Massive postglacial gene flow between European white oaks uncovered genes underlying species barriers.

Oaks are dominant forest tree species widely distributed across the Northern Hemisphere, where they constitute natural resources of economic, ecological, social and historical value. Hybridisation and adaptive introgression have long been thought to be major drivers of their ecological success. Therefore, the maintenance of species barriers remains a key question, given the extent of interspecific gene flow. In this study, we made use of the tremendous genetic variation among four European white oak species (31 million single nucleotide polymorphisms (SNPs)) to infer the evolutionary history of these species, study patterns of genetic differentiation and identify reproductive barriers. We first analysed the ecological and historical relationships among these species and inferred a long-term strict isolation followed by a recent and extensive postglacial contact using approximate Bayesian computation. Assuming this demographic scenario, we then performed backward simulations to generate the expected distributions of differentiation under neutrality to scan their genomes for reproductive barriers. We finally identified important intrinsic and ecological functions driving the reproductive isolation. We discussed the importance of identifying the genetic basis for the ecological preferences between these oak species and its implications for the renewal of European forests under global warming.

Influence of annual climatic variations, climate changes, and sociological factors on the production of the Périgord black truffle (Tuber melanosporum Vittad.) from 1903-1904 to 1988-1989 in the Vaucluse (France).

From 1903-1904 to 1988-1989, the two World Wars and sociological factors as rural desertification and changes in land uses mainly explained the decline of black truffle production in the Vaucluse department, which well reflects that of the whole of France. These can be correlated with the annual climatic variations as well as, from 1924-1925 to 1948-1949, the raw production rates of the managed truffle orchard of Pernes-les-Fontaines located in Vaucluse. The two methods used (correlation coefficients and Bayesian functional linear regression with Sparse Step functions) gave consistent results: the main factor explaining the annual variations of truffle production was the summer climatic water deficit of the year n. A general model including the rural exodus and the cumulated climatic water deficit of summer months both allowed to well explain the evolution of truffle production from 1903-1904 to 1988-1989 in the Vaucluse and its huge decrease. During that period, global warming had little effect. However, in the twenty-first century, all the scenarios predict increased summer water stress for the Mediterranean region, which could greatly affect black truffle production.

The role of ungulates in nowadays temperate forests. A response to Fløjgaard et al. (DOI:10.1111/gcb.14029).

In Boulanger et al. (2018), we investigated the effects of ungulates on forest plant diversity. By suggesting a revisit of our conclusions regarding ecosystem dynamics since the late Pleistocene, Fløjgaard et al. (2018) came to the conclusion that moderate grazing in forest should be a conservation target. Since major points of our paper were mis- or over- interpreted, we put the record straight on our study system and on the scope of our conclusions. Finally, we advocate for an assessment of the conservation issues of ungulates in forests not only regarding hypothetical and still debated states of past ecosystems but also considering timely challenges for forest ecosystems.

Ungulates increase forest plant species richness to the benefit of non-forest specialists.

Large wild ungulates are a major biotic factor shaping plant communities. They influence species abundance and occurrence directly by herbivory and plant dispersal, or indirectly by modifying plant-plant interactions and through soil disturbance. In forest ecosystems, researchers' attention has been mainly focused on deer overabundance. Far less is known about the effects on understory plant dynamics and diversity of wild ungulates where their abundance is maintained at lower levels to mitigate impacts on tree regeneration. We used vegetation data collected over 10 years on 82 pairs of exclosure (excluding ungulates) and control plots located in a nation-wide forest monitoring network (Renecofor). We report the effects of ungulate exclusion on (i) plant species richness and ecological characteristics, (ii) and cover percentage of herbaceous and shrub layers. We also analyzed the response of these variables along gradients of ungulate abundance, based on hunting statistics, for wild boar (Sus scrofa), red deer (Cervus elaphus) and roe deer (Capreolus capreolus). Outside the exclosures, forest ungulates maintained higher species richness in the herbaceous layer (+15%), while the shrub layer was 17% less rich, and the plant communities became more light-demanding. Inside the exclosures, shrub cover increased, often to the benefit of bramble (Rubus fruticosus agg.). Ungulates tend to favour ruderal, hemerobic, epizoochorous and non-forest species. Among plots, the magnitude of vegetation changes was proportional to deer abundance. We conclude that ungulates, through the control of the shrub layer, indirectly increase herbaceous plant species richness by increasing light reaching the ground. However, this increase is detrimental to the peculiarity of forest plant communities and contributes to a landscape-level biotic homogenization. Even at population density levels considered to be harmless for overall plant species richness, ungulates remain a conservation issue for plant community composition.

Fine-scale species distribution changes in a mixed oak stand over two successive generations.

Large-scale tree distribution changes have received considerable attention but underlying demo-genetic mechanisms are less well documented. We used a diachronic approach to track species shifts in a mixed oak stand (Quercus petraea-Quercus robur) at a fine spatiotemporal scale. Species assignment was made using single nucleotide polymorphism (SNP) fingerprints employing clustering and parentage analysis. Mating patterns and reproductive success were assessed by parentage analysis. Plot-based inventories of soil parameters and sapling densities provided ecological and demographic information, respectively. Sapling density and reproductive success was higher in Q. petraea than in Q. robur, and were correlated with a spatial expansion of Q. petraea (50% to 67% of the area). Admixed trees resulting from hybridization and backcrossing between the two species were more frequent under the Q. robur canopy. We suspect that species' differential responses to ongoing environmental changes and interspecific competition are the predominant factors accounting for the recruitment success of Q. petraea, while human interference, differential reproduction and hybridization (and backcrossings) are probably of more limited importance. We anticipate in mixed Q. petraea-Q. robur stands, under current ongoing environmental change, that these processes will be enhanced, at least in the western part of the distribution of the two species.

Network connectivity value.

In order to unveil the value of network connectivity, we formalize the construction of ecological networks in forest environments as an optimal control dynamic graph-theoretic problem. The network is based on a set of bioreserves and patches linked by ecological corridors. The node dynamics, built upon the consensus protocol, form a time evolutive Mahalanobis distance weighted by the opportunity costs of timber production. We consider a case of complete graph, where the ecological network is fully connected, and a case of incomplete graph, where the ecological network is partially connected. The results show that the network equilibrium depends on the size of the reception zone, while the network connectivity depends on the environmental compatibility between the ecological areas. Through shadow prices, we find that securing connectivity in partially connected networks is more expensive than in fully connected networks, but should be undertaken when the opportunity costs are significant.

Do tree rings record changes in soil fertility? Results from a Quercus petraea fertilization trial.

Through the variations in their dimension, density, anatomy or isotopes composition, tree rings have provided invaluable proxies to evaluate past changes in the environment. Whereas long-term records of changes in soil fertility are particularly desired for forest ecosystem studies, the use of the chemical composition of tree rings as potential marker is still controversial. Dendrochemistry has sometimes been considered as a promising approach to study past changes in soil chemistry, whereas some authors stated that element translocations in the wood preclude any possibility of reliable retrospective monitoring. Here, we aimed at testing whether the wood elemental content of fertilized oaks (Quercus petraea) differed from control trees >30 years after a NPKCaMg fertilization and, if so, if the date of fertilization could be retrieved from the ring analysis. The contents in N, Mg, P, K, Ca and Mn were measured for each of the 43 sampled trees and in every ring of the 58-year long chronology with a non-destructive method coupling a Wavelength Dispersive Spectroscope (WDS) with a Scanning Electron Microscope (SEM). The results showed significantly higher contents in Ca and lower contents in Mn in fertilized compared to control trees. However, there was no difference in elemental content between the rings of the fertilized trees built in the 20 years before and those built after fertilization. Thus, whereas the effect of fertilization on increasing ring width was dramatic, immediate and relatively short-lasting, the elemental composition of the entire ring sequence was impacted, precluding the dating of the event. These results question the possibility to reconstruct long-term changes in soil fertility based on dendrochemistry.

Impact of fertilization on tree-ring delta15N and delta13C in beech stands: a retrospective analysis.

We studied the effects of two fertilization treatments (N and NPKCa) on wood nitrogen (N) isotope composition (delta(15)N), water-use efficiency (WUE) estimated by carbon isotope composition (delta(13)C) analyses, and ring width of trees in 80-year-old beech (Fagus sylvatica L.) stands in the forest of Fougères, western France. Four replicates were fertilized in two successive years (1973 and 1974), 20 years before core sampling. Unfertilized control trees displayed a decreasing delta(15)N trend with time. The N and NPKCa treatments both increased delta(15)N compared with the control treatment. Wood extraction by organic solvents enhanced the delta(15)N signal. Thus, N addition to the beech ecosystem, even in moderate amounts, could be traced back in tree-ring delta(15)N, suggesting that wood N isotope analysis is a promising tool for studying the long-term effects of N deposition on forests. Although WUE decreased for about 6 years after N fertilization, WUE in NPKCa-treated trees did not differ significantly from that in control trees. Results were similar whether based on cellulose or total wood delta(13)C analysis, suggesting that extraction of cellulose is not necessary when studying fertilization impacts on WUE. The NPKCa treatment had a large impact on radial growth, causing a significant long-lasting increase of 29% compared with the control treatment. Nitrogen alone did not change radial growth significantly.

Comparison of water-use efficiency of seedlings from two sympatric oak species: genotype x environment interactions.

Seedlings of two sympatric oak species, Quercus robur L. and Quercus petraea (Matt.) Liebl., were grown in common garden conditions to test for potential interspecific differences in intrinsic water-use efficiency (WUE). Intrinsic water-use efficiency was estimated based on carbon isotope composition of shoots (delta13C) and on gas exchange measurements (ratio of net CO2 assimilation rate to stomatal conductance (A/g(sw))). In addition, genotype x environment interactions were tested by subjecting the seedlings to four irradiance treatments (8, 18, 48 and 100% of incident solar irradiance) imposed by neutral shading nets, and, in the 100% irradiance treatment, two watering regimes. In all treatments, initial growth of Q. robur was faster than that of Q. petraea. In both species, there was a tight correlation between delta13C and A/g(sw). Intrinsic water-use efficiency increased with increasing irradiance (almost doubling from 8 to 100% irradiance), and this effect paralleled the increase in A with increasing irradiance. In full sun, WUE of Q. petraea seedlings was 10-15% higher than in Q. robur seedlings, with the difference attributable to a difference between the species in g(sw). The interspecific difference in WUE was maintained during drought, despite the appreciable increase in WUE and decrease in growth imposed by drought. No interspecific differences in WUE were observed at low irradiances, suggesting a strong genotype x environment interaction for WUE. These findings confirm the existence of interspecific genetic differences in WUE, but also show that there is large intraspecific variability and plasticity in WUE. The initially greater height and biomass increments in Q. robur seedlings illustrate the ability of this species to out-compete Q. petraea in the early stages of forest regeneration. For adult trees growing in closed canopies, the high WUE of Q. petraea may contribute significantly to its survival during dry years, whereas the low WUE of Q. robur may account for the frequently observed declines in adult trees of this species following drought.