dr. bob morrison, dr. carles vilalta - update from swine health monitoring project (shmp)
TRANSCRIPT
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Swine Health Monitoring Project
December 3, 2016
Bob Morrison, P.I.
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The SHMP teamFaculty• R. Morrison• A. Perez• M. Torremorell• M. Alkhamis• K. VanderWaal• J. Alvarez and• D. Linhares• D. Holtkamp
Students & postdocs• Andreia Arruda• Carles Vilalta• Emily Geary• Paulo Fioravante• Kaushi Kanankege• Gustavo Machado• Pablo Valdes• Gustavo De-Sousa-E-Silva
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Current participation
• Currently 29 systems with 1,022 sow farms & 2.63 m sows– 21 production companies– 4 veterinary practices– 4 regional projects
• 22 and 4 projects share logo stating intentions
• 300 non participants receive weekly report
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SHMP Objectives
• Long term – to develop capacity to support industry response to emerging pathogens.
& • Short term – deliver value to encourage
participation:– monitor disease incidence & prevalence.– supplement outbreak investigation.– understand implications of pig movement.
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Our process
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Weekly report• Page 1 – Participants
• Page 2 – PRRS summary
• Page 3 – PED summary
• Page 4 – Senecavirus A etc.
• Page 5 – Science page
• Page 6 – Others receiving dated report
• Page 7–xx – System reports
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Publications• Tousignant et al. Temporal and spatial dynamics of porcine reproductive and respiratory
syndrome virus infection in the United States. Am J Vet Res. January 2015, Vol. 76, No. 1, Pages 70-76.
• Tousignant et al. Comparison between the 2013–2014 and 2009–2012 annual porcine reproductive and respiratory syndrome virus epidemics in a cohort of sow herds in the United States. Can Vet J 2015; 56:1087–1089.
• Alvarez et al. Impact of PEDv on Performance of Growing Pigs. PLOS One. March 13, 2015 http://dx.doi.org/10.1371/journal.pone.0120532
• Goede et al. Production impact & time to stability in sow herds infected with porcine epidemic diarrhea virus (PEDV). Preventive Veterinary Medicine. Volume 123, 1 January 2016, Pages 202–207.
• Alvarez et al. Spatial and temporal epidemiology of porcine epidemic diarrhea (PED) in the Midwest and Southeast regions of the United States. Prev Vet Med. Vol 123, 1 January 2016, Pages 155–160
• Valdes et al. Measuring Progress on the Control of Porcine Reproductive and Respiratory Syndrome (PRRS) at a Regional Level: The Minnesota N212 Regional Control Project (Rcp) as a Working Example. PLOS One. Feb 19, 2016 http://dx.doi.org/10.1371/journal.pone.0149498
• Alkhamis et al. Applications of Bayesian Phylodynamic Methods in a Recent U.S. Porcine Reproductive and Respiratory Syndrome Virus Outbreak. Front. Microbiol., 02 February 2016 http://dx.doi.org/10.3389/fmicb.2016.00067
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Weekly science page receives positive feedback
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PRRS Incidence
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PED Incidence
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Tableau
VDLs: (UMN – 6 systems)
SQL db:PINs w/location
Sequences
ARC GISGoogle Earth
Visualization
Alteryx:data
cleaning
Vet reports
Today
Excel
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Advanced Analytics&
Visualization
Tableau
VDLs: (UMN, ISU, SDSU etc)
SQL db:PINs w/location
Movement
Sequences
Feed deliveries
ARC GISGoogle Earth
Visualization
Alteryx:data
cleaning
Vet reports
Eventually
Performance
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Data visualizationSense-Making
Communication
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SHMP • Prevalence• Incidence• EWMA• TTS• Heat maps
• ORF5 sequences• Susceptibility
VDL
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State IL State MN
System 1 System 3
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EWMA
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Time To Stability (TTS)
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Considerable difference in trend of TTS across
SHMP systems
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1
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1
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Shedding farms: Status 1, 2vx &2fvi
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SimilarityStrainAll
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SimilarityStrainD15-001988
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SimilarityStrainD15-030196
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Penicillin
IsolatePasteurella multocida
AntimicrobialMultiple values
Enrofloxacin
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Enrofloxacin
IsolateStreptococcus suis
AntimicrobialMultiple values
Florfenicol
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Related Studies
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Should I build at top or bottom of hill. And do surrounding trees matter?
• Objective:– Investigate whether land elevation and
coverage are associated with PRRS breaks• While accounting for other important factors
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Vehicles• Network analysis
People• log
Fomites
Airborne• Weather & location
Other• Manure removalFeed• Swab bins
Outbreak Investigation - supplement
Potential sources after ruling out pigs & semen
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Outbreak investigation - supplement• 3 regions• What will we learn?– Proportion breaks associated with neighboring pig sites– Develop capacity and analytical approach to supplement
current veterinarian’s investigation
• What tools will we use?– Sequence similarity over time and space– Weather analysis– Was transport associated?– Transmission chain analysis
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Can we detect new strains of PRRSv?
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PRRS Management
• 174 TTS & TTBP – Carl Betlach & Daniel Linhares• TTS at farrowing – Hunter Baldrey• TTS with wean down – Carles Vilalta
and with ISU:• Using SHMP data to estimate cost (Derald)• Biosecurity assessment (Derald & Daniel)• SPC for early detection of PRRS break (Daniel)
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Wean-down study
• Where biosecurity is sufficient, PRRS virus dies out of sow herds (stability).
• TTS at weaning is a function of litter status at birth and spread in lactation– TTS median at weaning is ~28 wks (Linhares et al,
Betlach et al)– TTS median at farrowing is 13 weeks (Baldrey et al)
• Ho: Decreasing prevalence by wean-down will decrease TTS if biosecurity is sufficient.
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• Enroll 30 farms with matched controls• Protocol– Starting at 8 weeks post break, monitor prevalence of
litters at 1-3 days– Vaccinate at processing at __ wks or __ prevalence– Max biosecurity 1-2 wk before wean-down (e.g. 0 foster)– Wean down to 10-14 days (younger is better)
• Start monitoring at weaning• $1,000 credit / herd at achieving stability (BI)
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SHMP – update summary
• Critical issues:– Data security and confidentiality– Create value through data analysis and
interpretation
• Value for all can be gained from sharing data.