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108 results for “feces”
Rabbit feces counts on 1m x 1m plots from the long-term Small Mammal Exclosure Study (SMES) at Jornada Basin LTER, 1995-2020
This data package contains rabbit feces count data from plots with various levels of herbivore exclusion on Jornada Experimental Range (JER) and Chihuahuan Desert Rangeland Research Center (CDRRC) lands. Study sites were established in 1995; one in black grama grassland and the other in creosotebush shrubland to compare the impact of herbivores on ecosystem processes between these vegetation types. Parallel studies were established at the Sevilleta LTER site (New Mexico, USA) and Mapimi Biosphere Reserve (Durango, Mexico). Each study site is 1 km by 0.5 km in area. Four replicate experimental blocks were randomly located at the grassland study site to measure vegetation responses using exclusion treatments including a) all mammalian herbivores, including cattle, lagomorphs, and rodents, b) lagomorphs and cattle only, c) cattle only, and d) control accessible to all herbivores. Because grazing cattle are excluded from the entire creosote site, only three replicate experimental blocks were randomly located there including a) all mammalian herbivores, including lagomorphs, and rodents, b) lagomorphs only, and c) control accessible to all herbivores. Thirty-six sampling points were positioned at 5.8-meter intervals on a systematically located 6 by 6 point grid within each plot. A permanent one-meter by one-meter vegetation measurement quadrat is located at each of the 36 points. Each year in spring and fall from 1995-2005, the total number of rabbit feces were counted within each quadrat. After 2005, sampling frequency channged to every 5 years and data collected record only presence or absence of feces. This study is ongoing.
Metagenomics assemblies and high-quality MAGs for "Long-read metagenomics to retrieve high-quality metagenome-assembled genomes from canine feces"
<p>This dataset includes the different metagenomics assemblies analyzed and its summary (_info.txt file):</p> <p>- <a href="https://zenodo.org/api/files/3a502803-82f7-4b51-ac62-7c1dfcdcb680/100_assembly.fasta">100_assembly.fasta</a> is the Flye 2.7 metagenomics assembly merging HMW and non-HMW datasets</p> <p>- <a href="https://zenodo.org/api/files/3a502803-82f7-4b51-ac62-7c1dfcdcb680/75_assembly.fasta">75_assembly.fasta</a> is the Flye 2.7 metagenomics assembly including 75% of random data of the merged dataset.</p> <p>- <a href="https://zenodo.org/api/files/3a502803-82f7-4b51-ac62-7c1dfcdcb680/50_assembly.fasta">50_assembly.fasta</a> is the Flye 2.7 metagenomics assembly including 50% of random data of the merged dataset.</p> <p>- <a href="https://zenodo.org/api/files/3a502803-82f7-4b51-ac62-7c1dfcdcb680/HMW_assembly.fasta?versionId=749ff6fd-2642-4ad1-971a-7f3404baa595">HMW_assembly.fasta</a> is the Flye 2.7 metagenomics assembly for HMW dataset.</p> <p>Moreover, it also includes the eight frameshift-corrected high-quality MAGs analyzed in the manuscript. </p>
Circadian ontogenetic metabolomics atlas: an interactive resource with insights from rat plasma, tissues, and feces
<p>LC–MS instrumental files in mzXML format for metabolomics (HILICp, HILICn, HSST3p, HSST3n) and lipidomics platforms (LIPp, LIPn), including metadata for study samples, method blanks, quality control samples, and serial dilution samples. The instrumental files were acquired for each LC–MS platform as part of a study focused on creating a circadian ontogenetic metabolomics atlas of rat plasma, tissues, and feces. The original paper is accessible at http://doi.org/10.1007/s00018-025-05783-w</p>
Fig. 2 in A report of 12 unrecorded prokaryotic species isolated from gastrointestinal tracts and feces of various endangered animals in Korea
Fig. 2. Phylogenetic tree based on 16S rRNA gene sequence comparisons, showing the relationship between the isolated strains in this study and the notable species from phylum Firmicutes (a) order Lactobacillales (In particular Enterococcus, Lactobacillus and Vagococcus), phylum Actinobacteria (c) and phylum Proteobacteria (d) and. The trees were mainly reconstructed using the neighbor-joining algorithm (NJ), Maximum parsimony (MP) and maximum likelihood (ML) algorithms were applied for additional comparison. Filled diamonds indicate branches present in the phylogenetic trees generated using the three different methods. Numbers on the nodes (>70%) represent bootstrap values as percentages of 1000 replicates (NJ/MP/ML). Clostridium butyricum DSM 10702T (AQQF01000149), Bifidobacterium bifidum ATCC 29521T (KE993182) and Spirochaeta aurantia subsp. aurantia DSM 1902T (FR749896) were used as outgroups, respectively. Bar, 0.02 (a, c, d) and 0.01 (b) accumulated changes per nucleotide.
Fig. 1 in A report of 12 unrecorded prokaryotic species isolated from gastrointestinal tracts and feces of various endangered animals in Korea
Fig. 1. Transmission electron micrographs of the isolated strains. Strain-1, AE4-1; strain-2, B3; strain-3, M3; strain-4, VM3408; strain-5, VT2418; strain-6, VM2501; strain-7, VT2414; strain-8, VT2504.
Fig. 4 in Endoparasites in the feces of arctic foxes in a terrestrial ecosystem in Canada
Fig. 4. Phylogenetic tree showing relationship of Cystoisospora spp. detected in this study with existing reference sequence data in Genbank.
Fig. 3 in Endoparasites in the feces of arctic foxes in a terrestrial ecosystem in Canada
Fig. 3. Phylogenetic tree showing relationship of Sarcocystis spp. detected in this study with existing reference sequence data in Genbank.
Fig. 1 in Endoparasites in the feces of arctic foxes in a terrestrial ecosystem in Canada
Fig. 1. Karrak Lake goose colony within the Queen Maud Gulf Bird Sanctuary, Nunavut. Inset map: sample collection sites within the goose colony.
Fig. 2. Melt curves for unknown samples. Each peak shows the melting temperature for a in Endoparasites in the feces of arctic foxes in a terrestrial ecosystem in Canada
Fig. 2. Melt curves for unknown samples. Each peak shows the melting temperature for a different coccidian species. Red: Sarcocystis (cervid), Blue: Neospora/Hammondia, Orange: Sarcocystis (avian), Black: Cystoisospora, Green: Eimeria sp., Pink: Eimeria sp. The horizontal axis indicates melting temperature (°C) and the vertical axis [—d(RFU)/dT] is related to the amount of DNA present.
Fig. 3 in A report of 18 unrecorded prokaryotic species isolated from the feces of an Oriental stork (Ciconia boyciana), and from the intestinal tracts of a cobitid fish (Kichulchoia multifasciata) and a Korean splendid dace (Coreoleuciscus splendidus)
Fig. 3. Phylogenetic tree based on 16S rRNA gene sequence comparisons, showing the relationship between the seven strains belonging to the phylum Firmicutes isolated in this study and the notable type species from each genus. The tree was reconstructed using neighbor joining (NJ), maximum likelihood (ML), and maximum parsimony (MP) algorithms. Filled diamonds indicate corresponding branches present in the phylogenetic tree generated using the three different tree construction methods. Numbers at the nodes represent bootstrap values of more than 70% are shown, based on 1000 replicates (NJ/MP/ML). Limnochorda pilosa HC45T (AP014924) was used as the outgroup. The bar indicates 0.02 accumulated substitutions per nucleotide.
Fig. 4 in A report of 18 unrecorded prokaryotic species isolated from the feces of an Oriental stork (Ciconia boyciana), and from the intestinal tracts of a cobitid fish (Kichulchoia multifasciata) and a Korean splendid dace (Coreoleuciscus splendidus)
Fig. 4. Phylogenetic tree based on 16S rRNA gene sequence comparisons, showing the relationship between the two strains belonging to the phylum Proteobacteria isolated in this study and the notable type species from each family. The tree was reconstructed using neighbor joining (NJ), maximum likelihood (ML), and maximum parsimony (MP) algorithms. Filled diamonds indicate corresponding branches present in the phylogenetic tree generated using the three different tree construction methods. Numbers at the nodes represent bootstrap values of more than 70% are shown, based on 1000 replicates (NJ/MP/ML). Bacteroides fragilis NCTC 9343T (NR_074784.2) was used as the outgroup. The bar indicates 0.05 accumulated substitutions per nucleotide.
Fig. 2 in A report of 18 unrecorded prokaryotic species isolated from the feces of an Oriental stork (Ciconia boyciana), and from the intestinal tracts of a cobitid fish (Kichulchoia multifasciata) and a Korean splendid dace (Coreoleuciscus splendidus)
Fig. 2. Phylogenetic tree based on 16S rRNA gene sequence comparisons, showing the relationship between the eight strains belonging to the phylum Actinobacteria isolated in this study and the notable type species from each genus. The tree was reconstructed using neighbor joining (NJ), maximum likelihood (ML), and maximum parsimony (MP) algorithms. Filled diamonds indicate corresponding branches present in the phylogenetic tree generated using the three different tree construction methods. Numbers at the nodes represent bootstrap values of more than 70% are shown, based on 1000 replicates (NJ/MP/ML). Akkermansia muciniphila ATCC BAA-835T (NR_074436.1) was used as the outgroup. The bar indicates 0.02 accumulated substitutions per nucleotide.
Fig. 1 in A report of 18 unrecorded prokaryotic species isolated from the feces of an Oriental stork (Ciconia boyciana), and from the intestinal tracts of a cobitid fish (Kichulchoia multifasciata) and a Korean splendid dace (Coreoleuciscus splendidus)
Fig. 1. Transmission electron micrographs of the strains isolated in this study. The arrows indicate flagella. Strains: 1, H11M7; 2, H11M9; 3, H23M10; 4, H21T1; 5, H13T1; 6, H43T7; 7, H21T20; 8, H23M25; 9, H23M9; 10, S13R1; 11, H13R26; 12, H11M5; 13, H11M15; 14, H11R12; 15, H21T7; 16, H11R21; 17, M13M1; 18, H23T21.
Fig. 5 in A report of 18 unrecorded prokaryotic species isolated from the feces of an Oriental stork (Ciconia boyciana), and from the intestinal tracts of a cobitid fish (Kichulchoia multifasciata) and a Korean splendid dace (Coreoleuciscus splendidus)
Fig. 5. Phylogenetic tree based on 16S rRNA gene sequence comparisons, showing the relationship between strain H23T21 and the notable type species from the family Sphingobacteriaceae. The tree was reconstructed using neighbor joining (NJ), maximum likelihood (ML), and maximum parsimony (MP) algorithms. Filled diamonds indicate corresponding branches present in the phylogenetic tree generated using the three different tree construction methods. Numbers at the nodes represent bootstrap values of more than 70% are shown, based on 1000 replicates (NJ/MP/ML). Filobacterium rodentium SMR-CT (LC055729) was used as the outgroup. The bar indicates 0.05 accumulated substitutions per nucleotide.
Figure 1 in First attraction record of Trox plicatus Robinson, 1940 (Coleoptera: Trogidae) to feces of bobcat Lynx rufus Schreber, 1777 (Carnivora: Felidae)
Figure 1. Dorsal habitus of Trox plicatus Robinson. Scale barr: 5 mm. / Hábito dorsal de Trox plicatus. Escala: 5 mm.
Figure 5 in First attraction record of Trox plicatus Robinson, 1940 (Coleoptera: Trogidae) to feces of bobcat Lynx rufus Schreber, 1777 (Carnivora: Felidae)
Figure 5. Temperate forest where the specimens of Trox plicatus were found. / Bosque templado donde se encontraron los ejemplares de Trox plicatus.
Figure 4 in First attraction record of Trox plicatus Robinson, 1940 (Coleoptera: Trogidae) to feces of bobcat Lynx rufus Schreber, 1777 (Carnivora: Felidae)
Figure 4. Study region (Las Derrumbadas, Puebla, Mexico) encompassed by a couple of volcanic domes. / Región de estudio (Las Derrumbadas, Puebla, México) conformada por un par de domos volcánicos.
Data from: The role of fish feces for nutrient cycling on coral reefs
<p>Consumers play an important role in biogeochemical cycles through the consumption and release of essential elements such as carbon (C), nitrogen (N), and phosphorus (P). Indeed, a large proportion of consumed elements are released into the environment in inorganic (i.e., excretion) or organic form (i.e., egestion). On coral reefs, fishes represent the bulk of consumer biomass and thus play a key role in the recycling of nutrients. In recent years, excretion rates have been studied intensively, but less is known about the rate and quality of coral reef fish egestion. In this study, we quantify the elemental contents of fish feces, estimate absorption efficiencies and compare egestion and excretion rates for 51 coral reef fish species. We show that elemental concentrations decrease remarkably little from food to feces. This is due to extremely low absorption efficiencies, resulting in the egestion of large amounts of energy and nutrients. Moreover, we show that while the quality of fish feces varies across trophic guilds, it remains highly variable within trophic guilds. Finally, we demonstrate that the release of N and P through egestion outweighs the amount of nutrients recycled through excretion. Our study highlights the need to incorporate animal egestion into assessments of ecosystem functioning and food web structure.</p>
Data for: Fish feces reveal diverse nutrient sources for coral reefs
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Data from: The role of fish feces for nutrient cycling on coral reefs
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