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34 results for “intestinal tract”
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.
Fig. 3 in Isolation and identification of 18 unrecorded prokaryotic species from the intestinal tracts of aquatic animals in Korea
Fig. 3. The phylogenetic tree based on 16S rRNA gene sequence showing the phylogenetic relatedness between the four isolated strains belonging to the phylum Actinobacteria and the type species from each genus. The tree was mainly reconstructed using the NJ, ML, and MP algorithms. The filled diamonds indicate the branches present in the phylogenetic trees reconstructed with three different tree reconstruction methods. Numbers on the nodes represent bootstrap values with 1000 replicates (NJ/ML/MP). B. fragilis NCTC 9434T was used as an outgroup. The bar indicates 0.05 accumulated substitutions per nucleotide.
Fig. 2 in Isolation and identification of 18 unrecorded prokaryotic species from the intestinal tracts of aquatic animals in Korea
Fig. 2. The phylogenetic tree based on 16S rRNA gene sequence showing the phylogenetic relatedness between the nine isolated strains belonging to the phylum Proteobacteria and the type species from each genus. The tree was mainly reconstructed using the neighbor joining (NJ), maximum likelihood (ML), and maximum parsimony (MP) algorithms. The Filled diamonds indicate the branches present in the phylogenetic trees reconstructed using three different tree reconstruction methods. Numbers on the nodes represent bootstrap values with 1000 replicates (NJ/ ML/MP). Bacteroides fragilis NCTC 9434T was used as an outgroup. The bar indicates 0.05 accumulated substitutions per nucleotide.
Fig. 5 in Isolation and identification of 18 unrecorded prokaryotic species from the intestinal tracts of aquatic animals in Korea
Fig. 5. The phylogenetic tree based on 16S rRNA gene sequence showing the phylogenetic relatedness between the three isolated strains belonging to the phylum Firmicutes and the type species from each genus. The tree was mainly reconstructed using the NJ, ML, and MP algorithms. The filled diamonds indicate the branches present in the phylogenetic trees reconstructed using three different tree reconstruction methods. Numbers on the nodes represent bootstrap values with 1000 replicates(NJ/ML/MP). E. coli ATCC 11775T was used as an outgroup. The bar indicates 0.05 accumulated substitutions per nucleotide.
Fig. 1 in Isolation and identification of 18 unrecorded prokaryotic species from the intestinal tracts of aquatic animals in Korea
Fig. 1. The energy-filtering transmission electron micrographs of the isolated strains. Strains: 1, K33R8; 2, K33T6; 3, G12R3; 4, R13S1; 5, R23R4; 6, R33M6-1; 7, R33M4; 8, K11M4; 9, O13M9; 10, 719; 11, 176; 12, 775; 13, 765; 14, 684; 15, A52; 16, 771; 17, A79; 18, 772.
Distribution and activity of nitrate and nitrite reductases in the microbiota of the human intestinal tract
Open the record for dataset details and reuse information.
Single cell RNA sequencing of human tissue along the stomach-intestinal tract
Open the record for dataset details and reuse information.
Low-dose antibiotic prophylaxis has no significant impact on the stability of the intestinal microbiome in children with urogenital tract malformations under 1 year of age.
<p>Raw data for the evaluation of the stool microbiome in children under antibiotic prophylaxis vs. controls.</p>
Data from: Aquatic animals promote antibiotic resistance gene dissemination in water via conjugation: role of different regions within the zebra fish intestinal tract, and impact on fish intestinal microbiota
The aqueous environment is one of many reservoirs of antibiotic resistance genes (ARGs). Fish, as important aquatic animals which possess ideal intestinal niches for bacteria to grow and multiply, may ingest antibiotic resistance bacteria from aqueous environment. The fish gut would be a suitable environment for conjugal gene transfer including those encoding antibiotic resistance. However, little is known in relation to the impact of ingested ARGs or antibiotic resistance bacteria (ARB) on gut microbiota. Here, we applied the cultivation method, qPCR, nuclear molecular genetic marker and 16S rDNA amplicon sequencing technologies to develop a plasmid-mediated ARG transfer model of zebrafish. Furthermore, we aimed to investigate the dissemination of ARGs in microbial communities of zebrafish guts after donors carrying self-transferring plasmids that encode ARGs were introduced in aquaria. On average, 15% of faecal bacteria obtained ARGs through RP4-mediated conjugal transfer. The hindgut was the most important intestinal region supporting ARG dissemination, with concentrations of donor and transconjugant cells almost 25 times higher than those of other intestinal segments. Furthermore, in the hindgut where conjugal transfer occurred most actively, there was remarkable upregulation of the mRNA expression of the RP4 plasmid regulatory genes, trbBp and trfAp. Exogenous bacteria seem to alter bacterial communities by increasing Escherichia and Bacteroides species, while decreasing Aeromonas compared with control groups. We identified the composition of transconjugants and abundance of both cultivable and uncultivable bacteria (the latter accounted for 90.4%–97.2% of total transconjugants). Our study suggests that aquatic animal guts contribute to the spread of ARGs in water environments.
Fig. 2 in Long-term dynamics of microplastic accumulation in the intestinal tract of terrestrial insects on the example of Vespula vulgaris (Linnaeus, 1758) (Hymenoptera: Vespidae)
Fig. 2. Occurrence of different types of MPs inside wasps, %. Рис. 2. Встречаемость раЗнотипных частиц МП в осах, %.
Fig. 1 in Long-term dynamics of microplastic accumulation in the intestinal tract of terrestrial insects on the example of Vespula vulgaris (Linnaeus, 1758) (Hymenoptera: Vespidae)
Fig. 1. Box and whisker plot showing average content of MP particles inside wasps from natural populations sampled in the vicinity of the village of Kireevsk (five samples/year; Tomsk region, Russia). Рис. 1. Диаграмма, демонстрируюЩаЯ среднее содержание частиц МП в осах иЗ природных популЯций (5 выборок/год) в окрестностЯх с. Киреевск (ТомскаЯ область, РоссиЯ).
Resistant Starch Supplementation Effects on the Intestinal Tract Profile and Cardiovascular Markers in Renal Patients
ClinicalTrials.gov study NCT02706808. IPD Sharing: Not stated. Countries: 1. Publications: 2.
Profiling the Variation of Microbiome Along the Intestinal Tract Based on Sampling Capsule Endoscopy
ClinicalTrials.gov study NCT06735196. IPD Sharing: UNDECIDED. Countries: 1. Publications: 3.
Data from: Aquatic animals promote antibiotic resistance gene dissemination in water via conjugation: role of different regions within the zebra fish intestinal tract, and impact on fish intestinal microbiota
Open the record for dataset details and reuse information.
Fig. 4 in Isolation and identification of 18 unrecorded prokaryotic species from the intestinal tracts of aquatic animals in Korea
Fig. 4. The phylogenetic tree based on 16S rRNA gene sequence showing the phylogenetic relatedness between the two isolated strains belonging to the phylum Bacteroidetes and the type species from each genus. The tree was mainly reconstructed using the NJ, ML, and MP algorithms. The filled diamonds indicate the branches present in the phylogenetic trees reconstructed using three different tree reconstruction methods. Numbers on the nodes represent bootstrap values with 1000 replicates (NJ/ML/MP). Escherichia coli ATCC 11775T was used as an outgroup. The bar indicates 0.05 accumulated substitutions per nucleotide.
The Gene expression gradient through the intestine tract of European Sea Bass (Dicentrarchus labrax)
GEO Series GSE59240. Dicentrarchus labrax. 23 samples. Type: Expression profiling by array.
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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)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
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.