| 1. |
- Abarenkov, Kessy, et al.
(author)
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The UNITE database for molecular identification and taxonomic communication of fungi and other eukaryotes: sequences, taxa and classifications reconsidered
- 2024
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In: Nucleic Acids Research. - 0305-1048 .- 1362-4962. ; 52:D1, s. D791-D797
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Journal article (peer-reviewed)abstract
- UNITE (https://unite.ut.ee) is a web-based database and sequence management environment for molecular identification of eukaryotes. It targets the nuclear ribosomal internal transcribed spacer (ITS) region and offers nearly 10 million such sequences for reference. These are clustered into similar to 2.4M species hypotheses (SHs), each assigned a unique digital object identifier (DOI) to promote unambiguous referencing across studies. UNITE users have contributed over 600 000 third-party sequence annotations, which are shared with a range of databases and other community resources. Recent improvements facilitate the detection of cross-kingdom biological associations and the integration of undescribed groups of organisms into everyday biological pursuits. Serving as a digital twin for eukaryotic biodiversity and communities worldwide, the latest release of UNITE offers improved avenues for biodiversity discovery, precise taxonomic communication and integration of biological knowledge across platforms. Graphical Abstract
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| 2. |
- Abdollahi, Mehdi, 1985, et al.
(author)
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Tuning the pH-shift protein-isolation method for maximum hemoglobin-removal from blood rich fish muscle
- 2016
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In: Food Chemistry. - : Elsevier BV. - 0308-8146 .- 1873-7072. ; 212, s. 213-224
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Journal article (peer-reviewed)abstract
- A main challenge preventing optimal use of protein isolated from unconventional raw materials (e.g., small pelagic fish and fish by-products) using the pH-shift method is the difficulty to remove enough heme-pigments. Here, the distribution of hemoglobin (Hb) in the different fractions formed during pH-shift processing was studied using Hb-fortified cod mince. Process modifications, additives and prewashing were then investigated to further facilitate Hb-removal. The alkaline pH-shift process version could remove considerably more Hb (77%) compared to the acidic version (37%) when proteins were precipitated at pH 5.5; most Hb was removed during dewatering. Protein precipitation at pH 6.5 improved total Hb removal up to 91% and 74% during alkaline and acid processing, respectively. Adding phytic acid to the first supernatant of the alkaline process version yielded 93% Hb removal. Combining one prewash with phytic acid at pH 5.5 followed by alkaline/acid pH-shift processing increased Hb removal up to 96/92%.
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| 3. |
- Adepu, Saritha, et al.
(author)
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Salivary biglycan-neo-epitope-BGN262: A novel surrogate biomarker for equine osteoarthritic sub-chondral bone sclerosis and to monitor the effect of short-term training and surface arena
- 2023
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In: Osteoarthritis and Cartilage Open. - : Elsevier BV. - 2665-9131. ; 5:2
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Journal article (peer-reviewed)abstract
- Objective: We aimed to delineate a novel soluble Biglycan Neo-epitope-BGN262 in saliva from young reference and osteoarthritic horses in conjunction with the influence of short-term training exercise, riding surface hardness, circadian rhythm, and feeding on its soluble levels. Design: A custom-made inhibition ELISA was used for the quantification of BGN262 in saliva. Cohort 1: A cross-sectional study comprising reference (N = 19) and OA horses (N = 9) with radiographically classified subchondral bone sclerosis. Receiver operating characteristic curve analysis was performed to evaluate the robustness of BGN262. Cohorts 2 (N = 5) & 3 (N = 7): Longitudinal studies of sampling during a short-term training exercise (sand-fibre) and a cross-over design of short-training exercise on 2 different riding arenas (sand and sand-fibre), respectively. Capillary western immunoassay was used to determine the BGN262 molecular size in a selection of saliva samples collected from cohort 1. Results: Cohort 1: Salivary BGN262 levels were significantly higher in the OA group. The Receiver operating characteristic curve analysis showed an area under the curve of 0.8304 [0.6386 to 1.022], indicating a good separation from the reference group. Cohorts 2 & 3: Salivary BGN262 levels significantly changed during the exercise on sand and sand-fibre arena, with a trend towards higher levels for sand-fibre. The size of the BGN262 fragment determined by Capillary western assay was 18 kDa. Conclusions: The data presented show saliva BGN262 levels as a novel biomarker in evaluating the influence of exercise, and interaction with riding arenas alongside assessing osteoarthritis severity.
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| 4. |
- Ahlborg, Helene, 1980, et al.
(author)
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Theorizing power in political ecology: the where of power in resource governance projects
- 2018
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In: Journal of Political Ecology. - : University of Arizona. - 1073-0451. ; 25:1, s. 381-401
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Journal article (peer-reviewed)abstract
- Power and politics have been central topics from the early days of Political Ecology. There are different and sometimes conflicting conceptualizations of power in this field that portray power alternatively as a resource, personal attribute or relation. The aim of this article is to contribute to theorizations of power by probing contesting views regarding its role in societal change and by presenting a specific conceptualization of power, one which draws on both political ecology and sociotechnical approaches in science and technology studies. We review how power has been conceptualized in the political ecology field and identify three trends that shaped the current discussion. We then develop our conceptual discussion and explicitly ask where power emerges in processes of resource governance projects. We identify four locations that we illustrate empirically through an example of rural electrification in Tanzania that aimed at catalyzing social and economic development by providing renewable energy-based electricity services to people. Our analysis supports the argument that power is relational and productive, and it draws on science and technology studies to bring to the fore the critical role of non-human elements in co-constitution of society—technology—nature. This leads us to see power exercise as having contradictory and ambiguous effects. We conclude that by exploring the tension between human agency and constitutive power, we keep the politics alive throughout the analysis and are able to show why intentional choices and actions really matter for how resource governance projects play out in everyday life.
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| 5. |
- Ahlgren, Serina, et al.
(author)
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Climate and biodiversity impact of beef and lamb production – A case study in Sweden
- 2024
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In: Agricultural Systems. - : Elsevier Ltd. - 1873-2267 .- 0308-521X. ; 219
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Journal article (peer-reviewed)abstract
- CONTEXT: The climate impact of meat production is a hotly debated topic. What is less often highlighted is that grazing ruminants can have positive impacts on biodiversity. OBJECTIVE: The aim of this study was to use a life cycle perspective to assess both the climate and biodiversity impact of different beef and lamb production systems in Sweden. METHODS: Applying a life cycle perspective, a quantitative method to assess biodiversity was used, with a scoring system based on land use. For the climate impact calculations, the ClimAg biophysical systems model was used, including emissions from drained organic soils and carbon sequestration in mineral soils. The functional unit was 1 kg carcass weight. RESULTS AND CONCLUSIONS: The results indicated large differences in biodiversity and climate impact between the production systems studied. Dairy bulls had relative low emissions of greenhouse gases, but also a low biodiversity score (a high score indicates higher level of biodiversity). Beef breed steers and heifers had higher emissions of greenhouse gases but a higher biodiversity score, suggesting a trade-off between climate and biodiversity impact. Also for lamb meat, greenhouse gas emissions vary among production systems. A system with winter born lambs slaughtered in spring, closely followed by spring born lambs slaughtered in autumn, had the lowest emissions, while spring born lambs slaughtered in winter had the highest emissions. Winter lambs on the other hand, had a relatively high biodiversity score, due to a long rearing period and an extensive land use with a high proportion of semi-natural grasslands. Climate impact was in all systems related to methane from enteric fermentation, emissions from manure storage, and emissions from organic soils. With the assumptions made in this study, soil carbon sequestration is suggested to reduce the climate impact by 5–7% of the total emissions. Biodiversity impact was in all systems positively related to the amount of grazing in permanent grasslands, in particular semi-natural grasslands. Because semi-natural grasslands are among the most species rich terrestrial ecosystems in Europe, a large surface area grazed resulted in high biodiversity scores in the present model. SIGNIFICANCE: This study used a novel approach for biodiversity assessment, where the positive contribution of semi-natural grasslands to biodiversity was quantified and put in relation to the modelled climate impact.
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| 6. |
- Ahlgren, Serina, et al.
(author)
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Miljöpåverkan av svensk nöt- och lammköttsproduktion
- 2022
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Reports (other academic/artistic)abstract
- Syftet med denna studie har varit att beräkna miljöpåverkan från olika svenska uppfödningsmodeller för nöt- och lammkött i produktionsområdena Götalands norra slättbygder, Götalands skogsbygder, Nedre Norrland samt del av Götalands mellanbygd (Gotland). Inom nötköttsproduktion har mjölkrastjur, mjölkrasstut, köttrastjur, köttrasstut och köttraskviga studerats. För lammkött har vårlamm, höstlamm och vinterlamm undersökts. Miljöpåverkanskategorier som ingått i studien är klimatpåverkan, markanvändning, kväveutsläpp samt påverkan på biologisk mångfald.
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| 7. |
- Ahlgren, Serina, et al.
(author)
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Review of methodological choices in LCA of biorefinery systems - key issues and recommendations
- 2015
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In: Biofuels, Bioproducts and Biorefining. - : Wiley. - 1932-1031 .- 1932-104X. ; 9:5, s. 606-619
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Research review (peer-reviewed)abstract
- The current trend in biomass conversion technologies is toward more efficient utilization of biomass feedstock in multiproduct biorefineries. Many life-cycle assessment (LCA) studies of biorefinery systems have been performed but differ in how they use the LCA methodology. Based on a review of existing LCA standards and guidelines, this paper provides recommendations on how to handle key methodological issues when performing LCA studies of biorefinery systems. Six key issues were identified: (i) goal definition, (ii) functional unit, (iii) allocation of biorefinery outputs, (iv) allocation of biomass feedstock, (v) land use, and (vi) biogenic carbon and timing of emissions. Many of the standards and guidelines reviewed here provide only general methodological recommendations. Some make more specific methodological recommendations, but these often differ between standards. In this paper we present some clarifications (e.g. examples of research questions and suitable functional units) and methodological recommendations (e.g. on allocation).
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| 8. |
- Ahlman, Linnéa, 1987, et al.
(author)
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Stress Detection Using Proximal Sensing of Chlorophyll Fluorescence on the Canopy Level
- 2021
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In: AgriEngineering. - : MDPI AG. - 2624-7402. ; 3:3, s. 648-668
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Journal article (peer-reviewed)abstract
- Chlorophyll fluorescence is interesting for phenotyping applications as it is rich in biological information and can be measured remotely and non-destructively. There are several techniques for measuring and analysing this signal. However, the standard methods use rather extreme conditions, e.g., saturating light and dark adaption, which are difficult to accommodate in the field or in a greenhouse and, hence, limit their use for high-throughput phenotyping. In this article, we use a different approach, extracting plant health information from the dynamics of the chlorophyll fluorescence induced by a weak light excitation and no dark adaption, to classify plants as healthy or unhealthy. To evaluate the method, we scanned over a number of species (lettuce, lemon balm, tomato, basil, and strawberries) exposed to either abiotic stress (drought and salt) or biotic stress factors (root infection using Pythium ultimum and leaf infection using Powdery mildew Podosphaera aphanis ). Our conclusions are that, for abiotic stress, the proposed method was very successful, while, for powdery mildew, a method with spatial resolution would be desirable due to the nature of the infection, i.e., point-wise spread. Pythium infection on the roots is not visually detectable in the same way as powdery mildew; however, it affects the whole plant, making the method an interesting option for Pythium detection. However, further research is necessary to determine the limit of infection needed to detect the stress with the proposed method.
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| 9. |
- Almanza-Aguilera, Enrique, et al.
(author)
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Impact in Plasma Metabolome as Effect of Lifestyle Intervention for Weight-Loss Reveals Metabolic Benefits in Metabolically Healthy Obese Women
- 2018
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In: Journal of Proteome Research. - : American Chemical Society (ACS). - 1535-3907 .- 1535-3893. ; 17:8, s. 2600-2610
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Journal article (peer-reviewed)abstract
- Little is known regarding metabolic benefits of weight loss (WL) on the metabolically healthy obese (MHO) patients. We aimed to examine the impact of a lifestyle weight loss (LWL) treatment on the plasma metabolomic profile in MHO individuals. Plasma samples from 57 MHO women allocated to an intensive LWL treatment group (TG, hypocaloric Mediterranean diet and regular physical activity, n = 30) or to a control group (CG, general recommendations of a healthy diet and physical activity, n = 27) were analyzed using an untargeted1H NMR metabolomics approach at baseline, after 3 months (intervention), and 12 months (follow-up). The impact of the LWL intervention on plasma metabolome was statistically significant at 3 months but not at follow-up and included higher levels of formate and phosphocreatine and lower levels of LDL/VLDL (signals) and trimethylamine in the TG. These metabolites were also correlated with WL. Higher myo-inositol, methylguanidine, and 3-hydroxybutyrate, and lower proline, were also found in the TG; higher levels of hippurate and asparagine, and lower levels of 2-hydroxybutyrate and creatine, were associated with WL. The current findings suggest that an intensive LWL treatment, and the consequent WL, leads to an improved plasma metabolic profile in MHO women through its impact on energy, amino acid, lipoprotein, and microbial metabolism.
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| 10. |
- Amiandamhen, Stephen, 1983-, et al.
(author)
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Recycling sawmilling wood chips, biomass combustion residues, and tyre fibres into cement-bonded composites : Properties of composites and life cycle analysis
- 2021
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In: Construction and Building Materials. - : Elsevier Ltd. - 0950-0618 .- 1879-0526. ; 297
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Journal article (peer-reviewed)abstract
- This study investigated the properties and sustainability of cement-bonded composites containing industrial residues such as wood chips, tyre fibres and biomass combustion residues, i.e. bottom ash (BA) and fly ash (FA). The effect of cement-to-raw material (wood/tyre fibre) ratio (C/RM) and the aggregate content (BA and FA) on thermal and mechanical properties of the composites were investigated. Scanning electron microscopy (SEM) and life cycle analysis (LCA) were also conducted. The results revealed that as the aggregate content increased in wood composites, the mechanical properties also increased. The mean thermal conductivity and volumetric heat capacity of tyre composite samples were 0.37 W/mK and 1.2 MJ/m3K respectively, while the respective values for wood composite samples were 0.29 W/mK and 0.81 MJ/m3K. SEM analysis showed adequate bonding between wood/tyre fibres and cement matrix. LCA revealed that the materials share of the total primary energy use was about 60% for all analysed composites. © 2021 The Author(s)
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