Grassland ecotopes of the upper Meuse as references for habitats and biodiversity restoration: A synthesis

The river valley of the French upper Meuse and its floodplain, constitutes a relatively natural ecosystem which still contains many endangered species of high conservation value. For example, several birds (Crex crex, Numenius arquata) as well as plant species (Gratiola officinalis, Inula britannica, Teucrium scordium, Ranunculus lingua and Mentha pulegium) which have declined seriously in France in recent times are found in the upper Meuse floodplain. Phytosociological studies and water level measurements have shown that the floristic diversity is mainly influenced by hydrological fluctuations and agricultural practices. The plant communities are structured along a topographical gradient in the high water bed reflecting the duration of floods and the ground water table depth. Agricultural practices have influenced the vegetation changes by selecting species adapted to particular management practices (e.g., fertiliser use, grazing, cutting regime). The data collected in this study from the upper Meuse as enabled 13 grassland and wetland ecotopes to be defined which are correlated with different environmental factors. Fertiliser use, grazing and reduction in the frequency of the cutting lead to a lower species richness because they encourage competitive species. However, it is also demonstrated, that maximum biodiversity is not always synonymous with high conservation value because some impoverished ecosystems, e.g., sedges and tall forb formations, may contain endangered plant and bird species. Knowledge of the boundaries between the different plant communities enables likely changes in floristic composition after modification of one or more site factors to be forecasted. Such factors include, water table depth and flood frequency, cutting regime, fertiliser use and grazing pressure. Thus, the definition of these ecotopes, corresponding to correlations between water regime, agricultural practice and vegetation composition, could lead to the establishment of guidelines for water and agricultural managements that could be involved in restoration projects.     

Response of vegetation and fire to Little Ice Age climate change: regional continuity and landscape heterogeneity

Late-Holocene climatic conditions in the upper Great Lakes region have changed sufficiently to produce significant changes in vegetation and fire regimes. The objective of this study was to determine how the vegetation mosaic and fire regimes on an oak (Quercus spp.)- and pine (Pinus spp.)-dominated sand plain in northwestern Wisconsin responded to climatic changes of the past 1,200 years. We used pollen and charcoal records from a network of sites to investigate the range of natural variability of vegetation on a 1,500-km² landscape on the southern part of the sand plain. A major vegetation shift from jack pine (Pinus banksiana) and red pine (P. resinosa) to increased abundance of white pine (P. strobus) occurred between 700 and 600 calendar years before present (cal yr BP), apparently corresponding to more mesic conditions regionally. A decrease in charcoal accumulation rate also occurred at most sites but was not synchronous with the vegetation change. At some sites there were further changes in vegetation and fire regimes occurring ～500–300 cal yr BP, but these changes were not as strong or unidirectional as those that occurred 700–600 cal yr BP. Our results suggest that both the composition and the distribution of vegetation of the southern part of the sand plain have been sensitive to relatively small climatic changes, and that the vegetation at the time of European settlement was a transitory phenomenon, rather than a long-term stable condition.     

Determinants of spread in an urban landscape by an introduced lizard

Context

Urban landscapes are a mixture of built structures, human-altered vegetation, and remnant semi-natural areas. The spatial arrangement of abiotic and biotic conditions resulting from urbanization doubtless influences the establishment and spread of non-native species in a city.

Objectives

We investigated the effects of habitat structure, thermal microclimates, and species coexistence on the spread of a non-native lizard (Anolis cristatellus) in the Miami metropolitan area of South Florida (USA).

Methods

We used transect surveys to estimate lizard occurrence and abundance on trees and to measure vegetation characteristics, and we assessed forest cover and impervious surface using GIS. We sampled lizard body temperatures, habitat use, and relative abundance at multiple sites.

Results

At least one of five Anolis species occupied 79 % of the 1035 trees surveyed in primarily residential areas, and non-native A. cristatellus occupied 25 % of trees. Presence and abundance of A. cristatellus were strongly associated with forest patches, dense vegetation, and high canopy cover, which produced cooler microclimates suitable for this species. Presence of A. cristatellus was negatively associated with the ecologically similar non-native A. sagrei, resulting in reduced abundance and a shift in perch use of A. cristatellus.

Conclusions

The limited spread of A. cristatellus in Miami over 35 years is due to the patchy, low-density distribution of wooded habitat, which limits dispersal by diffusion. The presence of congeners may also limit spread. Open habitats—some parks, yards and roadsides—contain few if any A. cristatellus, and colonization of isolated forest habitat appears to depend on human-mediated dispersal.

     

A landscape index of ecological integrity to inform landscape conservation

Context

Conservation planning is increasingly using “coarse filters” based on the idea of conserving “nature’s stage”. One such approach is based on ecosystems and the concept of ecological integrity, although myriad ways exist to measure ecological integrity.

Objectives

To describe our ecosystem-based index of ecological integrity (IEI) and its derivative index of ecological impact (ecoImpact), and illustrate their applications for conservation assessment and planning in the northeastern United States.

Methods

We characterized the biophysical setting of the landscape at the 30 m cell resolution using a parsimonious suite of settings variables. Based on these settings variables and mapped ecosystems, we computed a suite of anthropogenic stressor metrics reflecting intactness (i.e., freedom from anthropogenic stressors) and resiliency metrics (i.e., connectivity to similar neighboring ecological settings), quantile-rescaled them by ecosystem and geographic extent, and combined them in a weighted linear model to create IEI. We used the change in IEI over time under a land use scenario to compute ecoImpact.

Results

We illustrated the calculation of IEI and ecoImpact to compare the ecological integrity consequences of a 70-year projection of urban growth to an alternative scenario involving securing a network of conservation core areas (reserves) from future development.

Conclusions

IEI and ecoImpact offer an effective way to assess ecological integrity across the landscape and examine the potential ecological consequences of alternative land use and land cover scenarios to inform conservation decision making.

     

Disentangling the relative effect of light pollution,impervious surfaces and intensive agriculture on bat activity with a national-scale monitoring program

Context

Light pollution is a global change affecting a major proportion of global land surface. Although the impacts of Artificial Light At Night (ALAN) have been documented locally for many taxa, the extent of effect of ALAN at a landscape scale on biodiversity is unknown.

Objectives

We characterized the landscape-scale impacts of ALAN on 4 insectivorous bat species Pipistrellus pipistrellus, Pipistrellus kuhlii, Eptesicus serotinus, Nyctalus leisleri, and compared the extent of their effects to other major land-use pressures.

Methods

We used a French national-scale monitoring program recording bat activity among 2-km car transect surveys, and extracted landscape characteristics around transects with satellite and land cover layers. For each species, we performed multi-model averaging at 4 landscape scales (from 200 to 1000 m buffers around transects) to compare the relative effects of the average radiance, the proportion of impervious surface and the proportion of intensive agriculture.

Results

For all species, ALAN had a stronger negative effect than impervious surface at the 4 landscape scales tested. This effect was weaker than the effect of intensive agriculture. The negative effect of ALAN was significant for P. pipistrellus, P. kuhlii and E. serotinus, but not for N. leisleri. The effect of impervious surface varied among species while intensive agriculture had a significant negative effect on the 4 species.

Conclusion

Our results highlight the need to consider the impacts of ALAN on biodiversity in land-use planning and suggest that using only impervious surface as a proxy for urbanization may lead to underestimated impacts on biodiversity.

     

Surface metrics: scaling relationships and downscaling behavior

Context

Considerable research has examined scale effects for patch-based metrics with the ultimate goal of predicting values at finer resolutions (i.e., downscaling), but results have been inconsistent. Surface metrics have been suggested as an alternative to patch-based metrics, although far less is known about their scaling relationships and downscaling potential. If successful, downscaling would enable integration of disparate datasets and comparison of landscapes using different resolution datasets.

Objectives

(1) Determine how surface metrics scale as resolution changes and how consistent those scaling relationships are across landscapes. (2) Test whether these scaling relationships can be accurately downscaled to predict metric values for finer resolutions.

Methods

Various scaling functions were fit to 16 surface metrics computed for multiple resolutions for a set of landscapes. Best-fitting functions were then extrapolated to test downscaling behavior (i.e., predict metric value for a finer resolution) for an independent set of validation landscapes. Relative error was assessed between the predicted and true values to determine downscaling robustness.

Results

Seven surface metrics (Sa, Sq, S10z, Sdq, Sds, Sdr, Srwi) fit consistently well (R² > 0.99) with a 3rd order polynomial or power law. Of those, the scaling functions for Sa, Sq, and S10z were able to predict metric values at a finer resolution within 5 %. Three metrics, (Ssk, Sku, Sfd) were also notable in terms of fit and downscaling.

Conclusions

Many metrics exhibit consistent scaling relations across resolution, and several are able to accurately predict values at finer resolutions. However, prediction accuracy is likely related to the amount of information lost during aggregation.

     

<Emphasis Type="Italic">Dactylonectria torresensis</Emphasis> as the Main Component of the Black Root Rot Complex of Strawberries and Raspberries in Northern Germany

In a long-term survey of black root rot of strawberries and raspberries in Northern Germany in 2007–2014, fungi with and without Cylindrocarpon-like anamorphs were isolated as potential pathogens. Dactylonectria torresensis was the most common species, being isolated from 18% of strawberry roots obtained from nursery plants and 37% of roots from production fields, as well as 21% and 29% (respectively) of raspberry roots. Less frequently isolated fungi with Cylindrocarpon-like anamorphs included Ilyonectria crassa, Ilyonectria sp. 2, I. pseudodestructans, I. robusta, C. obtusisporium and Ilyonectria sp. 1. Severe disease symptoms were reproduced by artificial inoculation of strawberries with D. torresensis, I. crassa and Ilyonectria sp. 2, milder symptoms with C. obtusisporium. A wide range of other root-pathogenic fungi such as Fusarium oxysporum, Verticillium dahliae, Ceratobasidium fragariae, Gnomoniopsis fructicola, Hainesia lythri, and species of Cadophora, Leptodontidium, Pythium, Phytophthora, Plectosporella, Pestalotiopsis and Truncatella were either isolated only sporadically or were not associated with black root rot symptoms, suggesting that they did not play any major role in this disease in Northern Germany. Visible disease symptoms and high frequencies of D. torresensis isolations in many batches of nursery plants indicated that these may comprise a major source of contamination of production fields. The previously unrecognised prominence of D. torresensis resolves a long-standing puzzle concerning the cause of the ongoing black root rot epidemic in Northern German strawberry and raspberry production.     

Landscape capability models as a tool to predict fine-scale forest bird occupancy and abundance

Context

Species-specific models of landscape capability (LC) can inform landscape conservation design. Landscape capability is “the ability of the landscape to provide the environment […] and the local resources […] needed for survival and reproduction […] in sufficient quantity, quality and accessibility to meet the life history requirements of individuals and local populations.” Landscape capability incorporates species’ life histories, ecologies, and distributions to model habitat for current and future landscapes and climates as a proactive strategy for conservation planning.

Objectives

We tested the ability of a set of LC models to explain variation in point occupancy and abundance for seven bird species representative of spruce-fir, mixed conifer-hardwood, and riparian and wooded wetland macrohabitats.

Methods

We compiled point count data sets used for biological inventory, species monitoring, and field studies across the northeastern United States to create an independent validation data set. Our validation explicitly accounted for underestimation in validation data using joint distance and time removal sampling.

Results

Blackpoll warbler (Setophaga striata), wood thrush (Hylocichla mustelina), and Louisiana (Parkesia motacilla) and northern waterthrush (P. noveboracensis) models were validated as predicting variation in abundance, although this varied from not biologically meaningful (1%) to strongly meaningful (59%). We verified all seven species models [including ovenbird (Seiurus aurocapilla), blackburnian (Setophaga fusca) and cerulean warbler (Setophaga cerulea)], as all were positively related to occupancy data.

Conclusions

LC models represent a useful tool for conservation planning owing to their predictive ability over a regional extent. As improved remote-sensed data become available, LC layers are updated, which will improve predictions.

     

Anther culture in rice proportionally rescues microspores according to gametophytic gene effect and enhances genetic study of hybrid sterility

Background

To investigate plant hybrid sterility, we studied interspecific hybrids of two cultivated rice species, Asian rice (Oryza sativa) and African rice (O. glaberrima). Male gametes of these hybrids display complete sterility owing to a dozen of hybrid sterility loci, termed HS loci, but this complicated genetic system remains poorly understood.

Results

Microspores from these interspecific hybrids form sterile pollen but are viable at the immature stage. Application of the anther culture (AC) method caused these immature microspores to induce callus. The segregation distortion of 11 among 13 known HS loci was assessed in the callus population. Using many individual calli, fine mapping of the HS loci was attempted based on heterozygotes produced from chromosome segment substitution lines (CSSLs). Transmission ratio distortion (TRD) from microspores was detected at 6 of 11 HS loci in the callus population. The fine mapping of S₁ and S₁₉ loci using CSSLs revealed precise distances of markers from the positions of HS loci exhibiting excessive TRD.

Conclusions

We demonstrated that AC to generate callus populations derived from immature microspores is a useful methodology for genetic study. The callus population facilitated detection of TRD at multiple HS loci and dramatically shortened the process for mapping hybrid sterility genes.

     

Scale-specific habitat relationships influence patch occupancy: defining neighborhoods to optimize the effectiveness of landscape-scale grassland bird conservation

Context

Beyond the recognized importance of protecting large areas of contiguous habitat, conservation efforts for many species are complicated by the fact that patch suitability may also be affected by characteristics of the landscape within which the patch is located. Currently, little is known about the spatial scales at which species respond to different aspects of the landscape surrounding an occupied patch.

Objectives

Using grassland bird point count data, we describe an approach to evaluating scale-specific effects of landscape composition on patch occupancy.

Methods

We used data from 793 point count surveys conducted in idle and grazed grasslands across Wisconsin, USA from 2012 to 2014 to evaluate scale-dependencies in the response of grassland birds to landscape composition. Patch occupancy models were used to evaluate the relationship between occupancy and landscape composition at scales from 100 to 3000 m.

Results

Bobolink (Dolichonyx oryzivorus) exhibited a pattern indicating selection for grassland habitats in the surrounding landscape at all spatial scales while selecting against other habitats. Eastern Meadowlark (Sturnella magna) displayed evidence of scale sensitivity for all habitat types. Grasshopper Sparrow (Ammodramus savannarum) showed a strong positive response to pasture and idle grass at all scales and negatively to cropland at large scales. Unlike other species, patch occupancy by Henslow’s Sparrow (A. henslowii) was primarily influenced by patch area.

Conclusions

Our results suggest that both working grasslands (pasture) and idle conservation grasslands can play an important role in grassland bird conservation but also highlight the importance of considering species-specific patch and landscape characteristics for effective conservation.

     

Drones for butterfly conservation: larval habitat assessment with an unmanned aerial vehicle

Context

Evidence-based nature conservation focuses on ecological facts and the incorporation of knowledge on the ecology of species, including its entire life cycle. In butterflies, imagos and its larvae often demand specific and diverging micro-habitat structures and resources. In consequence, ecological requirements of the imaginal and pre-imaginal stage have to be taken into consideration to conduct effective conservation management.

Objective

Here we analyse ecological pre-requisites of imagos and larvae for two lycaenid butterfly species, the common blue Polyommatus icarus and the adonis blue Polyommatus bellargus. Both butterfly species occur in calcareous grasslands and mainly depend on two plant species at our study site, the horseshoe vetch Hippocrepis comosa and bird’s-foot trefoil Lotus corniculatus. These plant species serve as nectar sources and larval host plants for the two butterfly species.

Methods

First, we assessed the occurrence of imagines and larvae of the two butterfly species and recorded various micro-habitat characteristics, like the number of flower buds of the two main host plants, the surrounding vegetation height, percentage of bare soil, availability of shadow, and the distance to and geographic direction of thickets at respective sites. In a second step we took high resolution aerial pictures from our study area using an unmanned aerial vehicle (drone). Based on these aerial pictures and the information on the larvae´s habitat preference from our field observations, we trained a habitat suitability model to identify micro-habitat structures suitable for larvae of the two butterfly species.

Results

We found that abundance of imagos is positively correlated with flower bud density of the two host plants. Low vegetation height and high proportion of bare soil (but not flower bud density) positively influence egg oviposition. The calculated habitat suitability models predict the occurrence of high quality larval habitats with high prediction power (AUC = 0.72).

Conclusions

This combined data set consisting of field observations, high resolution aerial pictures taken from an unmanned aerial vehicle, and models underline that (1) species with complex life cycles may request more than one habitat niche, depending its stage of development, and (2) high resolution aerial pictures taken from drones provide valuable background data to generate habitat suitability models—even on a micro scale but covering larger parts of a landscape.

     

An efficient immunodetection method for histone modifications in plants

Background

Epigenetic mechanisms can be highly dynamic, but the cross-talk among them and with the genome is still poorly understood. Many of these mechanisms work at different places in the cell and at different times of organism development. Covalent histone modifications are one of the most complex and studied epigenetic mechanisms involved in cellular reprogramming and development in plants. Therefore, the knowledge of the spatial distribution of histone methylation in different tissues is important to understand their behavior on specific cells.

Results

Based on the importance of epigenetic marks for biology, we present a simplified, inexpensive and efficient protocol for in situ immunolocalization on different tissues such as flowers, buds, callus, somatic embryo and meristematic tissue from several plants of agronomical and biological importance. Here, we fully describe all the steps to perform the localization of histone modifications. Using this method, we were able to visualize the distribution of H3K4me3 and H3K9me2 without loss of histological integrity of tissues from several plants, including Agave tequilana, Capsicum chinense, Coffea canephora and Cedrela odorata, as well as Arabidopsis thaliana.

Conclusions

There are many protocols to study chromatin modifications; however, most of them are expensive, difficult and require sophisticated equipment. Here, we provide an efficient protocol for in situ localization of histone methylation that dispenses with the use of expensive and sensitive enzymes. The present method can be used to investigate the cellular distribution and localization of a wide array of proteins, which could help to clarify the biological role that they play at specific times and places in different tissues of various plant species.

     

Predicting effects of future development on a territorial forest songbird: methodology matters

Context

Projected increases in human population size are expected to increase forest loss and fragmentation in the next century at the expense of forest-dwelling species.

Objectives

We estimated landscape carrying capacity (N _k) for Ovenbirds in urban, suburban, exurban, and rural areas for the years 2000 and 2050, and compared changes in N _k with changes in occupancy probability.

Methods

Maximum clique analysis, a branch of mathematical graph theory, was used to estimate landscape carrying capacity, the maximum potential number of territories a given landscape is capable of supporting (N _k). We used occupancy probability maps as inputs for calculating Ovenbird N _k in the northeastern USA and a spatially explicit growth model to forecast future development patterns in 2050. We compared occupancy probability with estimates of N _k for urban, suburban, exurban, and rural areas for the years 2000 and 2050.

Results

In response to human population growth and development, Ovenbird N _k was predicted to decrease 23% in urban landscapes, 28% in suburban landscapes, 43% in exurban landscapes, and 20% in rural landscapes. These decreases far exceeded decreases in mean occupancy probabilities that ranged between 2 and 5% across the same development categories. Thus, small decreases in occupancy probability between 2000 and 2050 translated to much larger decreases in N _k.

Conclusions

For the first time, our study compares occupancy probability with a species population metric, N _k, to assess the impact of future development. Maximum clique analysis is a tool that can be used to estimate N _k and inform landscape management and communication with stakeholders.

     

Analysis of Genetic Relationships Between Wild Roses (<Emphasis Type="Italic">Rosa</Emphasis> L. Spp.) Growing in Turkey

Rosa L. taxa are dominantly used for horticulture, food, medicinal, ornamental and aesthetic purposes. Rosa is represented with approximately 200 wild species in the world. The number of natural Rosa species in Turkey is reported as about 31. Rosa species are widely distributed in all regions in Turkey. In this study, RAPD and ISSR markers were applied to assess genetic diversity and genetic relationships among 27 species of Rosa. The UPGMA cluster was constructed using a combination of data from RAPD and ISSR markers. The dendrogram revealed two main clusters. Each cluster was divided into subgroups. This investigation showed that genetic distance was relatively significant among the species. As the results of the study close genetic relationships were found between evolutionary relations, morphplogical properties, and phytogeographical distributions of the Rosa species, The results also propose that RAPD and ISSR markers are useful tools for indicating genetic relationships among Rosa genotypes.     

User-friendly extraction and multistage tandem mass spectrometry based analysis of lipid-linked oligosaccharides in microalgae

Background

Protein N-glycosylation is initiated within the endoplasmic reticulum through the synthesis of a lipid-linked oligosaccharides (LLO) precursor. This precursor is then transferred en bloc on neo-synthesized proteins through the action of the oligosaccharyltransferase giving birth to glycoproteins. The N-linked glycans bore by the glycoproteins are then processed into oligomannosides prior to the exit of the glycoproteins from the endoplasmic reticulum and its entrance into the Golgi apparatus. In this compartment, the N-linked glycans are further maturated in complex type N-glycans. This process has been well studied in a lot of eukaryotes including higher plants. In contrast, little information regarding the LLO precursor and synthesis of N-linked glycans is available in microalgae.

Methods

In this report, a user-friendly extraction method combining microsomal enrichment and solvent extractions followed by purification steps is described. This strategy is aiming to extract LLO precursor from microalgae. Then, the oligosaccharide moiety released from the extracted LLO were analyzed by multistage tandem mass spectrometry in two models of microalgae namely the green microalgae, Chlamydomonas reinhardtii and the diatom, Phaeodactylum tricornutum.

Results

The validity of the developed method was confirmed by the analysis of the oligosaccharide structures released from the LLO of two xylosyltransferase mutants of C. reinhardtii confirming that this green microalga synthesizes a linear Glc₃Man₅GlcNAc₂ identical to the one of the wild-type cells. In contrast, the analysis of the oligosaccharide released from the LLO of the diatom P. tricornutum demonstrated for the first time a Glc₂Man₉GlcNAc₂ structure.

Conclusion

The method described in this article allows the fast, non-radioactive and reliable multistage tandem mass spectrometry characterization of oligosaccharides released from LLO of microalgae including the ones belonging to the Phaeodactylaceae and Chlorophyceae classes, respectively. The method is fully adaptable for extracting and characterizing the LLO oligosaccharide moiety from microalgae belonging to other phyla.

     

Landscape genetics of the foundational salt marsh plant species black needlerush (<Emphasis Type="Italic">Juncus roemerianus</Emphasis> Scheele) across the northeastern Gulf of Mexico

Context

Common species important for ecosystem restoration stand to lose as much genetic diversity from anthropogenic habitat fragmentation and climate change as rare species, but are rarely studied. Salt marshes, valuable ecosystems in widespread decline due to human development, are dominated by the foundational plant species black needlerush (Juncus roemerianus Scheele) in the northeastern Gulf of Mexico.

Objectives

We assessed genetic patterns in J. roemerianus by measuring genetic and genotypic diversity, and characterizing population structure. We examined population connectivity by delineating possible dispersal corridors, and identified landscape factors influencing population connectivity.

Methods

A panel of 19 microsatellite markers was used to genotype 576 samples from ten sites across the northeastern Gulf of Mexico from the Grand Bay National Estuarine Research Reserve (NERR) to the Apalachicola NERR. Genetic distances (F_ST and D_ch) were used in a least cost transect analysis (LCTA) within a hierarchical model selection framework.

Results

Genetic and genotypic diversity results were higher than expected based on life history literature, and samples structured into two large, admixed genetic clusters across the study area, indicating sexual reproduction may not be as rare as predicted in this clonal macrophyte. Digitized coastal transects buffered by 500 m may represent possible dispersal corridors, and developed land may significantly impede population connectivity in J. roemerianus.

Conclusions

Results have important implications for coastal restoration and management that seek to preserve adaptive potential by sustaining natural levels of genetic diversity and conserving population connectivity. Our methodology could be applied to other common, widespread and understudied species.