Massimo Pindo, PhD Sequencing & Genotyping Platform massimo.pindo@fmach.it Edmund Mach Foundation

Sequencing andGenotyping Platform

ApplicationsFacilities & Services

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.

FEM Research and Innovation Centre

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 Services Platform facilities Platform Equipment

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)

Genomics and Biology of Fruit Crops

CROSS SELECTED FOR: GENE

12.1 disesase resistance Vf Pl1

12.3 texture Md-PG1  

12.4 texture and ethylene Md-PG1 Md-ACO1

12.5 disesase resistance Vf  

12.6 disesase resistance Vf  

12.8 disesase resistance Vf  

12.9 ethylene Md-ACO1  

12.10 disesase resistance Vf  

12.11 texture Md-PG1  

12.12 ethylene Md-ACO1  

12.14 disesase resistance Vh4  

12.15 disesase resistance Vh2  

12.16 disesase resistance and texture Vf Md-PG1

12.17 disesase resistance Vf Vr2

12.18 texture Md-PG1  

12.19 disesase resistance Vf  12.20 disesase resistance Vf Pl1

12.21disesase resistance and

ethyleneVf Md-ACO1

12.24 disesase resistance Vf Vr2

12.27 ethylene Md-ACO1  

12.28 disesase resistance and texture Vf Md-PG1

12.29 disesase resistance Vf  

12.30 ethylene Md-ACS1  12.31 ethylene Md-ACO1  

MAS 2013 AT FEM24 APPLE CROSSES

6.471 PLANTS - 8.068 GENOTYPING ASSAY

Plants with desiderable traits

SAMPLES TESTED

69,51%

MASTER TRAITS(ie: Resistance, Texture,

Storage)

Marker Assisted Breeding at FEM

- MAB consultant (management system)

- gold standard markers - well optimazed flowthrough

STEP 1Seedling layout

STEP 2Sample collection

STEP 3Run Analysis

Marker Assisted Breeding at FEM

Next Gen. Sequencing

Whole Genome Seq.Target Reseq.MetagenomicsTranscriptome Seq.

Next Gen. Sequencing

Whole Genome Seq.Target Reseq.MetagenomicsTranscriptome Seq.

Genotyping &Robotic Platform

DNA & RNA extractionCapillary SequencingMid- to High-plex Genotyping

Genotyping &Robotic Platform

DNA & RNA extractionCapillary SequencingMid- to High-plex Genotyping

Next Gen. Sequencing and Protocol Setting

Shot gun & PE gDNA libraryAmplicon LibraryNext Gen. Sequencing Application

Next Gen. Sequencing and Protocol Setting

Shot gun & PE gDNA libraryAmplicon LibraryNext Gen. Sequencing Application

Massimo Pindo

Sequencing andGenotyping

Platform

Erika Stefani Daniela Nicolini

Simone Larger

People:

Elisa Banchi Lara Poles