Sequencers for soldiers battlefield genomics Claire Lonsdale Dstl

Sequencers for soldiers: battlefield genomics Claire Lonsdale, Dstl 26 th May 2016

What is Dstl? © Copyright 2016 © Oxford Crown. Nanopore copyright. Technologies (2016), Dstl 2

Across government © Copyright 2016 © Oxford Crown. Nanopore copyright. Technologies (2016), Dstl 3

Working with academia © Copyright 2016 © Oxford Crown. Nanopore copyright. Technologies (2016), Dstl 4

Working with industry © Copyright 2016 © Oxford Crown. Nanopore copyright. Technologies (2016), Dstl 5

Why does defence and security care about sequencing? © Copyright 2016 © Oxford Crown. Nanopore copyright. Technologies (2016), Dstl 7

Emerging Infectious Diseases Vol. 10, No. 1, January 2004 © Copyright 2016 © Oxford Crown. Nanopore copyright. Technologies (2016), Dstl 8

‘Amerithrax’ Letters, 2001 Letters laced with Bacillus anthracis • 5 fatalities, • 17 confirmed infections, • 1000 s treated © Copyright 2016 Oxford Nanopore Technologies 9 Crown copyright (2016), Dstl

UK, 2014 • Convicted of buying and attempting to buy abrin on the internet • First UK prosecution under Biological Weapons Act • Dstl scientists gave evidence at the trial © Copyright 2016 © Oxford Crown. Nanopore copyright. Technologies (2016), Dstl 10

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Towards a man-worn bio-detector © Copyright 2016 © Oxford Crown. Nanopore copyright. Technologies (2016), Dstl 12

Towards a man-worn bio-detector © Copyright 2016 © Oxford Crown. Nanopore copyright. Technologies (2016), Dstl 13

Rapid DNA extraction CAD concepts 3 D printed/machined prototypes Functional prototype © Copyright 2016 © Oxford Crown. Nanopore copyright. Technologies (2016), Dstl 14

Rapid DNA extraction M 21 Column cleanup 5 2 Cultured bacteria, binding buffer + RNase, 2 minutes © Copyright 2016 © Oxford Crown. Nanopore copyright. Technologies (2016), Dstl 15 Wash, 30 sec Elute, 1 min Reg Rap

Rapid library prep < 10 minutes © Copyright 2016 © Oxford Crown. Nanopore copyright. Technologies (2016), Dstl 16

Rapid extract + rapid library + rapid sequencing Standard extraction © Copyright 2016 © Oxford Crown. Nanopore copyright. Technologies (2016), Dstl 17 Rapid extraction

(Aligned to reference using LAST) © Copyright 2016 © Oxford Crown. Nanopore copyright. Technologies (2016), Dstl 18

Identification – BLAST + MEGAN Standard DNA prep/rapid library Rapid DNA prep/rapid library © Copyright 2016 © Oxford Crown. Nanopore copyright. Technologies (2016), Dstl 19

Informatics on the go… © Copyright 2016 © Oxford Crown. Nanopore copyright. Technologies (2016), Dstl 20

Acknowledgements * Tom Piggot Phil Rachwal Jamie Taylor Carl Mayers Pete White Tim Foat Contact: cllonsdale@dstl. gov. uk Or use the app Dominique Despeyroux * Being a Briton is not a pre-requisite for working with Dstl! © Copyright 2016 © Oxford Crown. Nanopore copyright. Technologies (2016), Dstl 21