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Learning from Experience of Crop Diseases:
the Tree Health & Plant Biosecurity Initiative
James Brown John Innes Centre, Norwich, U.K.
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• Introduction to Tree Health & Plant Biosecurity
Initiative
• Lessons from research on crop diseases for forest
health
• Progress in research on ash dieback
Summary of this talk
Picture
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Tree Health & Plant Biosecurity Initiative
Phase 1. 2011-2013: Capacity & consortium-building
Phase 2. 2014-2017: 7 research projects
• Innovative ways of dealing with pests & pathogens
• Health & resilience of trees, woods & ecosystems
• Collaboration of tree health specialists and others
Phase 3. 2015-2018
• 1 project each on (A) oak and (B) Phytophthora
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1. Quarantine: keep undesirables out
including “unknown unknowns”
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New approaches for the early detection
of tree health pests and pathogens
Project lead: Rick Mumford ( [email protected] )
Key Objectives:
• Improved tools for early detection of tree pests & pathogens.
• Exploit technical advances in e.g. genomics & engineering.
• Interdisciplinary: plant health + physics, engineering & economics.
WORKPACKAGES: 1 2 3 4 5 6
Lead: Mariella
Marzano, FR
Lead: Steve
Woodward,
Aberdeen
Lead: Hugh
Mortimer, RAL
Lead: Neil
Boonham, Fera
Lead: David
Hall, NRI
Lead: David
Cooke, JHI
Interdisciplinary
approaches (‘The
Learning Platform’)
Volatiles
Detection
Multispectral
Imaging
Spore trapping Pest Trapping Water
surveillance
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2. The perils of monoculture Conversely, crop diversity slows spread of disease
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Modelling economic impact and strategies to increase resilience against tree disease outbreaks
2012 2013 Adam Kleczkowski Ciara Dangerfield Christopher Gilligan Nicholas Hanley John Healey Steven Hendry Morag McPherson
• Construct a novel mathematical modelling framework incorporating • epidemiological, • ecological, and • economic factors
• to determine • resilience to disease, and • supply of ecosystem services.
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Contact: Stephen Cavers, [email protected]
Promoting resilience of UK tree species to novel pests and pathogens: ecological and evolutionary solutions
Using Scots pine as a case study Assess genetic variation in resistance to 3 key threat species:
• Dothistroma Needle Blight (Present, widespread)
• Pinetree Lappet moth (Present, localised)
• Pine pitch canker (Not present, potential)
Identify / test management strategies & communicate results
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Chalara
Ramorum
OPM
Assessing expert risk awareness &
management
Analysing traditional & social media
coverage
Understanding public risk concern & behaviour
Lessons for policymakers and risk
managers through detailed case studies of the nature and extent of
public risk concern
2
3
1
www.imperial.ac.uk/unpick Contact: Clive Potter – [email protected]
3. Public appreciation of science
Respect public concerns & explain science honestly
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4. Genomics
• Vastly accelerating our ability to ask significant
biological questions
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Dr Steve Lee: Genus-wise screening of
susceptibility to ash dieback
Dr Jennifer Koch: Screening of species’
susceptibility to emerald ash borer
Dr Paul Jepson: Public opinion on genetic
solutions to tree health issues
Dr Richard Buggs & Prof Steve Rossiter: Genome
sequencing and phylogenomics of whole ash
genus
Identifying genomic resources against pests and
pathogens in tree genera: a case study in Fraxinus
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Industry: Manufacturers of EPF, botanicals & monitoring tools + nurseries & forestry
groups − Lisk & Jones Consultants, Sentomol, Greenerpol, Fargro, UPM, Maelor
Forest Nurseries, Bord na Mona, MycoSolutions
Consortium: Swansea University (lead), Fera, Forest Research & industry
Biological Control of Insect Pests that Threaten Tree
Health (BIPESCO)
Coordinator: Professor Tariq M. Butt, Dept. Biosciences, Swansea University
Entomopathogenic fungi (EPF) and botanicals to control insect pests in forestry
Targets: Asian longhorn beetle, Pine processionary moth, Pine weevil,
Black vine weevil
5. We need to understand biology of pathogens
& ecology of disease
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Population structure and natural selection in
the ash dieback fungus
Elizabeth
Orton
Anuradha Bansal
+ Lorelei Bilham
Joan
Webber
Clive
Brasier
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14
Natural infections of
Hymenoscyphus
fraxineus in the UK
First UK observation
in 2012 but probably
present since 1990’s
2012
2013
2014
2012
2013
2014
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Damage caused by ash dieback
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The NORNEX Research Consortium
Building 21st century tools for a 21st century disease
Funding: BBSRC and Defra
Edinburgh
genomics
1. Open access
& crowdsourcing 3. Tools to select
tolerant trees
2. Fungal genomics
& pathology
NERC
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Hymenoscyphus fraxineus genomics
• Rapid insights into pathogen spread from genomics
• Native species in Far East Asia
• Very high diversity in Japan but didn’t originate there
9 isolates
44 isolates
Edinburgh genomics
Mark McMullan
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Hymenoscyphus fraxineus
European and UK genomes
ers480843
tgac-kw1
ers480858
lib6754ers480854
lib6770
lib6771
lib6766
lib6761
lib6767
ers480846
ers480865
lib6753
ers480862
ers480850
ers480844
lib6759
lib6768
lib6755
ers480851ers480852
ers480859
ers480863
ers480860
lib6772lib6760
lib6758 lib6762
lib6756
ers480848
ers480849ers480847
ers480864
ers480855
lib6757
lib6763
ers480853
lib6765
ers480856ers480861
lib6769
lib6764
ers480845
ers480857
0.0010
• Data on genetics of fungus show that it has moved between the UK and
Europe frequently and in large numbers
Edinburgh genomics
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• How well & how quickly will UK ashwoods recover
from the dieback epidemic?
Aim of JIC / FR ash dieback project
Attenuated: myxomatosis Severe & destructive: D.E.D.
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Genetic structure of Hymenoscyphus fraxineus
populations in UK
• Within woods & within infected trees
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Diversity in dieback fungus: Vegetative compatibility
defines individuals − very high diversity in UK
21
Self x Self Incompatible Incompatible
Ash S
apw
ood
A
sh L
eaf
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Controls
C isolates
Isolate 1 CTGTAGGCATGTCCATGACTGAA Isolate 2 CTGTAGGCATGTCCATGACTGAA Isolate 3 CTGTAGGCATGTACATGACTGAA Isolate 4 CTGTAGGCATGTCCATGACTGAA
Kompetitive Allele Specific PCR (KASPar)
Developed by K-Bioscience
Tests variation in single bases of DNA
Using genome sequences from Nornex
Diversity in dieback fungus: Genetic variation
between fungal isolates
A isolates
High diversity whether trees grown from
diseased planting stock or infected by
wind-blown spores from continent
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0.0
5.0
10.0
15.0
20.0
25.0
30.0
35.0
067 069 147 148 019 022 023 026 032 039 044 046 062 075 081 107 108 109 110 111 112 118 119
mm
gro
wth
/da
y d
ays 6
-21
Rachis Leaflet Ascospore
Trade-offs of pathogenicity
• Main predictor of a mild
outcome of epidemic
• Isolates with range of growth
rates on Ash Leaf Agar
• Will test relationship to wide
range of other traits
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Relationship to Hymenoscyphus albidus
• Native non-pathogenic fungus
• Closely related to H. fraxineus
• Genetic & biological diversity
• How do H. fraxineus and H.
albidus interact?
• Will it help us to predict long-
term outcome of ash dieback?
24
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Ash dieback in the long term: natural selection in action
• Massive production of
fruiting bodies & wind-
borne spores
• If seed from resistant trees
is allowed to spread, ash
may re-establish as a major
broadleaf tree
• (if there are costs of
pathogenicity in the fungus)
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6. We need a long-term commitment to
rebuilding expertise in forest pathology in UK
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Elizabeth Orton
Anuradha Bansal, Lorelei Bilham
Clive Brasier, Joan Webber
Nornex member organisations: especially JIC, TGAC, Exeter U.
Acknowledgements