| 1. |
- Antão, Laura H., et al.
(författare)
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Climate change reshuffles northern species within their niches
- 2022
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Ingår i: Nature Climate Change. - : Springer Science and Business Media LLC. - 1758-678X .- 1758-6798. ; 12:6, s. 587-592
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Tidskriftsartikel (refereegranskat)abstract
- Climate change is a pervasive threat to biodiversity. While range shifts are a known consequence of climate warming contributing to regional community change, less is known about how species’ positions shift within their climatic niches. Furthermore, whether the relative importance of different climatic variables prompting such shifts varies with changing climate remains unclear. Here we analysed four decades of data for 1,478 species of birds, mammals, butterflies, moths, plants and phytoplankton along a 1,200 km high latitudinal gradient. The relative importance of climatic drivers varied non-uniformly with progressing climate change. While species turnover among decades was limited, the relative position of species within their climatic niche shifted substantially. A greater proportion of species responded to climatic change at higher latitudes, where changes were stronger. These diverging climate imprints restructure a full biome, making it difficult to generalize biodiversity responses and raising concerns about ecosystem integrity in the face of accelerating climate change.
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| 2. |
- Abarenkov, Kessy, et al.
(författare)
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Protax-fungi: A web-based tool for probabilistic taxonomic placement of fungal internal transcribed spacer sequences
- 2018
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Ingår i: New Phytologist. - : Wiley. - 0028-646X .- 1469-8137. ; 220:2, s. 517-525
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Tidskriftsartikel (refereegranskat)abstract
- © 2018 New Phytologist Trust. Incompleteness of reference sequence databases and unresolved taxonomic relationships complicates taxonomic placement of fungal sequences. We developed Protax-fungi, a general tool for taxonomic placement of fungal internal transcribed spacer (ITS) sequences, and implemented it into the PlutoF platform of the UNITE database for molecular identification of fungi. With empirical data on root- and wood-associated fungi, Protax-fungi reliably identified (with at least 90% identification probability) the majority of sequences to the order level but only around one-fifth of them to the species level, reflecting the current limited coverage of the databases. Protax-fungi outperformed the Sintax and Rdb classifiers in terms of increased accuracy and decreased calibration error when applied to data on mock communities representing species groups with poor sequence database coverage. We applied Protax-fungi to examine the internal consistencies of the Index Fungorum and UNITE databases. This revealed inconsistencies in the taxonomy database as well as mislabelling and sequence quality problems in the reference database. The according improvements were implemented in both databases. Protax-fungi provides a robust tool for performing statistically reliable identifications of fungi in spite of the incompleteness of extant reference sequence databases and unresolved taxonomic relationships.
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| 3. |
- Abrego, Nerea, et al.
(författare)
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Accounting for environmental variation in co-occurrence modelling reveals the importance of positive interactions in root-associated fungal communities
- 2020
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Ingår i: Molecular Ecology. - : Wiley. - 0962-1083 .- 1365-294X. ; 29:14, s. 2736-2746
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Tidskriftsartikel (refereegranskat)abstract
- Understanding the role of interspecific interactions in shaping ecological communities is one of the central goals in community ecology. In fungal communities, measuring interspecific interactions directly is challenging because these communities are composed of large numbers of species, many of which are unculturable. An indirect way of assessing the role of interspecific interactions in determining community structure is to identify the species co-occurrences that are not constrained by environmental conditions. In this study, we investigated co-occurrences among root-associated fungi, asking whether fungi co-occur more or less strongly than expected based on the environmental conditions and the host plant species examined. We generated molecular data on root-associated fungi of five plant species evenly sampled along an elevational gradient at a high arctic site. We analysed the data using a joint species distribution modelling approach that allowed us to identify those co-occurrences that could be explained by the environmental conditions and the host plant species, as well as those co-occurrences that remained unexplained and thus more probably reflect interactive associations. Our results indicate that not only negative but also positive interactions play an important role in shaping microbial communities in arctic plant roots. In particular, we found that mycorrhizal fungi are especially prone to positively co-occur with other fungal species. Our results bring new understanding to the structure of arctic interaction networks by suggesting that interactions among root-associated fungi are predominantly positive.
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| 4. |
- Abrego, Nerea, et al.
(författare)
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Higher host plant specialization of root-associated endophytes than mycorrhizal fungi along an arctic elevational gradient
- 2020
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Ingår i: Ecology and Evolution. - : Wiley. - 2045-7758. ; 10:16, s. 8989-9002
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Tidskriftsartikel (refereegranskat)abstract
- How community-level specialization differs among groups of organisms, and changes along environmental gradients, is fundamental to understanding the mechanisms influencing ecological communities. In this paper, we investigate the specialization of root-associated fungi for plant species, asking whether the level of specialization varies with elevation. For this, we applied DNA barcoding based on the ITS region to root samples of five plant species equivalently sampled along an elevational gradient at a high arctic site. To assess whether the level of specialization changed with elevation and whether the observed patterns varied between mycorrhizal and endophytic fungi, we applied a joint species distribution modeling approach. Our results show that host plant specialization is not environmentally constrained in arctic root-associated fungal communities, since there was no evidence for changing specialization with elevation, even if the composition of root-associated fungal communities changed substantially. However, the level of specialization for particular plant species differed among fungal groups, root-associated endophytic fungal communities being highly specialized on particular host species, and mycorrhizal fungi showing almost no signs of specialization. Our results suggest that plant identity affects associated mycorrhizal and endophytic fungi differently, highlighting the need of considering both endophytic and mycorrhizal fungi when studying specialization in root-associated fungal communities.
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| 5. |
- Bosco, Laura, et al.
(författare)
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Habitat area and local habitat conditions outweigh fragmentation effects on insect communities in vineyards
- 2023
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Ingår i: Ecological Solutions and Evidence. - : Wiley. - 2688-8319. ; 4:1
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Tidskriftsartikel (refereegranskat)abstract
- Fragmentation of habitat, for example by intensive agricultural practices, can be detrimental to local biodiversity. However, it often remains unclear whether such biodiversity declines are caused by loss of habitat area or increased fragmentation, and how habitat quality factors into it. In our study system, vegetated vineyards are typically small, and isolated from one another, potentially limiting the distribution and dispersal of organisms. In a full-factorial experiment of a priori selected vegetated vineyard patches of differing size and fragmentation, we aimed to disentangle the effects of habitat area (area of vegetated vineyards), habitat fragmentation (number of vegetated vineyards per 100 ha) and field-scale ground vegetation density on ground beetle, leafhopper and wild bee communities using a combined framework of multiscale and multispecies modelling (Hierarchical Model of Species Communities). We demonstrate variable effects of habitat area, fragmentation and local ground vegetation density on the three insect groups: Increased habitat area at fine scales favours higher species richness of leafhoppers, while local vegetation density boosts species richness of both leafhoppers and ground beetles, whereas no community-level responses were detected for wild bees. We conclude that increased ground vegetation density at both field and landscape scales (i.e. higher habitat area) favours more diverse and abundant insect communities, while fragmentation effects are highly variable and species specific. In addition, our results highlight that mainly ground beetles and leafhoppers will benefit from simple ground greening measures in vineyards, while for wild bees environmental factors other than the ones tested here may drive community structure. We recommend increasing the number and area of vegetated vineyards (even at small spatial scales) requiring more nature-friendly farming practices especially regarding a reduction or renunciation from herbicide applications, while the within-field vegetation density should optimally be intermediate or high to favour a diverse insect community.
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| 6. |
- Dawson, Samantha K., et al.
(författare)
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Convergence of fungal traits over time in natural and forestry-fragmented patches
- 2020
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Ingår i: Biological Conservation. - : Elsevier BV. - 0006-3207 .- 1873-2917. ; 251
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Tidskriftsartikel (refereegranskat)abstract
- Setting aside small remnant patches of high biodiversity forest within managed forest landscapes is often used as conservation measure to provide a refuge and future source population of forest biodiversity, including wood-inhabiting fungal communities. Yet little is known about the long-term fungal community assembly, how these small, isolated patches change through time and how forest management in the surrounding landscape impacts traits and community functionality housed within. We applied a joint species distribution model to compare how fungal traits and communities changed over two survey periods undertaken ~20 years apart in boreal forest set-aside and natural patches. Natural patches in naturally fragmented landscapes were considered reference forests for small, remnant, near-natural forest patches in intensively managed forest landscapes. We found the majority of fungal traits converged over time between set-aside and natural patches, without changes in overall species richness. Red-listed species occurrence was initially lower in set-aside patches, but reached a comparable level of natural patches over time as a result of opposing changes in both patch types. Functional trait changes were larger in set-aside patches, but convergence was also related to opposing changes in natural patches. This is the first study to directly measure and test wood fungal community trait-environment relationships over time in small, high-conservation value forest patches. The long-term functional trait and red-listed species values of set-asides, coupled with their capacity for old-growth recovery, make them valuable focal areas for conservation.
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| 7. |
- Deflem, Io S., et al.
(författare)
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Predicting fish community responses to environmental policy targets
- 2021
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Ingår i: Biodiversity and Conservation. - : Springer Science and Business Media LLC. - 0960-3115 .- 1572-9710. ; 30:5, s. 1457-1478
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Tidskriftsartikel (refereegranskat)abstract
- The European Union adopted the Water Framework Directive (WFD) in the year 2000 to tackle the rapid degradation of freshwater systems. However, biological, hydromorphological, and physico-chemical water quality targets are currently not met, and identifying successful policy implementation and management actions is of key importance. We built a joint species distribution model for riverine fish in Flanders (Belgium) to better understand the response of fish communities to current environmental policy goals. Environmental covariates included physico-chemical variables and hydromorphological quality indices, while waterway distances accounted for spatial effects. We detected strong effects of physico-chemistry on fish species’ distributions. Evaluation of fish community responses to simulated policy scenarios revealed that targeting a ‘good’ status, following the WFD, increases average species richness with a fraction of species (0.13–0.69 change in accumulated occurrence probabilities). Targeting a ‘very good’ status, however, predicted an increase of 0.17–1.38 in average species richness. These simulations indicated that riverbed quality, nitrogen, and conductivity levels should be the focal point of policy. However, the weak response of species to a ‘good’ quality together with the complexity of nutrient-associated problems, suggest a challenging future for river restoration in Flanders.
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| 8. |
- Graco-Roza, Caio, et al.
(författare)
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Distance decay 2.0 – A global synthesis of taxonomic and functional turnover in ecological communities
- 2022
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Ingår i: Global Ecology and Biogeography. - : Wiley. - 1466-822X .- 1466-8238. ; 31:7, s. 1399-1421
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Tidskriftsartikel (refereegranskat)abstract
- Aim: Understanding the variation in community composition and species abundances (i.e., beta-diversity) is at the heart of community ecology. A common approach to examine beta-diversity is to evaluate directional variation in community composition by measuring the decay in the similarity among pairs of communities along spatial or environmental distance. We provide the first global synthesis of taxonomic and functional distance decay along spatial and environmental distance by analysing 148 datasets comprising different types of organisms and environments.Location: Global.Time period: 1990 to present.Major taxa studied: From diatoms to mammals.Method: We measured the strength of the decay using ranked Mantel tests (Mantel r) and the rate of distance decay as the slope of an exponential fit using generalized linear models. We used null models to test whether functional similarity decays faster or slower than expected given the taxonomic decay along the spatial and environmental distance. We also unveiled the factors driving the rate of decay across the datasets, including latitude, spatial extent, realm and organismal features.Results: Taxonomic distance decay was stronger than functional distance decay along both spatial and environmental distance. Functional distance decay was random given the taxonomic distance decay. The rate of taxonomic and functional spatial distance decay was fastest in the datasets from mid-latitudes. Overall, datasets covering larger spatial extents showed a lower rate of decay along spatial distance but a higher rate of decay along environmental distance. Marine ecosystems had the slowest rate of decay along environmental distances.Main conclusions: In general, taxonomic distance decay is a useful tool for biogeographical research because it reflects dispersal-related factors in addition to species responses to climatic and environmental variables. Moreover, functional distance decay might be a cost-effective option for investigating community changes in heterogeneous environments.
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| 9. |
- Kivela, Sami M., et al.
(författare)
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The past and the present in decision-making : the use of conspecific and heterospecific cues in nest site selection
- 2014
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Ingår i: Ecology. - : Wiley. - 0012-9658 .- 1939-9170. ; 95:12, s. 3428-3439
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Tidskriftsartikel (refereegranskat)abstract
- Nest site selection significantly affects fitness, so adaptations for assessment of the qualities of available sites are expected. The assessment may be based on personal or social information, the latter referring to the observed location and performance of both conspecific and heterospecific individuals. Contrary to large-scale breeding habitat selection, small-scale nest site selection within habitat patches is insufficiently understood. We analyzed nest site selection in the migratory Collared Flycatcher Ficedula albicollis in relation to present and past cues provided by conspecifics and by resident tits within habitat patches by using long-term data. Collared Flycatchers preferred nest boxes that were occupied by conspecifics in the previous year. This preference was strongest in breeding pairs where both individuals bred in the same forest patch in the previous year. The results also suggest preference for nest boxes close to boxes where conspecifics had a high breeding success in the previous year, and for nest boxes which are presently surrounded by a high number of breeding Great Tits Parus major. The results indicate social information use in nest site selection at a small spatial scale, where Collared Flycatchers use conspecific cues with a time lag of one year and heterospecific cues instantly.
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| 10. |
- Kyaschenko, Julia, et al.
(författare)
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Soil fertility in boreal forest relates to root-driven nitrogen retention and carbon sequestration in the mor layer
- 2019
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Ingår i: New Phytologist. - : Blackwell Science Ltd.. - 0028-646X .- 1469-8137. ; 221:3, s. 1492-1502
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Tidskriftsartikel (refereegranskat)abstract
- Boreal forest soils retain significant amounts of carbon (C) and nitrogen (N) in purely organic layers, but the regulation of organic matter turnover and the relative importance of leaf litter and root‐derived inputs are not well understood.We combined bomb 14C dating of organic matter with stable isotope profiling for Bayesian parameterization of an organic matter sequestration model. C and N dynamics were assessed across annual depth layers (cohorts), together representing 256 yr of organic matter accumulation. Results were related to ecosystem fertility (soil inorganic N, pH and litter C : N).Root‐derived C was estimated to decompose two to 10 times more slowly than leaf litter, but more rapidly in fertile plots. The amounts of C and N per cohort declined during the initial 20 yr of decomposition, but, in older material, the amount of N per cohort increased, indicating N retention driven by root‐derived C.The dynamics of root‐derived inputs were more important than leaf litter dynamics in regulating the variation in organic matter accumulation along a forest fertility gradient. N retention in the rooting zone combined with impeded mining for N in less fertile ecosystems provides evidence for a positive feedback between ecosystem fertility and organic matter turnover.
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| 11. |
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| 12. |
- Lönnell, Niklas, et al.
(författare)
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Testing a mechanistic dispersal model against a dispersal experiment with a wind-dispersed moss
- 2015
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Ingår i: Oikos. - : Wiley. - 0030-1299 .- 1600-0706. ; 124:9, s. 1232-1240
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Tidskriftsartikel (refereegranskat)abstract
- Wind is the main dispersal agent for a wide array of species and for these species the environmental conditions under which diaspores are released can potentially modify the dispersal kernel substantially. Little is known about how bryophytes regulate spore release, but conditions affecting peristome movements and vibration of the seta may be important. We modelled airborne spore dispersal of the bryophyte species Discelium nudum (spore diameter 25 m), in four different release scenarios, using a Lagrangian stochastic dispersion model and meteorological data. We tested the model predictions against experimental data on colonization success at five distances (5, 10, 30, 50 and 100 m) and eight directions from a translocated point source during seven two-day periods. The model predictions were generally successful in describing the observed colonization patterns, especially beyond 10 m. In the laboratory we established spore release thresholds; horizontal wind speed sd > 0.25 m s(-1) induced the seta to vibrate and in relative humidity < 75% the peristome was open. Our dispersal model predicts that the proportion of spores dispersing beyond 100 m is almost twice as large if the spores are released under turbulent conditions than under more stable conditions. However, including release thresholds improved the fit of the model to the colonization data only minimally, with roughly the same amount of variation explained by the most constrained scenario (assuming both vibration of the seta and an open peristome) and the scenario assuming random release. Model predictions under realised experimental conditions suggest that we had a low statistical power to rank the release scenarios due to the lack of measurements of the absolute rate of spore release. Our results hint at the importance of release conditions, but also highlight the challenges in dispersal experiments intended for validating mechanistic dispersal models.
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| 13. |
- Nilsson, R. Henrik, 1976, et al.
(författare)
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Five simple guidelines for establishing basic authenticity and reliability of newly generated fungal ITS sequences
- 2012
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Ingår i: MycoKeys. - : Pensoft Publishers. - 1314-4057 .- 1314-4049. ; 4, s. 37-63
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Tidskriftsartikel (refereegranskat)abstract
- Molecular data form an important research tool in most branches of mycology. A non-trivial proportion of the public fungal DNA sequences are, however, compromised in terms of quality and reliability, contributing noise and bias to sequence-borne inferences such as phylogenetic analysis, diversity assessment, and barcoding. In this paper we discuss various aspects and pitfalls of sequence quality assessment. Based on our observations, we provide a set of guidelines to assist in manual quality management of newly generated, near-full-length (Sanger-derived) fungal ITS sequences and to some extent also sequences of shorter read lengths, other genes or markers, and groups of organisms. The guidelines are intentionally non-technical and do not require substantial bioinformatics skills or significant computational power. Despite their simple nature, we feel they would have caught the vast majority of the severely compromised ITS sequences in the public corpus. Our guidelines are nevertheless not infallible, and common sense and intuition remain important elements in the pursuit of compromised sequence data. The guidelines focus on basic sequence authenticity and reliability of the newly generated sequences, and the user may want to consider additional resources and steps to accomplish the best possible quality control. A discussion on the technical resources for further sequence quality management is therefore provided in the supplementary material.
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| 14. |
- Nonaka, Etsuko, et al.
(författare)
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Scaling up the effects of inbreeding depression from individuals to metapopulations
- 2019
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Ingår i: Journal of Animal Ecology. - : Wiley. - 0021-8790 .- 1365-2656. ; 88:8, s. 1202-1214
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Tidskriftsartikel (refereegranskat)abstract
- Inbreeding is common in nature, and many laboratory studies have documented that inbreeding depression can reduce the fitness of individuals. Demonstrating the consequences of inbreeding depression on the growth and persistence of populations is more challenging because populations are often regulated by density- or frequency-dependent selection and influenced by demographic and environmental stochasticity. A few empirical studies have shown that inbreeding depression can increase extinction risk of local populations. The importance of inbreeding depression at the metapopulation level has been conjectured based on population-level studies but has not been evaluated. We quantified the impact of inbreeding depression affecting the fitness of individuals on metapopulation persistence in heterogeneous habitat networks of different sizes and habitat configuration in a context of natural butterfly metapopulations. We developed a spatial individual-based simulation model of metapopulations with explicit genetics. We used Approximate Bayesian Computation to fit the model to extensive demographic, genetic and life-history data available for the well-studied Glanville fritillary butterfly (Melitaea cinxia) metapopulations in the angstrom land islands in SW Finland. We compared 18 semi-independent habitat networks differing in size and fragmentation. The results show that inbreeding is more frequent in small habitat networks, and consequently, inbreeding depression elevates extinction risks in small metapopulations. Metapopulation persistence and neutral genetic diversity maintained in the metapopulations increase with the total habitat amount in and mean patch size of habitat networks. Dispersal and mating behaviour interact with landscape structure to determine how likely it is to encounter kin while looking for mates. Inbreeding depression can decrease the viability of small metapopulations even when they are strongly influenced by stochastic extinction-colonization dynamics and density-dependent selection. The findings from this study support that genetic factors, in addition to demographic factors, can contribute to extinctions of small local populations and also of metapopulations.
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| 15. |
- Opedal, Øystein H., et al.
(författare)
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Host-plant availability drives the spatiotemporal dynamics of interacting metapopulations across a fragmented landscape
- 2020
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Ingår i: Ecology. - : Wiley. - 0012-9658 .- 1939-9170. ; 101:12
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Tidskriftsartikel (refereegranskat)abstract
- The dynamics of ecological communities depend partly on species interactions within and among trophic levels. Experimental work has demonstrated the impact of species interactions on the species involved, but it remains unclear whether these effects can also be detected in long-term time series across heterogeneous landscapes. We analyzed a 19-year time series of patch occupancy by the Glanville fritillary butterfly Melitaea cinxia, its specialist parasitoid wasp Cotesia melitaearum, and the specialist fungal pathogen Podosphaera plantaginis infecting Plantago lanceolata, a host plant of the Glanville fritillary. These species share a network of more than 4,000 habitat patches in the Åland islands, providing a metacommunity data set of unique spatial and temporal resolution. To assess the influence of interactions among the butterfly, parasitoid, and mildew on metacommunity dynamics, we modeled local colonization and extinction rates of each species while including or excluding the presence of potentially interacting species in the previous year as predictors. The metapopulation dynamics of all focal species varied both along a gradient in host plant abundance, and spatially as indicated by strong effects of local connectivity. Colonization and to a lesser extent extinction rates depended also on the presence of interacting species within patches. However, the directions of most effects differed from expectations based on previous experimental and modeling work, and the inferred influence of species interactions on observed metacommunity dynamics was limited. These results suggest that although local interactions among the butterfly, parasitoid, and mildew occur, their roles in metacommunity spatiotemporal dynamics are relatively weak. Instead, all species respond to variation in plant abundance, which may in turn fluctuate in response to variation in climate, land use, or other environmental factors.
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| 16. |
- Opedal, Øystein H., et al.
(författare)
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Measuring, comparing and interpreting phenotypic selection on floral scent
- 2022
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Ingår i: Journal of evolutionary biology. - : Wiley. - 1010-061X .- 1420-9101. ; 35:11, s. 1432-1441
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Tidskriftsartikel (refereegranskat)abstract
- Natural selection on floral scent composition is a key element of the hypothesis that pollinators and other floral visitors drive scent evolution. The measure of such selection is complicated by the high-dimensional nature of floral scent data and uncertainty about the cognitive processes involved in scent-mediated communication. We use dimension reduction through reduced-rank regression to jointly estimate a scent composite trait under selection and the strength of selection acting on this trait. To assess and compare variation in selection on scent across species, time and space, we reanalyse 22 datasets on six species from four previous studies. The results agreed qualitatively with previous analyses in terms of identifying populations and scent compounds subject to stronger selection but also allowed us to evaluate and compare the strength of selection on scent across studies. Doing so revealed that selection on floral scent was highly variable, and overall about as common and as strong as selection on other phenotypic traits involved in pollinator attraction or pollen transfer. These results are consistent with an important role of floral scent in pollinator attraction. Our approach should be useful for further studies of plant–animal communication and for studies of selection on other high-dimensional phenotypes. In particular, our approach will be useful for studies of pollinator-mediated selection on complex scent blends comprising many volatiles, and when no prior information on the physiological responses of pollinators to scent compounds is available.
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| 17. |
- Ottosson, Elisabet, et al.
(författare)
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Species associations during the succession of wood-inhabiting fungal communities
- 2014
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Ingår i: Fungal ecology. - : Elsevier BV. - 1754-5048 .- 1878-0083. ; 11, s. 17-28
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Tidskriftsartikel (refereegranskat)abstract
- We studied fungal succession in decaying wood by compiling time-series data of fruit body observations. We tested the hypothesis that the presence of a primary species affects the probability of a succeeding species occurring later on the same log. Significant associations were detected for 15 species pairs; these were consistent with earlier findings on cooccurrence patterns in single time surveys. We used enrichment analysis to test if species with particular life-history attributes were more often associated with the occurrence of a succeeding species, or vice versa. White rot fungi and fungi abundant as mycelia were more often associated with the occurrence of succeeding species, compared to brown rot fungi and species with low mycelial abundance. Our results indicate that certain primary species cause priority effects and non-random co-occurrence patterns in the field. These successional patterns are likely to be connected both with substrate modification and species interactions.
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| 18. |
- Ovaskainen, Otso, et al.
(författare)
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Global Spore Sampling Project: A global, standardized dataset of airborne fungal DNA
- 2024
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Ingår i: Scientific Data. - 2052-4463. ; 11
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Tidskriftsartikel (refereegranskat)abstract
- Novel methods for sampling and characterizing biodiversity hold great promise for re-evaluating patterns of life across the planet. The sampling of airborne spores with a cyclone sampler, and the sequencing of their DNA, have been suggested as an efficient and well-calibrated tool for surveying fungal diversity across various environments. Here we present data originating from the Global Spore Sampling Project, comprising 2,768 samples collected during two years at 47 outdoor locations across the world. Each sample represents fungal DNA extracted from 24 m3 of air. We applied a conservative bioinformatics pipeline that filtered out sequences that did not show strong evidence of representing a fungal species. The pipeline yielded 27,954 species-level operational taxonomic units (OTUs). Each OTU is accompanied by a probabilistic taxonomic classification, validated through comparison with expert evaluations. To examine the potential of the data for ecological analyses, we partitioned the variation in species distributions into spatial and seasonal components, showing a strong effect of the annual mean temperature on community composition.
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| 19. |
- Piirainen, Sirke, et al.
(författare)
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Species distributions models may predict accurately future distributions but poorly how distributions change : A critical perspective on model validation
- 2023
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Ingår i: Diversity and Distributions. - : Wiley. - 1366-9516 .- 1472-4642. ; 29:5, s. 654-665
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Tidskriftsartikel (refereegranskat)abstract
- Aim: Species distribution models (SDMs) are widely used to make predictions on how species distributions may change as a response to climatic change. To assess the reliability of those predictions, they need to be critically validated with respect to what they are used for. While ecologists are typically interested in how and where distributions will change, we argue that SDMs have seldom been evaluated in terms of their capacity to predict such change. Instead, typical retrospective validation methods estimate model's ability to predict to only one static time in future. Here, we apply two validation methods, one that predicts and evaluates a static pattern, while the other measures change and compare their estimates of predictive performance. Location: Fennoscandia. Methods: We applied a joint SDM to model the distributions of 120 bird species in four model validation settings. We trained models with a dataset from 1975 to 1999 and predicted species' future occurrence and abundance in two ways: for one static time period (2013–2016, ‘static validation’) and for a change between two time periods (difference between 1996–1999 and 2013–2016, ‘change validation’). We then measured predictive performance using correlation between predicted and observed values. We also related predictive performance to species traits. Results: Even though static validation method evaluated predictive performance as good, change method indicated very poor performance. Predictive performance was not strongly related to any trait. Main Conclusions: Static validation method might overestimate predictive performance by not revealing the model's inability to predict change events. If species' distributions remain mostly stable, then even an unfit model can predict the near future well due to temporal autocorrelation. We urge caution when working with forecasts of changes in spatial patterns of species occupancy or abundance, even for SDMs that are based on time series datasets unless they are critically validated for forecasting such change.
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| 20. |
- Roslin, Tomas, et al.
(författare)
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A molecular-based identification resource for the arthropods of Finland
- 2022
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Ingår i: Molecular Ecology Resources. - : Wiley. - 1755-098X .- 1755-0998. ; 22:2, s. 803-822
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Tidskriftsartikel (refereegranskat)abstract
- To associate specimens identified by molecular characters to other biological knowledge, we need reference sequences annotated by Linnaean taxonomy. In this study, we (1) report the creation of a comprehensive reference library of DNA barcodes for the arthropods of an entire country (Finland), (2) publish this library, and (3) deliver a new identification tool for insects and spiders, as based on this resource. The reference library contains mtDNA COI barcodes for 11,275 (43%) of 26,437 arthropod species known from Finland, including 10,811 (45%) of 23,956 insect species. To quantify the improvement in identification accuracy enabled by the current reference library, we ran 1000 Finnish insect and spider species through the Barcode of Life Data system (BOLD) identification engine. Of these, 91% were correctly assigned to a unique species when compared to the new reference library alone, 85% were correctly identified when compared to BOLD with the new material included, and 75% with the new material excluded. To capitalize on this resource, we used the new reference material to train a probabilistic taxonomic assignment tool, FinPROTAX, scoring high success. For the full-length barcode region, the accuracy of taxonomic assignments at the level of classes, orders, families, subfamilies, tribes, genera, and species reached 99.9%, 99.9%, 99.8%, 99.7%, 99.4%, 96.8%, and 88.5%, respectively. The FinBOL arthropod reference library and FinPROTAX are available through the Finnish Biodiversity Information Facility (www.laji.fi) at https://laji.fi/en/theme/protax. Overall, the FinBOL investment represents a massive capacity-transfer from the taxonomic community of Finland to all sectors of society.
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| 21. |
- Wirta, Helena, et al.
(författare)
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The role of seasonality in shaping the interactions of honeybees with other taxa
- 2023
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Ingår i: Ecology and Evolution. - 2045-7758. ; 13:10
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Tidskriftsartikel (refereegranskat)abstract
- The Eltonian niche of a species is defined as its set of interactions with other taxa. How this set varies with biotic, abiotic and human influences is a core question of modern ecology. In seasonal environments, the realized Eltonian niche is likely to vary due to periodic changes in the occurrence and abundance of interaction partners and changes in species behavior and preferences. Also, human management decisions may leave strong imprints on species interactions. To compare the impact of seasonality to that of management effects, honeybees provide an excellent model system. Based on DNA traces of interaction partners archived in honey, we can infer honeybee interactions with floral resources and microbes in the surrounding habitats, their hives, and themselves. Here, we resolved seasonal and management-based impacts on honeybee interactions by sampling beehives repeatedly during the honey-storing period of honeybees in Finland. We then use a genome-skimming approach to identify the taxonomic contents of the DNA in the samples. To compare the effects of the season to the effects of location, management, and the colony itself in shaping honeybee interactions, we used joint species distribution modeling. We found that honeybee interactions with other taxa varied greatly among taxonomic and functional groups. Against a backdrop of wide variation in the interactions documented in the DNA content of honey from bees from different hives, regions, and beekeepers, the imprint of the season remained relatively small. Overall, a honey-based approach offers unique insights into seasonal variation in the identity and abundance of interaction partners among honeybees. During the summer, the availability and use of different interaction partners changed substantially, but hive- and taxon-specific patterns were largely idiosyncratic as modified by hive management. Thus, the beekeeper and colony identity are as important determinants of the honeybee's realized Eltonian niche as is seasonality.
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| 22. |
- Zheng, Chaozhi, et al.
(författare)
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Beyond metacommunity paradigms : habitat configuration, life history, and movement shape an herbivore community on oak
- 2015
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Ingår i: Ecology. - : Wiley. - 0012-9658 .- 1939-9170. ; 96:12, s. 3175-3185
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Tidskriftsartikel (refereegranskat)abstract
- Many empirical studies of metacommunities have focused on the classification of observational patterns into four contrasting paradigms characterized by different levels of movement and habitat heterogeneity. However, deeper insight into the underlying local and regional processes may be derived from a combination of long-term observational data and experimental studies. With the aim of exploring forces structuring the insect metacommunity on oak, we fit a hierarchical Bayesian state-space model to data from observations and experiments. The fitted model reveals large variation in species-specific dispersal abilities and basic reproduction numbers, R-0. The residuals from the model show only weak correlations among species, suggesting a lack of strong interspecific interactions. Simulations with model-derived parameter estimates indicate that habitat configuration and species attributes both contribute substantially to structuring insect communities. Overall, our findings demonstrate that community-level variation in movement and life history are key drivers of metacommunity dynamics.
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