| 1. |
- Hirsch, S. D., et al.
(författare)
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The role of CDHR3 in susceptibility to otitis media
- 2021
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Ingår i: Journal of Molecular Medicine. - : Springer Nature. - 0946-2716 .- 1432-1440. ; 99:11, s. 1571-1583
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Tidskriftsartikel (refereegranskat)abstract
- Abstract: Otitis media (OM) is common in young children and can cause hearing loss and speech, language, and developmental delays. OM has high heritability; however, little is known about OM-related molecular and genetic processes. CDHR3 was previously identified as a locus for OM susceptibility, but to date, studies have focused on how the CDHR3 p.Cys529Tyr variant increases epithelial binding of rhinovirus-C and risk for lung or sinus pathology. In order to further delineate a role for CDHR3 in OM, we performed the following: exome sequencing using DNA samples from OM-affected individuals from 257 multi-ethnic families; Sanger sequencing, logistic regression and transmission disequilibrium tests for 407 US trios or probands with OM; 16S rRNA sequencing and analysis for middle ear and nasopharyngeal samples; and single-cell RNA sequencing and differential expression analyses for mouse middle ear. From exome sequence data, we identified a novel pathogenic CDHR3 splice variant that co-segregates with OM in US and Finnish families. Additionally, a frameshift and six missense rare or low-frequency variants were identified in Finnish probands. In US probands, the CDHR3 p.Cys529Tyr variant was associated with the absence of middle ear fluid at surgery and also with increased relative abundance of Lysobacter in the nasopharynx and Streptomyces in the middle ear. Consistent with published data on airway epithelial cells and our RNA-sequence data from human middle ear tissues, Cdhr3 expression is restricted to ciliated epithelial cells of the middle ear and is downregulated after acute OM. Overall, these findings suggest a critical role for CDHR3 in OM susceptibility. Key messages: • Novel rare or low-frequency CDHR3 variants putatively confer risk for otitis media. • Pathogenic variant CDHR3 c.1653 + 3G > A was found in nine families with otitis media. • CDHR3 p.Cys529Tyr was associated with lack of effusion and bacterial otopathogens. • Cdhr3 expression was limited to ciliated epithelial cells in mouse middle ear. • Cdhr3 was downregulated 3 h after infection of mouse middle ear.
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| 2. |
- Sarneel, Judith M., et al.
(författare)
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Reading tea leaves worldwide: Decoupled drivers of initial litter decomposition mass-loss rate and stabilization
- 2024
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Ingår i: ECOLOGY LETTERS. - : John Wiley & Sons. - 1461-023X .- 1461-0248. ; 27:5
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Tidskriftsartikel (refereegranskat)abstract
- The breakdown of plant material fuels soil functioning and biodiversity. Currently, process understanding of global decomposition patterns and the drivers of such patterns are hampered by the lack of coherent large-scale datasets. We buried 36,000 individual litterbags (tea bags) worldwide and found an overall negative correlation between initial mass-loss rates and stabilization factors of plant-derived carbon, using the Tea Bag Index (TBI). The stabilization factor quantifies the degree to which easy-to-degrade components accumulate during early-stage decomposition (e.g. by environmental limitations). However, agriculture and an interaction between moisture and temperature led to a decoupling between initial mass-loss rates and stabilization, notably in colder locations. Using TBI improved mass-loss estimates of natural litter compared to models that ignored stabilization. Ignoring the transformation of dead plant material to more recalcitrant substances during early-stage decomposition, and the environmental control of this transformation, could overestimate carbon losses during early decomposition in carbon cycle models.
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| 3. |
- House, J, et al.
(författare)
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Climate and air quality
- 2006
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Ingår i: Millennium Ecosystem Assessment 2005 - Current State and Trends. Findings of the Condition and Trends Working Group (Ecosystems and Human Well-being). ; 1, s. 350-390
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Bokkapitel (övrigt vetenskapligt/konstnärligt)
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| 4. |
- Merbold, L., et al.
(författare)
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Precipitation as driver of carbon fluxes in 11 African ecosystems
- 2009
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Ingår i: Biogeosciences. - 1726-4189. ; 6:6, s. 1027-1041
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Tidskriftsartikel (refereegranskat)abstract
- This study reports carbon and water fluxes between the land surface and atmosphere in eleven different ecosystems types in Sub-Saharan Africa, as measured using eddy covariance (EC) technology in the first two years of the CarboAfrica network operation. The ecosystems for which data were available ranged in mean annual rainfall from 320 mm (Sudan) to 1150 mm (Republic of Congo) and include a spectrum of vegetation types (or land cover) (open savannas, woodlands, croplands and grasslands). Given the shortness of the record, the EC data were analysed across the network rather than longitudinally at sites, in order to understand the driving factors for ecosystem respiration and carbon assimilation, and to reveal the different water use strategies in these highly seasonal environments. Values for maximum net carbon assimilation rates (photosynthesis) ranged from -12.5 mu mol CO2 m(-2) s(-1) in a dry, open Millet cropland (C-4-plants) up to -48 mu mol CO2 m(-2) s(-1) for a tropical moist grassland. Maximum carbon assimilation rates were highly correlated with mean annual rainfall (r(2)=0.74). Maximum photosynthetic uptake rates (Fp(max)) were positively related to satellite-derived f(APAR). Ecosystem respiration was dependent on temperature at all sites, and was additionally dependent on soil water content at sites receiving less than 1000 mm of rain per year. All included ecosystems dominated by C-3-plants, showed a strong decrease in 30-min assimilation rates with increasing water vapour pressure deficit above 2.0 kPa.
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| 5. |
- Qiu, S., et al.
(författare)
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Genome-enabled discovery of candidate virulence loci in Striga hermonthica, a devastating parasite of African cereal crops
- 2022
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Ingår i: New Phytologist. - : Wiley. - 0028-646X .- 1469-8137. ; 236:2, s. 622-638
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Tidskriftsartikel (refereegranskat)abstract
- Parasites have evolved proteins, virulence factors (VFs), that facilitate plant colonisation, however VFs mediating parasitic plant-host interactions are poorly understood. Striga hermonthica is an obligate, root-parasitic plant of cereal hosts in sub-Saharan Africa, causing devastating yield losses. Understanding the molecular nature and allelic variation of VFs in S. hermonthica is essential for breeding resistance and delaying the evolution of parasite virulence. We assembled the S. hermonthica genome and identified secreted proteins using in silico prediction. Pooled sequencing of parasites growing on a susceptible and a strongly resistant rice host allowed us to scan for loci where selection imposed by the resistant host had elevated the frequency of alleles contributing to successful colonisation. Thirty-eight putatively secreted VFs had very different allele frequencies with functions including host cell wall modification, protease or protease inhibitor and kinase activities. These candidate loci had significantly higher Tajima's D than the genomic background, consistent with balancing selection. Our results reveal diverse strategies used by S. hermonthica to overcome different layers of host resistance. Understanding the maintenance of variation at virulence loci by balancing selection will be critical to managing the evolution of virulence as part of a sustainable control strategy.
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| 6. |
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| 7. |
- Mace, Georgina M., et al.
(författare)
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Approaches to defining a planetary boundary for biodiversity
- 2014
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Ingår i: Global Environmental Change. - : Elsevier BV. - 0959-3780 .- 1872-9495. ; 28, s. 289-297
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Tidskriftsartikel (refereegranskat)abstract
- The idea that there is an identifiable set of boundaries, beyond which anthropogenic change will put the Earth system outside a safe operating space for humanity, is attracting interest in the scientific community and gaining support in the environmental policy world. Rockstrom et al. (2009) identify nine such boundaries and highlight biodiversity loss as being the single boundary where current rates of extinction put the Earth system furthest outside the safe operating space. Here we review the evidence to support a boundary based on extinction rates and identify weaknesses with this metric and its bearing on humanity's needs. While changes to biodiversity are of undisputed importance, we show that both extinction rate and species richness are weak metrics for this purpose, and they do not scale well from local to regional or global levels. We develop alternative approaches to determine biodiversity loss boundaries and extend our analysis to consider large-scale responses in the Earth system that could affect its suitability for complex human societies which in turn are mediated by the biosphere. We suggest three facets of biodiversity on which a boundary could be based: the genetic library of life; functional type diversity; and biome condition and extent. For each of these we explore the science needed to indicate how it might be measured and how changes would affect human societies. In addition to these three facets, we show how biodiversity's role in supporting a safe operating space for humanity may lie primarily in its interactions with other boundaries, suggesting an immediate area of focus for scientists and policymakers.
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| 8. |
- Mosler, Andrea Britt, et al.
(författare)
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Standardised measurement of physical capacity in young and middle-aged active adults with hip-related pain : Recommendations from the first International Hip-related Pain Research Network (IHiPRN) meeting, Zurich, 2018
- 2020
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Ingår i: British journal of sports medicine. - : BMJ. - 0306-3674 .- 1473-0480. ; 54:12, s. 702-710
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Tidskriftsartikel (refereegranskat)abstract
- Hip-related pain can significantly impact quality of life, function, work capacity, physical activity and family life. Standardised measurement methods of physical capacity of relevance to young and middle-aged active adults with hip-related pain are currently not established. The aim of this consensus paper was to provide recommendations for clinical practice and research on standardised measurement methods of physical capacity in young and middle-aged active adults with hip-related pain. Four areas of importance were identified: (1) clinical measures (range of motion, muscle strength, functional impairments), (2) laboratory-based measures (biomechanics and muscle function (muscle activity, size and adiposity)), (3) physical activity, and (4) return to sport/performance. The literature was reviewed, and a summary circulated to the working group to inform discussion at the consensus meeting. The working group developed clinical and research recommendations from the literature review, which were further discussed and modified within the working group at the consensus meeting. These recommendations were then presented to all 38 International Hip-related Pain Research Network (IHiPRN) participants for further discussion, refinement and consensus voting. Therefore, the recommendations voted on were based on a combination of current evidence and expert opinion. The consensus meeting voted on 13 recommendations, six of which were clinically orientated, and seven more research specific. We recommended that clinicians working with young and middle-aged active adults with hip-related pain assess strength using objective methods of measurement, and clinically assess performance of functional tasks, including walking and running. Physical activity should be quantified using both self-reported and objective measures, and patient expectations of recovery should be quantified prior to treatment. It was recommended that return to physical activity (including sport and occupation) be quantified, and sport-specific activities should be assessed prior to return to sport. The IHiPRN participants were uncertain regarding recommendations for range of motion assessment. Research recommendations were that the measurement properties of range of motion, strength and functional performance tests be investigated, reported and improved in both clinical and research settings. Reporting of movement-related parameters (biomechanics and muscle function) should be standardised and the relationship among movement-related parameters, symptoms, function, quality of life, and intra-articular and imaging findings should be investigated. Quantification of return to physical activity (including sport and occupational demands) is required in future research, and the return to sport continuum should be used. Future research is required to determine the best criteria for rehabilitation progression and return to physical activity following hip-related pain management.
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| 9. |
- Reiman, Michael P., et al.
(författare)
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Consensus recommendations on the classification, definition and diagnostic criteria of hip-related pain in young and middle-aged active adults from the International Hip-related Pain Research Network, Zurich 2018
- 2020
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Ingår i: British journal of sports medicine. - : BMJ. - 0306-3674 .- 1473-0480. ; 54:11, s. 631-641
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Forskningsöversikt (refereegranskat)abstract
- There is no agreement on how to classify, define or diagnose hip-related pain-a common cause of hip and groin pain in young and middle-aged active adults. This complicates the work of clinicians and researchers. The International Hip-related Pain Research Network consensus group met in November 2018 in Zurich aiming to make recommendations on how to classify, define and diagnose hip disease in young and middle-aged active adults with hip-related pain as the main symptom. Prior to the meeting we performed a scoping review of electronic databases in June 2018 to determine the definition, epidemiology and diagnosis of hip conditions in young and middle-aged active adults presenting with hip-related pain. We developed and presented evidence-based statements for these to a panel of 37 experts for discussion and consensus agreement. Both non-musculoskeletal and serious hip pathological conditions (eg, tumours, infections, stress fractures, slipped capital femoral epiphysis), as well as competing musculoskeletal conditions (eg, lumbar spine) should be excluded when diagnosing hip-related pain in young and middle-aged active adults. The most common hip conditions in young and middle-aged active adults presenting with hip-related pain are: (1) femoroacetabular impingement (FAI) syndrome, (2) acetabular dysplasia and/or hip instability and (3) other conditions without a distinct osseous morphology (labral, chondral and/or ligamentum teres conditions), and that these terms are used in research and clinical practice. Clinical examination and diagnostic imaging have limited diagnostic utility; a comprehensive approach is therefore essential. A negative flexion-adduction-internal rotation test helps rule out hip-related pain although its clinical utility is limited. Anteroposterior pelvis and lateral femoral head-neck radiographs are the initial diagnostic imaging of choice-advanced imaging should be performed only when requiring additional detail of bony or soft-tissue morphology (eg, for definitive diagnosis, research setting or when planning surgery). We recommend clear, detailed and consistent methodology of bony morphology outcome measures (definition, measurement and statistical reporting) in research. Future research on conditions with hip-related pain as the main symptom should include high-quality prospective studies on aetiology and prognosis. The most common hip conditions in active adults presenting with hip-related pain are: (1) FAI syndrome, (2) acetabular dysplasia and/or hip instability and (3) other conditions without distinct osseous morphology including labral, chondral and/or ligamentum teres conditions. The last category should not be confused with the incidental imaging findings of labral, chondral and/or ligamentum teres pathology in asymptomatic people. Future research should refine our current recommendations by determining the clinical utility of clinical examination and diagnostic imaging in prospective studies.
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| 10. |
- Scholes, R. J., et al.
(författare)
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Multi-scale and cross-scale assessments of social-ecological systems and their ecosystem services
- 2013
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Ingår i: Current Opinion in Environmental Sustainability. - : Elsevier BV. - 1877-3435 .- 1877-3443. ; 5:1, s. 16-25
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Forskningsöversikt (refereegranskat)abstract
- It is often either undesirable or unfeasible to conduct an assessment of ecological or social systems, independently or jointly, at a single scale and resolution in time and space. This paper outlines the alternatives, which include 'multi-scale assessments' (conducting the assessment at two or more discrete scales) and 'cross-scale assessments' (multi-scale assessments which deliberately look for cross-scale interactions), and points to some methods which may be useful in conducting them. The additional work and complexity that result from taking a multi-scale or cross-scale approach, while necessary and realistic, needs to be managed. This can be achieved by the informed choice of scales, a priori consideration of the scale-related properties of the phenomena being assessed, and paying attention to the ways in which information and control pass between scales. The conceptual issues associated with choosing the scales and resolutions at which to work are discussed, as are strategies for aggregation and disaggregation and for linking studies at different scales.
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| 11. |
- Archibald, S., et al.
(författare)
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Climate and the inter-annual variability of fire in southern Africa: a meta-analysis using long-term field data and satellite-derived burnt area data
- 2010
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Ingår i: Global Ecology and Biogeography. - : Wiley. - 1466-8238 .- 1466-822X. ; 19:6, s. 794-809
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Tidskriftsartikel (refereegranskat)abstract
- Aim This study investigates inter-annual variability in burnt area in southern Africa and the extent to which climate is responsible for this variation. We compare data from long-term field sites across the region with remotely sensed burnt area data to test whether it is possible to develop a general model. Location Africa south of the equator. Methods Linear mixed effects models were used to determine the effect of rainfall, seasonality and fire weather in driving variation in fire extent between years, and to test whether the effect of these variables changes across the subcontinent and in areas more and less impacted by human activities. Results A simple model including rainfall and seasonality explained 40% of the variance in burnt area between years across 10 different protected areas on the subcontinent, but this model, when applied regionally, indicated that climate had less impact on year-to-year variation in burnt area than would be expected. It was possible to demonstrate that the relative importance of rainfall and seasonality changed as one moved from dry to wetter systems, but most noticeable was the reduction in climatically driven variability of fire outside protected areas. Inter-annual variability is associated with the occurrence of large fires, and large fires are only found in areas with low human impact. Main conclusions This research gives the first data-driven analysis of fire-climate interactions in southern Africa. The regional analysis shows that human impact on fire regimes is substantial and acts to limit the effect of climate in driving variation between years. This is in contrast to patterns in protected areas, where variation in accumulated rainfall and the length of the dry season influence the annual area burnt. Global models which assume strong links between fire and climate need to be re-assessed in systems with high human impact.
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| 12. |
- Bootpetch, TC, et al.
(författare)
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Multi-omic studies on missense PLG variants in families with otitis media
- 2020
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Ingår i: Scientific reports. - : Springer Science and Business Media LLC. - 2045-2322. ; 10:1, s. 15035-
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Tidskriftsartikel (refereegranskat)abstract
- Otitis media (OM), a very common disease in young children, can result in hearing loss. In order to potentially replicate previously reported associations between OM and PLG, exome and Sanger sequencing, RNA-sequencing of saliva and middle ear samples, 16S rRNA sequencing, molecular modeling, and statistical analyses including transmission disequilibrium tests (TDT) were performed in a multi-ethnic cohort of 718 families and simplex cases with OM. We identified four rare PLG variants c.112A > G (p.Lys38Glu), c.782G > A (p.Arg261His), c.1481C > T (p.Ala494Val) and c.2045 T > A (p.Ile682Asn), and one common variant c.1414G > A (p.Asp472Asn). However TDT analyses for these PLG variants did not demonstrate association with OM in 314 families. Additionally PLG expression is very low or absent in normal or diseased middle ear in mouse and human, and salivary expression and microbial α-diversity were non-significant in c.1414G > A (p.Asp472Asn) carriers. Based on molecular modeling, the novel rare variants particularly c.782G > A (p.Arg261His) and c.2045 T > A (p.Ile682Asn) were predicted to affect protein structure. Exploration of other potential disease mechanisms will help elucidate how PLG contributes to OM susceptibility in humans. Our results underline the importance of following up findings from genome-wide association through replication studies, preferably using multi-omic datasets.
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| 13. |
- Impellizzeri, Franco M., et al.
(författare)
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Patient-reported outcome measures for hip-related pain : A review of the available evidence and a consensus statement from the International Hip-related Pain Research Network, Zurich 2018
- 2020
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Ingår i: British journal of sports medicine. - : BMJ. - 0306-3674 .- 1473-0480. ; 54:14, s. 848-857
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Forskningsöversikt (refereegranskat)abstract
- Hip-related pain is a well-recognised complaint among active young and middle-aged active adults. People experiencing hip-related disorders commonly report pain and reduced functional capacity, including difficulties in executing activities of daily living. Patient-reported outcome measures (PROMs) are essential to accurately examine and compare the effects of different treatments on disability in those with hip pain. In November 2018, 38 researchers and clinicians working in the field of hip-related pain met in Zurich, Switzerland for the first International Hip-related Pain Research Network meeting. Prior to the meeting, evidence summaries were developed relating to four prioritised themes. This paper discusses the available evidence and consensus process from which recommendations were made regarding the appropriate use of PROMs to assess disability in young and middle-aged active adults with hip-related pain. Our process to gain consensus had five steps: (1) systematic review of systematic reviews; (2) preliminary discussion within the working group; (3) update of the more recent high-quality systematic review and examination of the psychometric properties of PROMs according to established guidelines; (4) formulation of the recommendations considering the limitations of the PROMs derived from the examination of their quality; and (5) voting and consensus. Out of 102 articles retrieved, 6 systematic reviews were selected and assessed for quality according to AMSTAR 2 (A MeaSurement Tool to Assess systematic Reviews). Two showed moderate quality. We then updated the most recent review. The updated literature search resulted in 10 additional studies that were included in the qualitative synthesis. The recommendations based on evidence summary and PROMs limitations were presented at the consensus meeting. The group makes the following recommendations: (1) the Hip and Groin Outcome Score (HAGOS) and the International Hip Outcome Tool (iHOT) instruments (long and reduced versions) are the most appropriate PROMs to use in young and middle-aged active adults with hip-related pain; (2) more research is needed into the utility of the HAGOS and the iHOT instruments in a non-surgical treatment context; and (3) generic quality of life measures such as the EuroQoL-5 Dimension Questionnaire and the Short Form Health Survey-36 may add value for researchers and clinicians in this field. We conclude that as none of the instruments shows acceptable quality across various psychometric properties, more methods studies are needed to further evaluate the validity of these PROMS-the HAGOS and iHOT-as well as the other (currently not recommended) PROMS.
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| 14. |
- Marshall, M., et al.
(författare)
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Improving operational land surface model canopy evapotranspiration in Africa using a direct remote sensing approach
- 2013
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Ingår i: Hydrology and Earth System Sciences. - : Copernicus GmbH. - 1607-7938. ; 17:3, s. 1079-1091
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Tidskriftsartikel (refereegranskat)abstract
- Climate change is expected to have the greatest impact on the world's economically poor. In the Sahel, a climatically sensitive region where rain-fed agriculture is the primary livelihood, expected decreases in water supply will increase food insecurity. Studies on climate change and the intensification of the water cycle in sub-Saharan Africa are few. This is due in part to poor calibration of modeled evapotranspiration (ET), a key input in continental-scale hydrologic models. In this study, a remote sensing model of transpiration (the primary component of ET), driven by a time series of vegetation indices, was used to substitute transpiration from the Global Land Data Assimilation System realization of the National Centers for Environmental Prediction, Oregon State University, Air Force, and Hydrology Research Laboratory at National Weather Service Land Surface Model (GNOAH) to improve total ET model estimates for monitoring purposes in sub-Saharan Africa. The performance of the hybrid model was compared against GNOAH ET and the remote sensing method using eight eddy flux towers representing major biomes of sub-Saharan Africa. The greatest improvements in model performance were at humid sites with dense vegetation, while performance at semi-arid sites was poor, but better than the models before hybridization. The reduction in errors using the hybrid model can be attributed to the integration of a simple canopy scheme that depends primarily on low bias surface climate reanalysis data and is driven primarily by a time series of vegetation indices.
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| 15. |
- Sjöström, Martin, et al.
(författare)
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Evaluation of MODIS gross primary productivity for Africa using eddy covariance data
- 2013
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Ingår i: Remote Sensing of Environment. - : Elsevier BV. - 0034-4257. ; 131, s. 275-286
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Tidskriftsartikel (refereegranskat)abstract
- MOD17A2 provides operational gross primary production (GPP) data globally at 1 km spatial resolution and 8-day temporal resolution. MOD17A2 estimates GPP according to the light use efficiency (LUE) concept assuming a fixed maximum rate of carbon assimilation per unit photosynthetically active radiation absorbed by the vegetation (epsilon(max)). Minimum temperature and vapor pressure deficit derived from meteorological data down-regulate epsilon(max) and constrain carbon assimilation. This data is useful for regional to global studies of the terrestrial carbon budget, climate change and natural resources. In this study we evaluated the MOD17A2 product and its driver data by using in situ measurements of meteorology and eddy covariance GPP for 12 African sites. MOD17A2 agreed well with eddy covariance GPP for wet sites. Overall, seasonality was well captured but MOD17A2 GPP was underestimated for the dry sites located in the Sahel region. Replacing the meteorological driver data derived from coarse resolution reanalysis data with tower measurements reduced MOD17A2 GPP uncertainties, however, the underestimations at the dry sites persisted. Inferred epsilon(max) calculated from tower data was higher than the epsilon(max) prescribed in MOD17A2. This, in addition to uncertainties in fraction of absorbed photosynthetically active radiation (FAPAR) explains some of the underestimations. The results suggest that improved quality of driver data, but primarily a readjustment of the parameters in the biome parameter look-up table (BPLUT) may be needed to better estimate GPP for African ecosystems in MOD17A2. (C) 2013 Elsevier Inc. All rights reserved.
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| 16. |
- Sjöström, Martin, et al.
(författare)
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Exploring the potential of MODIS EVI for modeling gross primary production across African ecosystems
- 2011
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Ingår i: Remote Sensing of Environment. - : Elsevier BV. - 0034-4257. ; 115:4, s. 1081-1089
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Tidskriftsartikel (refereegranskat)abstract
- One of the most frequently applied methods for integrating controls on primary production through satellite data is the light use efficiency (LUE) approach, which links vegetation gross or net primary productivity (GPP or NPP) to remotely-sensed estimates of absorbed photosynthetically active radiation (APAR). Eddy covariance towers provide continuous measurements of carbon flux, presenting an opportunity for evaluation of satellite estimates of GPP. Here we investigate relationships between eddy covariance estimated GPP, environmental variables and the enhanced vegetation index (EVI) from the Moderate Resolution Imaging Spectroradiometer (MODIS) across African savanna ecosystems. EVI was found to correlate well with estimated GPP on a site-by-site basis. Combining EVI with tower-measured PAR and evaporative fraction (EF, a measure of water sufficiency) improved the direct relationship between GPP and EVI at the majority of the sites. The slope of this relationship was strongly related to site peak leaf area index (LAI). These results are promising for the extension of GPP through the use of remote sensing data to a regional or even continental scale.
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