| 1. |
- Nilsson, R. Henrik, 1976, et al.
(author)
-
Mycobiome diversity: high-throughput sequencing and identification of fungi.
- 2019
-
In: Nature reviews. Microbiology. - : Springer Science and Business Media LLC. - 1740-1534 .- 1740-1526. ; 17, s. 95-109
-
Research review (peer-reviewed)abstract
- Fungi are major ecological players in both terrestrial and aquatic environments by cycling organic matter and channelling nutrients across trophic levels. High-throughput sequencing (HTS) studies of fungal communities are redrawing the map of the fungal kingdom by hinting at its enormous - and largely uncharted - taxonomic and functional diversity. However, HTS approaches come with a range of pitfalls and potential biases, cautioning against unwary application and interpretation of HTS technologies and results. In this Review, we provide an overview and practical recommendations for aspects of HTS studies ranging from sampling and laboratory practices to data processing and analysis. We also discuss upcoming trends and techniques in the field and summarize recent and noteworthy results from HTS studies targeting fungal communities and guilds. Our Review highlights the need for reproducibility and public data availability in the study of fungal communities. If the associated challenges and conceptual barriers are overcome, HTS offers immense possibilities in mycology and elsewhere.
|
|
| 2. |
- Ran, Ylva, et al.
(author)
-
Effects of public policy interventions for environmentally sustainable food consumption: a systematic map of available evidence
- 2024
-
In: Environmental Evidence. - 2047-2382. ; 13
-
Research review (peer-reviewed)abstract
- Background The global food system is inflicting substantial environmental harm, necessitating a shift towards more environmentally sustainable food consumption practices. Policy interventions, for example, information campaigns, taxes and subsidies and changes in the choice context are essential to stimulate sustainable change, but their effectiveness in achieving environmental goals remains inadequately understood. Existing literature lacks a comprehensive synthesis of evidence on the role of public policies in promoting sustainable food consumption. Our systematic map addressed this gap by collecting and categorising research evidence on public policy interventions aimed at establishing environmentally sustainable food consumption patterns, in order to answer the primary research question: What evidence exists on the effects of public policy interventions for achieving environmentally sustainable food consumption?Methods Searches for relevant records (in English) were performed in WoS, Scopus, ASSIA, ProQuest Dissertation and Theses, EconLit, Google Scholar and in bibliographies of relevant reviews. A grey literature search was also performed on 28 specialist websites (searches were made in the original language of the webpages and publications in English, Swedish, Danish and Norwegian were eligible) and Google Scholar (search in English). Screening was performed at title/abstract and full-text levels, with machine learning-aided priority screening at title/abstract level. Eligibility criteria encompassed settings, interventions (public policies on sustainable food consumption), target groups and outcomes. No critical appraisal of study validity was conducted. Data coding covered bibliographic details, study characteristics, intervention types and outcomes. Evidence was categorised into intervention types and subcategories. Visual representation utilised bar plots, diagrams, heatmaps and an evidence atlas. This produced a comprehensive overview of effects of public policy interventions on sustainable food consumption patterns.Review findings The evidence base included 227 articles (267 interventions), with 92% of studies in high-income countries and only 4% in low-income countries. Quantitative studies dominated (83%), followed by mixed methods (16%) and qualitative studies (1%). Most interventions were information-based and 50% of reviewed studies looked at labels. Information campaigns/education interventions constituted 10% of the sample, and menu design changes and restriction/editing of choice context 8% each. Market-based interventions represented 13% of total interventions, of which two-thirds were taxes. Administrative interventions were rare (< 1%). Proxies for environmental impact (85%) were more frequent outcome measures than direct impacts (15%). Animal-source food consumption was commonly used (19%) for effects of interventions on, for example, greenhouse gas emissions. Most studies used stated preferences (61%) to evaluate interventions.Conclusions The literature assessing policies for sustainable food consumption is dominated by studies on non-intrusive policy instruments; labels, information campaigns, menu design changes and editing choice contexts. There is a strong need for research on sustainable food policies to leave the lab and enter the real world, which will require support and cooperation of public and private sector stakeholders. Impact evaluations of large-scale interventions require scaling-up of available research funding and stronger multidisciplinary research, including collaborations with industry and other societal actors. Future research in this field should also go beyond the European and North American context, to obtain evidence on how to counteract increasing environmental pressures from food consumption worldwide.
|
|
| 3. |
|
|
| 4. |
- Hibbett, David, et al.
(author)
-
Sequence-based classification and identification of Fungi
- 2016
-
In: Mycologia. - 0027-5514. ; 108:6, s. 1049-1068
-
Research review (peer-reviewed)abstract
- Fungal taxonomy and ecology have been revolutionized by the application of molecular methods and both have increasing connections to genomics and functional biology. However, data streams from traditional specimen- and culture-based systematics are not yet fully integrated with those from metagenomic and metatranscriptomic studies, which limits understanding of the taxonomic diversity and metabolic properties of fungal communities. This article reviews current resources, needs, and opportunities for sequence-based classification and identification (SBCI) in fungi as well as related efforts in prokaryotes. To realize the full potential of fungal SBCI it will be necessary to make advances in multiple areas. Improvements in sequencing methods, including long-read and single-cell technologies, will empower fungal molecular ecologists to look beyond ITS and current shotgun metagenomics approaches. Data quality and accessibility will be enhanced by attention to data and metadata standards and rigorous enforcement of policies for deposition of data and workflows. Taxonomic communities will need to develop best practices for molecular characterization in their focal clades, while also contributing to globally useful datasets including ITS. Changes to nomenclatural rules are needed to enable valid publication of sequence-based taxon descriptions. Finally, cultural shifts are necessary to promote adoption of SBCI and to accord professional credit to individuals who contribute to community resources.
|
|
| 5. |
- Hyvonen, R., et al.
(author)
-
The likely impact of elevated [CO2], nitrogen deposition, increased temperature and management on carbon sequestration in temperate and boreal forest ecosystems: a literature review
- 2007
-
In: New Phytologist. - Cambridge : Wiley. - 0028-646X .- 1469-8137. ; 173:3, s. 463-480
-
Research review (peer-reviewed)abstract
- Temperate and boreal forest ecosystems contain a large part of the carbon stored on land, in the form of both biomass and soil organic matter. Increasing atmospheric [CO2], increasing temperature, elevated nitrogen deposition and intensified management will change this C store. Well documented single-factor responses of net primary production are: higher photosynthetic rate (the main [CO2] response); increasing length of growing season (the main temperature response); and higher leaf-area index (the main N deposition and partly [CO2] response). Soil organic matter will increase with increasing litter input, although priming may decrease the soil C stock initially, but litter quality effects should be minimal (response to [CO2], N deposition, and temperature); will decrease because of increasing temperature; and will increase because of retardation of decomposition with N deposition, although the rate of decomposition of high-quality litter can be increased and that of low-quality litter decreased. Single-factor responses can be misleading because of interactions between factors, in particular those between N and other factors, and indirect effects such as increased N availability from temperature-induced decomposition. In the long term the strength of feedbacks, for example the increasing demand for N from increased growth, will dominate over short-term responses to single factors. However, management has considerable potential for controlling the C store.
|
|
| 6. |
- Stepanova, Olga, 1981, et al.
(author)
-
The relevance of environmental conflict research for coastal management. A review of concepts, approaches and methods with a focus on Europe
- 2013
-
In: Ocean and Coastal Management. - : Elsevier BV. - 0964-5691. ; 75, s. 20-32
-
Research review (peer-reviewed)abstract
- Analysis and resolution of coastal resource use conflicts have largely been neglected in coastal research, environmental policies and resource management strategies such as Integrated Coastal Zone Management (ICZM). We review theoretical approaches and empirical studies from European countries about environmental and natural resource use conflicts with the aim to clarify the requirements for developing interdisciplinary coastal conflict research as a component of sustainable coastal management. Issues of terminology, conceptual and methodological differences and requirements for analysing and solving resource use and management conflicts are addressed. Thereafter, possibilities of consolidation of the research field and the perspectives of future coastal conflict research are discussed – along with comparative studies of conflicts, conflict management, and integration of the knowledge of resource users. We conclude that the reviewed conflict concepts, typologies and approaches can be integrated and thus help to improve context-specific analysis of multi-scale coastal conflicts. Such conflicts are part of sustainable resource management that needs to deal with consequences of global environmental change, especially the rise in sea levels in coastal areas.
|
|
| 7. |
- Larsson, Åke, 1944, et al.
(author)
-
Kustfisk - hälsa
- 2012
-
In: HAVET 2012 - Om miljötillståndet i svenska havsområden. - 1654-6741. ; år 2012
-
Research review (peer-reviewed)
|
|
| 8. |
- Lindahl, Björn, et al.
(author)
-
Fungal community analysis by high-throughput sequencing of amplified markers – a user's guide
- 2013
-
In: New Phytologist. - : Wiley. - 0028-646X .- 1469-8137. ; 199:1, s. 288-299
-
Research review (peer-reviewed)abstract
- * Novel high-throughput sequencing methods outperform earlier approaches in terms of resolution and magnitude. They enable identification and relative quantification of community members and offer new insights into fungal community ecology. These methods are currently taking over as the primary tool to assess fungal communities of plant-associated endophytes, pathogens, and mycorrhizal symbionts, as well as free-living saprotrophs. * Taking advantage of the collective experience of six research groups, we here review the different stages involved in fungal community analysis, from field sampling via laboratory procedures to bioinformatics and data interpretation. We discuss potential pitfalls, alternatives, and solutions. * Highlighted topics are challenges involved in: obtaining representative DNA/RNA samples and replicates that encompass the targeted variation in community composition, selection of marker regions and primers, options for amplification and multiplexing, handling of sequencing errors, and taxonomic identification. * Without awareness of methodological biases, limitations of markers, and bioinformatics challenges, large-scale sequencing projects risk yielding artificial results and misleading conclusions.
|
|
| 9. |
- Nyberg, Gert, et al.
(author)
-
Enclosures as a land management tool for food security in African drylands
- 2019
-
In: Journal of Land Use Science. - : TAYLOR & FRANCIS LTD. - 1747-4248 .- 1747-423X. ; 14:1, s. 110-121
-
Research review (peer-reviewed)abstract
- Increasing sedentary agro-pastoralist livelihoods may be explained by land degradation, population pressure, agricultural commodification, and economic development. We reviewed scientific and ‘grey’ literature for the effects of enclosures on food security. Only 8% of the 114 reviewed scientific articles addressed food production, while 69% approached environmental parameters that indirectly affect food security, most of which had positive results. Thirty-one percent focused on social and economic impacts, land tenure conflicts and elite capture with negative connotations. The ‘grey’ literature showed an opposite balance between positive environmental views and negative socio-economic impacts. Enclosures are not a panacea for dryland development, but their use need to be recognized and understood. Multidisciplinary research and cooperation on the applied management of enclosures in the context of food security is highly needed. Furthermore, agro-pastoralist land-use practices need more policy space and practical management support, such as clear tenure legislation, agroforestry methodologies, and support in fodder production systems.
|
|
| 10. |
- Havenhand, Jonathan N., 1959, et al.
(author)
-
Ecological and functional consequences of coastal ocean acidification : Perspectives from the Baltic-Skagerrak System
- 2019
-
In: Ambio. - : Springer Science and Business Media LLC. - 0044-7447 .- 1654-7209. ; 48:8, s. 831-854
-
Research review (peer-reviewed)abstract
- Ocean temperatures are rising; species are shifting poleward, and pH is falling (ocean acidification, OA). We summarise current understanding of OA in the brackish Baltic-Skagerrak System, focussing on the direct, indirect and interactive effects of OA with other anthropogenic drivers on marine biogeochemistry, organisms and ecosystems. Substantial recent advances reveal a pattern of stronger responses (positive or negative) of species than ecosystems, more positive responses at lower trophic levels and strong indirect interactions in food-webs. Common emergent themes were as follows: OA drives planktonic systems toward the microbial loop, reducing energy transfer to zooplankton and fish; and nutrient/food availability ameliorates negative impacts of OA. We identify several key areas for further research, notably the need for OA-relevant biogeochemical and ecosystem models, and understanding the ecological and evolutionary capacity of Baltic-Skagerrak ecosystems to respond to OA and other anthropogenic drivers.
|
|
