genetic improvement of bananas with enhanced resistance...
TRANSCRIPT
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Genetic Improvement of
Bananas with Enhanced
Resistance to Pathogens and
Pests
Leena Tripathi
International Institute of Tropical Agriculture, Nairobi, Kenya
IPBO Conference, Ghent, 30-31 August 2018
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Banana
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Yield Gap in Banana Production
Matooke Plantain
30 t/ha/year
7.8 t/ha/year
70 t/ha/year
35.5 t/ha/year
Current Potential
Ranges
from 5 to
30t/ha/year
Source: Rony Swenen, Banana Breeder at IITA
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Banana: Diseases & Pests
Black Sigatoka Fusarium wilt Nematode Weevil
Bacterial wilt Banana bunchy top Banana streak virus
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we need better and more
efficient ways for crop
improvement
With increasing demand for
closing yield gaps...
one option is through
Biotechnology
Banana Improvement
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• BXW caused by Xanthomonas campestris pv. musacearum.
Tripathi et al. 2009, Plant Disease
Banana Xanthomonas Wilt (BXW)
Wasukira et al. 2012, Genes
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Tripathi et al. 2009, Plant Disease
Symptoms of BXW Disease
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Tripathi et al. 2009, Plant Disease
Xanthomonas Wilt Disease: Spread
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Banana Production Loss due to BXW
Ainembabazi et al. 2015 Plos One
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• Overall economic losses were estimated at $2 billion to $8 billion over a decade.
• BXW attacks all banana varieties resulting in absolute crop loss.
• Resistance has been the best and most cost-effective method of managing diseases.
• No resistance source of germplasm.
Control of BXW
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• Pflp (plant ferredoxin-like protein) and Hrap (HR assisting
protein) are defence genes from Capsicum annuum.
• Elicitor-induced resistance based on HR.
• These genes are effective against many bacterial
pathogens, such as, Erwinia, Pseudomona, Ralstonia
and Xanthomonas spp.
Transgenic Approach
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Transgenic Banana
Tripathi et al. 2010 Mol Plant Pathol
Namukwaya et al. 2012 Transgenic Research
Tripathi et al 2007 Eur. J Plant Pathology
Adikini et al. 2011 Plant Pathology
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• 65 transgenic lines were planted in CFT
• BXW disease evaluation
• Agronomic performance
Confined Field Trial
Nature News 2010; Nature Biotech News 2011
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Disease Evaluation
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BXW Resistant Lines
• 11 lines (7 Hrap lines and 4 Pflp lines) showed 100%
resistance in field for 3 generations.
• Aside from full resistance to BXW, the transgenic lines also
showed yield comparable to non-transgenic varieties.
Tripathi et al. 2014, Nature Biotech
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Trait Durability
• 10 lines (7 Hrap and 3 Pflp) with more replicates were
further evaluated in 2nd CFT in Uganda.
• All transgenic lines tested showed resistance to BXW.
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Product Development
• Single gene resistance can
break down
• Durable and enhance resistance
– Gene pyramiding
• Transformation – matooke varieties in Uganda
• Transgenic bananas with
stacked genes for durable
resistance to BXW
– Hundreds of lines developed
– Tested in glasshouse trial
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Food Safety
No convincing evidence was
found to suggest that the HRAP
or PFLP proteins represent risks
of allergy or toxicity to humans.
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Non-target Effect of PFLP and HRAP
• The expression of Pflp and Hrap genes did not show any
effect on non-target microorgansms in soil.
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Potential Adoption of GMB-BXW
Willingness to adopt GMB-BXW
Projected adoption rate of GM BXW
resistant banana
Ainembabazi et al. 2015 Plos One
This study based on cost
estimates and benefits suggests
that investment in development of
GMB-BXW is not only essential
but also economically viable.
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Transgenic expression of the rice Xa21
pattern-recognition receptor in banana
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Generation and Evaluation of
Transgenic Plants
Tripathi et al. 2014 Plant Biotech J
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BXW Resistant vs Susceptible Genotypes
Pis
an
g a
wak
Mu
sa b
alb
isia
na
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• Vicilin-like antimicrobial peptide
• SWEET14
• Early nodulin-like protein
• R genes
• Pathogen-recognition receptors (PRR)
Validation of Musa Genes for
Resistance to BXW
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Nematodes
• Nematode losses 57% yield to banana in
Africa
• Several species occur in the same soils
– Radopholus similis, Pratylenchus spp,
Helicotylenchus spp, Meloidogyne spp,
Rotylenchulus reniformis
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Field Resistance of GM Plantain to
Nematodes
• Twelve promising lines were planted in CFT in Uganda
for evaluation.
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Nematode Densities
Vegetative growth At flowering
At harvest Tripathi et al. 2015 Scientific Reports
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Nematode Resistance
Tripathi et al. 2015 Scientific Reports
0%
20%
40%
60%
80%
100%
+nem D12 D30 D46 C15 P53 P46 C6 P78 D66 D14 P48 P77
% R
esis
tance
to
nem
ato
de
s
harvest ** *** *** *** *** *** *** *** *** *** *** ***
flowering * ** *** ** ** *** *** *** *** ***
growth * ** ** ** *** ** *** ***
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• Developing transgenic bananas
resistant to-
• BBTV and
• Aphids
Adults collected
Banana Bunchy Top Virus
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Genome Editing of Banana
Genome edited banana
• Clustered regulatory interspaced
short palindromic repeats
(CRISPR) is a useful tool for
genome editing.
• It could mutate several genes at
the same time in precise manner.
Control Plants
• Knockouts
• Replacement
• Insertion
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Banana Streak Virus
• Banana streak virus (BSV) is a plant pathogenic virus of the family Caulimoviridae and genus Badnavirus.
• BSV is dsDNA Reverse Transcribing Viruses.
• Badnaviruses have shown to integrate into their host genomes.
• It has been shown that genomic sequences are integrated into the genomic DNA of Musa and Ensete.
• Traditional techniques for virus eradication, such as meristem tip culture, are not appropriate.
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• Integration only occur in cultivars/ hybrids with the B
genome.
• BSV infection may arise from the activation of viral
sequences that are integrated into the banana genome.
• Tissue culture and hybridization through conventional
breeding may be triggers for the activation.
BSV present in two forms
Integrated Episomal Stress
Banana Streak Virus
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CRISPR/Cas9 Construct
eBSOLV ( 23.6 Kb)
CRISPR/Cas9 Construct
BSV (7.39 Kb)
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Analysis of Banana Mutant Lines
A) Banana mutants. B) PCR analysis for integration of T-DNA in transgenic lines using
primers designed from Cas9 sequence.
A B
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PCR was performed with primers flanking two gRNAs in ORF1 and ORF2.
PCR analysis of GE Banana
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• GE and control wild type plants were potted.
• Plants were stressed.
• No BSV symptoms were developed on several of the GE
events.
• Frame-shift mutations in all three ORFs should have
disrupted functions of several genes.
Phenotyping of GE Banana
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Communication
Food
Evolution
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• GM approaches shows enormous potential for development
of varieties resistant to diseases & pests.
• GE is emerging powerful tool for crop improvement.
• There are several GM products on horizon for Africa.
Conclusions
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Acknowledgements
Partners
• NARO-Uganda
• KALRO- Kenya
• AATF- Kenya
• University of Leeds, UK
• QUT, Australia
• Academia Sinica, Taiwan
• University of Nebraska
Financial Support
• CGIAR Research Program
• Gatsby Charitable Foundation
• USAID
• Bill & Milinda Gates Foundation
Plant Transformation
Lab at IITA