app 29 item 11 vaccine selection jef hammond selection jef m. hammond , donald p. king, nick j....
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Vaccine SelectionVaccine Selection
Jef M. Hammond, Donald P. King, Nick J. Knowles, Jemma Wadsworth, Bob Statham, Yanmin Li, Phil
Keel, Jo Stoner, Pip Hamblin, Ginette Wilsden, Geoff H. Hutchings, Nigel P. Ferris, Valerie Mioulet, Miki
Madi, Begona Valdozo, Faiza Hamid and Elizabeth Wilson
Institute for Animal Health, Ash Road, Pirbright, Surrey, GU24 0NF,
UNITED KINGDOM
Vaccine Vaccine Recommendations (Antigen Recommendations (Antigen BBanksanks))
Vaccine recommendations for free countries included in
each quarterly report
How to:How to:
• Improve process for vaccine recommendations
• Increase information made generally available
• Provide a clearer understanding of risk
• More of a systems approach
The Importance ofThe Importance of NetworksNetworks
• OIE/FAO FMD Reference laboratory network
• FMD Vaccine Bank holders network
• PTS network
laboratory diagnosislaboratory diagnosis
vaccine matching
• Global FMD Research Alliance
• SEACFMD and other initiatives
To make available accurate and timely global surveillance information– Value of sharing information
– Developing trust and shared vision
WRLFMD
Enhanced Enhanced Surveillance: Surveillance: OIE/FAO OIE/FAO Lab networkLab network
• WRLFMD: Pirbright, UK
• RRLSEA: Pakchong, Thailand
• LVRI: Lanzhou, China
• FGI ARRIAH: Vladimir, Russia
• PDFMD: Mukteswar, India
• RRLSSA: Gabarone, Botswana
• FMD-Laboratory: Embakasi, Kenya• FMD-Laboratory: Embakasi, Kenya
• PANAFTOSA: Rio de Janeiro, Brazil
• LFADLCT: Argentina
• ARC-OVI: Onderstepoort, RSA
• PIADC: Plum Island, USA
• CODA-CERVA-VAR: Ukkel, Belgium
Approximately ~2300 samples
tested during 2010
Institute for Animal Health
OutputsOutputs
Current•Highly detailed analysis of virus
•Serotype
•Genotype/strain
•Possible source
•Vaccine matching by lab assay•Average number of r values generated per week = 23.22 •Average number of r1 values generated per week = 23.22
•Total number of r1 values generated in 2010 = 1209
•Animal experiments
•Detailed reports
Progress•Complete genome analysis
•Epitope mapping
•Antigenic cartography
•Combine data from all inputs to provide a more
comprehensive analysis
•Use of high potency vaccines
500
600
700
samples
isolates
In total 38 different countries submitted 2,338 samples toOIE/FAO FMD Network Laboratories
53% to WRLFMD
Samples and virus isolates made by region in 2010. Samples and virus isolates made by region in 2010.
0
100
200
300
400
500
Eastern Asia Southern
Asia
Eur-Asia Eastern
Africa
Western
Africa
Southern
Africa
South
America
isolates
80%
8.5%
7%2% 2.5%
O
A
SAT 1
SAT 2
OverviewOverview ofof serotypingserotyping resultsresults forfor 20102010
Asia 1
80% of the samples characterised in 2010 were O serotype.
Note that serotypes C and SAT 3 were not detected.
150
200
250
300
2010 2011
Samples processed by WRLFMD Samples processed by WRLFMD
0
50
100
AF
GH
AN
IST
AN
**
BA
HR
AIN
BO
TS
WA
NA
BU
LGA
RIA
CA
MB
OD
IA
EC
UA
DO
R
ER
ITR
EA
ET
HIO
PIA
HO
NG
KO
NG
IRA
N
KE
NY
A
LAO
S
LIB
YA
MA
LAY
SIA
MO
NG
OLI
A
MO
ZA
MB
IQU
E
MY
AN
MA
R
NE
PA
L
NIG
ER
IA
PA
KIS
TA
N*
**
QA
TA
R
SE
NE
GA
L
SO
UT
H A
FR
ICA
SO
UT
H K
OR
EA
TA
NZ
AN
IA
TH
AIL
AN
D
TU
RK
EY
**
**
UN
ITE
D A
RA
B
EM
IRA
TE
S
VIE
TN
AM
ZA
MB
IA
ZIM
BA
BW
E
3
4
5
6
Vaccine matching with Vaccine matching with
O O ManisaManisa 20112011
No Match
Match
-2
-1
0
1
2
Iran Pakistan Turkey Bulgaria Israel ROK
Software: MEGA 5.0
Analysis
Analysis ---------------------------- Phylogeny Reconstruction
Scope ------------------------------- All Selected Taxa
Statistical Method ------------------ Neighbor-joining
Phylogeny Test
Test of Phylogeny ------------------- Bootstrap method
No. of Bootstrap Replications ------- 1000
Substitution Model
Substitutions Type ------------------ Nucleotide
Model/Method ------------------------ Kimura 2-parameter model
Substitutions to Include ------------ d: Transitions + Transversions
Rates and Patterns
Rates among Sites ------------------- Uniform rates
Pattern among Lineages -------------- Same (Homogeneous)
Data Subset to Use
Gaps/Missing Data Treatment --------- Pairwise deletion
Codons Included --------------------- 1st+2nd+3rd+Non-Coding
No. of Sites : 635
No Of Bootstrap Reps = 1000
Only bootstrap values of 70% and above are shown
Asia1/PAK/32/2011
Asia1/PAK/38/2011
Asia1/PAK/109/2010
Asia1/PAK/50/2011
Asia1/PAK/49/2011
Asia1/PAK/39/2011
Asia1/PAK/37/2011
Asia1/PAK/36/2011
Asia1/PAK/35/2011
Asia1/PAK/16/2011
Asia1/PAK/15/2011
Asia1/PAK/14/2011
Asia1/PAK/13/2011
Asia1/PAK/12/2011
Asia1/PAK/11/2011
Asia1/PAK/8/2011
Asia1/PAK/7/2011
Asia1/PAK/111/2010
Asia1/PAK/110/2010
Asia1/PAK/108/2010
Asia1/PAK/106/2010
Asia1/PAK/33/2011
Asia1/PAK/34/2011
Asia1/PAK/17/2011
Asia1/BAR/1/2011
Asia1/BAR/2/2011
Asia1/BAR/3/2011
Asia1/BAR/4/2011
Asia1/IRN/43/2011
88
100
FMDV Asia 1 - 2011
*, not a WRLFMD Ref. No.
N.J. Knowles & J. Wadsworth, 27 April 2011
© Institute for Animal Health
Asia1/IRN/43/2011
Asia1/IRN/33/2011
Asia1/IRN/46/2011
Asia1/IRN/38/2011
Asia1/PAK/6/2011
Asia1/PAK/47/2011
Asia1/PAK/8/2008
Asia1/PAK/26/2009
Asia1/PAK/27/2009
Asia1/PAK/29/2009
Asia1/IRN/25/2004 (DQ121120)
Asia1/YNBS/CHA/58 (AY390432)
Asia1/CAM/9/80
Asia1/Shamir/ISR/89
Asia1/BAR/8/2009
Asia1/BAR/9/2009
Asia1/IND 32/08* (HQ224556)
Asia1/IND 12/07* (HQ224553)
Asia1/IND 227/07* (HQ224555)
Asia1/IND 121/07* (HQ224554)
Asia1/IND 97/08* (HQ224560)
Asia1/IND 95/08* (HQ224558)
Asia1/IND 93/08* (HQ224557)
Asia1/IND 96/08* (HQ224559)
Asia1/IND 137/08* (HQ224561)
Asia1/Jiangsu/CHA/2005 (DQ156527)
Asia1/PAK/1/54
99
100
98
100
85
99
100
99
100
0.02
-1.5
-1
-0.5
0
Vaccine matching with Asia 1 in 2011Vaccine matching with Asia 1 in 2011
Only based on 8 samples so farOnly based on 8 samples so far
Requirement for a challenge studyRequirement for a challenge study
-4.5
-4
-3.5
-3
-2.5
-2
Bahrain Iran Pakistan
No Match
Match
What can we do to improve chances of What can we do to improve chances of
matching field strains and vaccines?matching field strains and vaccines?
Purple – Africa
Green – Euro/S. America
Blue - Asia
0.07
PAUP*
outgroup OMANISA
Maximum Liklihood
What can we do to improve methods for What can we do to improve methods for
matching field strains and vaccines?matching field strains and vaccines?
Purple – Africa
Green – Euro/S. America
Blue - Asia
0.07
PAUP*
outgroup OMANISA
Maximum Liklihood
Systems Approach Compiling Systems Approach Compiling
Information LayersInformation Layers
For gathering information on FMD outbreaks and risk of spread
•3 areas of information layers
•Agricultural•Agricultural
•Climate
•Environmental
Plus FMD specific information
Information layersInformation layers
• Serotype
• Sequence
• Vaccine matching
What does WRLFMD and FMD network provide?
• Global Information
• Global surveillance
• Global early warning
Can we obtain the other layers Can we obtain the other layers
through OIE/FAO and other through OIE/FAO and other
organisations?organisations?
Data gathered for FMD modellingData gathered for FMD modelling
Data gathered for other purposesData gathered for other purposes