1. Sequencing and
Genotyping Platform
Applications
Facilities & Services
Massimo Pindo, PhD
massimo.pindo@fmach.it
Sequencing & Genotyping Platform
Edmund Mach Foundation

2. Edmund Mach Foundation (since 2007)
Inheritance of Ist. Agrario San Michele a/A since 1874
A non for profit organization with private legal status and
over 750 staff operating in several sites in the Trentino
province
It provides Research, Education,Technology Transfer and
Advisory Service in the Agri-Food and Environmental
sectors.

3. FEM Research and Innovation Centre

4. Mission:
The Sequencing and Genotyping Platform takes part in the research and development activity of the CRI by
offering support at the researchers activity and with the development of new methods of experimental investigation. The first
purpose of the Platform is the development of new investigative methods, with the acquisition of new knowledge in the green
biotechnology field and the continuous improvement of present and future instruments.
Platform facilities
Platform Services
Platform Equipment

5. Genomics and Biology of Fruit Crops
Germplasm platform
Apple:
- 13.4 ha for apple breeding + germplasm collection
- 1,200 accessions (wild and cultivated spp.)
- 54,000 genotypes under evaluation /several mapping population
(quality and pyramidation of resistances)
- 8,000 genotypes in greenhouse
Grape:
- 4.5 ha for grapevine breeding + germplasm collection
- 1,900 accessions (wild, hybrids and cultivated)
- 12,000 new crosses (crosses, selected individuals or
large mapping populations) resistances with high quality standards
Softfruits:
- 2.5 ha for raspberry & blueberry breeding + germplasm
- 104 strawbeery accessions
- 140 blueberry accessions (20,000 seedlings/48 crosses)
- 240 raspberry accessions (14,300 seedlings/110 crosses)

6. MAS 2013 AT FEM
24 APPLE CROSSES
6.471 PLANTS - 8.068 GENOTYPING ASSAY
CROSS
SELECTED FOR:
12.1
12.3
12.4
12.5
12.6
12.8
12.9
12.10
12.11
12.12
12.14
12.15
12.16
12.17
12.18
12.19
12.20
12.21
12.24
12.27
12.28
12.29
12.30
12.31
disesase resistance
texture
texture and ethylene
disesase resistance
disesase resistance
disesase resistance
ethylene
disesase resistance
texture
ethylene
disesase resistance
disesase resistance
disesase resistance and texture
disesase resistance
texture
disesase resistance
disesase resistance
disesase resistance and ethylene
disesase resistance
ethylene
disesase resistance and texture
disesase resistance
ethylene
ethylene
GENE
Vf
Pl1
Md-PG1
Md-PG1 Md-ACO1
Vf
Vf
Vf
Md-ACO1
Vf
Md-PG1
Md-ACO1
Vh4
Vh2
Vf
Md-PG1
Vf
Vr2
Md-PG1
Vf
SAMPLES TESTED
Vf
Pl1
Vf
Md-ACO1
Vf
Vr2
Md-ACO1
Vf
Md-PG1
Vf
Md-ACS1
Md-ACO1
69,51%
Plants with desiderable traits

7. Marker Assisted Breeding at FEM
MASTER TRAITS
(ie: Resistance, Texture, Storage)
- MAB consultant (management system)
- gold standard markers
- well optimazed flowthrough

8. Marker Assisted Breeding at FEM
STEP 1
Seedling layout
STEP 2
Sample collection
STEP 3
Run Analysis

9. People:
Sequencing and
Genotyping Platform
Erika Stefani
Daniela Nicolini
Next Gen. Sequencing
Next Gen. Sequencing
Next Gen. Sequencing and
Next Gen. Sequencing and
Protocol Setting
Protocol Setting
Whole Genome Seq.
Whole Genome Seq.
Target Reseq.
Target Reseq.
Metagenomics
Metagenomics
Transcriptome Seq.
Transcriptome Seq.
Shot gun & PE gDNA library
Shot gun & PE gDNA library
Amplicon Library
Amplicon Library
Next Gen. Sequencing
Next Gen. Sequencing
Application
Application
Massimo Pindo
Simone Larger
Elisa Banchi
Genotyping &
Genotyping &
Robotic Platform
Robotic Platform
DNA & RNA extraction
DNA & RNA extraction
Capillary Sequencing
Capillary Sequencing
Mid- to High-plex Genotyping
Mid- to High-plex Genotyping
Lara Poles

10. People:
Sequencing and
Genotyping Platform
Erika Stefani
Daniela Nicolini
Next Gen. Sequencing
Next Gen. Sequencing
Next Gen. Sequencing and
Next Gen. Sequencing and
Protocol Setting
Protocol Setting
Whole Genome Seq.
Whole Genome Seq.
Target Reseq.
Target Reseq.
Metagenomics
Metagenomics
Transcriptome Seq.
Transcriptome Seq.
Shot gun & PE gDNA library
Shot gun & PE gDNA library
Amplicon Library
Amplicon Library
Next Gen. Sequencing
Next Gen. Sequencing
Application
Application
Massimo Pindo
Simone Larger
Elisa Banchi
Genotyping &
Genotyping &
Robotic Platform
Robotic Platform
DNA & RNA extraction
DNA & RNA extraction
Capillary Sequencing
Capillary Sequencing
Mid- to High-plex Genotyping
Mid- to High-plex Genotyping
Lara Poles