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=== Paoletti - Forest Ecology (Presentation) ===
=== Paoletti - Forest Ecology (Presentation) ===
*  Works on all aspect of Agroforestry | support conferences | Host journals ROREST (IF: 1.15)
*  Works on all aspect of Agroforestry | support conferences | Host journals ROREST (IF: 1.15)
* Italy is 6th is Europe on forst coverage
* Italy is 6th is Europe on forest coverage
* 54% is coppicers (choosing trees in forest)
* 54% is coppicers (choosing trees in forest)
* 66% is from Private owners
* 66% is from Private owners
=== Chostri ===
=== Chostri ===
* Welcome and explained about the several congress of Forestry in florence
* Welcome and explained about the several congress of Forestry in florence
* Farming and Forstry, climate change studies will bring great impact to the planet
* Farming and Forestry, climate change studies will bring great impact to the planet
*
=== Yousry A El-Kassaby ===
* Origin of IUFRO
** Next will be in Germany
=== Sally Aitken - Millions of markers, but what is the message ?  ===
* Sub Title: Population genomics of adaptation to climate in conifers
* Theme: '''Adaptree'''
* Climate change create mis-match between populations. Eg: pine and spurce
** Aim: to detect the patterns of local adaptation from genomic data
** Trees do the local adaptation through small effects of many loci
** These were done through GWAS | Taking '''neutral''' population
** Transcriptome -> aligned with whole genome sequence
** In addition did some exon - capture (20 million SNPs in pine and spurce together)
** Choose 1 million SNPs per species based on several filters
** Categorized SNPs based GEA (Genotype-environment association)
** Strong differentiation of North vs South (obviously)
** Took the outliers (SNPs) out and correlated them : Strong positive correlation between pine and spurce (again obvious)
** Looked at LD
*** LD in GWAS: Did with the sub-population and observed the longer LD block, (which is again obvious)
*** LD is skewed if the population is not adjusted (Again obvious fact idiot)
** 6 common genes as outliers (basically major effect genes) in pine and spruce
** Irrelevant last slide
** Full summary is all about obvious facts
* How would you use the genomic data on local adaptation: will use the specific population which is more amenable to adaption to be used in conservation. (??!) . OK Nice. How many of the population is really '''marked''' for conservation???
** These guys really make fun with the Govt Funds.
* Good question
** Time is also factor while dissecting the envt..! correct
** Minor effect  is also a big factor in decision making
 
=8 JUN 2015=
==Mathias - Populus GWAS ==
* Exon Capture and genotyping by targeted sequencing
* Stat
** 18K genes
** Association
*** Lignin and S/G rario -> Got a 120 kb haplotype highly associated with biomass and lignin
*** '''Phenotype prediction workshop''' | Onlien | Free | Augest 2015
** Chlroloplast
*** Interesting - predominant haplotypes
==Barbara - GS in E.benthamii & pellita (Dario Lab)==
* General path
* Population structure
* Ne estimation (54 and 35)
* GBLUP analysis
* PBLUP analysis
== Pine - population structure ==
 
 
=General Take home from Adaptive Population Genomics =
* Multi-clones
* Seeds
* models for Adaptive SNPs across environment
* Stable genotypes
* Hybrids to create as much as variation
 
= Conifer Genomes =
* 3 pines (22, 33, 18 GB genomes )
** NGS way
** Done with Denovo assembly | Version 1.1 released
** Version 2 will be released by end of 2015
* Spruce genome | completed | Denovo assembly
** Millions of scaffold | small to medium gaps
 
=10JUN 2015 =
 
==Quercusr - Leaf morphology association ==
* Some markers based on candidate gene
* Low Fst values and No association
* Phenotypic vatration is explined only 11%
* No marker acccuracy calculated
 
 
==Plant based effector molecules in Micorhyza fungi ==

Latest revision as of 09:45, 10 June 2015

8 JUN 2015

  • Registration

Introduction

Speach by G. Surico (Italian)

  • Welcoming the IURO family
  • Florence Univ is one of the best for Science and Technology and Research
  • One has to understand the food for the planet should be seen as wealth of the planet in terms of plants and biodiversity
  • Welome all to the beautiful city with exciting discussions.

Speech by Loreto (English)

  • Importance of conference
  • About CNR EXPO (with 200 scientists all over the world

Chanco | Chairman of Italian Academy of Sciences (Italian)

  • Talks on Biology, its diversification | Central dogma of Research in Biology
  • Need for heterogenicity | the complexity of biology

Speech by Scaramuzzi - Director of Biology (Italian)

  • Orgin of Academy of science in Italy (206 years back)
  • Importance of Agriculture and need for feeding the planet
  • I was a tree grower and I am proud of it.
  • Hope on Molecular biology

Veronesi (Chariman of Agricultural society )

  • Declares that he is the specialists of tree genetics
  • Knowledge should be published
  • Have a positive attitude

Paoletti - Forest Ecology (Presentation)

  • Works on all aspect of Agroforestry | support conferences | Host journals ROREST (IF: 1.15)
  • Italy is 6th is Europe on forest coverage
  • 54% is coppicers (choosing trees in forest)
  • 66% is from Private owners

Chostri

  • Welcome and explained about the several congress of Forestry in florence
  • Farming and Forestry, climate change studies will bring great impact to the planet

Yousry A El-Kassaby

  • Origin of IUFRO
    • Next will be in Germany

Sally Aitken - Millions of markers, but what is the message ?

  • Sub Title: Population genomics of adaptation to climate in conifers
  • Theme: Adaptree
  • Climate change create mis-match between populations. Eg: pine and spurce
    • Aim: to detect the patterns of local adaptation from genomic data
    • Trees do the local adaptation through small effects of many loci
    • These were done through GWAS | Taking neutral population
    • Transcriptome -> aligned with whole genome sequence
    • In addition did some exon - capture (20 million SNPs in pine and spurce together)
    • Choose 1 million SNPs per species based on several filters
    • Categorized SNPs based GEA (Genotype-environment association)
    • Strong differentiation of North vs South (obviously)
    • Took the outliers (SNPs) out and correlated them : Strong positive correlation between pine and spurce (again obvious)
    • Looked at LD
      • LD in GWAS: Did with the sub-population and observed the longer LD block, (which is again obvious)
      • LD is skewed if the population is not adjusted (Again obvious fact idiot)
    • 6 common genes as outliers (basically major effect genes) in pine and spruce
    • Irrelevant last slide
    • Full summary is all about obvious facts
  • How would you use the genomic data on local adaptation: will use the specific population which is more amenable to adaption to be used in conservation. (??!) . OK Nice. How many of the population is really marked for conservation???
    • These guys really make fun with the Govt Funds.
  • Good question
    • Time is also factor while dissecting the envt..! correct
    • Minor effect is also a big factor in decision making

8 JUN 2015

Mathias - Populus GWAS

  • Exon Capture and genotyping by targeted sequencing
  • Stat
    • 18K genes
    • Association
      • Lignin and S/G rario -> Got a 120 kb haplotype highly associated with biomass and lignin
      • Phenotype prediction workshop | Onlien | Free | Augest 2015
    • Chlroloplast
      • Interesting - predominant haplotypes

Barbara - GS in E.benthamii & pellita (Dario Lab)

  • General path
  • Population structure
  • Ne estimation (54 and 35)
  • GBLUP analysis
  • PBLUP analysis

Pine - population structure

General Take home from Adaptive Population Genomics

  • Multi-clones
  • Seeds
  • models for Adaptive SNPs across environment
  • Stable genotypes
  • Hybrids to create as much as variation

Conifer Genomes

  • 3 pines (22, 33, 18 GB genomes )
    • NGS way
    • Done with Denovo assembly | Version 1.1 released
    • Version 2 will be released by end of 2015
  • Spruce genome | completed | Denovo assembly
    • Millions of scaffold | small to medium gaps

10JUN 2015

Quercusr - Leaf morphology association

  • Some markers based on candidate gene
  • Low Fst values and No association
  • Phenotypic vatration is explined only 11%
  • No marker acccuracy calculated


Plant based effector molecules in Micorhyza fungi

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