Decoding the oak genome

Chêne givréThe 1.5 Gbp genome of pedunculate oak (Quercus robur) has been sequenced. The released high-quality draft genome provides an invaluable resource for studies of the genomic patterns of divergence between oak species and determination of the genetic basis and mechanisms of reproductive isolation. It will also promote downstream genetic applications and catalyze future studies dealing with fundamental questions relating to forest tree adaptation. For more information read: Decoding the oak genome: public release of sequence data, assembly, annotation and publication strategies, by Christophe Plomion et al.

Master FAGE seminars

Four Inter-Lab Seminars
supported by Labex ARBRE in partnership with the Master FAGE program (University of Lorraine and AgroParis Tech)

8 November 2013

13h30 to 16h30

INRA Nancy centre, Champenoux

The four seminars will be held in the afternoon, presented successively by :

Jens Abildtrup (INRA Nancy-Lorraine, Laboratoire d’Economie Forestière – LEF) –
“The recreative value of forests : Assessment and policy implications”.

Raphphael Calama (Instituto Nacional de Investigacion y Tecnologia Agraria y Alimentaria INIA, Espagne) – “Research and management of nonwood forest products”.

Rubén Manso (INRA Nancy-Lorraine, Laboratoire d’Etudes des Ressources Forêt-Bois – LEFORB) – “Individual growth and mortality in mixed stands of oak and beech”.
“The recreative value of forests : Assessment and policy implications”.

Mathieu Fortin (AgroParis Tech, Laboratoire d’Etudes des Ressources Forêt-Bois – LEFORB) – “Simulating forest growth from trees to stands”.


Program description – Master FAGE
Masters in Biology, Forest Ecology, Agronomy and Environmental studies (FAGE)(Université de Lorraine – AgroParisTech)

The scientific objective of FAGE is to give students who have already completed beginning studies in biology, chemistry or earth sciences the necessary training in biological concepts specific to the fields of applilcation and mastery of the tools (communication, experimentation, inquiry, interpretation of data) essential for research and management approaches. The goal of the training is also to encourage students to consider societal demands on todays scientific community, with particular emphasis on sustainable development tools.

From the perspective of integrative biology, training is focused on molecular and cellular biology, microbiology, genetics, physiology and ecophysiology.  From the perspective of ecological analysis, training will focus on functional tools in ecology, pedology, poplulations ecology, communities and landscapes. And from an analytical perspective aimed at productive systems training will focus on the design, measurement and modeling for performance and sustainability indicators.


WADE Seminar

Alexander Kirdyanov et Marina Bryukhanova

25 October  from 10h00-12h00

Salle Tilleul – INRA Nancy center,  Champenoux


On October 25th, we are pleased to announce that we will welcome to INRA Alexander Kirdyanov and Marina Bryukhanova from the E. Vaganov group (Sukachev Institute of Forests, Krasnoyarsk).  E. Vagonov is a respected and well known researcher in the field of wood formation. He is also known for his book published in 2006.

This seminar is supported by the WADE project and by Labex ARBRE.

Résumé Alexander Kirdyanov:

Dendro-science in Siberia. Case studies from the Tree-Ring Structure Lab (Institute of Forest, Krasnoyarsk, Russia)

Tree-rings were shown to provide comprehensive information on the environmental changes and physiology of tree functioning. The Laboratory of Tree-Ring Structure at the Sukachev Institute of Forest, Krasnoyarsk Russia is focused on extracting and interpreting this information with the goals to understand the impact of environment on tree growth and forest productivity. A short overview of some recent and current studies will be provided to show the main topics of interest and the potential of the Lab: transect studies, use of multi-proxy approach (tree-ring cell structure, density and isotope composition), studies on permafrost, etc. Examples will vary on both spatial (from one stand to continental) and temporal scale (seasonal growth with the resolution of 3-7 days to multi-millennia dendroclimatic reconstructions).

Résumé Marina Bryukhanova:
Growth of trees on permafrost: habitat driven response to climate

Global change is expected to alter boreal forest conditions with far reaching consequences for tree growth in these ecosystems. Within this study we aimed at determining which limiting factors control tree-growth on permafrost under different site conditions.
A tree-ring multi-proxy characterisation of mature Larix gmelinii (Rupr.) Rupr. from a continuous permafrost zone of Siberia (Russia, 64°18′ N, 100°11′ E) was used to identify the physiological principle of responses related to the plant-soil system. Tree-ring width (1975-2009), carbon and oxygen stable isotopes, and xylem structural characteristics (2000-2009) indicated that an increased depth of the soil active layer favors a better exploitation of the available resources.


The WADE project
Wood Acclimation to Disturbed Environments

ContextWood quality is variable and used by dendrochronology as a marker of past events. A better understanding of wood plasticity require new modeling approaches, as tree responses in frequently and strongly changing environments overlay many processes. Therefore, neither the usual modeling of wood properties from variables as tree ring width and cambial age, nor the empirical calibration of a few wood properties as markers of tree functioning and environmental disturbances, deliver robust and reliable predictions.

Objectives Wade aims at developing a new framework of wood analysis and quality modeling in the context of questions asked by acclimation to canopy disturbance.

Approaches — WADE is based on a multi-scale approach of wood structure and properties from the whole tree to the cell wall ultrastructure and chemical composition, with a large set of techniques including usual and new methods of both dendro-ecology and wood biophysics and chemistry. It includes a careful theoretical analysis of the functional relevance of the selected properties and of their spatio-temporal patterns of variations, using an ecophysiological and biomechanical framework to study how trees respond to changes of both light and mechanical micro-climate after gap opening.

PI: Meriem Fournier (UMR 1092 LERFOB Laboratoire d’Etudes des Ressources Forêts-Bois )

Presentation seminar for the EMERGE and SYLVABIOM projects

You are cordially invited to attend all or part of this presentation seminar supported by Labex ARBRE

Conference room at INRA Nancy center, Champenoux

18 September 2013, 10h00 – 18h00
19 September 2013,  8h30 – 16h00



Wednesday – September 18, 2013

10h Welcome coffee
10h30 – 11h30Outline of Emerge, objectives and database.
11h30 -13h : Volume models : total volume, stem volume, coefficients of expansion, bark coefficients.
13h-14h :  Lunch break at the cantine
14h-14h30 : Initial context perspectives : resource potential, population potential
14h30-15h30 : Scanner and fresh weight density
15h30-16h:  Coffee break
16h-18h : Ground-based laser and outdoor demo followed by ;

  • volume estimations and biomechanics
  • uses pertaining to stock
  • Computree project platform and algorithmic developments

Thursday,  September 19, 2013

8h30-10h : Models of biomass and mineralomass
10h-10h30 : Coffee break
10h30-13h : Sylvabiom

  • Context and results of TtCR production of Poplars, Willow and Black Locust over four seasons of vegetation.
  • Variability and plasticity of the efficiency of the use of water and nitrogen in the Willow family grown in TtCR.
  • DNA Methylation, a descriptor of suitability for producing biomass in TtCR

13h-14h : Lunch break in the cantine
14h-16h : Sylvabiom : potential for total biomass production of fast-growing woody species cultivated in short-rotation trees.

16h-16h30 :  Coffee break and closing


Science, precautionary principles, place of the future

Francis Martin, Director of LabEx ARBRE and researcher with the IAM unit, participated recently in a meeting with the President of the Republic and the Ministers in charge of research and ecology. The meeting was entitled “Science, precautionary principles, place of the future”.

At a luncheon, five researchers were invited to give their views on the consequences of the application of the principle of precaution on scientific activities in different fields: biology, genetic, ecology, climate change and nuclear physics. Exchanges were designed to support the reflection of the Executive office on the implementation of this principle written into law February 2, 1995.

Joining Francis Martin were guests Edouard Brézin (physicist, president of the Academy of Sciences), Gilles Bœuf (biologist, president of the national Museum of natural history), Jean Jouzel (climatologist, Chairman of the High Council on science and technology) and Eva Pebay-Peyroula (biologist, former President of the ANR). The Ministers in charge of higher education and research (Geneviève Fioraso) and ecology (Philippe Martin) also attended the meeting which took place on Tuesday, August 20 at the Elysee.

An INRA-JGI Bastille Day tribute!

In the spirit of Bastille Day, longtime collaborator Francis Martin, head of the Lab of Excellence for Advanced Research on the Biology of Tree and Forest Ecosystems at INRA, the French National Institute of Agricultural Research, enthuses (in French with English subtitles) about the Joint Genome Institute’s contributions to the field of fungal genomics.