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1,102 results for “plant diversity”
Data from: Functional diversity of decomposers modulates litter decomposition affected by plant invasion along a climate gradient
<p>1. Litter decomposition is fundamental to carbon (C) and nutrient cycling in ecosystems, which could be altered by plant invasion. The impacts of plant invasion on litter decomposition are generally predicted by traits difference between leaf litters of invasive and non-invasive species. However, plant invasion not only changes litter composition, but might also increase the activity or change the functional diversity of decomposers to alter litter decomposition, which is barely studied, and the effect could be different under varied climate conditions.</p> <p>2. We studied decomposition of litters from non-invasive and invasive native plants, as affected by litter treatments (in a mixture or alone) and decomposer organisms of different functional groups (by controlling the mesh size of litterbags), in sites with or without an invasive woody grass, Moso bamboo (Phyllostachys edulis), at seven locations across a climate gradient.</p> <p>3. We show that greater decomposer functional diversity, particularly the presence of macrofauna, accelerated the cycling of litter C and nitrogen (N), increased the climatic sensitivities of decomposition rates, but decreased the N use efficiency of decomposers (represented by litter C to N loss ratio). Litter decomposed in mixtures decomposed faster (by 9.5%) and had more N loss (by 28.9%) than that of in monoculture, regardless of the functional diversity of decomposers. In contrast, the invasion of Moso bamboo slowed decomposition and decreased N use efficiency; this negative effect could be reversed when macrofauna was excluded from the decomposition process, which challenges the nutrient facilitation hypothesis. Bamboo invasion depressed the climatic sensitivity of decomposer functional groups when macrofauna was present but not when macrofauna was excluded.</p> <p>4. Synthesis. We found that the functional diversity of decomposer organisms modulates and largely determines litter decomposition affected by a woody grass invasion along a climate gradient. These results suggest that, under current and future climate, including the changes in decomposer functional groups, particularly macrofauna, and their interaction with litter traits, would provide a mechanistic and more reliable prediction on ecosystem functions altered by invaders than a functional trait-based framework.</p>
Title: Partitioning plant spectral diversity into alpha and beta components
<p><span><span><span><span><span><span><span><span><span><span>Plant spectral diversity — how plants differentially interact with solar radiation — is an integrator of plant chemical, structural, and taxonomic diversity that can be remotely sensed. We propose to measure spectral diversity as spectral variance, which allows the partitioning of the spectral diversity of a region, called spectral <i>gamma</i> (<i>γ</i>) diversity, into additive alpha (<i>α</i>; within communities) and beta (<i>β</i>; among communities) components. Our method calculates the contributions of individual bands or spectral features to spectral <i>γ</i>-, <i>β</i>-, and <i>α</i>-diversity, as well as the contributions of individual plant communities to spectral diversity. We present two case studies illustrating how our approach can identify "hotspots" of spectral <i>α</i>-diversity within a region, and discover spectrally unique areas that contribute strongly to <i>β</i>-diversity. Partitioning spectral diversity and mapping its spatial components has many applications for conservation since high local diversity and distinctiveness in composition are two key criteria used to determine the ecological value of ecosystems.</span></span></span></span></span></span></span></span></span></span></p>
Data from: Plant quantity and quality regulate the diversity of arthropod communities in a semi-arid grassland
<p> </p> <p>The quantity (e.g. biomass production) and quality (e.g. leaf nutrient content) of plants can strongly influence arthropod diversity, but few studies have tried to disentangle such effects.</p> <p>In this study, we examined the independent effects of plant productivity and leaf traits on the taxon richness and abundance of entire arthropod communities and multiple arthropod orders in replicated monocultures of 15 herbaceous species in the Inner Mongolian grassland.</p> <p>Total taxon richness of arthropod communities increased with plant productivity and an increase in a high nutrient content indicator (PC1) of plant leaf traits (e.g. high leaf nitrogen, phosphorus and water contents), but decreased with an increase in a poor nutrient content indicator (PC2) of plant leaf traits (e.g. high leaf lignin content but low specific leaf area). Total abundance of arthropod communities increased with increasing plant productivity but decreased with increasing PC2.</p> <p>Many common, rather than rare arthropod orders, exhibited strong responses to the changes in plant quantity or quality. Taxon richness of Diptera, Neuroptera and Coleoptera responded positively to the increase in plant productivity and PC1, while taxon richness of Hemiptera and Coleoptera responded negatively to the increase in PC2. Abundances of Diptera and Coleoptera responded positively to the increased plant productivity, whereas abundances of Hymenoptera and Hemiptera responded negatively to the increased PC2. The order-specific responses of arthropod richness and abundance to plant quantity or quality reflected the different food requirements and feeding behaviors of arthropods.</p> <p>Our findings demonstrate that plant quantity and quality can independently control richness and abundance of arthropod communities. The changes in plant productivity and nutrient content of different plant species may alter arthropod diversity and community structure, and these changes in turn may have strong cascading effects on multiple functions (e.g. prey, decomposers, pollinators and predators) in terrestrial ecosystems.</p> <p> </p>
Dataset used for the submitted manuscript "The hump-shaped effect of plant functional diversity on the biological control of a multi-species pest community"
<p>Dataset</p>
What drives temporal stability of biomass production? Testing the roles of species diversity, dominance, asynchrony and spatial scale in annual plant communities
<p><span><b><span>Aims:</span></b><span> Primary biomass production is a fundamental process for ecosystem functioning. Yet, little is known on the mechanisms driving temporal stability of biomass production in annual plant communities, particularly in communities </span>subjected to highly variable environments and undergoing temporal changes in species composition.<span> We aimed to disentangle </span>the relative importance of biomass production, species <span>diversity, dominance and asynchrony of species fluctuations as drivers of biomass stability in Mediterranean and semiarid annual plant communities. </span></span></p> <p><span><b><span>Location:</span></b><span> Mediterranean (</span><span>N31<sup>o</sup>42'; E35<sup>o</sup>03') and Semiarid (N31<sup>o</sup>23'; E34<sup>o</sup>54') sites, Israel.</span></span></p> <p><span><b><span>Methods:</span></b><span> Aboveground biomass and species abundance were monitored in 15 plots of 250m<sup>2</sup> per site during eight consecutive years. Relationships between stability drivers and community stability were studied at the regional (between-sites) and local (within-sites) spatial scales.</span></span></p> <p><span><b><span>Results:</span></b><span> Community biomass stability (temporal mean/SD) increased from the Semiarid to the Mediterranean site concomitantly with higher </span>biomass production, richness, and evenness, but was not associated with changes in species synchrony. Differences in stability between sites were due to opposite effects of site conditions on the mean and SD of community biomass, leading to higher stability in the Mediterranean site. Within sites, species asynchrony was the key driver of stability at the local spatial-scale. Richness and biomass production affected stability indirectly through asynchrony, but in different ways at each site. At the Mediterranean site, these factors had indirect negative effects on stability by reducing asynchrony, but did not rescind a positive effect of asynchrony on community stability. At the Semiarid site, biomass production had indirect positive effects on stability through asynchrony, while richness had no effect on asynchrony and stability. Stability was not driven by species evenness in either site. </span></p> <p><span><b><span>Conclusions: </span></b>Our study provides new insights into the complex control of biomass stability in the dynamics of <span>Mediterranean and semiarid annual plant communities, with d</span>ifferent mechanisms driving stability across the regional <i>vs.</i> local spatial scales. </span></p>
Data from: Indirect effects of global change accumulate to alter plant diversity but not ecosystem function in alpine tundra
1. Environmental change can affect species directly by altering their physical environment and indirectly by altering the abundance of interacting species. A key challenge at the interface of community ecology and conservation biology is to predict how direct and indirect effects combine to influence response in a changing environment. In particular, little is known about how direct and indirect effects on biodiversity develop over time or their potential to influence ecosystem function. 2. We studied how nitrogen (N), winter precipitation (snow), and warming influenced diversity and ecosystem function over six years in alpine tundra. We used path analyses to partition direct effects of environmental manipulations from indirect effects due to changes in the abundance of two dominant plants. We hypothesize that 1) indirect effects will develop more slowly but will become stronger than direct effects over time, and 2) after six years, indirect effects will more strongly influence diversity while direct effects will influence ecosystem function. 3. Indirect effects of N on diversity were consistently stronger than direct effects and actually developed quickly, prior to direct effects. Direct effects of snow on diversity were detected in year two but then subsequently were reversed, while indirect effects were detected in year four and grew stronger over time. Overall in year six, indirect effects were much stronger than direct effects. 4. Direct effects predominated for three of four ecosystem functions we measured (productivity, N mineralization, winter N availability). The only indirect effects we found were that N and snow indirectly affected microbial biomass N by influencing Geum abundance. Across all four ecosystem measures, indirect effects were infrequent and weaker than direct effects. 5. Synthesis. Increasing indirect effects on diversity over time indicate that short-term experiments or monitoring of natural systems may underestimate the full magnitude of global change effects on plant communities. Explicitly accounting for changes in dominant plant abundance may be necessary for forecasting plant community response to environmental change. Conversely, weak indirect effects for ecosystem processes suggest that predicting ecosystem function without knowledge of plant responses to global change may be possible.
Data from: Rapid buildup of genetic diversity in founder populations of the gynodioecious plant species Origanum vulgare after semi-natural grassland restoration
In most landscapes the success of habitat restoration is largely dependent on spontaneous colonization of plant species. This colonization process, and the outcome of restoration practices, can only be considered successful if the genetic makeup of founding populations is not eroded through founder effects and subsequent genetic drift. Here we used 10 microsatellite markers to investigate the genetic effects of recent colonization of the long-lived gynodioecious species Origanum vulgare in restored semi-natural grassland patches. We compared the genetic diversity and differentiation of fourteen recent populations with that of thirteen old, putative source populations, and we evaluated the effects of spatial configuration of the populations on colonization patterns. We did not observe decreased genetic diversity in recent populations, or inflated genetic differentiation among them. Nevertheless, a significantly higher inbreeding coefficient was observed in recent populations, although this was not associated with negative fitness effects. Overall population genetic differentiation was low (FST = 0.040). Individuals of restored populations were assigned to on average 6.1 different source populations (likely following the 'migrant pool' model). Gene flow was, however, affected by the spatial configuration of the grasslands, with gene flow into the recent populations mainly originating from nearby source populations. This study demonstrates how spontaneous colonization after habitat restoration can lead to viable populations in a relatively short time, overcoming pronounced founder effects, when several source populations are nearby. Restored populations can therefore rapidly act as stepping stones and sources of genetic diversity, likely increasing overall metapopulation viability of the study species.
Data from: The role of frugivory in plant diversity maintenance- a simulation approach
Frugivores may play a key role in plant species coexistence by equalizing the species' representation in the seed rain. Rare species may benefit from enhanced dispersal if frugivores prefer locally scarce fruits, or if rare plants are found in neighborhoods of high fruit density. Using a simulation model of frugivorous birds foraging on landscapes we tested if increased diversity in the seed rain could emerge from rare-biased fruit selection, from the spatial configuration of plants, or both. In the absence of rare-biased fruit selection, frugivores were not able to increase the diversity of the seed rain in any of our simulated landscapes. In contrast, when frugivores were attracted to locally scarce fruits, we found increased diversity in the seed rain whenever frugivore mobility across the landscape was high and plant species were well-mixed in the fruiting neighborhoods. Irrespectively of the behavioral mechanism involved, landscape fragmentation lead to losses in diversity and species richness of simulated communities. In all simulations, density-dependent mortality of dispersed seeds increased diversity in the community of seedlings. However, landscape homogenization at the scale of frugivores movements decreased the magnitude of this diversification effect. In summary, our study shows that frugivory has the potential to increase diversity in the seed rain when frugivores display rare-biased fruit choices, provided that rare and common plants form heterogeneous neighborhoods. They also show that fragmentation is a major threat for diversity maintenance in the early-regenerating community. Finally, they show that rarity confers advantages during regeneration only if it occurs at the scale of frugivores' foraging decisions.
Data from: Relationships between spatial metrics and plant diversity in constructed freshwater wetlands
The diversity of plant species and their distribution in space are both thought to have important effects on the function of wetland ecosystems. However, knowledge of the relationships between plant species and spatial diversity remains incomplete. In this study, we investigated relationships between spatial pattern and plant species diversity over a five year period following the initial restoration of experimental wetland ecosystems. In 2003, six identical and hydrologically-isolated 0.18 ha wetland "cells" were constructed in former farmland in northeast Ohio. The systems were subjected to planting treatments that resulted in different levels of vascular plant species diversity among cells. Plant species diversity was assessed through annual inventories. Plant spatial pattern was assessed by digitizing low-altitude aerial photographs taken at the same time as the inventories. Diversity metrics derived from the inventories were significantly related to certain spatial metrics derived from the photographs, including cover type diversity and contagion. We found that wetlands with high cover type diversity harbor higher plant species diversity than wetlands with fewer types of patches. We also found significant relationships between plant species diversity and spatial patterning of patch types, but the direction of the effect differed depending on the diversity metric used. Links between diversity and spatial pattern observed in this study suggest that high-resolution aerial imagery may provide wetland scientists with a useful tool for assessing plant diversity.
Data from: How do cold-adapted plants respond to climatic cycles? interglacial expansion explains current distribution and genomic diversity in Primula farinosa L.
Understanding the effects of past climatic fluctuations on the distribution and population-size dynamics of cold-adapted species is essential for predicting their responses to ongoing global climate change. In spite of the heterogeneity of cold-adapted species, two main contrasting hypotheses have been proposed to explain their responses to Late Quaternary glacial cycles, namely, the interglacial contraction versus the interglacial expansion hypotheses. Here, we use the cold-adapted plant Primula farinosa to test two demographic models under each of the two alternative hypotheses and a fifth, null model. We first approximate the time and extent of demographic contractions and expansions during the Late Quaternary by projecting species distribution models across the last 72 ka. We also generate genome-wide sequence data using a Reduced Representation Library approach to reconstruct the spatial structure, genetic diversity, and phylogenetic relationships of lineages within P. farinosa. Finally, by integrating the results of climatic and genomic analyses in an Approximate Bayesian Computation framework, we propose the most likely model for the extent and direction of population-size changes in P. farinosa through the Late Quaternary. Our results support the interglacial expansion of P. farinosa, differing from the prevailing paradigm that the observed distribution of cold-adapted species currently fragmented in high altitude and latitude regions reflects the consequences of postglacial contraction processes.
Data from: Increasing plant diversity of experimental grasslands alters the age and growth of Plantago lanceolata from younger and faster to older and slower
The persistence of plant populations depends on the ability of individuals to cope with the conditions provided by the community. So far, it is not known whether differences in the diversity and composition of plant communities affect the age structure of plant populations or the expression of stem anatomical traits reflecting investment into plant growth and storage. We analyzed annual growth rings in the secondary xylem and measured stem anatomical traits in individuals from 18 populations of Plantago lanceolata growing in a 12-year old grassland biodiversity experiment (Jena Experiment). Plant individuals of P. lanceolata were on average older and reproduced later with increasing species richness. Individuals of P. lanceolata were slightly younger and the age distribution within populations skewed to younger individuals in the presence of grasses. The presence of legumes did not affect mean age, but led to a more even age distribution within populations. The width of growth-related tissues (xylem, phloem, phellem) decreased with increasing species richness. Plant diversity-effects on storage-related tissues (pith, cortex) were less consistent, as pith showed increasing width with species richness, while cortex did not change with plant diversity. Our results imply that plant diversity effects on population age structure and the expression of stem anatomical traits of P. lanceolata reflect a trade-off: growth and turnover is fast at low diversity (younger age, higher allocation to growth-related tissue, faster generative reproduction), while it is slow at high diversity (older age, higher allocation to storage-related tissue, later generative reproduction).
Data from: Traits underlying community consequences of plant intra-specific diversity
A plant's performance and interactions with other trophic levels are recorgnized to be contingent upon plant diversity and underlying associational dynamics, but far less is known about the plant traits driving such phenomena. We manipulated diversity in plant traits using pairs of plant and a substitutive design to elucidate the mechanisms underlying diversity effects operating at a fine spatial scale. Specifically, we measured the effects of diversity in sex (sexual monocultures vs. male and female genotypes together) and growth rate (growth rate monocultures vs. fast- and slow-growing genotypes together) on growth of the shrub Baccharis salicifolia and on above- and belowground consumers associated with this plant. We compared effects on associate abundance (# associates per plant) vs. density (# associates per kg plant biomass) to elucidate the mechanisms underlying diversity effects; effects on abundance but not density suggest diversity effects are mediated by resource abundance (i.e. plant biomass) alone, whereas effects on density suggest diversity effects are mediated by plant-based heterogeneity or quality. Sexual diversity increased root growth but reduced the density (but not abundance) of the dietary generalist aphid Aphis gossypii and its associated aphid-tending ants, suggesting sex mixtures were of lower quality to this herbivore (e.g. via reduced plant quality), and that this effect indirectly influenced ants. Sexual diversity had no effect on the abundance or density of parasitoids attacking A. gossypii, the dietary specialist aphid Uroleucon macolai, or mycorrhizae. In contrast, growth rate diversity did not influence plant growth or any associates except for the dietary specialist aphid U. macolai, which increased in both abundance and density at high diversity, suggesting growth rate mixtures were of higher quality to this herbivore. These results highlight that plant associational and diversity effects on consumers are contingent upon the source of plant trait variation, and that the nature of such dynamics may vary both within and among trophic levels.
Data from: Plant functional diversity modulates global environmental change effects on grassland productivity
1. Although much research has explored changes in ecosystem functions associated with global environmental changes, the mechanistic pathways behind the observed changes remain poorly understood. 2. Using an 11-year experiment that increased growing season precipitation and nitrogen deposition in a temperate steppe, we explored the relative importance of direct and indirect environmental change effects on plant primary productivity. 3. We show that increases in water and nitrogen availability influenced plant productivity via both direct and indirect pathways. While both treatments stimulated plant productivity, changes in plant productivity cannot be explained by observed changes in species or phylogenetic diversity. Instead, the indirect effects of water and nitrogen addition were through their positive effects on plant functional diversity. Importantly, while the increase in one component of functional diversity (community-level weighted mean of plant stature) resulted in increased productivity, the increase in another component of functional diversity (functional dispersion) resulted in decreased productivity. 4. Synthesis. Our study provides the first evidence for the opposite effects of community weighted means and functional dispersion of plant functional traits on grassland productivity, and highlights the importance of both traits of dominant species and trait distribution among species in modulating the effects of global changes on ecosystem functions.
Data from: Shifts in diversification rates and host jump frequencies shaped the diversity of host range among Sclerotiniaceae fungal plant pathogens
The range of hosts that a parasite can infect in nature is a trait determined by its own evolutionary history and that of its potential hosts. However, knowledge on host range diversity and evolution at the family level is often lacking. Here, we investigate host range variation and diversification trends within the Sclerotiniaceae, a family of Ascomycete fungi. Using a phylogenetic framework, we associate diversification rates, the frequency of host jump events, and host range variation during the evolution of this family. Variations in diversification rate during the evolution of the Sclerotiniaceae define three major macro-evolutionary regimes with contrasted proportions of species infecting a broad range of hosts. Host-parasite co-phylogenetic analyses pointed towards parasite radiation on distant hosts long after host speciation (host jump or duplication events) as the dominant mode of association with plants in the Sclerotiniaceae. The intermediate macro-evolutionary regime showed a low diversification rate, high frequency of duplication events, and the highest proportion of broad host range species. Our findings suggest that the emergence of broad host range fungal pathogens results largely from host jumps, as previously reported for oomycete parasites, probably combined with low speciation rates. These results have important implications for our understanding of fungal parasites evolution and are of particular relevance for the durable management of disease epidemics.
Data from: An exotic invader drives the evolution of plant traits that determine mycorrhizal fungal diversity in a native competitor.
The symbiosis between land plants and arbuscular mycorrhizal fungi (AMF) is one of the most widespread and ancient mutualisms on the planet. However, relatively little is known about the evolution of these symbiotic plant-fungal interactions in natural communities. In this study, we investigated the symbiotic AMF communities of populations of the native plant species Pilea pumila (Urticaceae) with varying histories of coexistence with an non-mycorrhizal invasive species, Alliaria petiolata (Brassicaceae), known to affect mycorrhizal communities. We found that native populations of P. pumila with a long history of coexistence with the invasive species developed more diverse symbiotic AMF communities. This effect was strongest when A. petiolata plants were actively growing with the natives, and in soils with the longest history of A. petiolata growth. These results suggest that despite the ancient and widespread nature of the plant-AMF symbiosis, the plant traits responsible for symbiotic preferences can nevertheless evolve rapidly in response to environmental changes.
Data from: Genotypic diversity and trait variance interact to affect marsh plant performance
1. Intraspecific diversity can have important effects on population, community and ecosystem processes, yet we have little understanding of the relative importance of genetic- vs. trait-based measures of intraspecific diversity. 2. I conducted a manipulative field experiment of plant (Spartina alterniflora) genotypic diversity and trait diversity to examine their independent and interactive effects on plant performance and community structure. I focused on variation within and among genotypes in plant stem height, a trait that varies substantially across environmental gradients and can be an important predictor of plant competition intensity. 3. Trait and genotypic diversity interactively affected multiple metrics of plant performance. Both stem density and spatial spread increased with genotypic diversity in the low trait diversity combinations, yet there were negligible to weak negative effects in the high trait diversity treatments. S. alterniflora percent cover also varied with genotypic and trait diversity, but not in a clear linear pattern. 4. There were no effects of trait or genotypic diversity on associated macrofauna above-ground, yet they interactively affected below-ground measures. Infaunal abundance and sediment oxygen availability mirrored the idiosyncratic response of plant percent cover. 5. Despite the interactive effects of genotypic and trait diversity, high trait diversity consistently increased plant performance in genotypic monoculture. 6. Synthesis: The effects of intraspecific plant trait diversity on a range of plant and community responses in this study reinforce the premise that functional differences underlie ecological effects of genetic diversity and suggest that readily measured trait variance may serve as a valuable predictor of plant performance.
Data from: Understory diversity and composition after planting of teak and mahogany in Yogyakarta, Indonesia
<p>Forest rehabilitation is when a desired tree species is planted in degraded forests or lands. Rehabilitation by planting a single tree species is a common way to restore exploited forests to maintain ecological processes. We compared woody and herbaceous understory vegetation between forests rehabilitated by mahogany (N = 12) or teak (N = 12) planted from 1941 until 2003 in Yogyakarta, Indonesia. Understory vegetation of these areas were compared with that of three native forests. Species richness, species diversity, density of plants and proportion of native plants did not differ between the rehabilitated areas and the native forest. Recently rehabilitated areas were different from the native forests while 41-74 years after rehabilitation, characteristics of understory vegetation approached those of native forest. We described species composition using ordination, and found it to differ between areas rehabilitated with teak and with mahogany and, particularly, between the rehabilitated areas and the native forests. Time since rehabilitation and tree species planted were important for the species composition of understory vegetation. We conclude that the selection of species for rehabilitation and letting rehabilitated areas mature are important for understory development and species diversity.</p>
Data from: Invasive species removal increases species and phylogenetic diversity of wetland plant communities
Plant invasions result in biodiversity losses and altered ecological functions, though quantifying loss of multiple ecosystem functions presents a research challenge. Plant phylogenetic diversity correlates with a range of ecosystem functions, and can be used as a proxy for ecosystem multifunctionality. Laurentian Great Lakes coastal wetlands are ideal systems for testing invasive species management effects because they support diverse biological communities, provide numerous ecosystem services, and are increasingly dominated by invasive macrophytes. Invasive cattails are among the most widespread and abundant of these taxa. We conducted a three-year study in two Great Lakes wetlands, testing the effects of a gradient of cattail removal intensities (mowing, harvest, complete biomass removal) within two vegetation zones (emergent marsh, wet meadow) on plant taxonomic and phylogenetic diversity. To evaluate native plant recovery potential, we paired this with a seed-bank emergence study that quantified diversity metrics in each zone under experimentally manipulated hydroperiods. Pre-treatment, we found that wetland zones had distinct plant community composition. Wet meadow seed banks had greater taxonomic and phylogenetic diversity than emergent marsh seed banks, and high-water treatments tended to inhibit diversity by reducing germination. Aboveground harvesting of cattails and their litter increased phylogenetic diversity and species richness in both zones, more than doubling richness compared to unmanipulated controls. In the wet meadow, harvesting shifted the community toward an early successional state, favoring seed-bank germination from early seral species, whereas emergent marsh complete removal treatments shifted the community toward an aquatic condition, favoring floating-leaved plants. Removing cattails and their litter increased taxonomic and phylogenetic diversity across water levels, a key environmental gradient, thereby potentially increasing the multifunctionality of these ecosystems. Killing invasive wetland macrophytes but leaving their biomass <i>in situ</i> does not address their underlying mechanism of dominance and is less effective than more intensive treatments that also remove their litter.
Data from: Land abandonment and intensification diminish spatial and temporal β-diversity of grassland plants and herbivorous insects within paddy terraces
1. Although traditional land-use and management practices are known to enhance environmental heterogeneity in agricultural lands, loss of heterogeneity resulting from recent land-use changes can lead to spatiotemporal β-diversity losses (biotic homogenization). However, patterns and causes of β-diversity loss, especially at a within-field scale, have remained unexplored. 2. We examined β-diversity declines in plants, butterflies and orthopterans resulting from land abandonment and intensification in semi-natural grasslands on paddy margins at a within-field scale in relation to changes in disturbance frequency and surrounding landscapes by surveying eight abandoned, thirteen traditional and ten intensive paddy terraces. Three indices, the additive partitioning of species richness (βadd) and the turnover (βtu) and nestedness (βne) components of Jaccard dissimilarity of plants and herbivores, were used to evaluate different aspects of β-diversity. We hypothesized that biotic homogenization due to abandonment and intensification would be expressed as low spatiotemporal βadd and βtu, low spatial βne and high temporal βne. 3. The spatial and temporal βadd of plants and herbivores were higher in traditional terraces than in others. Changes in mowing frequency caused direct declines in butterfly βadd and indirectly decreased herbivore βadd through diminished plant βadd in abandoned and intensified terraces. 4. Neighbouring forests increased plant spatial and butterfly temporal βadd and βtu. Abandoned terraces had higher orthopteran spatial and plant temporal βtu than traditional terraces. Mowing frequency generally did not influence spatial and temporal βtu of plants and herbivores. In intensive terraces, temporal βne of plants were higher than in traditional terraces, suggesting dominance by plant species sharing similar phenologies. 4. Synthesis and applications. These results suggest that traditional mowing practices are essential for maintaining plant and herbivore βadd, and consequently, species pools within terraces. The higher spatial or temporal species turnover of plants and orthopterans in abandoned terraces and higher temporal plant nestedness in intensive than in traditional terraces were not due to increases in species pools within terraces. Because within-terrace environmental heterogeneity is thought to remain in abandoned and intensive terraces, we recommend reduction in mowing frequency in intensive terraces and reintroduction of mowing in abandoned terraces for biodiversity restoration.
Data from: Dissecting molecular evolution in the highly diverse plant clade Caryophyllales using transcriptome sequencing
Many phylogenomic studies based on transcriptomes have been limited to "single-copy" genes due to methodological challenges in homology and orthology inferences. Only a relatively small number of studies have explored analyses beyond reconstructing species relationships. We sampled 69 transcriptomes in the hyperdiverse plant clade Caryophyllales and 27 outgroups from annotated genomes across eudicots. Using a combined similarity- and phylogenetic tree-based approach, we recovered 10,960 homolog groups, where each was represented by at least eight ingroup taxa. By decomposing these homolog trees, and taking gene duplications into account, we obtained 17,273 ortholog groups, where each was represented by at least ten ingroup taxa. We reconstructed the species phylogeny using a 1,122-gene data set with a gene occupancy of 92.1%. From the homolog trees, we found that both synonymous and nonsynonymous substitution rates in herbaceous lineages are up to three times as fast as in their woody relatives. This is the first time such a pattern has been shown across thousands of nuclear genes with dense taxon sampling. We also pinpointed regions of the Caryophyllales tree that were characterized by relatively high frequencies of gene duplication, including three previously unrecognized whole-genome duplications. By further combining information from homolog tree topology and synonymous distance between paralog pairs, phylogenetic locations for 13 putative genome duplication events were identified. Genes that experienced the greatest gene family expansion were concentrated among those involved in signal transduction and oxidoreduction, including a cytochrome P450 gene that encodes a key enzyme in the betalain synthesis pathway. Our approach demonstrates a new approach for functional phylogenomic analysis in nonmodel species that is based on homolog groups in addition to inferred ortholog groups.
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