Containment technology to enable transgenic innovations in...
Transcript of Containment technology to enable transgenic innovations in...
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Genetic engineering of coexistence: Containment technology to enable
transgenic innovations in trees
Steve Strauss, ProfessorCollege of Forestry, Oregon State University
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Cathleen Ma, transformation & greenhouse experiments
Kori Ault, program & field manager
Michael Dow, former post-doc, constructs
Amy Klocko, post-doc, gene cloning, gene expression, flowering
Haiwei Lu, grad student, ZFNs
Sarah Robertson, heat induction and flowering
Chad Washington, undergrad, field trials
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Sappi, Arborgen, FuturageneSwetree, U. Pretoria
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Roadmap
• Why genetics and biotech matters for trees• Why gene flow is an immense problem
needing technical as well as policy solutions• Evolving technology options• Obstacles and progress in making them work
for trees
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One generation of breeding Monterey pine (Pinus radiata) in New Zealand made striking changes in growth & form - enabling an industry
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Hybridization and cloning enabled the poplar industry in the northwest USA
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Exotics, hybridization, and cloning created the extraordinary eucalypt industry in Brazil
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GMOs are doing it too: Virus-resistant papaya
Courtesy of Denis Gonsalves, formerly of Cornell University
“Immunization” via by implanting a viral gene in the papaya genome – RNAi (RNA interference)
GMO, virus-resistant trees
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Defensin-like proteins from spinach a promising solution to citrus greening
Courtesy of Eric Mirkov, Texas A & M
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Tool for battling the many exotic diseases that have ravaged North American forests?
• 1892 - White pine blister rust• 1904 - Chestnut blight• 1923 - Port-Orford-cedar root
disease• 1920s - Beech scale complex• 1930 - Dutch elm disease• 1967 - Butternut canker• 1976 - Dogwood anthracnose• 2000s - Sudden oak death
Examples
American elm
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American Chestnut most advanced case
March 2014 issueScientific American
Courtesy of Bill Powell, SUNY Syracuse, USA
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Modification of intact varieties is powerful for treesNon-browning “Arctic Apple” -- Suppression of native polyphenol oxidase gene expression
Courtesy of Jennifer Armen, Okanagan Specialty Fruits, Canada
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Insect resistant poplars commercially approved in China ~10 years ago - Bt cry1
• Trait stable• Helps to protect non-Bt
trees• Reduced insecticide use• Improved growth rate
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Growth rate benefits substantial for Bt-poplars (cry3a) – >>10-20%
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Freeze-tolerant Eucalyptus Proposed for commercial deregulation in USA
Results from first winter in South Carolina
Results from second winter in Alabama
Field results indicate freezing tolerance to ~16°F (- 8° to - 9°C)
Control
Lead Lines + Control
Lead Line
Provided by Arborgen
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Lignin-modified trees – improved ethanol or pulp yields
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Production of 2-phenylethanol
Lignin reduction
Chemical feedstocks and biofuelsources?
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Large scale field trials of a variety of genes and insertions underway
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Conventional genetics has made a huge difference in forestry and agricultural production from trees –there is every indication that GMOs could have as large or a larger impact on production and sustainability if allowed to by society
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Roadmap
• Why genetics and biotech matters for trees• Why gene flow is an immense problem
needing technical as well as policy solutions• Evolving technology options• Obstacles and progress in making them work
for trees
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Gene flow is ubiquitous in agriculture – with or without GMOs – pollen, seed, and vegetative
Slides courtesy of Wayne Parrott, Univ. Georgia
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Gene flow greater for many trees
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In poplar, ~50% of pollen comes from >1 km to >10 km
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Cottonwood seeds can fly and float far
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Big wind and big storms can move seed far
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Tree gene flow extensive• Distance – large, often wind pollinated• Less domesticated than many crops –
establishment in wild possible• Entry into wild lands
– Often keystone species – ecologically dominant so with potential effects on many other organisms
• Regulatory approval challenging– Difficult to estimate effects, fitness during
contained field studies (if possible to do at all)
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Coexistence is especially hard when ideologies conflict
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The Economist, 2005
Forest trees with their own anti-GMO activism
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Critical report from anti-GMO Center for Food Safety in USA – Released Nov 2013
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Major environmental groups promoting wild forests dislike GE trees
“The possibility that the new genes spliced into GE trees will interfere with natural forests isn't a hypothetical risk but a certainty. …genetic engineering may do as much damage to forests and wildlife habitat as chain saws and sprawl.” (11/10/13)
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Forest Stewardship Council
“…genetically modified trees are prohibited…”
“Green” certification creates a gene flow and research conundrum
No research exemptions
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International treaties push for stringent regulations, focus on gene flow
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…global ban on the release of GE trees into the environment…” = NO FIELD RESEARCH
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“The Destruction of Our Food - GMO and Terminator Seeds….“Ever since I found out about terminator seeds, I have understood how famine could take over the planet as predicted in the Bible.”
Unpopularity of gene flow restriction technologies
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Regulatory confusion, obstacles at national and international levels
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Roadmap
• Why genetics and biotech matters for trees• Why gene flow is an immense problem
needing technical as well as policy solutions• Evolving technology options• Obstacles and progress in making them work
for trees
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Many options for containment technologies – V-GURTs
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Investment in GURTs have rapidly declined, little field research, no commercial use
Lombardo 2014 / Plant Biotechnology Journal
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Focus on genetic containment via complete bisexual sterility – vegetative propagation, vegetative harvest – poplar, eucalypts, pine
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Options for genetic containment via complete, constitutive, bisexual sterility
• Controlled cell/tissue ablation– Floral developmental promoter
• Floral gene malfunction– RNA suppression (RNAi)– Protein disruption (dominant negative)– Gene mutation (ZFN, TALEN, CRISPR)
• Floral transgene excision (recombinase)
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Roadmap
• Why genetics and biotech matters for trees• Why gene flow is an immense problem
needing technical as well as policy solutions• Evolving technology options• Obstacles and progress in making them work
for trees
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Complexities of containment system development• Delay to onset of flowering in research (trees) • Isolation during research in field
– Regulations– Legal/business risks of adventitious presence
• Stability and efficiency in field?– Does it work? All genotypes / environments?
Consistent over years and parts of trees?– Pleiotropic effects on vegetative growth?
• Ecological impacts of pollen/seed/fruit removal or modification?– Pollinators, biodiversity, mitigation options– Public / market acceptance
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How much sterility is sufficient? Even modest infertility can have a big impact on spread
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Regulations for field trials assume containment, generally do not assess ecological risks or benefits of particular genes or traits
Can you adequately test containment technologies in the field?
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Unexpected summer flowering of semi-dwarf transgenic poplar in field trial
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The upright summer “catkins” and veg-catkin transition structures
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This field trial had been appended to a larger APHIS permit that permitted flowering in this location and with this genotype (incompatible with wild relatives, female tree) -- but APHIS was unsure if this meant the appended trial also could flower legally
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Being a good soldier, I faithfully and immediately reported this unexpected occurrence (as the permit requires)
Then discussed what to do about it with APHIS regulatory science contacts for several days
I wanted to leave the catkins for study, as they were interesting, risk seemed to be zero, and would be difficult to remove
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I pointed out the layers of safety from the genes (dwarfism, fitness reduced) and biology (lack of pollen or receptive females in summer, no seed dormancy) to APHIS
The APHIS scientists agreed, but they felt, legally, they must report it to the compliance branch as a permit violation/release….
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Thankfully a science colleague at APHIS alerted me that the report to Compliance had occurred prior to a visit and action
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Rather than risk arrest, fines, and who knows what else by federal agents…..
Including what would be sure to be highly publicized as major disregard for the rules and the environment, and thus a call for much stricter regulations…
The same day, all students in our lab were dispatched to manually remove every “catkin”
And the same in spring and beyond….
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Students removing catkins from transgenic trees
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We documented for APHIS that “All removed flowers were collected and brought back to the lab, then autoclaved”
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Thank goodness, the federal agents never came to arrest me over the grave “violation”
A powerful lesson about the letter of the law, and the reality that GE methods are considered evil and dangerous until proven otherwise, period
Biology, safety, and benefit are irrelevant
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One answer is to deregulate it for science
Containment of every pollen grain and seed during field research would not be required
So I visited APHIS and suggested this given the increased safety of the trait and benefits of improved knowledge
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They discussed how each gene insertion event needs a pile of data, and now certainly an EIS (environmental impact statement), to withstand lawsuits
And getting this data requires the years of research (that is what we are trying to find a way to obtain!)
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October 2010 / Vol. 60 No. 9 • BioScience 729
Regulations a debilitating impediment to breeding progress with GMOs – as it requires field research with ~perfect containment
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Progress
• Male-sterility• Accelerated flower induction• RNAi suppression• Site-directed mutagenesis
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First demonstration of transgenic male-sterility -- via “ablation” methodCell-disrupting genes turned on in floral cellsAnther promoter::RNAse
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A successful 10 year study: Male- sterility
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Harvesting the flowers high up in tree crowns in the wet, stormy Oregon spring is not so much fun
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Pollen-less catkins in 8 yr-old male poplars in Oregon with same sterility gene
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Tapetal collapse
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Male-sterility approach works well in eucalypts and pine as well - Arborgen
Anther-specific promoter driving expression of a strong RNAseprevents pollen maturation and release
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Pleiotropy: Deleterious effects of barnase on tree growth
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An answer to speed research? Overexpression of endogenous flowering genes induces early flowering in trees
ApplePlum
Orange
Poplar
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Flowering locus T (FT) to accelerate flowering in poplar – Heat induced by heat-shock promoter
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Cotransformed FT/RNAi led to interesting, but very rare, floral alterations (a few among hundreds tested)
Control Replicated Replicated
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Dominant negative proteins highly effective pPTLF::PTLF-EAR/FT led to the formation of “leafy” sterile shoots or flowers – but also disturbed vegetative growth due to FT overexpression
Leafy shoots
Normal
Leafy flowers
Phenotypes stable and repeatableVegetative and floral alterations
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Gene suppression: Is it effective and stable in the field? RNAi field trial of poplar in Oregon: 25 constructs, 3 genotypes, 4,000 trees, 9 acres
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High rate of survival, excellent tree growth in most places on field site
06/08/201407/24/2013
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1-30-141-2-14
Early flowering genotype: Floral buds visible during winter, enabling early assessment of flowering
Collected dormant buds in January for indoor flushingFloral buds can be identified by their shape and size
Blue flagging = flower buds present
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Flushing of dormant buds in lab uncovered modified catkin morphology
Control
Most events were normal
AG
ReplicatedUnexpanded
AG/LFY and LFY
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Events from four RNAi constructs targeting LFY and/or AG have modified floral phenotypes
Constructtype
Gene(s) targeted
Floral phenotype
RNAi LFY Tiny, no stigma or ovules
RNAi AG and LFY Tiny, replicated, no ovules
RNAi AG Replicated, no ovules
RNAi AG (mar) Replicated, no ovules
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Similar catkin phenotypes were also observed in the field
control
AG (mar)
LFY
AG
AG/LFY
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After maturation, RNAi:LFY catkins remained tiny and did not produce seeds or cotton
4-2-14
LFY
5-1-143-18-14
control
4-2-143-12-14 5-1-14
Control
RNAi-LFY
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Tiny RNAi:LFY catkins lack stigmas, ovules, and cotton
Catkin exteriors
Capsule and catkin dissection
Carpel dissection
ov
controlcontrolPt-LFY:RNAi Pt-LFY:RNAi
ca
Pt-LFY:RNAi
ca
control
st
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Pleiotropy? RNAi:LFY trees had normal vegetative growth
4 4 4 4 4 4 4 4 4 4 4 3 4 4 4 4 40
5
10
15
20
25
30
Aver
age
size
(dia
met
er2 )
Event
Average Size of RNAi:LFY EventsControl LFY
3-12-14
Events with tiny flowers had no differences in tree size, total leaf chlorophyll, leaf density or leaf area as compared to controls
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Site directed mutagenesis, gene targeting, coming along fast
TALENs
CRISPRS
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Site directed mutagenesis might be an ideal method for containment
• Reported highly efficient – biallelic mutations common = complete loss of gene function
• Physical damage to floral gene/s should be far more reliable than modified/suppressed gene expression or protein function
• More predictable from new regenerant to flowering tree to speed breeding, avoid regulatory problems
• Inducible recombinases enable asexual removal from genome?
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Experimental overview
Construct nucleases
Transform poplar plant
material
Induce expression or removal
Grow transformed
plantletsExtract DNA
Detect DNA mutations
by HRM
Sequence to identify
mutations
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Lessons from site-directed mutagenesis of poplar AGAMOUS and LEAFY genes
• Employed four heat-induced ZFNs • ZFNs have deleterious effects on viability
– ZFN transformation rates are low– Some constructs far more deleterious than others
• ZFNs had low rates of mutagenesis– < 0.5% per allele per explant (~260 stable transformants tested
to date)• New gene-targeting technologies better?
– Lower cost, easier cloning– Studies of TALENs and CRISPRs underway
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Summary• GE a powerful technology for trees – no surprise• Gene flow biology makes GE research and
commercial use extremely difficult• Ideology/activism against GE crops/trees and
containment technology amplifies problems• Transgene-induced flowering speeds research, but
compromises phenotypes (RNAi, DNM protein)• RNAi against LFY highly promising• Site directed nucleases so far disappointing (ZFN),
but technology rapidly improving• Valuable new tools, but depth of ideological divide
over GMOs requires social, policy change to matter