A5044065642- Forest ecology and management
- Genetic diversity and population structure
- Ecology and Vegetation Dynamics Studies
- Tree-ring climate responses
- Fern and Epiphyte Biology
- Bacterial Identification and Susceptibility Testing
- Plant Pathogens and Fungal Diseases
- Plant and animal studies
- Forest Ecology and Biodiversity Studies
- Species Distribution and Climate Change
- Plant Water Relations and Carbon Dynamics
- Mycorrhizal Fungi and Plant Interactions
- Genomics and Phylogenetic Studies
- Mediterranean and Iberian flora and fauna
- Genetic and phenotypic traits in livestock
- Botany and Plant Ecology Studies
- Infective Endocarditis Diagnosis and Management
- Bryophyte Studies and Records
- Antifungal resistance and susceptibility
- Lichen and fungal ecology
- Horticultural and Viticultural Research
- Plant Diversity and Evolution
- Mycobacterium research and diagnosis
- Plant Taxonomy and Phylogenetics
- Remote Sensing and LiDAR Applications
Swiss Federal Institute for Forest, Snow and Landscape Research
2018-2024
Praxis
2022
University of Neuchâtel
2014-2021
Télécom Paris
2019
Laboratoire Traitement et Communication de l’Information
2019
Kyoto College of Graduate Studies for Informatics
2018
Kyoto University
2018
University of California, Berkeley
2017
Paris Biotech Santé
2012-2014
Assistance Publique – Hôpitaux de Paris
2011-2013
Abstract The dataset presented here was collected by the GenTree project (EU-Horizon 2020), which aims to improve use of forest genetic resources across Europe better understanding how trees adapt their local environment. This individual tree-core characteristics including ring-width series and whole-core wood density for seven ecologically economically important European tree species: silver birch ( Betula pendula ), beech Fagus sylvatica Norway spruce Picea abies black poplar Populus nigra...
In nature conservation, there is keen interest in predicting how populations will respond to environmental changes such as climate change. These predictions can help determine whether a population be self-sustaining under future alterations of its habitat or it may require human intervention protection, restoration, assisted migration. An increasingly popular approach this respect the concept genomic offset, which combines and data from different time points and/or locations assess degree...
Matrix-associated laser desorption ionization-time of flight mass spectrometry (MALDI-TOF MS) is a rapid and simple microbial identification method. Previous reports using the Biotyper system suggested that this technique requires preliminary extraction step to identify Gram-positive rods (GPRs), technical issue may limit routine use pathogenic GPRs in clinical setting. We tested accuracy MALDI-TOF MS Andromas strategy set 659 GPR isolates representing 16 bacterial genera 72 species by...
Abstract The ongoing increase in global temperature affects biodiversity, especially mountain regions where climate change is exacerbated. As sessile, long‐lived organisms, trees are challenged terms of adapting to rapid change. Here, we show that low rates allele frequency shifts Swiss stone pine ( Pinus cembra ) occurring near the treeline result high genomic vulnerability future warming, presumably due species’ long generation time. Using exome sequencing data from adult and juvenile...
The effect of past environmental changes on the demography and genetic diversity natural populations remains a contentious issue has rarely been investigated across multiple, phylogenetically distant species. Here, we perform comparative population genomic analyses demographic inferences for seven widely distributed ecologically contrasting European forest tree species based concerted sampling 164 their ranges. For all species, effective size, N
Abstract Aim Knowing a species' response to historical climate shifts helps understanding its perspectives under global warming. We infer the hitherto unresolved postglacial history of Pinus cembra. Using independent evidence from genetic structure and demographic inference extant populations, palaeoecological findings, we derive putative refugia re‐colonisation routes. Location European Alps Carpathians. Taxa Methods genotyped nuclear chloroplast microsatellite markers in nearly 3000...
Abstract The effect of past environmental changes on the demography and genetic diversity natural populations remains a contentious issue has rarely been investigated across multiple, phylogenetically distant species. Here, we performed comparative population genomic analyses demographic inferences for seven widely distributed ecologically contrasted European forest tree species based concerted sampling 164 their ranges. For all species, effective size, N e , increased or remained stable...
• Premise of the study: Previous phylogenetic studies moonworts ( Botrychium sensu stricto (s.s.)) included few taxa from outside North America. This low geographical representation limited interpretations relationships this group rich in cryptic species. With 18 out 30 species genus being polyploid, understanding their evolutionary history remains a major challenge. Methods: A new molecular phylogeny was reconstructed using Maximum Likelihood (ML) and Bayesian Inference (BI) analyses based...
Societal Impact Statement Forest trees tend to be strongly genetically adapted their local environments, but climate change will probably subject novel combinations of precipitation, temperature, and photoperiod. Local adaptation was investigated in the ecologically economically important Patagonian tree species Nothofagus pumilio by characterizing its genetic diversity relation varied environmental conditions across range. These insights are useful for conservation management decisions,...
It is generally accepted that the spatial distribution of neutral genetic diversity within a species' native range mostly depends on effective population size, demographic history, and geographic position. However, it unclear how at adaptive loci correlates with peripherality or habitat suitability ecological niche. Using exome-wide genomic data maps Alpine range, we first tested whether four measures > 17,000 SNP in 24 populations (480 individuals) Swiss stone pine (Pinus cembra) from...
The moonwort genus, Botrychium s. s., includes diploid and polyploid taxa that occur primarily in the northern hemisphere. Their evolutionary history, morphologically cryptic deep divergence of family phylogeny ferns has long fascinated pteridologists. Previous molecular studies did not include a complete taxonomic sampling nor multiple specimens from throughout known geographical range each taxon. Therefore, to investigate relationships major clades we increased both representativeness...
Despite decreasing sequencing costs, whole-genome for population-based genome scans selection is still prohibitively expensive organisms with large genomes. Moreover, the repetitive nature of genomes often represents a challenge in bioinformatic and downstream analyses. Here, we use in-depth transcriptome to design probes exome capture Swiss stone pine (Pinus cembra), conifer an estimated size 29.3 Gbp no reference available. We successfully applied around 55,000 self-designed probes,...
Arbuscular mycorrhizal fungi (AMF) play central roles in terrestrial ecosystems by interacting with both above and belowground communities as well influencing edaphic properties. The AMF associated the roots of fern Botrychium lunaria (Ophioglossaceae) were sampled four transects at 2400 m a.s.l. Swiss Alps analyzed using metabarcoding. Members five Glomeromycota genera identified across 71 samples. Our analyses revealed existence a core microbiome composed abundant Glomus operational...
Abstract Motivation Trait variation within species can reveal plastic and/or genetic responses to environmental gradients, and may indicate where local adaptation has occurred. Here, we present a dataset of rangewide in leaf traits from seven the most ecologically economically important tree Europe. Sample collection trait assessment are embedded GenTree project (EU‐Horizon 2020), which aims at characterizing phenotypic variability forest optimize management sustainable use resources. Our...
New mutations provide the raw material for evolution and adaptation. The distribution of fitness effects (DFE) describes spectrum new that can occur along a genome, is, therefore, vital interest in evolutionary biology. Recent work has uncovered striking similarities DFE between closely related species, prompting us to ask whether there is variation among populations same or species with different degrees divergence, at levels evolution. Using exome capture data from six tree sampled across...
We trace the development of our understanding regarding mating systems moonworts (i.e., Botrychium sensu stricto), from early recognition inbreeding as primary mode sexual reproduction to discovery predominantly outcrossing populations in high mountain habitats. propose an evolutionary trajectory which both systems, concert with mycorrhizal support, have been able sustain through changing environments. present a depiction fern life cycle that portrays positive role speciation and evolution...
Progress in the field of evolutionary forest ecology has been hampered by huge challenge phenotyping trees across their ranges natural environments, and limitation high-resolution environmental information. The GenTree Platform contains phenotypic data from 4,959 12 ecologically economically important European tree species: Abies alba Mill. (silver fir), Betula pendula Roth. birch), Fagus sylvatica L. (European beech), Picea abies (L.) H. Karst (Norway spruce), Pinus cembra (Swiss stone...
Delivering material selected for breeding purposes into the wild in context of sustainable forest management might reduce levels genetic diversity future forests comparison to that natural populations. Another consequence be a reduction their resilience under uncertain climatic and socio-economic conditions if these new populations lack adaptability. Despite long tradition activities Europe, there is still need assess impact genetically enriched on forests' resilience. In this study, we...