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Development of a Real Time Microwave-Enhanced Rapid (~5 minutes) Detection Assay
for Bacillus anthracis
Dr. Lovleen Tina Joshi*, Dr. Jonny Lees†, Prof. Adrian Porch†, R. Probert≠, Dr. T. Connor≠, Prof. Les Baillie*
*School of Pharmacy & Pharmaceutical Sciences, †School of Engineering, ≠School of Biosciences
Cardiff University
The Biology of Anthrax Conference 2016, Sirata Resort, St Pete Beach, Fl.
BIOLOGY ENGINEERING
Prof. Les Baillie (PI)
Prof. Adrian Porch (CI)
Dr. Jonathan Lees (CI)Dr. L.T. Joshi
PDRA/ Project manager
Hayder Hamzah
DmitryMalyshev
Microwave BioDetection Research Group
Evans Ahortor
The Problem: Bacillus anthracis
Worried Well?
Current Detection Methods
• Rapid Systems:• Direct Microscopy (> 10 minutes)• Antibody Based
• Concerns of specificity and sensitivity• Quality control concerns• Cross reactivity?
• Relatively Rapid Systems:• Antibody and DNA based • >1 hour
• Traditional Methods:• Culture (> 1 Day)
• Requires BSL-3 Capabilities• Time consuming• Most sensitive as determined by
Amerithrax FBI Investigation
What do we want to detect and why?
The genome sequence of Bacillus anthracis Ames and comparison to closely related bacteriaRead et al., 2003. Nature 423, 81-86(1 May 2003)
• Genomic DNA target• Plasmids:
• pX01- Tripartite toxin- lethal factor (LF Toxin), PA and EF• pX02* - Capsule (CPS) Highly virulent strains
Bioinformatic Screen “Big Data”
• Multi step analysis using published genomes- assess high homology, low or none
• Reference genome (B. anthracis) split into 60 bp fragments in silico
• 194 Bacillus genomes & 2862 plasmid sequences identified
• Fragments subjected to BLAST & screened
• Purpose: Identify sequence reads with high similarity in only B. anthracis samples
• Best hits (based upon highest sequence homology amongst B. anthracis and lowest homology to samples from outside of B. anthracis) were quantified
• Probes were designed from these anthracis- specific regions
Partnership: Biology & Engineering
DNAProbes
DNAProbes
Microwaved DNAfrom bacteria
Microwaving Spores?
BEFORE
AFTER AFTER
AFTER
E.g. MW C. difficile spore
B. anthracis spore biology
Bacillus Screening
(Adapted from Otter, A et al., Submitted)
• Representative panel of 56 isolates• Incl. DNA from virulent B. anthracis for
pXO2
gDNA Extraction
56 strains from library
gDNA standardised to 0.08ug/ml
5 SECONDSX microwave power
Cardiff University In-House B. anthracis POCD (MKI)
HRP
Captured DNA complex HRP
2H2O2
2OPD DAP
2H2O + O2Streptavidin coated dot on Silver ink + Acetate Sensor Combs (Vantix Ltd)
HRP
MicrowavedC. difficile Target(released DNA)( ~43 nt)
HRP ReporterDNA Probe (22 nt)
Biotin
BiotinylatedAnchorDNA Probe (17 nt)
5 ntgap
Streptavidin coated dot
Joshi et al., 2016. Microwave-enhanced disruption and rapid DNA detection of Clostridium difficile spores (Submitted to Biosensors and Bioelectronics)
Preliminary In house B. anthracis POCD (5 mins)
Detection of B. anthracis spores (10 mins)
-600
-400
-200
0
200
400
600
1 4 7 10 13 16 19 22 25 28 31 34 37 40 43 46 49 52 55 58 61 64 67 70 73 76 79 82 85 88 91 94 97 100
103
Elec
tric
al Si
gnal
gene
rate
d in
mill
iVol
ts
Time (seconds)
Average Signal B. anthracis Std microwaved (1+4)Average Signal B. anthracis Sterne Microwaved (1+4)Streptavidin Control
Water control
MW B. anthracis Sterne pXO1+ positive control
Water control
MW B. anthracis Sterne pXO1- negative control
-100 mV
Detection of genomic target (5 mins)
B. anthracis ΔgerH; B. anthracis Sterne and B. cereus ATCC 6464 (negative
control). Results demonstrate that the probes only detect B. anthracis.
Detection of pX01 (5 mins)
Negative detection of pX01 (5 mins)
Detection of pX02
• Identified Probes for pXO2 detection via bioinformatics
• Screening against our representative panel
• Incl. virulent B. anthracis
• Aim to highlight False Positives
Conclusions
• Identification of conserved gene targets• Genome & plasmids
• Results indicate probes are specific to B. anthracis ONLY• Finishing final pXO2 lab testing• Forward to Field tests
• Establish LoD in real samples
The Final Vision...
Gold contact points
Microwaving area
Sample enters microfluidic capillary
Gold Sensor where DNA
detection occurs
Gold nanolayerdeposited on clear glass
DNA transistors
A prototype detector that works in 5 minutes
• Rapid, accurate detection
• DNA detected in < 5 minutes WITHOUT prior purification like PCR
• Diagnostics need to be easy to use, reliable and compact
• Can be operated with minimal training
• Simple Yes/ No answers
• Low logistical footprint
• Can be used to detect bacteria in hospitals, rapid triage tool to weed
out the worried well
• Environmental survey tool to detect environment contamination and
identify no/ go area and areas that need to be decontaminated
Conclusions: Impact
• Our technology has the potentialto underpin a wide range ofapplications beyond healthcareand security. Generate $60-110million /year in global sales.
ECONOMY
• Will save lives• Platform can be adapted to detect
other clinically relevant pathogens • Reduce use of antibiotics• Prevent infections spreading
• Facilitate the rapid detectionof biological agents such asAnthrax by first responders
• A simple to use detector, working in 5 minutes would improve diagnosis and patient satisfaction
• Change the diagnostics landscape, increasing development of new ideas and research
SOCIETYHEALTH SECURITY
Acknowledgements
• Cardiff School of Pharmacy & Pharmaceutical Sciences:• Colleagues in Lab 1.11
• Prof. Les Baillie • Cardiff School of Biosciences:
• Dr. Tom Connor for Bioinformatics Screening• Cardiff School of Engineering:
• Prof. Adrian Porch, Dr. Jonny Lees • Hayder Hamzah
• Dr. Emmanuel Brousseau