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2,708 results for “microbiota”
BeeRoLaMa v1 Honey Bee Microbiota Database
<p>Genomic sequences of a variety of honey bee (<em>Apis mellifera</em>) microbes, curated from <a href="https://data.nal.usda.gov/dataset/holobee-database-v20161">HoloBee Database v2016.1</a> and <a href="https://zenodo.org/record/3747314">Bioinformatic pipeline: Vast differences in strain-level diversity in the gut microbiota of two closely related honey bee species</a>.</p> <p>Contains a multi-fasta file containing genomic sequences (<em>beerolama_v1.fna</em>) as well as a Kraken2 formatted version of the database (<em>hash.k2d, opts.k2d, taxo.k2d</em>) and a text file produced by the <em>kraken2-inspect </em>function.</p>
Data from: Seasonal restructuring facilitates compositional convergence of gut microbiota in free-ranging rodents
<p>Gut microbes provide essential services to their host and shifts in their composition can impact host fitness. However, despite advances in our understanding of how microbes are assembled in the gut, we understand little about the stability of these communities within individuals, nor what factors influence its composition over the life of an animal. For this reason, we conducted a longitudinal survey of the gut microbial communities of individual free-ranging woodrats (<em>Neotoma</em> spp.) across a hybrid zone in the Mojave Desert, USA, using amplicon sequencing approaches to characterize gut microbial profiles and diet. We found that gut microbial communities were individualized and experienced compositional restructuring as a result of seasonal transitions and changes in diet. Turnover of gut microbiota was highest amongst bacterial subspecies and was much lower at the rank of Family, suggesting there may be selection for conservation of core microbial functions in the woodrat gut. Lastly, we identified an abundant core gut bacterial community that may aid woodrats in metabolizing a diet of plants and their specialized metabolites. These results demonstrate that the gut microbial communities of woodrats are highly dynamic and experience seasonal restructuring which may facilitate adaptive plasticity in response to changes in diet. </p>
Comparative seagulls of gut microbiota by using metagenomics and 16S rDNA sequencing
<p><span>Shotgun</span><span> metagenomic and 16S rDNA sequencing are commonly used methods to identify the taxonomic composition of microbial communities. </span><span>We compared the metagenome and 16S rDNA amplicon results to demonstrate the features of this animal. </span><span>In general, </span><span>relatively </span><span>consistent patterns and reliability could be identified by both sequencing methods, but the results varied </span><span>following </span><span>the refinement of taxonomic levels. </span><span>Metagenomic </span><span>sequencing was more suitable for the discovery and detection of pathogenic bacteria of gut microbiota in seagulls.</span><span> Although there were large differences in the numbers and abundance of </span><span>bacterial </span><span>species of</span><span> the</span><span> two methods in terms of taxonomic levels, the patterns and reliability results of </span><span>the </span><span>samples were consistent.</span></p>
Influence of endosymbionts on the reproductive fitness of the tick Ornithodoros moubata tested through elimination of the microbiota using antibiotic treatments
<p class="MsoNoSpacing">Over the past ten years, many studies demonstrated the crucial role of the tick microbiome in tick biology. The soft tick <em>Ornithodoros moubata</em> is a hematophagous ectoparasite of Suidae particularly known to transmit the African swine fever virus. Its bacterial microbiota is characterized by a high prevalence of <em>Francisella</em>-like and <em>Rickettsia</em> endosymbionts. The present study aims to better understand the potential influence of the microbiota on the reproductive fitness of <em>O. moubata</em>. A total of 132 adult female ticks were treated using gentamycin or rifampicin added to the blood meal. Half of the ticks also received a supplementation with B vitamins to address the nutritional role of endosymbionts. Over two periods of 50 days, several traits related to reproductive fitness were monitored to investigate the importance of <em>Francisella</em> and <em>Rickettsia</em> for those traits. It appeared that most of the considered reproductive parameters were not affected. However, antibiotic treatments induced an increase in the tick survival indicating a potential fitness cost of harboring endosymbionts for ticks during the reproduction period. Similarly, 366 first-stage nymphs of <em>Ornithodoros moubata</em> were exposed to the same treatments for molecular quantification of both endosymbionts. Results from qPCR suggested that treatments produced a bacteriostatic effect on endosymbionts without fully eliminating <em>Francisella</em> or <em>Rickettsia</em>.</p>
Data for: Mediterranean Sea heatwaves jeopardize greater amberjack's (Seriola dumerili) aquaculture productivity through impacts on the fish microbiota.
<p>The data in this repository with the DOI 10.5281/zenodo.8414745 is licensed under a Creative Commons Attribution 4.0 International License.<br> For more information, see https://creativecommons.org/licenses/by/4.0.</p> <p>Physicochemical, microbiome and growth data for:</p> <p>Paper title: Mediterranean Sea heatwaves jeopardize greater amberjack’s (Seriola dumerili) aquaculture productivity through impacts on the fish microbiota<br> Paper DOI: 10.3389/fmars.2023.1168953 </p> <p>Code repository DOI for reproducing the Figures: https://doi.org/10.1038/s43705-023-00243-7</p> <p>Corresponding Author</p> <p>Name: Pablo Sanchez<br> LEITAT Technological Center, 08225, Terrassa, Spain<br> Address: Carrer Innovació, 2, 08225 Terrassa, Barcelona, Spain<br> Email: psanchez@leitat.org<br> </p> <p> </p>
Microbiota or Placebo After Antimicrobial Therapy for Recurrent C. Difficile at Home (MATCH)
ClinicalTrials.gov study NCT03005379. IPD Sharing: YES. Countries: 1. Publications: 2.
Fecal Microbiota Transplantation (FMT) of FMP30 in Relapsing-Remitting Multiple Sclerosis
ClinicalTrials.gov study NCT03594487. IPD Sharing: YES. Countries: 1. Publications: 10.
The diet–intestinal microbiota dynamics and adaptation in an elevational migration bird, the Himalayan bluetail (Tarsiger rufilatus)
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Data from: Stability of fecal microbiota during degradation in ex situ Cheetahs in the US
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Influence of endosymbionts on the reproductive fitness of the tick Ornithodoros moubata tested through elimination of the microbiota using antibiotic treatments
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Data from: Effects of high dose aspartame-based sweetener on the gut microbiota and bone strength in young and aged mice
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Individual variation in the avian gut microbiota: The influence of host state and environmental heterogeneity
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Data from: Seasonal restructuring facilitates compositional convergence of gut microbiota in free-ranging rodents
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Symbiotic microbiota vary with breeding group membership in a highly social joint-nesting bird
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Bespoke plant glycoconjugates for gut microbiota-mediated drug targeting
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Data from: Linking pollen foraging of megachilid bees to their nest bacterial microbiota
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Fecal microbiota degradation over time in ex situ Namibian Cheetahs (Part 1 of 2)
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Data from: Wildlife fecal microbiota exhibit community stability across a semi-controlled longitudinal non-invasive sampling experiment
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Comparative seagulls of gut microbiota by using metagenomics and 16S rDNA sequencing
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Gut Microbiota from Multiple Sclerosis patients triggers spontaneous autoimmune encephalomyelitis in mice --shotgun data--
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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.