1.
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GENETIC CHARACTERIZATION OF FMD VIRUS ISOLATED DURING CROSS
SECTIONAL SURVEILLANCE STUDIES IN CATTLE FROM UGANDA DURING
2014-2015
Zaheer Ahmed, Frank Mwiine, Julius Latwama, Kim VanderWaal, Andres
Perez, Luis Rodriguez, Elizabeth Rieder.
ARS/USDA/PIADC, USA
Makerere University Uganda
Uganda Virus Research InsWtute, Uganda
University of Minnesota, USA
Zaheer.ahmed@ars.usda.gov

2.
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REGIONAL MAP OF UGANDA
NORTHERN REGION (GOLD)
CENTRAL REGION (RED)
EASTERN REGION (GREEN)
WESTERN REGION (BLUE)

3.
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UGANDA
Total Regions: 4
Total Districts: 112
Districts sampled(2014-15): 37
Epidemiological unit: Farm
Animal Specie: CaIle
Age Groups: Adult & Young
Immunological Status: Vaccinated
Non-Vaccinated
Sampling Interval: Quarterly Basis
Sample Types: Probang & Serum
Tests Conducted: RRTPCR,Virus IsolaUons,
Sequencing, NSP ELISA
CENTRAL REGION
Dist sampled: 12
EASTERN REGION
Dist Sampled: 11
NORTHERN REGION
Dist Sampled: 9
WESTERN REGION
Dist Sampled: 06
Year 2 Progress: Project I Study by ARS

4.
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Sr No
Name of the
District
Region
Sr
No
Name of the
District
Region Sr No
Name of the
District
Region Sr No
Name of the
District
Region
1 Gomba Central 13 Budaka Eastern 24 Albatong Northern 32 Buliisa Western
2 Kayunga Central 14 Bududa Eastern 25 Apac Northern 33 Isingiro Western
3 Mukono Central 15 Bugiri Eastern 26 Kaabong Northern 34 Kasese Western
4 Kyankwanzi Central 16 Bukedea Eastern 27 KoWdo Northern 35 Kiruhura Western
5 Luwero Central 17 Busia Eastern 28 Moroto Northern 36 Kiryandongo Western
6 Mityana Central 18 Kumi Eastern 29 Moyo Northern 37 Masindi Western
7 Mpigi Central 19 Manafwa Eastern 30 Nakapiripirit Northern
8 Mubenda Central 20 Mbale Eastern 31 Napak Northern
9 Nakaseke Central 21 Nagora Eastern
10 Nakasongola Central 22 Palisa Eastern
11 Rakai Central 23 Serere Eastern
12 Sembabule Central
REGION WISE DISTRICTS SAMPLED

5.
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Sample Shipment Details under Project I and II from Uganda, 2014-2016
Shipment No Date of receipt
Under Project I
Under Project II
Total
Probang Serum Probang Serum
1 10/23/2014 397 2035 0 0 2432
2 12/5/2014 411 2284 0 0 2695
3 7/24/2015 146 741 331 567 1785
4 3/9/2016 423 1854 509 2387 5173
5 10/14/2016 450 3870 738 4837 9895
Grand Total 1827 10784 1578 7791 21980

6.
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REGIONAL FMDV ISOLATIONS DURING
2014-2015

7.
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VIRUS ISOLATIONS DURING 2014-2015 UNDER PROJECT I & II
DIST VI + IsolaUons DIST VI + IsolaUons
KYA 14 O BKD 3 O
KIR 16 SAT1 KAB 11 O
KIB 0 NIL KUM 3 O
BUS 22 O MBE 4 O
PAL 0 NIL MAN 5 O
BDK 12 O BUD 2 O
BUG 12 O KIR 7 SAT2
MOR 1 NIL NSKF 2 O
NAP 3 O MBE 0 NIL
NGO 1 O ISG 2 O
SER 8 O GMBS 1 O
NKP 4 O TOTAL 133

8.
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Year of
IsolaUon
Eastern Region Northern Region Western Region Central Region
Serotype
O
Serotype
SAT 1
Serotype
SAT 2
Serotype
O
Serotype
SAT 1
Serotype
SAT 2
Serotype O
Serotype
SAT 1
Serotype
SAT 2
Serotype O
Serotype
SAT 1
Serotype
SAT 2
2014 √ û û √ û û û û √ û û û
2015 √ û û √ û û √ √ û √ û û
Topotype EA-2 N/A N/A EA-2 N/A N/A EA-2 EA-1(IV) Group X EA-2 N/A N/A
REGIONAL PREVALENCE OF FMD VIRUS DURING 2014-2015 WITH THEIR
TOPOTYPES

9.
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FMDV SERO PREVALENCE AND CLUSTERING IN ALL REGIONS OF UGANDA

10.
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Phylogeny of VP 1 sequences of FMDV
serotype O isolated from Uganda during 2014
1. Circle : Indicates viruses isolated during the current study closely
related to EA-2 topotype.
2. Square: Indicates viruses isolated from Uganda during 2006-09
3. The current isolaWons are closely related to topotype East Africa-2.
4. Comparison of EA-2 topotype with other topotypes world wide.

11.
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Analysis
Analysis ------------------------ Phylogeny ReconstrucWon
StaWsWcal Method -------------- Maximum Likelihood
Phylogeny Test
Test of Phylogeny --------------- Bootstrap method
No. of Bootstrap ReplicaWons --- 1000
SubsWtuWon Model
SubsWtuWons Type -------------- NucleoWde
Model/Method -------------------- Tamura 3-parameter model
Rates and Pagerns
Rates among Sites --------------- Gamma Distributed (G)
No of Discrete Gamma Categories - 5
Data Subset to Use
Gaps/Missing Data Treatment ----- Complete deleWon
Tree Inference OpWons
ML HeurisWc Method ------------- Nearest-Neighbor-Interchange (NNI)
IniWal Tree for ML ------------- Make iniWal tree automaWcally
Codons Included ----------------- 1st+2nd+3rd+Non-Coding
No. of Seqs : 38
No. of Sites : 2805
No Of Bootstrap Reps = 1000
Phylogeny of FMDV O, Uganda: P1 Sequencing
ALB: ALEBTONG
BUD: BUDUDA
MAN: MANAFWA
MBE: MBALE
BKD: BUKEDA
KAB: KAABONG
KUM: KUMI
NKP: NAKAPIRIPIRIT

12.
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Analysis
Analysis ------------------------ Phylogeny ReconstrucWon
StaWsWcal Method -------------- Maximum Likelihood
Phylogeny Test
Test of Phylogeny --------------- Bootstrap method
No. of Bootstrap ReplicaWons --- 1000
SubsWtuWon Model
SubsWtuWons Type -------------- NucleoWde
Model/Method -------------------- Hasegawa-Kishino-Yano model
Rates and Pagerns
Rates among Sites --------------- Gamma distributed with Invariant sites (G+I)
No of Discrete Gamma Categories - 5
Data Subset to Use
Gaps/Missing Data Treatment ----- Complete deleWon
Tree Inference OpWons
ML HeurisWc Method ------------- Nearest-Neighbor-Interchange (NNI)
IniWal Tree for ML ------------- Make iniWal tree automaWcally
Codons Included ----------------- 1st+2nd+3rd+Non-Coding
No. of Seqs : 31
No. of Sites : 635
No Of Bootstrap Reps = 1000
Phylogeny of FMDV SAT 2, Uganda: VP1 Sequencing
(Present study, WRL and previous Uganda isolates)
KIR: KIRUHURA (WESTERN REGION)

13.
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PHYLOGENY OF FMDV SEROTYPE SAT 1 ISOLATED/CIRCULATING IN
WESTERN REGION OF UGANDA IN 2015
EA-1(IV)

14.
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FUTURE THRUST
FIELD FMDV SEROTYPES SAT 1, SAT 2 AND O
WILL BE USED FOR ANTIGENIC MATCHING
STUDIES