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CASCADE is a global dataset for 139 extant coccolithophore taxonomic units. CASCADE includes a trait database (size and cellular organic and inorganic carbon contents) and taxonomic-specific global spatiotemporal distributions (Lat/Lon/Depth/Month/Year) of coccolithophore abundance and organic and inorganic carbon stocks. CASCADE covers all ocean basins over the upper 275 meters, spans the years 1964-2019 and includes 33,119 taxonomic-specific abundance observations. Within CASCADE, we characterise the underlying uncertainties due to measurement errors by propagating error estimates between the different studies. Full details of the data set are provided in the associated Scientific Data manuscript. The repository contains five main folders: 1) "Classification", which contains YAML files with synonyms, family-level classifications, and life cycle phase associations and definitions; 2) "Concatenated literature", which contains the merged datasets of size, PIC and POC and which were corrected for taxonomic unit synonyms; 3) "Resampled cellular datasets", which contains the resampled datasets of size, PIC and POC in long format as well as a summary table; 4) "Gridded data sets", which contains gridded datasets of abundance, PIC and POC; 5) "Species lists", which contains spreadsheets of the "common" (>20 obs) and "rare" (<20 obs) species and their number of observations. The CASCADE data set can be easily reproduced using the scripts and data provided in the associated github repository: https://github.com/nanophyto/CASCADE/ (zenodo.12797197) Correspondence to: Joost de Vries, joost.devries@bristol.ac.uk v.0.1.2 has some fixes: 1. The wrongly specified S. neapolitana was removed from synonyms.yml (this species is now S. nana)2. Longitudes were corrected for Guerreiro et al., 20233. A double entry for Dimizia et al., 2015 was fixed4. Units in Sal et al., 2013 were correct to cells/L (previously cells/ml)5. Data from Sal et al., 2013 was re-done, as some species were missing6. Duplicate entries from Baumann et al., 2000 were dropped

This file collection contains the estimated spatial distribution of the above-ground biomass density (AGB) by the end of the 21st century across the Brazilian Atlantic Forest domain and the respective uncertanty. To develop the models, we used the maximum entropy method with projected climate data to 2100, based on the Intergovernmental Panel on Climate Change (IPCC) Representative Concentration Pathway (RCP) 4.5 from the fifth Assessment Report (AR5). The dataset is composed of four files in GeoTIFF format: calibrated-AGB-distribution.tif: raster file representing the present spatial distribution of the above-ground biomass density in the Atlantic Forest from the calibrated model. Unit: Mg/ha estimated-uncertanty-for-calibrated-agb-distribution.tif: raster file representing the estimated spatial uncertanty distribution of the calibrated above-ground biomass density. Unit: percentage. projected-AGB-distribution-under-rcp45.tif: raster file representing the projected spatial distribution of the above-ground biomass density in the Atlantic Forest by the end of 2100 under RCP 4.5 scenario. Unit: Mg/ha estimated-uncertanty-for-projected-agb-distribution.tif: raster file representing the estimated spatial uncertanty distribution of the projected above-ground biomass density. Unit: percentage. Spatial resolution: 0.0083 degree (ca. 1 km) Coordinate reference system: Geographic Coordinate System - Datum WGS84

These data record the results of processing otter trawl catches (OTSB14; Merrett & Marshall, 1980) from the National Oceanography Centre (NOC, UK) long-term study of the Porcupine Abyssal Plain (PAP), including the PAP-Sustained Observatory time-series. The data concern catches recovered during the RRS Challenger cruise 135 in 1997. Billett, D.S.M. et al. (1998). RRS Challenger Cruise 135, 15 Oct-30 Oct 1997. BENGAL: High resolution temporal and spatial study of the BENthic biology and Geochemistry of a north-eastern Atlantic abyssal Locality. Southampton Oceanography Centre Cruise Report, No. 19, 49pp.| https://www.bodc.ac.uk/resources/inventories/cruise_inventory/reports/ch135_97.pdf

Patterns of movement of marine species can reflect strategies of reproduction and dispersal, species’ interactions, trophodynamics, and susceptibility to change, and thus critically inform how we manage populations and ecosystems. On coral reefs, the density and diversity of metazoan taxa is greatest in dead coral and rubble, which is suggested to fuel food webs from the bottom-up. Yet, biomass and secondary productivity in rubble is predominantly available in some of the smallest individuals, limiting how accessible this energy is to higher trophic levels. We address the bioavailability of motile coral reef cryptofauna based on small-scale patterns of emigration in rubble. We deployed modified RUbble Biodiversity Samplers (RUBS) and emergence traps in a shallow rubble patch at Heron Island, Great Barrier Reef, to detect community-level differences in the directional influx of motile cryptofauna under five habitat accessibility regimes. The mean density (0.13–4.5 ind.cm-3) and biomass (0.14–5.2 mg.cm-3) of cryptofauna were high and varied depending on microhabitat accessibility. Emergent zooplankton represented a distinct community (dominated by the Appendicularia and Calanoida) with the lowest density and biomass, indicating constraints on nocturnal resource availability. Mean cryptofauna density and biomass were greatest when interstitial access within rubble was blocked, driven by the rapid proliferation of small harpacticoid copepods from the rubble surface, leading to trophic simplification. Individuals with high biomass (e.g., decapods, gobies, and echinoderms) were greatest when interstitial access within rubble was unrestricted. Treatments with a closed rubble surface did not differ from those completely open, suggesting that top-down predation does not diminish rubble-derived resources. Our results show that conspecific cues and species’ interactions (e.g., competition and predation) within rubble are most critical in shaping ecological outcomes within the cryptobiome. These findings have implications for prey accessibility through trophic and community size structuring in rubble, which may become increasingly relevant as benthic reef complexity shifts in the Anthropocene. We address the bioavailability of coral reef cryptofauna in rubble based on small-scale patterns of emigration. We adapted the accessibility of Rubble Biodiversity Samplers (RUBS), models used to standardise biodiversity sampling in rubble (Wolfe and Mumby 2020), to explore the local movement patterns of rubble-dwelling fauna, with inference to predation processes within and beyond the cryptobenthos. Five treatments were developed to detect community-level differences in the directional influx of motile cryptofauna under various habitat accessibility regimes. Four of these treatments were developed by modifying accessibility into RUBS (https://www.thingiverse.com/thing:4176644/files) to understand limitations on the directional influx and movement of cryptofauna within coral rubble patches using four treatments; (1) open (completely accessible), (2) interstitial access (top closed), (3) surficial access (sides and bottom closed), and (4) raised (above rubble substratum). The fifth treatment involved a series of emergence plankton traps, designed to target demersal cryptofauna that vertically migrate from within the rubble benthos at night, given emergent zooplankton biomass and diversity are greatest at night. Fieldwork was conducted over several weeks (11th September to 5th October 2021) in a shallow (~3–5 m depth) reef slope site on the southern margin of Heron Island (-23˚26.845’ S, 151˚54.732’ E), Great Barrier Reef, Australia (Fig. 1). All collections were conducted under the Great Barrier Reef Marine Park Authority permit G20/44613.1.

Abstract Background The ascomycete fungus Podospora anserina has been appreciated for its targeted carbohydrate-active enzymatic arsenal. As a late colonizer of herbivorous dung, the fungus acts specifically on the more recalcitrant fraction of lignocellulose and this lignin-rich biotope might have resulted in the evolution of ligninolytic activities. However, the lignin-degrading abilities of the fungus have not been demonstrated by chemical analyses at the molecular level and are, thus far, solely based on genome and secretome predictions. To evaluate whether P. anserina might provide a novel source of lignin-active enzymes to tap into for potential biotechnological applications, we comprehensively mapped wheat straw lignin during fungal growth and characterized the fungal secretome. Results Quantitative 13C lignin internal standard py-GC–MS analysis showed substantial lignin removal during the 7 days of fungal growth (24% w/w), though carbohydrates were preferably targeted (58% w/w removal). Structural characterization of residual lignin by using py-GC–MS and HSQC NMR analyses demonstrated that Cα-oxidized substructures significantly increased through fungal action, while intact β-O-4′ aryl ether linkages, p-coumarate and ferulate moieties decreased, albeit to lesser extents than observed for the action of basidiomycetes. Proteomic analysis indicated that the presence of lignin induced considerable changes in the secretome of P. anserina. This was particularly reflected in a strong reduction of cellulases and galactomannanases, while H2O2-producing enzymes clearly increased. The latter enzymes, together with laccases, were likely involved in the observed ligninolysis. Conclusions For the first time, we provide unambiguous evidence for the ligninolytic activity of the ascomycete fungus P. anserina and expand the view on its enzymatic repertoire beyond carbohydrate degradation. Our results can be of significance for the development of biological lignin conversion technologies by contributing to the quest for novel lignin-active enzymes and organisms. Background The ascomycete fungus Podospora anserina has been appreciated for its targeted carbohydrate-active enzymatic arsenal. As a late colonizer of herbivorous dung, the fungus acts specifically on the more recalcitrant fraction of lignocellulose and this lignin-rich biotope might have resulted in the evolution of ligninolytic activities. However, the lignin-degrading abilities of the fungus have not been demonstrated by chemical analyses at the molecular level and are, thus far, solely based on genome and secretome predictions. To evaluate whether P. anserina might provide a novel source of lignin-active enzymes to tap into for potential biotechnological applications, we comprehensively mapped wheat straw lignin during fungal growth and characterized the fungal secretome. Results Quantitative 13C lignin internal standard py-GC–MS analysis showed substantial lignin removal during the 7 days of fungal growth (24% w/w), though carbohydrates were preferably targeted (58% w/w removal). Structural characterization of residual lignin by using py-GC–MS and HSQC NMR analyses demonstrated that Cα-oxidized substructures significantly increased through fungal action, while intact β-O-4′ aryl ether linkages, p-coumarate and ferulate moieties decreased, albeit to lesser extents than observed for the action of basidiomycetes. Proteomic analysis indicated that the presence of lignin induced considerable changes in the secretome of P. anserina. This was particularly reflected in a strong reduction of cellulases and galactomannanases, while H2O2-producing enzymes clearly increased. The latter enzymes, together with laccases, were likely involved in the observed ligninolysis. Conclusions For the first time, we provide unambiguous evidence for the ligninolytic activity of the ascomycete fungus P. anserina and expand the view on its enzymatic repertoire beyond carbohydrate degradation. Our results can be of significance for the development of biological lignin conversion technologies by contributing to the quest for novel lignin-active enzymes and organisms.

Poleward range extensions by warm-adapted sea urchins are switching temperate marine ecosystems from kelp-dominated to barren-dominated systems that favour the establishment of range-extending tropical fishes. Yet, such tropicalization may be buffered by ocean acidification, which reduces urchin grazing performance and the urchin barrens that tropical range-extending fishes prefer. Using ecosystems experiencing natural warming and acidification, we show that ocean acidification could buffer warming-facilitated tropicalization by reducing urchin populations (by 87%) and inhibiting the formation of barrens. This buffering effect of CO2 enrichment was observed at natural CO2 vents that are associated with a shift from a barren-dominated to a turf-dominated state, which we found is less favourable to tropical fishes. Together, these observations suggest that ocean acidification may buffer the tropicalization effect of ocean warming against urchin barren formation via multiple processes (fewer urchins and barrens) and consequently slow the increasing rate of tropicalization of temperate fish communities. In order to allow full comparability with other ocean acidification data sets, the R package seacarb (Gattuso et al, 2021) was used to compute a complete and consistent set of carbonate system variables, as described by Nisumaa et al. (2010). In this dataset the original values were archived in addition with the recalculated parameters (see related PI). The date of carbonate chemistry calculation by seacarb is 2021-07-26.

Description: Leaf and invertebrate biomass in streams Project: This dataset was collected as part of the following SAFE research project: A preliminary study of the allochthonous inputs into tropical streams across a land use gradient in Sabah, Malaysia XML metadata: GEMINI compliant metadata for this dataset is available here Data worksheets: There are 2 data worksheets in this dataset: Insects (Worksheet Insects) Dimensions: 23 rows by 11 columns Description: Insect capture rates Fields: Location: SAFE project riparian site (Field type: Location) Stream: SAFE project stream (Field type: ID) Repeat: sample number for that stream (Field type: ID) Total Mass of Insects (g): the total dried mass of insects collected for each of the repeats (Field type: Numeric) Total Insects: the total number of insects collected in each repeat (Field type: Abundance) Hymenoptera: the total number of hymenoptera in each repeat (Field type: Abundance) Diptera: the total number of diptera in each repeat (Field type: Abundance) Coleoptera: the total number of coleoptera in each repeat (Field type: Abundance) Other.Insect: the grouped total of Hemiptera, Thysanoptera, Orthoptera, Blattodea, Trichoptera, Mantodea, Ephemeroptera, Dermaptera for each repeat (Field type: Abundance) Other: the grouped total of Arachnida, Entognatha, Diplopoda, Chilopoda for each repeat (Field type: Abundance) Hydrology (Worksheet Hydrology) Dimensions: 60 rows by 17 columns Description: River characteristics and litter quantities Fields: Location: SAFE project riparian site (Field type: Location) Stream Code: The stream from which the sample was taken (LFE, 15m, 30m, VJR or OP) (Field type: ID) Transect No.: The point of each sample within the 100m transect at each stream (Field type: ID) Channel Width: The bank full width of the channel at this point (Field type: Numeric) Wetted Width: The width of the runnin water at this point (Field type: Numeric) SAFE Habitat Quality Right: the SAFE Habitat quality on the right of the channel when looking upstream (Field type: Ordered Categorical) SAFE Habitat Quality Centre: the SAFE Habitat quality in the centre of the channel when looking upstream (Field type: Ordered Categorical) SAFE Habitat Quality Left: the SAFE Habitat quality on the left of the channel when looking upstream (Field type: Ordered Categorical) Flow Rate Right (s): the time taken for a tennis ball to travel 10m in the water on the right of the channel when looking upstream (Field type: Numeric) Flow Rate Centre (s): the time taken for a tennis ball to travel 10m in the water in the centre of the channel when looking upstream (Field type: Numeric) Flow Rate Left (s): the time taken for a tennis ball to travel 10m in the water on the left of the channel when looking upstream (Field type: Numeric) Average Flow Rate (s): an average of flow rate centre, flow rate left and flow rate right (Field type: Numeric) Leaf Litter Retention (g): the dried mass of leaf litter retained across the wetted width of the stream at each point (Field type: Numeric) Average Substrate Size: the average size of the substrate across the channel width of the stream at each point (Field type: Numeric) Leaf Litter Trap Position: the position where the leaf litter trap was placed relative to the stream when looking upstream (left, right or centre) (Field type: Categorical) Leaf Litter Mass: the dried mass of leaf litter collected in the leaf litter trap at each point (Field type: Numeric) Date range: 2017-02-06 to 2017-07-06 Latitudinal extent: 4.6314 to 4.7273 Longitudinal extent: 117.4556 to 117.6233 Taxonomic coverage: All taxon names are validated against the GBIF backbone taxonomy. If a dataset uses a synonym, the accepted usage is shown followed by the dataset usage in brackets. Taxa that cannot be validated, including new species and other unknown taxa, morphospecies, functional groups and taxonomic levels not used in the GBIF backbone are shown in square brackets. Animalia - Arthropoda - - Insecta - - - Coleoptera - - - Diptera - - - Hymenoptera - - [Other.Insect]

This dataset contains two metrics for climate change exposure using downscaled climate projections with the SRES A2 emissions scenario (Tabor and Williams, 2007).The metrics represent dissimilarity measurements of the squared Euclidean distance between seasonal (June–August and December–February) temperature and precipitation variables in the 20th century climate and mid-21st century climate. (1) disappearing climate risk - measure of dissimilarity between a pixel’s late 20th century climate and its closest matching pixel in the global set of 21st-century climates (2) novel climate risk - measure of dissimilarity between a pixel’s future climate and its closest matching pixel in the global set of late 20th-century climates. The data are in arcASCII format. All data are in units of standard Euclidean distance and multiplied by 1000. This is the original data. To scale the data similar to Tabor et al. (2018), remove outliers above the 99th percentile distribution before rescaling from 0-1. Unprojected number of columns 2160 number of rows 857 Lower Left X Center -179.917 Lower Left Y Center -59.084 Cell size 0.166667 decimal degrees (10 minutes or ~17 km) {"references": ["Tabor, K. et al. (2018). Tropical Protected Areas Under Increasing Threats from Climate Change and Deforestation: https://doi.org/10.3390/land7030090", "Tabor and Williams (2010). Globally downscaled climate projections for assessing the conservation impacts of climate change. https://doi.org/10.1890/09-0173.1", "Williams, J.W. et al. (2007). Projected distributions of novel and disappearing climates by 20100 AD. https://doi.org/10.1073/pnas.0606292104"]} Support for this project was provided by Conservation International, the Land Tenure Center at the University of Wisconsin, the Center for Climatic Research at the University of Wisconsin, and the Environment Program at the University of Wisconsin–Madison. This research has been funded in part by the Walton Family Foundation, the Gordon and Betty Moore Foundation, and a gift from Betty and Gordon Moore.