<Emphasis Type="Bold">Epigenetic variation in clonal stands of aspen</Emphasis>

Epigenetic mechanisms can affect ecologically important traits, even in the absence of genetic variation. Environmental factors can influence gene regulation through chemical modifications, such as DNA methylation, resulting in acclimation that can be transferred to subsequent cell generations both mitotically and meiotically. Clonal plants such as Populus tremuloides (aspen) show considerable promise as model species for the long-term in situ study of ecological epigenetics. The common replication of identical genotypes across heterogeneous environments permits within- and between-genotype comparisons while controlling for genetic makeup. With a long lifespan and limited natural selection resulting from sexual recombination, it is conceivable that epigenetic acclimation plays an important role in the long-term ecological success of aspen. This case study is the first in a series investigating the role of epigenetics in aspen ecology. We have established long-term permanent plots of aspen, identified (genotyped) clones and established the baseline epigenetic structure. Here we report the in situ epigenetic structure of two aspen stands. We find considerable epigenetic variation and significant differences within and among genotypes and sites, suggesting both genotype and environment influence the epigenotype.     

Incidence of Venturia shoot blight in aspen (Populus tremuloides Michx.) varies with tree chemistry and genotype

Quaking aspen (Populus tremuloides) is a foundation tree species in North American forests, as well as a valuable source of wood and paper products. Quaking aspen exhibits substantial genetic variation within and among natural populations in phytochemical compounds that influence both interactions with herbivores and ecosystem dynamics. The potential association of these phytochemicals with disease resistance, however, is unknown. Here we present the results of a “natural experiment” in a common garden of quaking aspen genotypes infected with shoot blight (Venturia moreletii). We found that the incidence of shoot blight varied by 10-fold among aspen genotypes, and was strongly and negatively correlated with constitutive foliar concentrations of condensed tannins. Selection factors that shape the genetic and phytochemical architecture of aspen populations may thus simultaneously influence aspen resistance to pathogen attack, with consequences for individual tree fitness as well as community organization, via “extended phenotype” effects.     

Soil microbial communities adapt to genetic variation in leaf litter inputs

Plant genotypes can have important community‐ and ecosystem‐level effects. However, whether the extended phenotypes of plants feed back to influence the fitness of causal genotypes through soil processes remains unknown. We investigated whether aspen genotypes create distinct soil microbial communities that could potentially affect plant fitness. Using naturally occurring aspen stands in an old‐field system, we set up reciprocal litter transplants among ten genetically distinct aspen clones and tracked decomposition and changes in belowground nutrients and microbial communities for three years. We found that belowground microbial communities became adapted to process specific genotypes of aspen litter to the extent allowable by environment and litter chemistry. Belowground processes were driven by a combination of little quality and prior exposure to specific genotypes of litter. In general, litter from aspen genotypes native to the soil community decomposed more rapidly than did litter from foreign aspen genotypes (i.e. a home‐field advantage existed). While home‐field advantages have been documented to occur among litters of different species, we show that intraspecific variation can elicit similar, albeit weak, effects within a single species. Because rapid decomposition and nutrient cycling is likely to benefit fast‐growing, early‐successional species such as aspen, genotype‐mediated selection for soil microbial communities may feed back to positively affect plant fitness. In addition, belowground communities exhibited significant shifts in response to leaf litter inputs. When exposed to foreign litter, microbial communities changed to become more similar to the microbial community beneath the foreign litter's origin, indicating that belowground microbial communities are predictable given the genotype of the aboveground aspen clone.     

Imaging spectroscopy links aspen genotype with below-ground processes at landscape scales

Fine-scale biodiversity is increasingly recognized as important to ecosystem-level processes. Remote sensing technologies have great potential to estimate both biodiversity and ecosystem function over large spatial scales. Here, we demonstrate the capacity of imaging spectroscopy to discriminate among genotypes of Populus tremuloides (trembling aspen), one of the most genetically diverse and widespread forest species in North America. We combine imaging spectroscopy (AVIRIS) data with genetic, phytochemical, microbial and biogeochemical data to determine how intraspecific plant genetic variation influences below-ground processes at landscape scales. We demonstrate that both canopy chemistry and below-ground processes vary over large spatial scales (continental) according to aspen genotype. Imaging spectrometer data distinguish aspen genotypes through variation in canopy spectral signature. In addition, foliar spectral variation correlates well with variation in canopy chemistry, especially condensed tannins. Variation in aspen canopy chemistry, in turn, is correlated with variation in below-ground processes. Variation in spectra also correlates well with variation in soil traits. These findings indicate that forest tree species can create spatial mosaics of ecosystem functioning across large spatial scales and that these patterns can be quantified via remote sensing techniques. Moreover, they demonstrate the utility of using optical properties as proxies for fine-scale measurements of biodiversity over large spatial scales.     

Genetic mosaics of ecosystem functioning across aspen-dominated landscapes

Genetic diversity is the foundation of all biodiversity, and the genetic variation within species is increasingly recognized as being important to ecosystem level processes. Recent research demonstrates that plant genotype influences above- and belowground communities as well as basic ecosystem functions. However, the extent to which plant genotypes create spatial mosaics of genetically mediated ecosystem processes in natural forests is uncertain. We use Populus tremuloides as a model system to demonstrate the importance of plant genotype on carbon and nitrogen cycling in natural systems. We identified 24 distinct P. tremuloides clones with multiple ramets across 25 km² in southern Wisconsin, United States, using microsatellite makers. We then sampled clone leaf chemistry and belowground nutrient content and microbial extracellular enzyme activity. Aspen-induced variation in belowground carbon and nitrogen content, and microbial activity, varied widely among clones. Variation in green leaf chemistry and belowground microbial activity were correlated with genetic distance among clones, such that more genetically distant clones created more divergent patches of ecosystem processes. These data suggest that aspen genotypes create spatial mosaics of genetically mediated ecosystem functioning across natural landscapes and can therefore have evolutionary consequences for co-occurring species.     

Effects of genotype and nutrient availability on phytochemistry of trembling aspen (Populus tremuloides Michx.) during leaf senescence

We documented temporal patterns in phytochemical composition of Populus tremuloides Michx. during leaf senescence, and the influence of genotype and soil nutrient availability on such patterns. Levels of foliar nitrogen, carbohydrates, phenolic glycosides and condensed tannins were quantified for four aspen genotypes grown in a common garden, with low and high levels of soil nutrients. Levels of all compounds tended to decline over time, although the magnitude of change was influenced by plant genotype and nutrient availability. Genetic variation in concentrations of phytochemicals was much greater for phenolic glycosides and tannins than for nitrogen and carbohydrates, and these phenolic signatures generally persisted through leaf abscission. Our results suggest that genotypic and nutrient effects on patterns of chemical change during senescence will likely influence the performance of late-season herbivores on aspen. Moreover, nutrient and especially genotypic variation in phytochemistry of abscised leaves is likely to affect litter decomposition rates.     

Relative importance of tree genetics and microhabitat on macrofungal biodiversity on coarse woody debris

Understanding the contribution of genetic variation within foundation species to community-level pattern and diversity represents the cornerstone of the developing field of community genetics. We assessed the relative importance of intraspecific genetic variation, spatial variation within a forest and microhabitat variation on a macrofungal decay community developing on logs of the Australian forest tree, Eucalyptus globulus. Uniform logs were harvested from trees from eight geographic races of E. globulus growing in a 15-year-old genetic trial. Logs were placed as designed grids within a native E. globulus forest and after 3 years of natural colonisation the presence of 62 macrofungal taxa were recorded from eight microhabitats on each log. The key factor found to drive macrofungal distribution and biodiversity on structurally uniform coarse woody debris was log-microhabitat, explaining 42% of the total variation in richness. Differences between log-microhabitats appeared to be due to variation in aspect, substrate (bark vs wood) and area/time of exposure to colonisation. This findings demonstrates the importance of considering fine-scale (within substrate) variation in the conservation and management of macrofungal biodiversity, an area that has received little previous attention. While a number of recent studies have demonstrated that the genetics of foundation tree species can influence dependent communities, this was not found to be the case for the early log decay community associated with E. globulus. Despite genetic variation in wood and bark properties existing within this species, there was no significant effect of tree genetics on macrofungal community richness or composition. This finding highlights the variation that may exist among guilds of organisms in their response to genetic variation within foundation species, an important consideration in a promising new area of research.     

Microsatellite analysis of clonality and individual heterozygosity in natural populations of aspen <Emphasis Type="Italic">Populus tremula</Emphasis> L.: Identification of highly heterozygous clone

Aspen Populus tremula L. (Salicaceae) is the fast-growing tree species of environmental and economic value. Aspen is capable of reproduction by both seeds and vegetative means, forming root sprouts. In an adult stand, identification of ramets of one clone among the trees of seed origin based on their morphology is difficult. A panel of 14 microsatellite loci developed for individual identification of aspen was applied for the clonal structure analysis in four natural aspen stands of the European part of Russia: Moscow and Voronezh oblasts, the Mari-El Republic, and the Republic of Tatarstan. In 52 trees from the Moscow sample, 41 multilocus genotypes were identified; in the Voronezh sample, among 30 individuals, 25 different genotypes were detected; and in the sample from Mari-El, 32 trees were represented by 13 genotypes. In the stand from Sabinsky Forestry, Tatarstan, all of the examined 29 trees were represented by a single genotype. The ancestral tree carrier of this genotype which was the most heterozygous (0.929) among all studied aspen individuals (sample mean, 0.598) obviously has spread over a large territory during several cutting and reproduction cycles, currently occupying the area of 2.2 ha. For aspen, usually suffering from Aspen trunk rot, such high viability is evidence of resistance to the main pathogens. The revealed superclone deserves further study with karyological methods and flow cytometry to determine ploidy level and analysis of the growth rate and the quality of wood for possible use in plantation forest production.     

Genotype-by-genotype interactions modified by a third species in a plant-insect system

Community genetics examines how genotypic variation within a species influences the associated ecological community. The inclusion of additional environmental and genotypic factors is a natural extension of the current community genetics framework. However, the extent to which the presence of and genetic variation in associated species influences interspecific interactions (i.e., genotype x genotype x environment [G x G x E] interactions) has been largely ignored. We used a community genetics approach to study the interaction of barley and aphids in the absence and presence of rhizosphere bacteria. We designed a matrix of aphid genotype and barley genotype combinations and found a significant G x G x E interaction, indicating that the barley-aphid interaction is dependent on the genotypes of the interacting species as well as the biotic environment. We discuss the consequences of the strong G x G x E interaction found in our study in relation to its impact on the study of species interactions in a community context.     

Long-term effects of defoliation on quaking aspen in relation to genotype and nutrient availability: plant growth,phytochemistry and insect performance

This research tested the long-term effects of defoliation on aspen chemistry and growth in relation to genotype and nutrient availability. We grew saplings of four aspen genotypes in a common garden under two conditions of nutrient availability, and subsequently subjected them to two levels of artificial defoliation. Artificial defoliation suppressed plant growth, and saplings of the four genotypes did not show evidence of genetic variation in tolerance to defoliation. Phenolic glycoside concentrations did not respond to defoliation, but were influenced by genotype and nutrient availability. Condensed tannins responded to defoliation and varied among genotypes. Although defoliation affected condensed tannins, plant quality was not altered in a manner important for gypsy moth performance. Regression analyses suggested that phenolic glycoside concentrations accounted for most of the variation in insect performance. The lack of a strong response important for herbivores was surprising given the severity of the defoliation treatment (nearly 100% of leaf area was removed). In this study, plant genotype was of primary importance, nutrient availability was of secondary importance and long-term induced responses were unimportant as determinants of insect performance.     

Effects of genotype,elevated CO2 and elevated O3 on aspen phytochemistry and aspen leaf beetle Chrysomela crotchi performance

• 1 Trembling aspen Populus tremuloides Michaux is an important forest species in the Great Lakes region and displays tremendous genetic variation in foliar chemistry. Elevated carbon dioxide (CO₂) and ozone (O₃) may also influence phytochemistry and thereby alter the performance of insect herbivores such as the aspen leaf beetle Chrysomela crotchi Brown.
• 2 The present study aimed to relate genetic‐ and atmospheric‐based variation in aspen phytochemistry to C. crotchi performance (larval development time, adult mass, survivorship). The experiment was conducted at the Aspen Free‐Air CO₂ Enrichment (FACE) site in northern Wisconsin. Beetles were reared on three aspen genotypes under elevated CO₂ and/or O₃. Leaves were collected to determine chemical characteristics.
• 3 The foliage exhibited significant variation in nitrogen, condensed tannins and phenolic glycosides among genotypes. CO₂ and O₃, however, had little effect on phytochemistry. Nonetheless, elevated CO₂ decreased beetle performance on one aspen genotype and had inconsistent effects on beetles reared on two other genotypes. Elevated O₃ decreased beetle performance, especially for beetles reared on an O₃‐sensitive genotype. Regression analyses indicated that phenolic glycosides and nitrogen explain a substantial amount (27–45%) of the variation in herbivore performance.
• 4 By contrast to the negative effects that are typically observed with generalist herbivores, aspen leaf beetles appear to benefit from phenolic glycosides, chemical components that are largely genetically‐determined in aspen. The results obtained in the present study indicate that host genetic variation and atmospheric concentrations of greenhouse gases will be important factors in the performance of specialist herbivores, such as C. crotchi, in future climates.

     

Effects of foundation species genotypic diversity on subordinate species richness in an assembling community

Foundation (dominant or matrix) species play a key role in structuring plant communities, influencing processes from population to ecosystem scales. However, the effects of genotypic diversity of foundation species on these processes have not been thoroughly assessed in the context of assembling plant communities. We modified the classical filter model of community assembly to include genotypic diversity as part of the biotic filter. We hypothesized that the proportion of fit genotypes (i.e. competitively superior and dominant) affects niche space availability for subordinate species to establish with consequence for species diversity. To test this hypothesis, we used an individual‐based simulation model where a foundation species of varying genotypic diversity (number of genotypes and variability among genotypes) competes for space with subordinate species on a spatially heterogeneous lattice. Our model addresses a real and practical problem in restoration ecology: choosing the level of genetic diversity of re‐introduced foundation and subordinate species. Genotypic diversity of foundation species significantly affected equilibrium community diversity, measured as species richness, either positively or negatively, depending upon environmental heterogeneity. Increases in genotypic diversity gave the foundation species a wider niche breadth. Under conditions of high environmental heterogeneity, this wider niche breadth decreased niche space for other species, lowering species richness with increased genotypic diversity until the genotypes of the foundation species saturated the landscape. With a low level of environmental heterogeneity, increasing genotypic diversity caused the foundation species niche breadth to be overdispersed, resulting in a weak positive relationship with species richness. Under these conditions, some genotypes are maladapted to the environment lowering fitness of the foundation species. These effects of genotypic diversity were secondary to the larger effects of overall foundation species fitness and environmental heterogeneity. The novel aspect of incorporating genotype diversity in combination with environmental heterogeneity in community assembly models include predictions of either positive or negative relationships between species diversity and genotypic diversity depending on environmental heterogeneity, and the conditions under which these factors are potentially relevant. Mechanistically, differential niche availability is imposed by the foundation species.     

Aspen (<Emphasis Type="Italic">Populus tremuloides</Emphasis>) stands and their contribution to plant diversity in a semiarid coniferous landscape

We conducted a field study to determine the relative contributions of aspen (Populus tremuloides), meadow, and conifer communities to local and landscape-level plant species diversity in the Sierra Nevada and southern Cascade Range, northeastern California, USA. We surveyed plant assemblages at 30 sites that included adjacent aspen, conifer, and meadow communities across a 10,000-km² region. We statistically investigated patterns in local and landscape-scale plant diversity within and among the three vegetation types. Summing across sites, aspen stands supported more plant species overall and more unique plant species than either meadow or conifer communities. Local richness and diversity did not differ between aspen and meadow plots; conifer forest plots were significantly lower in both measures. Heterogeneity in species composition was higher for aspen forest than for meadows or conifer forest, both within sites and between sites. Plant communities in aspen stands shared less than 25% of their species with adjacent vegetation in conifer and meadow plots. Within aspen forest, we found a negative relationship between total canopy cover and plant diversity. Our results strongly support the idea that plant communities of aspen stands are compositionally distinct from adjacent meadows and conifer forest, and that aspen forests are a major contributor to plant species diversity in the study region. Current patterns of aspen stand succession to conifer forest on many sites in the semiarid western US are likely to reduce local and landscape-level plant species diversity, and may also have negative effects on other ecosystem functions and services provided by aspen forest.     

The influence of range‐wide plant genetic variation on soil invertebrate communities

Plant genetic variation can have far‐reaching effects on associated communities and ecosystems. Heritable variation in ecologically relevant plant traits is often non‐randomly distributed across a species’ range and can exhibit geographic clines. In the event of range expansions and migration, previously unfamiliar genotypes may have large impacts on resident communities and ecosystems due to the introduction of novel and heritable phenotypic variation. Here we test the hypothesis that geographic origin of a focal plant genotype has effects on belowground invertebrate communities using a common garden field experiment. We sampled soil invertebrates from 103 Oenothera biennis genotypes, which were collected from across the species’ range and planted into a common garden field experiment at the northern range limit. We enumerated 24 000 individuals from 190 morphospecies and found that the diversity, abundance, and composition of soil invertebrate communities varied greatly among plant genotypes. Despite strong effects of plant genotype, we found few genetic correlations between plant traits and soil invertebrate community variables. However, herbivore damage was strongly related to variation in the soil invertebrate community. Geographic origin of plant genotypes had at most a weak effect on belowground communities. We speculate that predicting the extended effects of population movement on associated communities will require detailed knowledge of the trait variation occurring within focal species across particular environmental gradients.     

Epigenetic variation within <Emphasis Type="Italic">Phragmites australis</Emphasis> among lineages,genotypes, and ramets

Epigenetics is likely an important factor in morphological and physiological acclimation, phenotypic plasticity, and potentially ecological dynamics such as invasiveness. We propose that Phragmites australis is an ideal model species for studies of epigenetics as a factor in plant invasions and ecology due to natural clonal replication (controlling for genetic variation) and the co-occurrence of subspecies with distinct life history strategies such as differences in invasiveness. In earlier work, genotypes and constituent clonal ramets were identified using microsatellite markers. In this pilot study, we screened the same ramets for epigenetic variation with Methylation-Sensitive AFLPs (MS-AFLPs), a modified type of AFLP dependent on differentially methylation-sensitive restriction enzymes. We found a significant difference in epigenetic signatures between introduced and native subspecies, and found that introduced P. australis demonstrated more epigenetic variation than their native counterparts. In both subspecies we observed moderate variation between genotypes relative to the higher degree of epigenetic variation found within genotypes (among ramets), suggesting that epigenotype may be more closely aligned with microhabitat than within-subspecies genotype. Finally, we observed potential epigenetic variation by site. This is the first study to investigate natural variation in DNA methylation patterns of P. australis and establishes the baseline in our understanding of the ecological relevance of epigenetics in this species.     

Response of quaking aspen genotypes to enriched CO2: foliar chemistry and tussock moth performance

Abstract

• 1 Genetic variation in the phytochemical responses of plants to CO₂ enrichment is likely to alter trophic dynamics, and to shift intraspecific selection pressures on plant populations. We evaluated the independent and interactive effects of atmospheric CO₂ and quaking aspen (Populus tremuloides Michx.) genotype on chemical composition of foliage and performance of the whitemarked tussock moth (Orgyia leucostigma J. E. Sm.).
• 2 This research was conducted at the Aspen FACE (Free Air CO₂ Enrichment) site in northern Wisconsin, U.S.A. Leaf samples were collected periodically from each of three genetically variable aspen genotypes growing under ambient and elevated CO₂, and analysed for levels of primary and secondary metabolites. Tussock moth larvae were reared in situ on experimental trees, and development times and pupal masses were recorded.
• 3 Foliar chemical composition varied among aspen genotypes and in response to CO₂ enrichment. However, chemical responses of trees to elevated CO₂ were generally consistent across genotypes.
• 4 Larval development times varied among host genotypes and increased slightly for insects on high‐CO₂ plants. Enriched CO₂ tended to reduce insect pupal masses, particularly for females on one of the three aspen genotypes.
• 5 CO₂ × genotype interactions observed for plant chemistry and insect performance in this study with a small number of genotypes are probably too few, and too weak, to shift selection pressures in aspen populations. These results differ, however, from earlier work in which more substantial CO₂ × genotype interactions were observed for plant chemistry.

     

Colonisation of ephemeral forest habitats by specialised species: beetles and bugs associated with recently dead aspen wood

The most appropriate strategy for preserving fragmented populations depends on a species’ ability to colonise distant habitat patches. Insects associated with early decay stages of dead wood are expected to have a high capacity to colonise new habitat patches. To study the dispersal ranges of beetles (Coleoptera) and flat bugs (Hemiptera: Aradidae) dependent on recently dead aspen (Populus tremula) wood in Finland, we set out 58 piles of recently cut aspen logs at various distances up to 1.6 km from forests that contained a high density of old aspen trees. We captured insects by trunk window-traps, and counted beetles’ exit holes. Habitat connectivity was measured in terms of the amount of suitable aspen-wood in the surrounding environment, with the closest dead wood items up-weighted by a negative-exponential function. The log-piles attracted many saproxylic insects including four red-listed aspen-specialist species. The exposure of log-piles to the sun, and high levels of habitat connectivity increased the species richness of aspen-specialists, whereas bark peeling by moose decreased richness. The spatial scale at which species richness had its strongest response to habitat was 93 m. Among individual species there was a wide variability in spatial scale of response. This study supports the view that conservation efforts in boreal forests should be concentrated on sites where colonisation by target species is most likely. Restoration of habitat by re-locating logs may be useful at localities with a rich and specialised fauna but which have too low rate of formation of dead wood by natural processes.     

Comparing intra- and inter-specific effects on litter decomposition in an old-field ecosystem

Plant species can differ in the quantity and quality of leaf litter they produce, and many studies have examined whether plant species diversity affects leaf-litter decomposition and nutrient release. A growing number of studies have indicated that intra-specific variation within plant species can also affect key ecosystem processes. However, the relative importance of intra- versus inter-specific variation for the functioning of ecosystems remains poorly known. Here, we investigate the effects of intra-specific variation in a dominant old-field plant species, tall goldenrod (Solidago altissima), and inter-specific variation among goldenrod species on litter quality, decomposition, and nitrogen (N) release. We found that the nutrient concentration of leaf litter varied among genotypes, which translated into ～50% difference in decomposition rates. Variation among other goldenrod species in decomposition rate was more than twice that of genetic variation within S. altissima. Furthermore, by manipulating litterbags to contain 1, 3, 6, or 9 genotypes, we found that S. altissima genotype identity had much stronger effects than did genotypic diversity on leaf-litter quality, decomposition, and N release. Taken together, these results suggest that the order of ecological importance for controlling leaf-litter decomposition and N release dynamics is plant species identity?genotype identity>genotypic diversity.     

The systematics and population genetics of Opisthorchis viverrini sensu lato: implications in parasite epidemiology and bile duct cancer

Together with host and environmental factors, the systematics and population genetic variation of Opisthorchis viverrini may contribute to recorded local and regional differences in epidemiology and host morbidity in opisthorchiasis and cholangiocarcinoma (CCA). In this review, we address recent findings that O. viverrini comprises a species complex with varying degrees of population genetic variation which are associated with specific river wetland systems within Thailand as well as the Lao PDR. Having an accurate understanding of systematics is a prerequisite for a meaningful assessment of the population structure of each species within the O. viverrini complex in nature, as well as a better understanding of the magnitude of genetic variation that occurs within different species of hosts in its life cycle. Whether specific genotypes are related to habitat type(s) and/or specific intermediate host species are discussed based on current available data. Most importantly, we focus on whether there is a correlation between incidence of CCA and genotype(s) of O. viverrini. This will provide a solid basis for further comprehensive investigations of the role of genetic variation within each species of O. viverrini sensu lato in human epidemiology and genotype related morbidity as well as co-evolution of parasites with primary and secondary intermediate species of host.