1. Centre of Plant Structural and Functional Genomics
Jaroslav Doležel
Institute of Experimental Botany Olomouc, Czech Republic,

2. Musa genotyping platform
Flow cytometry
and
19 SSR loci
Fluorescent labels (5 dyes)
Capillary electrophoresis
ITC 0143 Chibulanana (AAB Plantain)
SSR genotyping
Precision scoring
Reproducibility
Comparability in time
Multiplexing (4 markers)
Christelová et al., AoB Plants 2011: plr024

3. Musa genotyping platform
To date:
1058 accessions genotyped
450 SSR alleles
Range 11 – 42 / marker
591 accessions form a core subset:
No conflict between morphological and molecular characterization
Materials genotyped:
ITC Collection
Collection missions
Ad hoc samples
Breeding populations

4. Genetic diversity of Musa
Diversity tree of the core subset accessions

5. Genotyping a breeding population
A weevil resistance breeding program population
190 accessions genotyped (SSR)
Allele scores for mMaCIR01 locus in a subset of the population (incl. parents Kasaska and Borneo, and F1):

6. Sequencing plantain genomes
Two contrasting types:
ITC0203 NIABANG – French type
ITC HANDS PLANTY – Horn type
Illumina HiSeq 2x250bp paired-end reads (50x coverage)
Dovetail Genomics Chicago and Hi-C scaffolding (HiRise) for 3 Hands Planty
In progress (to improve genome assembly)
BioNano optical map
After the Dovetail assembly is finished
DNA level polymorphism
First 96 SNPs in genic regions identified
Search for specific differences between the 2 types
Flowering genes cascade (flower onset, regulation, etc.), in progress
Epigenetic profiling

7. Dovetail Genomics technology
Improvement of illumina shotgun assemblies:
Chicago library sequencing and HiRise scaffolder
Dovetail Hi-C and HiRise scaffolder

8. Optical mapping BioNano Genomics IRYS system
Improvement of genome sequence assembly
Structural and copy number variation

9. Our team Eva Hřibová Pavla Christelová Jana Čížková Moses Nyine
Alžběta Němečková
Marie Seifertová