8 fem fruit breedomics mab services pindo massimo

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  • 1. Sequencing and Genotyping Platform Applications Facilities & ServicesMassimo Pindo, PhD massimo.pindo@fmach.itSequencing & 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 facilitiesPlatform ServicesPlatform 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 CROSSSELECTED 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 12.31disesase 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 ethyleneGENE VfPl1Md-PG1Md-PG1 Md-ACO1 VfVfVfMd-ACO1VfMd-PG1Md-ACO1Vh4Vh2VfMd-PG1VfVr2Md-PG1VfSAMPLES TESTEDVfPl1VfMd-ACO1VfVr2Md-ACO1VfMd-PG1VfMd-ACS1Md-ACO169,51%Plants with desiderable traits 7. Marker Assisted Breeding at FEMMASTER TRAITS (ie: Resistance, Texture, Storage)- MAB consultant (management system) - gold standard markers - well optimazed flowthrough 8. Marker Assisted Breeding at FEMSTEP 1 Seedling layoutSTEP 2 Sample collectionSTEP 3 Run Analysis 9. People: Sequencing and Genotyping PlatformErika StefaniDaniela NicoliniNext Gen. Sequencing Next Gen. SequencingNext Gen. Sequencing and Next Gen. Sequencing and Protocol Setting Protocol SettingWhole 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 ApplicationMassimo PindoSimone LargerElisa 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 GenotypingLara Poles 10. People: Sequencing and Genotyping PlatformErika StefaniDaniela NicoliniNext Gen. Sequencing Next Gen. SequencingNext Gen. Sequencing and Next Gen. Sequencing and Protocol Setting Protocol SettingWhole 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 ApplicationMassimo PindoSimone LargerElisa 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 GenotypingLara Poles