Description: The field of ecoinformatics provides concepts, methods and standards to guide management and analysis of ecological data with particular emphasis on exploration of co-occurrences of organisms and their linkage to environmental conditions and taxon attributes. In this editorial, introducing the Special Feature ‘Ecoinformatics and global change’, we reflect on the development of ecoinformatics and explore its importance for future global change research with special focus on vegetation-plot data. We show how papers in this Special Feature illustrate important directions and approaches in this emerging field. We suggest that ecoinformatics has the potential to make profound contributions to pure and applied sciences, and that the analyses, databases, meta-databases, data exchange formats and analytical tools presented in this Special Feature advance this approach to vegetation science and illustrate and address important open questions. We conclude by describing important future directions for the development of the field including incentives for data sharing, creation of tools for more robust statistical analysis, utilities for integration of data that conform to divergent taxonomic standards, and databases that provide detailed plot-specific data so as to allow users to find and access data appropriate to their research needs.

Description: Questions: What are the most likely environmental drivers for compositional herb layer changes as indicated by trait differences between winner and loser species? Location: Weser-Elbe region (NW Germany). Methods: We resurveyed the herb layer communities of ancient forest patches on base-rich sites of 175 semi-permanent plots. Species traits were tested for their ability to discriminate between winner and loser species using logistic regression analyses and deviance partitioning. Results: Of 115 species tested, 31 were identified as winner species and 30 as loser species. Winner species had higher seed longevity, flowered later in the season and more often had an oceanic distribution compared to loser species. Loser species tended to have a higher specific leaf area, were more susceptible to deer browsing and had a performance optimum at higher soil pH compared to winner species. The loser species also represented several ancient forest and threatened species. Deviance partitioning indicated that local drivers (i.e. disturbance due to forest management) were primarily responsible for the species shifts, while regional drivers (i.e. browsing pressure and acidification from atmospheric deposition) and global drivers (i.e. climate warming) had moderate effects. There was no evidence that canopy closure, drainage or eutrophication contributed to herb layer changes. Conclusions: The relative importance of the different drivers as indicated by the winner and loser species differs from that found in previous long-term studies. Relating species traits to species performance is a valuable tool that provides insight into the environmental drivers that are most likely responsible for herb layer changes.

Description: During the ARK XXV 1+2 expedition in the Arctic Ocean carried out in June–July 2010 aboard the R/V Polarstern, we measured carbon monoxide (CO), non-methane hydrocarbons (NMHC) and phytoplankton pigments at the sea surface and down to a depth 5 of 100m. The CO and NMHC sea-surface concentrations were highly variable; CO, propene and isoprene levels ranged from 0.6 to 17.5 nmol l−1, 1 to 322 pmol l−1 and 1 to 541 pmol l−1, respectively. The CO and alkene concentrations were enhanced in polar waters off of Greenland, which were more stratified because of ice melting and richer in chromophoric dissolved organic matter (CDOM) than typical North Atlantic 10 waters. The spatial distribution of the surface concentrations of CO was consistent with our current understanding of CO-induced UV photo-production in the sea. The vertical distributions of the CO and alkenes followed the trend of light penetration, with the concentrations displaying a relatively regular exponential decrease down to nonmeasurable values below 50 m. However, no diurnal variations of CO or alkene con15 centrations were observed in the stratified and irradiated surface layers. This finding suggests that the production and removal processes of CO and alkenes were tightly coupled. We tentatively determined a first-order rate constant for the microbial consumption of CO of 0.5 d−1, which is in agreement with previous studies. On several occasions, we observed the existence of subsurface CO maxima at the level of the 20 deep chlorophyll maximum. This finding represents field evidence for the existence of a non-photochemical CO production pathway, most likely of phytoplanktonic origin. The corresponding production rates normalized to the chlorophyll content were in the range of those estimated from laboratory experiments. In general, the vertical distributions of isoprene followed that of the phytoplankton biomass. Hence, oceanic data support the 25 existence of biological production of CO and isoprene in the Arctic Ocean

Description: Tropical forests are biologically diverse ecosystems that play important roles in the carbon cycle and maintenance of global biodiversity. Understanding how tropical forests respond to environmental changes is important, as changes in carbon storage can modulate the rate and magnitude of climate change. Applying an ecoinformatics approach for managing long-term forest inventory plot data, where individual trees are tracked over time, facilitates regional and cross-continental forest research to evaluate changes in taxonomic composition, growth, recruitment and mortality rates, and carbon and biomass stocks. We developed ForestPlots.net as a secure, online inventory data repository and to facilitate data management of long-term tropical forest plots to promote scientific collaborations among independent researchers. The key novel features of the database are: (a) a design that efficiently deals with time-series data; (b) data management tools to assess potential errors; and (c) a query library to generate outputs (e.g. biomass and carbon stock changes over time).

Description: Soils and other unconsolidated deposits in the northern circumpolar permafrost region store large amounts of soil organic carbon (SOC). This SOC is potentially vulnerable to remobilization following soil warming and permafrost thaw, but stock estimates are poorly constrained and quantitative error estimates were lacking. This study presents revised estimates of the permafrost SOC pool, including quantitative uncertainty estimates, in the 0–3 m depth range in soils as well as for deeper sediments (〉3 m) in deltaic deposits of major rivers and in the Yedoma region of Siberia and Alaska. The revised estimates are based on significantly larger databases compared to previous studies. Compared to previous studies, the number of individual sites/pedons has increased by a factor ×8–11 for soils in the 1–3 m depth range,, a factor ×8 for deltaic alluvium and a factor ×5 for Yedoma region deposits. Upscaled based on regional soil maps, estimated permafrost region SOC stocks are 217 ± 15 and 472 ± 34 Pg for the 0–0.3 m and 0–1 m soil depths, respectively (±95% confidence intervals). Depending on the regional subdivision used to upscale 1–3 m soils (following physiography or continents), estimated 0–3 m SOC storage is 1034 ± 183 Pg or 1104 ± 133 Pg. Of this, 34 ± 16 Pg C is stored in thin soils of the High Arctic. Based on generalised calculations, storage of SOC in deep deltaic alluvium (〉3 m to ≤60 m depth) of major Arctic rivers is estimated to 91 ± 39 Pg (of which 69 ± 34 Pg is in permafrost). In the Yedoma region, estimated 〉3 m SOC stocks are 178 +140/−146 Pg, of which 74 +54/−57 Pg is stored in intact, frozen Yedoma (late Pleistocene ice- and organic-rich silty sediments) with the remainder in refrozen thermokarst deposits (±16/84th percentiles of bootstrapped estimates). A total estimated mean storage for the permafrost region of ca. 1300–1370 Pg with an uncertainty range of 930–1690 Pg encompasses the combined revised estimates. Of this, ≤819–836 Pg is perennially frozen. While some components of the revised SOC stocks are similar in magnitude to those previously reported for this region, there are also substantial differences in individual components. There is evidence of remaining regional data-gaps. Estimates remain particularly poorly constrained for soils in the High Arctic region and physiographic regions with thin sedimentary overburden (mountains, highlands and plateaus) as well as for 〉3 m depth deposits in deltas and the Yedoma region.

Description: Agriculture significantly contributes to global greenhouse gas (GHG) emissions and there is a need to develop effective mitigation strategies. The efficacy of methods to reduce GHG fluxes from agricultural soils can be affected by a range of interacting management and environmental factors. Uniquely, we used the Taguchi experimental design methodology to rank the relative importance of six factors known to affect the emission of GHG from soil: nitrate (NO 3 − ) addition, carbon quality (labile and non-labile C), soil temperature, water-filled pore space (WFPS) and extent of soil compaction. Grassland soil was incubated in jars where selected factors, considered at two or three amounts within the experimental range, were combined in an orthogonal array to determine the importance and interactions between factors with a L 16 design, comprising 16 experimental units. Within this L 16 design, 216 combinations of the full factorial experimental design were represented. Headspace nitrous oxide (N 2 O), methane (CH 4 ) and carbon dioxide (CO 2 ) concentrations were measured and used to calculate fluxes. Results found for the relative influence of factors (WFPS and NO 3 − addition were the main factors affecting N 2 O fluxes, whilst glucose, NO 3 − and soil temperature were the main factors affecting CO 2 and CH 4 fluxes) were consistent with those already well documented. Interactions between factors were also studied and results showed that factors with little individual influence became more influential in combination. The proposed methodology offers new possibilities for GHG researchers to study interactions between influential factors and address the optimized sets of conditions to reduce GHG emissions in agro-ecosystems, while reducing the number of experimental units required compared with conventional experimental procedures that adjust one variable at a time.

Description: High latitude terrestrial ecosystems are key components in the global carbon (C) cycle. The Northern Circumpolar Soil Carbon Database (NCSCD) was developed to quantify stocks of soil organic carbon (SOC) in the northern circumpolar permafrost region (18.7×106 km2 5 ). The NCSCD is a digital Geographical Information systems (GIS) database compiled from harmonized regional soil classification maps, in which data on soil coverage has been linked to pedon data from the northern permafrost regions. Previously, the NCSCD has been used to calculate SOC content (SOCC) and mass (SOCM) to the reference depths 0–30 cm and 0–100 cm (based on 1778 pedons). It 10 has been shown that soils of the northern circumpolar permafrost region also contain significant quantities of SOC in the 100–300 cm depth range, but there has been no circumpolar compilation of pedon data to quantify this SOC pool and there are no spatially distributed estimates of SOC storage below 100 cm depth in this region. Here we describe the synthesis of an updated pedon dataset for SOCC in deep soils 15 of the northern circumpolar permafrost regions, with separate datasets for the 100– 200 cm (524 pedons) and 200–300 cm (356 pedons) depth ranges. These pedons have been grouped into the American and Eurasian sectors and the mean SOCC for different soil taxa (subdivided into Histels, Turbels, Orthels, Histosols, and permafrost-free mineral soil taxa) has been added to the updated NCSCDv2. The updated version of 20 the database is freely available online in several different file formats and spatial resolutions that enable spatially explicit usage in e.g. GIS and/or terrestrial ecosystem models. The potential applications and limitations of the NCSCDv2 in spatial analyses are briefly discussed. An open access data-portal for all the described GIS-datasets is available online at: http://dev1.geo.su.se/bbcc/dev/v3/ncscd/download.php. The NC25 SCDv2 database has the doi:10.5879/ECDS/00000002.