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Datasets of "Differences in the stool metabolome between vegans and omnivores: analyzing the NIST stool reference material" publication
<p>To gain confidence in results of omic-data acquisitions, methods must be benchmarked by validated quality control materials. We here report data combining both untargeted and targeted metabolomics assays for the analysis of four new human fecal reference materials developed by the U.S. National Institute of Standards and Technologies (NIST) for metagenomics and metabolomics measurements. These reference grade test materials (RGTM) were established by NIST based on two different diets and two different samples treatments: homogenized fecal matter from subjects eating vegan diets, stored and submitted in either lyophilized (RGTM 10162) or aqueous form (RGTM 10171); secondly, homogenized fecal matter from subjects eating omnivore diets, stored and submitted in either lyophilized (RGTM 10172) or aqueous form (RGTM 10173). We used four untargeted metabolomics assays (lipidomics, primary metabolites, biogenic amines and polyphenols) and one targeted assay on bile acids.</p>
Fig. 5 in Trophic ecology of Arapaima in Guyana: giant omnivores in Neotropical floodplains
Fig. 5. Structures associated with feeding in Arapaima, including: a) bony plates on the roof of the buccal cavity (vo = vomer, pas = parasphenoid, enp = entopterygoid, and dpt+ecp = fused dermopalatine+ectopterygoid), b) bony tongue (abbtp = anterior basibranchial toothplate) and gill rakers (gr), and c) jaw teeth (jaw bones are d = dentary, mx = maxilla, and pmx = premaxilla). Panels a and b are for a specimen from Mamirauá Reserve, Brazil (now a dried skeleton at Instituto Nacional de Pesquisas da Amazônia, Manaus, Brazil (INPA 26583, 121 cm TL, collected by C. Arantes, Nov. 2006); panel c is of a dried skull specimen from the Essequibo River that was on display at Iwokrama Centre, Guyana (estimated 239 cm TL, based on morphometric data for Essequibo basin Arapaima, Stewart & Watson, pers. comm.).
Fig. 6 in Trophic ecology of Arapaima in Guyana: giant omnivores in Neotropical floodplains
Fig. 6. Anatomy of the digestive tract from a 78 cm TL juvenile Arapaima from Mamirauá Reserve, Brazil (now a dried skeleton in Manaus, INPA 26582, collected by C. Arantes, Nov. 2006). The intestine in this specimen was 1.77 times TL, which was longer than the average for both Essequibo and Mamirauá populations.
Fig. 2 in Trophic ecology of Arapaima in Guyana: giant omnivores in Neotropical floodplains
Fig. 2. Scatter plot of δ13C and δ15N signatures for Arapaima and prey fish. The plot includes points for individual Arapaima (stars) and mean for values of prey taxa when possible (diamonds = piscivores, n = 6, triangles = omnivores, n = 12, squares = detritivores, n = 10). Species names for prey fishes are: Amb = Amblydoras sp., Anc = Ancistrus sp., Apt = Apteronotus cf. albifrons, Ch = Chilodus sp., Cre = Crenicichla sp., Cur = curimatid, Eig = Eigenmannia sp., Geo = Geophagus surinamensis, Hop = Hoplias malabaricus, Hyp = Hypostomus sp., Pla = Platydoras sp., Rin = Rineloricaria sp., Ste = Sternopygus sp., Tra = Trachycorystes trachcorystes.
Fig. 3 in Trophic ecology of Arapaima in Guyana: giant omnivores in Neotropical floodplains
Fig. 3. Histograms of the distribution of all feasible contributions of the three dietary fish groups for Arapaima: a) piscivores, b) omnivores, and c) algivores/detritivores based on the IsoSource model. Values in boxes are 1% percentile and 99% percentile ranges for these distributions.
Fig. 4 in Trophic ecology of Arapaima in Guyana: giant omnivores in Neotropical floodplains
Fig. 4. Histograms of the distribution of feasible contributions of the three dietary fish groups for Arapaima: a) piscivores, b) omnivores, and c) algivores/detritivores after imposing additional constraints of: I) omnivores> carnivores, and II) algivores/ detritivores> carnivores. Values in boxes are 1% percentile and 99% percentile ranges for these distributions.
Fig. 1 in Trophic ecology of Arapaima in Guyana: giant omnivores in Neotropical floodplains
Fig. 1. Map of collecting localities for stable isotope samples from the Essequibo River basin of southwestern Guyana. Sites are as follows: a) Banana Sucker Pond, b) Grass Pond, c) Makarapan Pond, d) Small Kumaka Pond, e) Inkapati Head Pond, and f) Stanley Lake. Inset shows location of study area in northern South America (black box with arrow) in relation to natural distribution of the genus Arapaima (grey shading).
Figure 4 in Population density and diet type interactively affect individual growth of an omnivorous soil-dwelling insect (Anomala cuprea, Coleoptera: Scarabaeidae)
Figure 4. (a) total carbon (%) in the diet before the experiment and (b) after the experiment, and (c) total nitrogen (%) in the diet before the experiment and (d) after the experiment in the two diets and three population densities.
Figure 2 in Population density and diet type interactively affect individual growth of an omnivorous soil-dwelling insect (Anomala cuprea, Coleoptera: Scarabaeidae)
Figure 2. Effects of diet type and population density on mean fresh weight of a larva. Error bars indicate standard error. See Tab. 2 for details of statistical results.
Figure 1 in Population density and diet type interactively affect individual growth of an omnivorous soil-dwelling insect (Anomala cuprea, Coleoptera: Scarabaeidae)
Figure 1. Effects of diet type and population density on larval mortality rate. Error bars indicate standard error. See Tab. 1 for details of statistical results.
Fig. 4 in Effects of river damming in Neotropical piscivorous and omnivorous fish: feeding, body condition and abundances
Fig. 4. Repletion Index (righ) and condition factor (left) of the analysed species from Iguaçu River in the Salto Caxias Reservoir influence, before and after damming and sites (RE - reservoir region; DO - downstream; UP - upstream from the Iguaçu River; TL - tributaries lower section; TU - tributaries upper section). Vertical bars= standard error.
Fig. 3 in Effects of river damming in Neotropical piscivorous and omnivorous fish: feeding, body condition and abundances
Fig. 3. Piscivory (%) and mean condition factor of the analysed species from Iguaçu River in the Salto Caxias Reservoir influence, before and after damming and sites (RE - reservoir region; DO - downstream; UP - upstream from the Iguaçu River; TL - tributaries lower section; TU - tributaries upper section). Vertical bars= standard error.
Fig. 2 in Effects of river damming in Neotropical piscivorous and omnivorous fish: feeding, body condition and abundances
Fig. 2. Median abundance (Capture per unit effort - CPUE; unit: number of individuals/1,000 m² of nets set for 24 h) of the most consumed prey and analysed species from Iguaçu River in the Salto Caxias Reservoir area of influence, before and after damming (RE - reservoir region; DO - downstream; UP - upstream from the Iguaçu River; TL - tributaries lower section; TU - tributaries upper section). Vertical bars=Min and Max values.
Fig. 1 in Effects of river damming in Neotropical piscivorous and omnivorous fish: feeding, body condition and abundances
Fig. 1. Location of the sample stations in the Iguaçu River and the dam influence area. a) Before damming. b) After damming. [Point 1-2 = upstream from the Iguaçu river (UP); point 3 = reservoir region (RE); point 4 = downstream (DO); 5-9 = tributaries low section (TL); 10-14= tributaries upper section (TU)].
FIGURE 1 in Water-level fluctuations lead to changes in the diet of an omnivorous fish in a floodplain
FIGURE 1 | Location of the Upper Paraná River floodplain (downstream of the Porto Primavera dam and upstream of the Itaipu reservoir) and the nine sampling stations on the Paraná, Baía, and Ivinhema rivers.
FIGURE 3 in Water-level fluctuations lead to changes in the diet of an omnivorous fish in a floodplain
FIGURE 3 | A. Relationship between the hydrometric level and the consumption of all allochthonous items; B. The consumption of terrestrial invertebrates; C. And the consumption of terrestrial plants for Trachelyopterus galeatus. The green graphs indicate a significant positive influence of the variable as a function of hydrometric level, while grayscale graphs indicate a non-significance.
FIGURE 2 in Water-level fluctuations lead to changes in the diet of an omnivorous fish in a floodplain
FIGURE 2 | Daily variation in the level of the Paraná River between 2000 and 2020 (provided by the Agência Nacional de Águas e Saneamento Básico - ANA). The horizontal line represents the 4.5 m level when the Paraná River overflows.
FIGURE 5 in Water-level fluctuations lead to changes in the diet of an omnivorous fish in a floodplain
FIGURE 5 | A. Relationship between the hydrometric level and the trophic niche breadth; B. Body condition; C. And the feeding activity of Trachelyopterus galeatus. The green graphs indicate a significant positive influence of the variable as a function of hydrometric level, while grayscale graphs indicate a non-significance.
FIGURE 4 in Water-level fluctuations lead to changes in the diet of an omnivorous fish in a floodplain
FIGURE 4 | A. Relationship between the hydrometric level and the consumption of all autochthonous items; B. The consumption of aquatic invertebrates; C. The consumption of detritus; D. And the consumption of fish for Trachelyopterus galeatus. Red graphs indicate a significant negative influence of the variable as a function of hydrometric level, while grayscale graphs indicate a non-significance.
FIGURE 4 in A New Family of Large Omnivorous Bats (Mammalia, Chiroptera) from the Late Eocene of the Fayum Depression, Egypt, with Comments on Use of the Name "Eochiroptera"
FIGURE 4. Photograph of the holotype of Aegyptonycteris knightae (CGM 83740) in occlusal view. Scale = 4 mm.
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Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
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DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.