| 1. |
- Nilsson, R. Henrik, 1976, et al.
(författare)
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Improving ITS sequence data for identification of plant pathogenic fungi
- 2014
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Ingår i: Fungal Diversity. - : Springer Science and Business Media LLC. - 1560-2745 .- 1878-9129. ; 67:1, s. 11-19
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Tidskriftsartikel (refereegranskat)abstract
- Plant pathogenic fungi are a large and diverse assemblage of eukaryotes with substantial impacts on natural ecosystems and human endeavours. These taxa often have complex and poorly understood life cycles, lack observable, discriminatory morphological characters, and may not be amenable to in vitro culturing. As a result, species identification is frequently difficult. Molecular (DNA sequence) data have emerged as crucial information for the taxonomic identification of plant pathogenic fungi, with the nuclear ribosomal internal transcribed spacer (ITS) region being the most popular marker. However, international nucleotide sequence databases are accumulating numerous sequences of compromised or low-resolution taxonomic annotations and substandard technical quality, making their use in the molecular identification of plant pathogenic fungi problematic. Here we report on a concerted effort to identify high-quality reference sequences for various plant pathogenic fungi and to re-annotate incorrectly or insufficiently annotated public ITS sequences from these fungal lineages. A third objective was to enrich the sequences with geographical and ecological metadata. The results – a total of 31,954 changes – are incorporated in and made available through the UNITE database for molecular identification of fungi (http://unite.ut.ee), including standalone FASTA files of sequence data for local BLAST searches, use in the next-generation sequencing analysis platforms QIIME and mothur, and related applications. The present initiative is just a beginning to cover the wide spectrum of plant pathogenic fungi, and we invite all researchers with pertinent expertise to join the annotation effort.
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| 2. |
- Nyberg, Gert, et al.
(författare)
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Enclosures in West Pokot, Kenya: Transforming land, livestock and livelihoods in drylands
- 2015
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Ingår i: Pastoralism. - : Springer Science and Business Media LLC. - 2041-7136 .- 2041-7128. ; 5:1
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Tidskriftsartikel (refereegranskat)abstract
- Dryland livestock production systems are changing in many parts of the world, as a result of growing human populations and associated pressure on water and land. Based on a combination of social and natural science methods, we studied a 30-year transformation process from pastoralism to a livestock-based agro-pastoral system in northwestern Kenya, with the overall aim to increase the understanding of the ongoing transition towards intensified agro-pastoralist production systems in dryland East Africa.Key to this transformation was the use of enclosures for land rehabilitation, fodder production, and land and livestock management. Enclosures have more soil carbon and a higher vegetation cover than adjacent areas with open grazing. The level of adoption of enclosures as a management tool has been very high, and their use has enabled agricultural diversification, e.g. increased crop agriculture, poultry production and the inclusion of improved livestock. Following the use of enclosures, livelihoods have become less dependent on livestock migration, are increasingly directed towards agribusinesses and present new opportunities and constraints for women. These livelihood changes are closely associated with, and depend on, an ongoing privatization of land under different tenure regimes.The results indicate that the observed transformation provides opportunities for a pathway towards a sustainable livestock-based agro-pastoral system that could be valid in many dryland areas in East Africa. However, we also show that emergent risks of conflicts and inequalities in relation to land, triggered by the weakening of collective property rights, pose a threat to the sustainability of this pathway.
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| 3. |
- Tedersoo, Leho, et al.
(författare)
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Global diversity and geography of soil fungi
- 2014
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Ingår i: Science. - : American Association for the Advancement of Science (AAAS). - 0036-8075 .- 1095-9203. ; 346:6213, s. artikel nr 1256688-
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Tidskriftsartikel (refereegranskat)abstract
- Fungi play major roles in ecosystem processes, but the determinants of fungal diversity and biogeographic patterns remain poorly understood. Using DNA metabarcoding data from hundreds of globally distributed soil samples, we demonstrate that fungal richness is decoupled from plant diversity. The plant-to-fungus richness ratio declines exponentially toward the poles. Climatic factors, followed by edaphic and spatial variables, constitute the best predictors of fungal richness and community composition at the global scale. Fungi show similar latitudinal diversity gradients to other organisms, with several notable exceptions. These findings advance our understanding of global fungal diversity patterns and permit integration of fungi into a general macroecological framework.
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| 4. |
- Andersson-Sköld, Yvonne, et al.
(författare)
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A framework for assessing urban greenery's effects and valuing its ecosystem services
- 2018
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Ingår i: Journal of Environmental Management. - : Academic Press. - 0301-4797 .- 1095-8630. ; 205, s. 274-285
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Tidskriftsartikel (refereegranskat)abstract
- Ongoing urban exploitation is increasing pressure to transform urban green spaces, while there is increasing awareness that greenery provides a range of important benefits to city residents. In efforts to help resolve associated problems we have developed a framework for integrated assessments of ecosystem service (ES) benefits and values provided by urban greenery, based on the ecosystem service cascade model. The aim is to provide a method for assessing the contribution to, and valuing, multiple ES provided by urban greenery that can be readily applied in routine planning processes. The framework is unique as it recognizes that an urban greenery comprises several components and functions that can contribute to multiple ecosystem services in one or more ways via different functional traits (e.g. foliage characteristics) for which readily measured indicators have been identified. The framework consists of five steps including compilation of an inventory of indicator; application of effectivity factors to rate indicators' effectiveness; estimation of effects; estimation of benefits for each ES; estimation of the total ES value of the ecosystem. The framework was applied to assess ecosystem services provided by trees, shrubs, herbs, birds, and bees, in green areas spanning an urban gradient in Gothenburg, Sweden. Estimates of perceived values of ecosystem services were obtained from interviews with the public and workshop activities with civil servants. The framework is systematic and transparent at all stages and appears to have potential utility in the existing spatial planning processes.
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| 5. |
- Blanck, Hans, 1950, et al.
(författare)
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A retrospective analysis of contamination and periphyton PICT patterns for the antifoulant irgarol 1051, around a small marina on the Swedish west coast
- 2009
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Ingår i: Marine Pollution Bulletin. - : Elsevier BV. - 0025-326X .- 1879-3363. ; 58, s. 230-237
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Tidskriftsartikel (refereegranskat)abstract
- Irgarol is a triazine photosystem II (PSII) inhibitor that has been used in Sweden as an antifouling ingredient since the 1990s. Early microcosm studies indicated that periphyton was sensitive to irgarol at concentrations regularly found in harbours and marinas. However, field studies of irgarol effects on the Swedish west coast in 1994, using the pollution-induced community tolerance (PICT) approach, failed to detect any effects of the toxicant in the field. A PICT study involves sampling of replicate communities in a gradient of contamination, and a comparison of their community tolerance levels, with an increase being an indication that sensitive species have been eliminated and replaced by more tolerant ones. Typically, short-term assays are used to quantify the community tolerance levels. Later PICT studies in the same area over a 10 year period demonstrate that irgarol tolerance levels have increased, although the contamination pattern has been stable. Our results support the hypothesis that that the PICT potential was low initially, due to a small differential sensitivity between the community members, and that a persistent selection pressure was required to favour and enrich irgarol-tolerant species or genotypes. © 2008 Elsevier Ltd. All rights reserved.
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| 6. |
- Karlson, Martin, et al.
(författare)
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Assessing the potential of multi-seasonal WorldView-2 imagery for mapping West African agroforestry tree species
- 2016
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Ingår i: International Journal of Applied Earth Observation and Geoinformation. - : Elsevier BV. - 1569-8432 .- 0303-2434 .- 1872-826X. ; 50:August, s. 80-88
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Tidskriftsartikel (refereegranskat)abstract
- High resolution satellite systems enable efficient and detailed mapping of tree cover, with high potential to support both natural resource monitoring and ecological research. This study investigates the capability of multi-seasonal WorldView-2 imagery to map five dominant tree species at the individual tree crown level in a parkland landscape in central Burkina Faso. The Random Forest algorithm is used for object based tree species classification and for assessing the relative importance of WorldView-2 predictors. The classification accuracies from using wet season, dry season and multi-seasonal datasets are compared to gain insights about the optimal timing for image acquisition. The multi-seasonal dataset produced the most accurate classifications, with an overall accuracy (OA) of 83.4%. For classifications based on single date imagery, the dry season (OA = 78.4%) proved to be more suitable than the wet season (OA = 68.1%). The predictors that contributed most to the classification success were based on the red edge band and visible wavelengths, in particular green and yellow. It was therefore concluded that WorldView- 2, with its unique band configuration, represents a suitable data source for tree species mapping in West African parklands. These results are particularly promising when considering the recently launched WorldView-3, which provides data both at higher spatial and spectral resolution, including shortwave infrared bands.
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| 7. |
- Karlson, Martin, 1980-, et al.
(författare)
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Mapping Tree Canopy Cover and Aboveground Biomass in Sudano-Sahelian Woodlands Using Landsat 8 and Random Forest
- 2015
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Ingår i: Remote Sensing. - : MDPI AG. - 2072-4292. ; 7:8, s. 10017-10041
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Tidskriftsartikel (refereegranskat)abstract
- Accurate and timely maps of tree cover attributes are important tools for environmental research and natural resource management. We evaluate the utility of Landsat 8 for mapping tree canopy cover (TCC) and aboveground biomass (AGB) in a woodland landscape in Burkina Faso. Field data and WorldView-2 imagery were used to assemble the reference dataset. Spectral, texture, and phenology predictor variables were extracted from Landsat 8 imagery and used as input to Random Forest (RF) models. RF models based on multi-temporal and single date imagery were compared to determine the influence of phenology predictor variables. The effect of reducing the number of predictor variables on the RF predictions was also investigated. The model error was assessed using 10-fold cross validation. The most accurate models were created using multi-temporal imagery and variable selection, for both TCC (five predictor variables) and AGB (four predictor variables). The coefficient of determination of predicted versus observed values was 0.77 for TCC (RMSE = 8.9%) and 0.57 for AGB (RMSE = 17.6 tons∙ha−1). This mapping approach is based on freely available Landsat 8 data and relatively simple analytical methods, and is therefore applicable in woodland areas where sufficient reference data are available.
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| 8. |
- Warwas, Niklas, et al.
(författare)
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Marine yeast (Candida sake) cultured on herring brine side streams is a promising feed ingredient and omega-3 source for rainbow trout (Oncorhynchus mykiss)
- 2023
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Ingår i: Aquaculture. - : Elsevier BV. - 0044-8486 .- 1873-5622. ; 571
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Tidskriftsartikel (refereegranskat)abstract
- A major challenge for the aquaculture industry is the supply of sustainable feeds. A promising model to achieve this is to utilize circular flows where feed ingredients, such as single cell protein, are cultivated using side streams of the food industry. The aim of this study was to evaluate the marine yeast Candida sake, produced on herring brine side streams, as a source of protein and immune stimulant in feed for salmonid fish. The dry C. sake product contained 54% protein (3.3% lysine and 0.8% methionine) and 13% lipids (1.1% eicosapentaenoic, EPA, and 1% docosahexaenoic acid, DHA). Four experimental diets were designed and tested in a 9-week feeding trial using juvenile rainbow trout (Oncorhynchus mykiss). A control diet containing both fish and plant-based ingredients constituted the base feed to which 20% (to evaluate effects on digestibility, growth and intestinal physiology), 20% heat-treated (to evaluate effects of downstream processing) and 3% (to evaluate immune stimulatory properties, replacing 3% soy protein concentrate) C. sake was added. The apparent digestibility coefficient of C. sake for protein, fat and gross energy was above 80%, and for amino acids above 90% regardless of treatment, suggesting a high bioavailability of C. sake. All three yeast containing diets performed equally to the control regarding specific growth rate, feed conversion ratio and functional intestinal health. These results suggest that C. sake is a promising alternative protein source for circular feeds in the salmonid industry. The presence of EPA and DHA represents an added value. The heat treatment increased the apparent digestibility coefficient of dry matter by 8% but decreased amino acid digestibility by on average 3%, indicating that heat treatment may not be the optimal downstream processing technique. Furthermore, the inclusion of 3% C. sake increased the intestinal lamina propria width and TGF-beta transcription, indicating an immune stimulating effect. Future research is needed to understand these immune modulatory effects of C. sake supplementation.
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| 9. |
- Ode Sang, Åsa, et al.
(författare)
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The effects of naturalness, gender, and age on how urban green space is perceived and used
- 2016
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Ingår i: Urban Forestry & Urban Greening. - : Elsevier BV. - 1618-8667 .- 1610-8167. ; 18, s. 268-276
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Tidskriftsartikel (refereegranskat)abstract
- Neighbourhood green space serves an important function for the urban population, and provides valuable ecosystem services for human well-being. In this article, we investigate the effects of naturalness, gender, and age on the activities, aesthetics, and self-reported well-being associated with urban green space. Our findings are based on a postal survey of residents living in close proximity to six different green spaces in the city of Gothenburg, Sweden. It is shown that higher perceived naturalness generated more activities and higher aesthetic values and self-reported well-being for residents living close to urban green spaces. The results also indicated that, regardless of the type of naturalness, women were more active in urban green spaces than were men. Women also saw greater aesthetic value in green spaces than men did, and had higher self-reported well-being associated with the urban green spaces. Finally, older residents were shown to participate in a greater number of nature-related activities than younger residents. Older residents also saw greater aesthetic values and had higher self-reported well-being associated with urban green spaces than younger people did. Seemingly, this poses a considerable planning challenge if areas of perceived naturalness are to be retained in cities, since the present trend is for reduced green spaces in cities and a ‘parkification’ of surviving natural areas. Further, because of the importance of perceived natural areas to the elderly, and in particularly women, distances to urban green areas should not be too great.
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| 10. |
- Asker, Noomi, 1968, et al.
(författare)
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Biomarker responses in eelpouts from four coastal areas in Sweden, Denmark and Germany
- 2016
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Ingår i: Marine Environmental Research. - : Elsevier BV. - 0141-1136 .- 1879-0291. ; 120, s. 32-43
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Tidskriftsartikel (refereegranskat)abstract
- To increase our understanding of possible chemical impacts on coastal fish populations in the Baltic Sea, Kattegat and Skagerrak, the viviparous eelpout (Zoarces viviparus) was used as sentinel species in two major sampling campaigns (spring and autumn) in 16 different coastal sites. Condition factor (CF), liver somatic index (LSI), gonad somatic index (GSI) were measured and the activity of the hepatic enzymes ethoxyresorufin-O-deethylase (EROD), glutathione reductase GR), glutathione S-transferase (GST), catalase (CAT) and muscular activity of acetylcholinesterase (AChE) were assessed. PAH metabolites in bile were also analyzed. The most notable finding in the data set was the low EROD activity in eelpouts collected at the relatively polluted region in Germany compared to the other regions, which could be due to an inhibition of the CYP1A-system or to adaptation to chronic exposure of pollutants in this area. Additionally, low AChE activity was noted in the German region in the autumn campaign and low AChE activity detected in the Danish region in the spring campaign. These differences suggest possible season-specific differences in the use and release of AChE-inhibiting chemicals in the Danish and German regions. Clustering of biomarkers on site level indicated a relationship between CF and GSI and suggested that sites with a high CF contained eelpout that put a larger effort into their larvae development. Clustering of the oxidative stress markers GR, GST and CAT on the individual level reflected a possible coordinated regulation of these enzymes. Overall, the results support the importance of taking into account general regional differences and seasonal variation in biomarker activity when monitoring and assessing the effects of pollution. Despite the expected seasonal variation for most of the measured endpoint, several markers (GSI, EROD and CF) vary similarly between all selected sites in both spring and autumn. This suggests that the differences between sites for these endpoints are independent of season.
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