTR® PCR Amplification Kits

A comprehensive product portfolio, developed, validated and manufactured according to stringent performance standards specifically for use on forensic samples

Page 29: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 29

UNITED STATES LEGISLATIVE WAVE

ALL CONVICTED OFFENDER LEGISLATION 1999 – 5 states 2003 – 27 states 2008 – 42 states 2011 – 50 states

ARRESTEE LEGISLATION 1999 – 1 state 2006 – 7 states 2011 – 26 states

Page 30: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 30

THE WORLD 44 COUNTRIES, OVER 35 MILLION OFFENDER SAMPLES

ADOPTS DATABASING Fully implemented programs Legislation passed, programs not yet implemented

Australia Austria Barbados Belarus Belgium Brazil Canada Chile China Croatia Cyprus Denmark

Estonia Finland France Germany Hong Kong Hungary Iceland Israel Japan Jordan Kuwait Latvia

Netherlands New Zealand Macedonia Norway Panama Poland Portugal Qatar Russia Slovenia Slovakia Singapore

South Korea Spain Sweden Switzerland Taiwan United Arab Emirates United Kingdom United States

Page 31: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 31

Prüm Treaty DNA Implementation Status 11-11-11

Progress Towards Cross-Border Data Exchange

Page 32: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 32

Global Databases: Locus Overview

Locus Europe CODIS CODIS Proposed

TPOX X* X

CSF1PO X* X*

D5S818 X* X*

D7S820 X* X*

D13S317 X* X*

FGA X* X* X*

vWA X* X* X*

D3S1358 X* X* X*

D8S1179 X* X* X*

D18S51 X* X* X*

D21S11 X* X* X*

TH01 X* X* X*

D16S539 X X* X*

Locus Europe CODIS CODIS Proposed

D2S1338 X X X*

D19S433 X X X*

D12S391 X* X*

D1S1656 X* X*

D2S441 X* X*

D10S1248 X* X*

D22S1045 X* X

SE33 X X

DYS391 X*

* Required loci

Loci in bold contained in either the Identifiler® or NGM SElect™ Kits

Page 33: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 33

The World Is Positioning For Explosive Growth of DNA Databases

Dr. Reddy, Laboratory Director CDFD, India

Page 34: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 34

INDIA INDONESIA BRAZIL (LEG. PASSED) PAKISTAN NIGERIA RUSSIA (LEG. PASSED) MEXICO VIETNAM TURKEY THAILAND ITALY (LEG. PASSED) SOUTH AFRICA

COLOMBIA ARGENTINA KENYA PERU SAUDI ARABIA MALAYSIA (LEG. PASSED)

“Currently there are about 35 trained analysts for DNA profiling [in all of India]. The country will need about 1,100 analysts [over the next 10 years].”

The World Is Positioning For Explosive Growth of DNA Databases

Page 35: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 35

Increasing Casework Backlogs U.S. Casework Backlogs

Source: NIJ Special Report “Making Sense out of DNA Backlogs,

2010 – Myths vs. Reality” www.ojp.usdoj.gov/nij

Backlogs increasing with Increased submissions

Samples increasing in complexity

Shortage of trained analysts

Validation and implementation barriers

To help address these and other challenges, we want to provide more than just core technologies

Page 36: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 36

HID Service Solutions HID Professional Services Program (HPS)

− Delivery of internal validation programs and/or performance checks on any Applied Biosystems HID product

− Robotic Validation/Implementation Support

“HID University” Training Programs − Comprehensive suite of training courses designed to provide continuing education

to forensic DNA analysts

LIFE Center for Forensic Excellence at UNTHSC − Helps developing nations to rapidly establish world-class database laboratories

through a unique certificate training program

Advisory Consulting

Complete Laboratory Integration and Validation

Analyst Training Programs

On-site Support and Training

Page 37: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 37

Mitochondrial DNA Sequencing

SNP Genotyping Paternity, Mixtures, Missing

Persons, DVI

Phenotypic SNPs for Investigative Leads

Eye Color

Hair Color

Missing Persons, DVI Facial Reconstruction

Looking ahead… Potential PGM™ Human Identification Applications

Page 38: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 38

21st Century Crime Fighting...

DNA profiles of all felony arrestees loaded to an investigative database

Page 39: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 39

21st Century Crime Fighting...

DNA used to investigate all types of evidence

Page 40: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 40

21st Century Crime Fighting...

Data shared globally across national databases

Page 41: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 41

21st Century Crime Fighting...

Data shared globally across national databases

Rapid turnaround time of DNA evidence

Page 42: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 42

Our Role Enable Forensic Labs to Do More with Less

• Increase efficiency with next-gen products and workflow integration (more info, less time)

• Improve performance on difficult and compromised samples (more info, less sample)

• Be a true systems integration partner (leveraging HID Professional Services)

• Enable use of latest technologies for forensic and biometric applications

Page 43: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 43

Thank You

© 2012 Life Technologies Corporation. All rights reserved. The trademarks mentioned herein are the property of Life Technologies Corporation or their respective owners

For Forensic & Paternity Use Only

Page 44: HID University Seminar Series Intro & Evolution of Forensic DNA

The Evolution of Direct Amplification: From Sample to Result in 2 Hours*

Human Identification, Life Technologies

* Typical workflow for 24 samples

Page 45: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 45

Traditional Single Source Sample Workflow

Time to Result

(hrs/per 24 samples) ~1-3.5 ~0-2 ~4 ~1.5 ~1

Total Time to Result = ~7-12 hrs

Collection Sample Preparation

Quantitation/ Normalization Amplification Detection Analysis

Page 46: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 46

Development of Direct Amplification on Treated Paper Substrates

Page 47: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 47

Evaluation of Direct Amp Capability of the Identifiler® Kit

Control DNA 007 25 μL Reaction Volume

1.2 mm Blood on FTA® Disc

No full profiles under direct amp conditions

Page 48: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 48

Effect of Reducing Disc Size on Identifiler® Kit Direct Amp Performance

0.5 mm blood on FTA® disc

1.2 mm blood on FTA® disc

Control DNA 007 (1 ng)

0.75 mm blood on FTA® disc

But: − No automated

0.5 mm punch head options

− 0.5 mm disc size too small for buccal samples

− 0.5 mm discs very hard to handle

Page 49: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 49

Identifiler® Kit Direct Amp Performance Evaluation

Possible explanations for poor performance − Insufficient DNA?

− Excess PCR inhibitors?

0.75 mm disc ~ 22.08 ng DNA

0.5 mm disc ~ 9.81 ng DNA

1.2 mm disc ~ 56.52 ng DNA Height = 1mm

1 μL blood ~ 50 ng DNA

Sufficient DNA still available Inhibitor concentration reduced by >5-fold

0.5 mm disc ~ 9.81 ng DNA

Page 50: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 50

Optimization of Reaction Buffer for 1.2 mm Discs

Component 1

Response Component 2

Use of Design of Experiments (DOE) Approach

Page 51: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 51

Optimization of Identifiler® Direct Kit Master Mix Buccal sample on 1.2 mm FTA® disc before DOE

Page 52: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 52

Optimization of Identifiler® Direct Kit Master Mix Buccal sample on 1.2 mm FTA® disc after DOE

Page 53: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 53

− 3 x liquid blood samples − 80 μL of blood onto FTA® Classic (passive diffusion) − Sample 1.2 mm discs from the center to the edge of the blood stain − Perform replicates for each position

Effect of Punch Position on Sample Peak Heights

1 3 2 4 5

Page 54: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 54

Direct Amplification from Treated Paper

FTA® Classic Card

EasiCollect® System

Identifiler® Direct Kit

Identifiler® Kit

Exam

ple

1 Ex

ampl

e 2

Identifiler® Direct Kit

Identifiler® Kit

Blood on FTA® samples

Page 55: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 55

Identifiler® Direct Kit Validation: External Test Site Results

Sample Type

PCR Success Rate Interpretation Success Rate Number of

Samples Tested Range of Success rates

Mean Success Rate

Range of Success rates

Mean Success Rate

VTS Study

Blood 99.4 % 99.4 % 95.7 – 98.8% 97.3 % 414

Buccal 91.8 – 99.4% 97.1 % 84.2 – 95.5% 90.9 % 653

CTS Study

Blood 100% 100 % 98.8 – 100% 99.8 % 437

Buccal 98.7 – 100% 99.0 % 91.7 – 100% 94.7 % 703

1st Pass Success Rate Definition − All profile peaks higher than specified threshold − Off scale peaks produce no artifacts which interfere with profile

interpretation > OL-labelled pull-up peaks <20% of highest peak of the marker

> No split, double called peaks

> Stutter peaks < 20% of marker or < marker stutter cut off, whichever is higher

Page 56: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 56

Expansion of the Direct Amplification Workflow to Non-FTA Substrates

Untreated Paper

Page 57: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 57

Identifiler® Direct Kit development and optimization performed on FTA® substrates only

Laboratories using untreated paper or swab substrates and/or alternative marker sets looking to recognise time and cost savings of the Direct Amplification workflow

Expansion of the Direct Amplification Workflow to Non-FTA® Substrates

Goal: Enable direct amplification of non-FTA® buccal samples

Minimal additional workflow steps

High quality, well balanced profiles

No introduction of artifacts

Prep-n-Go™

Buffer

Page 58: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 58

Direct Amp Workflow: Untreated Paper Substrates

Collect Samples on Untreated Paper

One New Step

Electrophorese

Amplify

Punch 1.2 mm disc

Add PCR reagents

Add 2 µL Prep-n-Go™ Buffer Untreated paper

protocol development

performed on Bode Buccal Collector™

Page 59: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 59

Identifiler® Direct Kit Amplification of Bode Buccal DNA Collector™ Samples lysed with Prep-n-Go™ Buffer

2 different individuals amplified for 26 PCR cycles Well-balanced profiles within each dye color

Page 60: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 60

Performance Study Results Summary

Test Site Number of

Samples Tested

PCR Cycle

Number

CE Platform

PCR Success Rate Interpretation Success Rate

Number of Full Profiles

First Pass Success Rate

Number of Full Profiles

First Pass Success Rate

1 82* 27 3130xl 81/82 98.8% 78/82 95.1%

2 80 26 3130xl 78/80 97.5% 78/80 97.5%

3 84* 26 3130xl 83/84 98.8% 79/84 94.0%

4 84* 26 3130xl 80/81 98.8% 76/81 93.8%

5 84* 26 3730 83/84 98.8% 83/84 98.8%

6 84 26 3500 82/84 97.6% 74/84 88.1%

Life Technologies 84 26 3130xl 82/84 97.6% 79/84 94.0%

Total 582 569/582 97.8% 547/582 94.0%

* Used real offender samples

Page 61: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 61

Performance Study: Bode Buccal DNA Collector™ Samples lysed in Prep-n-Go™ Buffer

Peak Heights Intracolor Balance

All amplifications performed using the Identifiler® Direct Kit

Page 62: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 62

Identifiler® Direct Kit w/ Prep-n-Go™ Buffer Identifiler® Direct Kit w/Other Buffer

1200 1200

Lysis Buffer Performance Comparison

No allelic drop-out using Prep-n-Go™ Buffer

Page 63: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 63

Expansion of the Direct Amplification Workflow to Non-FTA Substrates

Buccal Swabs

Page 64: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 64

Pros − Easy to use − Inexpensive − Multiple types available

Buccal Swabs

Cotton Swab

Foam Swab

T-Swab

Flocked Swab

Omni Swab

Page 65: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 65

Cons − High performance variability

among swab types − Donor variation − Sample collection techniques

and storage conditions − Limited opportunities for

automation increasing labor requirements and the risk of contamination

Buccal Swabs

Donor Mouth Conditions Collection Technique

Long-Term Storage Swab Age

Drying & Transport Conditions

Page 66: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 66

Flocked Swab Swab Structure Comparison

Cotton Swab

2 km microfiber 6 m microfiber

Sample stays entrapped in the

fiber wand

Sample is released quickly and in

higher amounts

Page 67: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 67

4N6FLOQSwabs™ by Copan

Distributed by FLOQSwabs™ consist of short

Nylon® fibers that are arranged in a perpendicular fashion

Excellent recovery of DNA

Maximum efficiency in collection capacity

Available with different anatomical and ergonomic designs

Certified free of Human DNA, Dnase and RNase

ETO-treated (Ethylene Oxide)

Page 68: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 68

Direct Amp Workflow: Identifiler® Direct Kit

Collect Samples on Buccal Swab

Lyse swab in 400 μL Prep-n-Go™ Buffer

Add PCR Reagents

Transfer Lysate

New steps

Electrophorese

Amplify

Incubate in oven adaptor at 99°C for 20 minutes

Page 69: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 69

Performance of Aged Swabs: Identifiler® Direct Kit & Prep-n-Go™ Buffer

4N6FLOQSwabs™

Puritan Swabs

Omni Swabs

Mean time between collection and analysis: 90 days; Amplification: 26 cycles

Page 70: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 70

Expansion of the Direct Amplification Workflow to Other STR Marker Sets

Page 71: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 71

Direct Amplification with the NGM™ & NGM SElect™ Kits NGM SElect™ Kit NGM™ Kit

Amplification of buccal samples on Bode Buccal Collector™ treated with Prep-n-Go™ Buffer

Page 72: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 72

Utilizes the same primer sequences as the NGM™ and NGM SElect™ Kits

Includes a new master mix optimised specifically to support direct amplification of swab and treated/untreated paper substrates

Delivers rapid cycling times through the introduction of a new fast-capable enzyme (< 1 hr)

May be amplified using the Veriti® 96-Well or 9700 (silver or gold-plated silver block) thermal cyclers − Veriti® 96-Well Thermal Cycler (standard) now supported for use with all

existing AmpFSTR® kits

Direct Amplification for the Expanded ESSL

AmpFSTR® NGM SElect™ Express Kit

Page 73: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 73

Direct Amp Workflow: NGM SElect™ Express Kit

Collect Samples on Buccal Swab

Lyse swab in 400 μL Prep-n-Go™ Buffer

Add PCR Reagents

Transfer Lysate

New steps

Electrophorese

Amplify

Heated lysis optional

depending upon swab age/type

Page 74: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 74

AmpFSTR® NGM SElect™ Express Kit Example Profiles: Treated Paper

Blood on FTA® Classic Card

Buccal on Copan NUCLEIC-CARD™

Page 75: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 75

AmpFSTR® NGM SElect™ Express Kit Example Profiles: Untreated Paper

Blood on 903 Paper

Buccal on Bode Buccal Collector™

Page 76: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 76

AmpFSTR® NGM SElect™ Express Kit Example Profiles: Swabs

Buccal on Copan Flocked Swab

Buccal on Whatman Omniswab

Page 77: HID University Seminar Series Intro & Evolution of Forensic DNA

8/16/2012 77

Test Site

Sample Type

Cycle #

CE Platform N

Profile Assessment

Partial Profile

No

Prof

ile

Off

Scal

e Pr

ofile

s

First Pass Success Rate

50 RFU

175 RFU

450 RFU

50 RFU 175 RFU 450 RFU

# % # % # %

Repr

oduc

ibili

ty 3 Copan 25 3500xL 60 1 1 1 1 1 58 97 58 97 58 97

4 Copan (2 weeks) 26 3100 60 0 4 N/A 1 37 58 97 58 97 NA NA

5 Copan (Fresh) 25 3130xl 60 0 0 N/A 0 8 60 100 60 100 NA NA

Perf

orm

ance

3 Omniswab 27 3500xL 40 1 2 3 1 0 37 93 36 90 35 88

4 Prionics (2 months) 26 3100 40 0 2 N/A 1 31 39 98 39 98 NA NA

5 Omniswab 26 3130xl 42 0 1 N/A 0 7 42 100 42 100 NA NA

Test Site Results

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Factors Influencing Direct Amplification Results

Choice of kit

Choice of sample type/substrate Sample Transfer Efficiency

Punch Size and Position

Cycle Number

Data Analysis Parameters

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Maximising Direct Amplification Results

Swab Substrate Handling − Ensure swabs are fully dried before storing − Ensure swabs are stored correctly to prevent excessive degradation over

time

Swab Lysate Handling − If using a 96-well deep well plate for lysis, remove lysate from swab heads

when aliquotting for storage and discard the plate containing the swab heads to reduce contamination risk

− Avoid taking cell debris or precipitation from the bottom of the lysate tube when transferring swab lysate to amplification or storage plates/tubes

− Follow the kit-specific instructions for lysis and amplification > Heated lysis may improve performance dependent upon direct amplification kit, swab

age and type

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Maximising Direct Amplification Results

Thermal Cycling Platform − Life Technologies kits optimised for use on the 9700 with silver or gold-

plated silver block and the Veriti® 96-Well thermal cycler only > Not supported for use on the 9700 with Aluminium block or

> Not supported for use on the Veriti 96-well Fast thermal cycler

Choice of Cycle Number − Choose a cycle number that prevents allele drop-out and minimizes off-

scale alleles − Use of elevated cycle numbers may cause presence of artifacts

Optimisation of Software Analysis Settings − Use of settings appropriate to single source samples will reduce editing

requirements and facilitate expert system analysis

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Optimising Data Analysis Parameters for Single-Source Samples

Use of a global cut-off filter can reduce significantly the amount of editing required for single-source sample data

Peak Quality settings may also be adjusted to better reflect the characteristics of single-source samples

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Optimized Parameters = More Efficient Analysis U

nopt

imize

d Optim

ized

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Time to Result

(hrs/per 24 samples) ~1-3.5 ~0-2 ~4 ~1.5 ~1

Maximized Efficiency for Single Source Sample Processing

Total Time to Result = ~7-12 hrs

Collection Extraction Quantitation/ Normalization Amplification Detection Analysis

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Time to Result

(hrs/per 24 samples) ~1-3.5 ~0-2 ~4 ~1.5 ~1

Maximized Efficiency for Single Source Sample Processing

Time to Result

(hrs/per 24 samples) 0 0 0.75 0.55 0.1

Total Time to Result = ~7-12 hrs

Collection Amplification Detection Analysis

Total Time to Result = ~2 hrs

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*Kits currently in development

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Thank You © 2012 Life Technologies Corporation. All rights reserved. The trademarks mentioned herein are the property of Life Technologies Corporation or their respective owners

For Forensic or Paternity Use Only.