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90 results for “dietary analysis”
The predator problem and PCR primers in molecular dietary analysis: swamped or silenced; depth or breadth? - Dataset
<p>Raw sequencing data and other metadata files are associated with Cuff et al. (2022), available at https://doi.org/10.5281/zenodo.4708418</p> <p>The associated code, files and description pertain to the non-metric multi-dimensional scaling plot presented in this review (Figure 4). The code and data required for the boxplot (Figure 3) are given at the Zenodo link above (for Cuff et al. 2022).</p> <p>Data were collected and processed according to Cuff et al., (2022) up to the point of aggregating the two primer pair datasets. Binary matrices for prey detections were combined for the two primer pairs, but each sample represented separately for each primer pair (i.e., not aggregated by sample). Instances where taxa were only identified to genus (or lower, e.g., family) level by only one of the primer pairs resulted in aggregation for the other primer pair at that taxonomic level, except for species within those groups that were reliably identified to species level by both primers. Samples for which only one primer pair generated prey data were removed. The non-metric multidimensional scaling spider plot was created using ‘metaMDS’ with a Jaccard distance matrix and 999 tries in the ‘vegan’ package (Oksanen et al., 2016). Outliers that obscured the overall patterns were removed, the final plot having a stress of 0.061. Point colours were assigned using the ‘set1’ palette of the ‘RColorBrewer’ package (Neuwirth, 2014) and the final plot created using ‘ggplot2’ (Wickham, 2016).</p>
FIGURE 1 in Feeding strategies of circum-Mediterranean hipparionins during the late Miocene: Exploring dietary preferences related to size through dental microwear analysis
FIGURE 1. Geographic distribution of the localities from western Mediterranean (circles), Balkans (stars), and western Anatolian (squares) basins. Dashed contours depicting the areas with Vallesian localities sampled. 1. Vallès-Penedès Basin (Santiga, Can Llobateres, Can Poncic); 2. Teruel Basin (Concud, El Arquillo); 3. Cabriel Basin (Venta del Moro); 4. Axios Valley (Pentalophos, Ravin de la Pluie, Ravin des Zouaves-5 and Dytiko sites); 5. Thessaly (Perivolaki); 6. Mesta Valley (Hadjidimovo); 7. Chalkidiki Peninsula (Nikiti-1 and Nikiti-2); 8. Biga Peninsula (Gülpınar); 9. Muğla Yatağan Basin (Şerefköy-2); 10. Samos Island (Mytilinii-A, Mytilinii-B).
FIGURE 4 in Feeding strategies of circum-Mediterranean hipparionins during the late Miocene: Exploring dietary preferences related to size through dental microwear analysis
FIGURE 4. Mean values and confidence intervals (2x standard error of the mean) of the microwear Principal Component 1 for each hipparionin group. Dashed lines used for small-sized groups and continuous for large-sized. Grey color represents Vallesian hipparionins and black color the Turolian hipparionins.
FIGURE 3 in Feeding strategies of circum-Mediterranean hipparionins during the late Miocene: Exploring dietary preferences related to size through dental microwear analysis
FIGURE 3. Bar charts with the mean and the standard error of the mean of the four DMT parameters for each hipparionin group. Small-sized forms shown in light grey, larger ones in dark grey. A: Asfc. B: epLsar. C: HAsfc. D: Tfv
FIGURE 2 in Feeding strategies of circum-Mediterranean hipparionins during the late Miocene: Exploring dietary preferences related to size through dental microwear analysis
FIGURE 2. Bivariate plot showing the mean and the standard error of the mean for the complexity (Asfc) and anisotropy (epLsar) variables. The symbol type (circle/square) represents the region, the filling of the symbol differentiates between hipparionin size types, and the color if they are from Vallesian (grey) or Turolian (black) assemblages. Extant wild Equus africanus asinus (A) and Equus quagga burchelli (B) are included for comparison.
Details of offspring and source data for analysis of metabolic health and dietary preference in a rat model of acute alcohol exposure.
<p>This Excel file contains information on the number of offspring used to examine each outcome and the raw data for each data Table and Figure within a manuscript submitted to Journal of Physiology. </p>
Fig. 1 in Comparative dietary analysis of two populations of Mimagoniates rheocharis (Characidae: Glandulocaudinae) from two streams of Southern Brazil
Fig. 1. Percent composition of dietary items found in the stomachs of Mimagoniates rheocharis. (a) Station 1, March 1998 to March 1999 and (b) Station 2, January 1998 to February 1999.
Data analysis of Maamela et al. 2023 The effect of temperature and dietary energy content on female maturation and egg nutritional content in Atlantic salmon
<p>This folder includes the data and R scripts used in the data analysis of the Maamela et al. 2023 paper in Journal of Fish Biology.</p>
Data from: Dietary constraints of phytosaurian reptiles revealed by dental microwear textural analysis
Phytosaurs are a group of large, semi-aquatic archosaurian reptiles from the Middle–Late Triassic. They have often been interpreted as carnivorous or piscivorous due to their large size, morphological similarity to extant crocodilians and preservation in fluvial, lacustrine and coastal deposits. However, these dietary hypotheses are difficult to test, meaning that phytosaur ecologies and their roles in Triassic food webs remain incompletely constrained. Here, we apply dental microwear textural analysis to the three-dimensional sub-micrometre scale tooth surface textures that form during food consumption to provide the first quantitative dietary constraints for five species of phytosaur. We furthermore explore the impacts of tooth position and cranial robusticity on phytosaur microwear textures. We find subtle systematic texture differences between teeth from different positions along phytosaur tooth rows, which we interpret to be the result of different loading pressures experienced during food consumption, rather than functional partitioning of food processing along tooth rows. We find rougher microwear textures in morphologically robust taxa. This may be the result of seizing and processing larger prey items compared to those captured by gracile taxa, rather than dietary differences per se. We reveal relatively low dietary diversity between our study phytosaurs and that individual species show a lack of dietary specialisation. Species are predominantly carnivorous and/or piscivorous, with two taxa exhibiting slight preferences for 'harder' invertebrates. Our results provide strong evidence for higher degrees of ecological convergence between phytosaurs and extant crocodilians than previously appreciated, furthering our understanding of the functioning and evolution of Triassic ecosystems.
Data from: Dietary partitioning among three cryptobentic reef fish mesopredators revealed by visual analysis, metabarcoding of gut content, and stable isotope analysis
<p>Understanding how mesopredators partition their diet and the identity of consumed prey can assist in understanding the ecological role predators and prey play in ecosystem trophodynamics. Here, we assessed the diet of three common coral reef mesopredators; <em>Pseudochromis flavivertex</em>, <em>Pseudochromis fridmani</em>, and <em>Pseudochromis olivaceus</em> from the family Pseudochromidae, commonly known as dottybacks, using a combination of i) visual stomach content analysis, ii) stomach content DNA metabarcoding (18S, COI), and iii) stable isotope analysis (δ<sup>15</sup>N, δ<sup>13</sup>C). In addition, <em>P. flavivertex</em> is found in two distinct color morphs in the Red Sea, providing an opportunity to analyze intra-morph differences. These techniques revealed partitioning in the dietary composition and resource use among species. Arthropods comprised the main dietary component of <em>P. flavivertex</em> (18S > 60%; COI > 10%), and <em>P. olivaceus</em> (18S = 57.2%) while <em>P. fridmani</em> ingested predominantly mollusks (18S = 51.3%, COI = 24.6%). Despite being small predators, microplastics were found in the gut content of some of these fishes. Stable isotope analysis showed differences in species' isotopic niche breadth and trophic position. <em>Pseudochromis olivaceus</em> presented the largest isotopic niche (SEA<sub>C</sub> = 1.61‰<sup>2</sup>), while <em>P. fridmani</em> showed the smallest isotopic niche (SEA<sub>C</sub> = 0.45‰<sup>2</sup>) among species. Although the two techniques used for stomach content analysis did not show differences in the diet within color morphs of <em>P. flavivertex</em>, they differed in the isotopic niche and resource use. Despite our limited sampling, our findings provide evidence of species-specific differences in the trophic ecology of dottybacks and demonstrate their important role as predators of cryptic invertebrates and small fishes. This study highlights the importance of combining several approaches (short-term: visual analysis and DNA metabarcoding; and long-term: isotope analysis) when assessing the feeding habits of coral reef fish, as they provide complementary information necessary to delimit their niches and understand the role that small mesopredators play in coral reef ecosystems.</p>
Data for: Two is better than one: Coupling DNA metabarcoding and stable isotope analysis improves dietary characterizations for a riparian-obligate, migratory songbird
<p>While an increasing number of studies are adopting molecular and chemical methods for dietary characterization, these studies often employ only one of these laboratory-based techniques; an approach which may yield an incomplete, or even biased, understanding of diet due to each method's inherent limitations. To explore the utility of coupling molecular and chemical techniques for dietary characterizations, we applied DNA metabarcoding alongside stable isotope analysis to characterize the dietary niche of breeding Louisiana waterthrush (<em>Parkesia motacilla</em>), a migratory songbird hypothesized to preferentially provision their offspring with pollution-intolerant, aquatic arthropod prey. While DNA metabarcoding was unable to determine if waterthrush provision aquatic and terrestrial prey in different abundances, we found that specific aquatic taxa were more likely to be detected in successive seasons than their terrestrial counterparts, thus supporting the aquatic specialization hypothesis. Our isotopic analysis added greater context to this hypothesis by concluding that breeding waterthrush provisioned Ephemeroptera and Plecoptera, two pollution-intolerant, aquatic orders, in higher quantities than other prey groups, and expanded their functional trophic niche when such prey were not abundantly provisioned. Finally, we found that the dietary characterizations from each approach were often uncorrelated, indicating that the results gleaned from a diet study can be particularly sensitive to the applied methodologies. Our findings contribute to a growing body of work indicating the importance of high-quality, aquatic habitats for both consumers and their pollution-intolerant prey, while also demonstrating how the application of multiple, laboratory-based techniques can provide insights not offered by either technique alone.</p>
Meta-analytic dataset for the network meta-analysis on pharmacological and dietary-supplement treatments for autism (PMID: 35246237)
<p>The meta-analytic dataset consists of the underlying data for the network meta-analysis on pharmacological and dietary-supplement treatments for autism (PMID: 35246237): Siafis, S., Çıray, O., Wu, H., et al. Pharmacological and dietary-supplement treatments for autism spectrum disorder: a systematic review and network meta-analysis. Molecular Autism, 13, 10 (2022). <a href="https://doi.org/10.1186/s13229-022-00488-4" target="_new" rel="noreferrer">https://doi.org/10.1186/s13229-022-00488-4</a></p> <p>This dataset was published as Additional File 7 in the aforementioned article, which is licensed under a Creative Commons Attribution 4.0 International License (<a href="https://creativecommons.org/licenses/by/4.0/" target="_new" rel="noreferrer">https://creativecommons.org/licenses/by/4.0/</a>).</p>
Data for: Dietary analysis reveals differences in the prey use of two sympatric bat species
<p>One mechanism for morphologically similar and sympatric species to avoid competition and facilitate coexistence is to feed on different prey items within different microhabitats. In the current study, we investigated and compared the diet of the two most common and similar-sized bat species in Japan – <em>Murina ussuriensis</em> (Ognev, 1913) and <em>Myotis ikonnikovi</em> (Ognev, 1912) – to gain more knowledge about the degree of overlap in their diet and their foraging behavior. We found that both bat species consumed prey from the orders of Lepidoptera and Diptera most frequently, while the proportion of Dipterans was higher in the diet of <em>M. ikonnikovi</em>. Furthermore, we found a higher prey diversity in the diet of <em>M. ikonnikovi</em> compared to that of <em>M. ussuriensis</em><em> </em>which might indicate that the former is a more generalist predator than the latter. In contrast, the diet of <em>M. ussuriensis</em> contained many Lepidopteran families. The higher probability of prey items likely captured via gleaning to occur in the diet of <em>M. ussuriensis</em> in contrast to <em>M. ikonnikovi</em> indicates that <em>M. ussuriensis</em> might switch between aerial-hawking and gleaning modes of foraging behavior. We encourage further studies across various types of habitats and seasons to investigate the flexibility of the diet composition and foraging habitat use of these two bat species.</p>
Supplementary information for: Dental microwear texture analysis reveals a likely dietary shift within Late Cretaceous ornithopod dinosaurs.
<p>This supplementary information includes 19 datasets and 95 sur files. Dataset 1 to 11 and 13 to 19 are in one excel file (“1. Supplementary Dataset 1-11 13-17_MS.xlsx “) and each dataset is in a separate excel sheet. Dataset 12 is a nexus file that contains a phylogenetic tree of ornithischian dinosaurs used in the analysis of this study (“2. DatasetS12 tree.nex”). Other 95 sur format files are original 3D surface files that are obtained by scanning tooth surface of ornithischian tooth fossils using a laser microscope VK-9700. Sur file can be opened by a surface roughness software MountainsMap. Surface roughness parameters obtained from these Sur files are in Supplementary dataset 1.</p> <p>Datasets 13 to 19 are results of statistical analyses that excluded data from <em>Thescelosaurs</em>.</p> <p> </p> <p>Below is an explanation for each dataset.</p> <p>Supplementary Dataset 1. Normalized dental microwear texture parameters.</p> <p>Supplementary Dataset 2. Results of the statistical analysis that examined effect of geological ages and enamel locations on each dental microwear texture parameter.</p> <p>Supplementary Dataset 3. Results of the statistical analysis that include body size as an explanatory variable.</p> <p>Supplementary Dataset 4. Eigen values of principal components obtained by the PCA of dental microwear texture parameters.</p> <p>Supplementary Dataset 5. Loading matrix of the PCA.</p> <p>Supplementary Dataset 6. Results of statistical analyses that examined effect of geological ages and enamel locations on PC1 and PC2.</p> <p>Supplementary Dataset 7. Bayes factors for the evolutionary model fitting of PC1.</p> <p>Supplementary Dataset 8. Bayes factors for the evolutionary model fitting of Sdr.</p> <p>Supplementary Dataset 9. Bayes factors for the evolutionary model fitting of Sha.</p> <p>Supplementary Dataset 10. Bayes factors for the evolutionary model fitting of Sq.</p> <p>Supplementary Dataset 11. Bayes factors for the evolutionary model fitting of Vvv.</p> <p>Supplementary Dataset 12. Phylogenetic trees used for the model fitting.</p> <p>Supplementary Dataset 13. Without <em>Thescelosaurus</em>: Results of the statistical analysis that examined effect of geological ages and enamel locations on each dental microwear texture parameter.</p> <p>Supplementary Dataset 14. Without <em>Thescelosaurus</em>: Results of statistical analyses that examined effect of geological ages and enamel locations on PC1 and PC2.</p> <p>Supplementary Dataset 15. Without Thescelosaurus: Bayes factors for the evolutionary model fitting of PC1.</p> <p>Supplementary Dataset 16. Without <em>Thescelosaurus</em>: Bayes factors for the evolutionary model fitting of Sdr.</p> <p>Supplementary Dataset 17. Without <em>Thescelosaurus</em>: Bayes factors for the evolutionary model fitting of Sha.</p> <p>Supplementary Dataset 18. Without <em>Thescelosaurus</em>: Bayes factors for the evolutionary model fitting of Sq.</p> <p>Supplementary Dataset 19. Without <em>Thescelosaurus</em>: Bayes factors for the evolutionary model fitting of Vvv.</p>
Meta-analysis of the Portfolio Dietary Pattern and Cardiometabolic Risk
ClinicalTrials.gov study NCT03534414. IPD Sharing: NO. Countries: 1. Publications: 5.
Dietary adaptations along the Northern limit of distribution: What does the smooth snake (Coronella austriaca) eat in Norway? Metabarcoding of stomach content and visual analysis of faeces
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Data for: Dietary analysis reveals differences in the prey use of two sympatric bat species
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Data from: Dietary partitioning among three cryptobentic reef fish mesopredators revealed by visual analysis, metabarcoding of gut content, and stable isotope analysis
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Data from: Dietary constraints of phytosaurian reptiles revealed by dental microwear textural analysis
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Raw reads and metadata for 16S and 12S sequencing for microbiome and dietary analysis of Tasmanian devils
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