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6 results for “Canis lupus; Canis lupus familiaris”
Data from: Social facilitation can impact the responses of free-ranging dogs (Canis lupus familiaris) towards physical cognitive tasks
<p><span>Dogs are known to persist less in problem-solving tasks independently. While most of the studies so far have reported results based on experiments in pet dogs, conclusive evidence from free-ranging subpopulations is lacking. Free-ranging dogs are primarily scavengers and require problem-solving abilities to survive. We provided dogs with a familiar or an unfamiliar task in the presence of conspecifics. Both the tasks provided a single food-reward upon solving. We coded success, latency, and the duration of active engagement of the dogs in this study. We compared them with an earlier published dataset where individual dogs were tested in identical experimental set-ups. Our findings show that dogs have higher success rates in both the familiar and unfamiliar tasks when tested in the presence of conspecifics than when alone, suggesting a role of social facilitation. Furthermore, the presence of conspecifics facilitated dogs to approach faster and engage longer in the unfamiliar task than when tested alone. We provide the first evidence that social facilitation may play a crucial role in free-ranging dogs, especially in the context of problem-solving. </span></p>
A catalog of genes, genomes and species of the dog (Canis lupus familiaris) intestinal microbiota
<p></p><h1>Data sources</h1><br>This dataset was constructed using metagenomic sequencing data from the bioproject PRJEB20308 from Coelho et al. 2018 (129 samples)<br><h1>Metagenomic assembly</h1><br>First, sequencing adapters removal and read trimming was performed with fastp. Reads mapped on the host genome (ROS_Cfam_1.0 GCF_014441545.1) with bowtie2 were removed with samtools. Finally, Metagenomic assembly was performed with metaSPAdes. Contigs of less than 1500 bp were removed.<br><h1>MAGs recovery</h1><br>MAGs were generated with COMEBin (multi-coverage mode) and MAGs quality was assessed with CheckM2. MAGs with completeness < 70% or contamination > 5% or N50 < 5Kb were discarded. Pairwise Average Nucleotide Identity (ANI) was computed for all recovered MAGs with fastANI and dereplication at species level (ANI cutoff = 95%).<br><h1>Non-redundant gene catalog</h1><br>Genes were predicted on all contigs from metagenomic assemblies with Prodigal (parameters : -m -p meta). Genes were pooled and clustered with cd-hit-est (parameters -c 0.95 -aS 0.90 -G 0 -d 0 -M 0 -T 0) by choosing those from the longest contigs as representatives.<br><h1>MSPs recovery</h1><br>Reads were aligned against the non-redundant gene catalog with the Meteor software suite to produce a raw gene abundance table (1,0M genes quantified in 129 samples). Then, co-abundant genes were binned in 234 Metagenomic Species Pan-genomes (MSPs, i.e. gene clusters that likely belong to the same microbial species) using MSPminer.<br><h1>MAGs and MSPs taxonomic annotation</h1><br>Dereplicated MAGs were annotated with GTDB-Tk based on GTDB r220. Then, MAGs taxonomic annotation was propagated to the corresponding MSPs.<br><h1>Construction of the phylogenetic tree</h1><br>39 universal phylogenetic markers genes were extracted from the dereplicated MAGs with fetchMGs. Then, the markers were separately aligned with MUSCLE. The 40 alignments were merged and trimmed with trimAl (parameters: -automated1). Finally, the phylogenetic tree was computed with FastTreeMP (parameters: -gamma -pseudo -spr -mlacc 3 -slownni).<h1>Mapping rate distribution across public cohorts</h1>We generated mapping rate distribution plots using Meteor2 (default parameters), comparing performance between: PRJEB20308 (cohort used in catalogue assembly) and PRNJNA714112 (independent cohort not used in assembly).<p></p>
Data from: Social facilitation can impact the responses of free-ranging dogs (Canis lupus familiaris) towards physical cognitive tasks
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Transcriptional architecture of promoters and enhancers and the rapid unleash of heat shock response in Canis lupus familiaris [PRO-seq]
GEO Series GSE274105. Canis lupus familiaris. 4 samples. Type: Other.
Transcriptional architecture of promoters and enhancers and the rapid unleash of heat shock response in Canis lupus familiaris [mRNA-seq]
GEO Series GSE274106. Canis lupus familiaris. 9 samples. Type: Expression profiling by high throughput sequencing.
Genomic profiling of lymphomas in Canis lupus familiaris
GEO Series GSE41917. Canis lupus familiaris. 14 samples. Type: Expression profiling by array.
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Allen Brain Atlas
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DANDI Archive for NWB datasets
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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.