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19 results for “laboratory mice”
Experimental Factors Influence Diversity Metrics of the Gut Microbiome in Laboratory Mice
<p>Abstract<br> Introduction</p> <p>Gut microbiome studies often overlook experimental factors that could influence gut microbiome diversity and could impact findings. Large-scale studies investigating these experimental factors are lacking. Thus, we aimed to determine which experimental factors influence the gut microbiome diversity in pre-clinical animal model studies.</p> <p><br> Methods</p> <p>We extracted DNA and sequenced the V4 region of the 16S rRNA gene of a total of 538 samples from various sections of the gastrointestinal tract of 303 young and aged male and female C57BL/6J mice of three different genotypes on five diets from three animal house facilities. As a proof-of-concept in a disease model, some mice were treated with sham or angiotensin II, a commonly studied agent used as a hypertension model. Some samples were sequenced twice as a matched-comparison group.</p> <p>Results</p> <p>Using over 17 million sequencing reads, we found that experimental factors such as animal house facility, genotype, diet, age, sex, sampling site, and technical factor (i.e., sequencing batch) affected both α- and β-diversity (weighted and unweighted UniFrac), and were associated with compositional changes in the microbiome at varying magnitude, with diet and sampling site having the largest effect. After adjustment by these factors, treatment with angiotensin II had no impact on α-diversity and was only significant in unweighted UniFrac (presence/absence of bacteria) analyses.</p> <p><br> Conclusion</p> <p>Our data identified several key experimental and technical factors that affect the gut microbiome in laboratory mice. Our findings support that not accounting or adjusting for these factors may lead to false-positive discoveries and non-biologically relevant findings in the gut microbiome field.</p>
Figures 1–20 in Trypanosoma (Megatrypanum) lainsoni n. sp. from Mesomys hispidus (Rodentia: Echimyidae) in Brazil: trypomastigotes described from experimentally infected laboratory mice
Figures 1–20. Trypanosoma (Megatrypanum) lainsoni n. sp., parasites found in peripheral blood of experimentally infected mice; Figure 1: Epimastigote with signs of nuclear division; Figures 2–20: Trypomastigotes. Scale in Figure 20.
SNP genotypes for 524 wild mice and selected laboratory strains
<p>SNP genotypes from the Mouse Universal Genotyping Array for 524 wild mice and 12 selected laboratory strains. Data are provided in PLINK binary format (*.bed/*.bim/*.fam files) with an accompanying sample manifest (comma-separated text.)</p>
Data for Clarkson, Dwyer, Flecknell, Leach and Rowe, 'Handling method alters the hedonic value of reward in laboratory mice'
<p>Raw data files for the paper 'Handling method alters the hedonic value of reward in laboratory mice' by Jasmine M Clarkson, Dominic M Dwyer, Paul A Flecknell, Matthew C Leach and Candy Rowe.</p>
Recent genetic drift in the co-diversified gut bacterial symbionts of laboratory mice
<p>Daniel D. Sprockett (1), Brian A. Dillard (1), Abigail A. Landers (2), Jon G. Sanders (1), Andrew H. Moeller (1,2)*</p> <p>1 Department of Ecology and Evolutionary Biology, Cornell University, Ithaca, NY 14853, USA<br>2 Department of Ecology and Evolutionary Biology, Princeton University, Princeton, NJ 08540, USA<br>*To whom correspondence should be addressed: andrew.moeller@princeton.edu</p> <p> </p> <p><strong>Abstract:</strong></p> <p>Laboratory mice (<em>Mus musculus domesticus</em>) harbor gut bacterial strains that are distinct from those of wild mice but whose evolutionary histories are unclear. Understanding the divergence of laboratory-mouse gut microbiota (LGM) from wild-mouse gut microbiota (WGM) is critical, because LGM and WGM have been previously shown to differentially affect mouse immune-cell proliferation, infection resistance, cancer progression, and ability to model drug outcomes for humans. Here, we show that laboratory mice have retained gut bacterial symbiont lineages that diversified in parallel (co-diversified) with rodent species for > 25 million years, but that LGM strains of these ancestral symbionts have experienced accelerated accumulation of genetic load during the past ~ 120 years of captivity. Compared to closely related WGM strains, co-diversified LGM strains displayed significantly faster genome-wide rates of fixation of nonsynonymous mutations, indicating elevated genetic drift, a difference that was absent in non-co-diversified symbiont clades. Competition experiments in germ-free mice further indicated that LGM strains within co-diversified clades displayed significantly reduced fitness in vivo compared to WGM relatives to an extent not observed within non-co-diversified clades. Thus, stochastic processes (e.g., bottlenecks), not natural selection in the laboratory, have been the predominant evolutionary forces underlying divergence of co-diversified symbiont strains between laboratory and wild house mice. Our results show that gut bacterial lineages conserved in diverse rodent species have acquired novel mutational burdens in laboratory mice, providing an evolutionary rationale for restoring laboratory mice with wild gut bacterial strain diversity.</p>
Figure 5 in Comparative analysis of the karyotype sensitivities of Apodemus flavicollis and laboratory mice to DNA-damaging agents
Figure 5. Polyploid metaphase in bone marrow cell of A. flavicollis after Mitomycin C treatment. Some of the chromosomes are also damaged. Pericentric inversions and fragments are observed.
Figure 4 in Comparative analysis of the karyotype sensitivities of Apodemus flavicollis and laboratory mice to DNA-damaging agents
Figure 4. Pericentric inversions in bone marrow cell of A. flavicollis after Mitomycin C treatment.
Figure 2 in Comparative analysis of the karyotype sensitivities of Apodemus flavicollis and laboratory mice to DNA-damaging agents
Figure 2. Breaks and fragments in bone marrow cell of A. flavicollis after Mitomycin C treatment.
Transcript variation in C57BL/6J mice under normal laboratory conditions
GEO Series GSE20121. Mus musculus. 120 samples. Type: Expression profiling by array.
Gene expression profiling of PBMC from petstore mice, C57Bl/6 laboratory mice, and C57Bl/6 laboratory mice cohoused with petstore
GEO Series GSE78979. Mus musculus. 24 samples. Type: Expression profiling by array.
Genome-wide identification and analysis of microRNA expression in brains of mice infected with FJDRV, a street rabies virus with high virulence, and ERA, a laboratory-adapted virus with lower virulenc
GEO Series GSE26269. Mus musculus. 9 samples. Type: Non-coding RNA profiling by array.
Genome-wide identification and analysis of gene expression in brains of mice infected with FJDRV, a street rabies virus with high virulence, and ERA, a laboratory-adapted virus with lower virulence
GEO Series GSE26270. Mus musculus. 18 samples. Type: Expression profiling by array.
Laboratory mice housed in the natural environment identifies genetic and environmental contributions to immune variation
GEO Series GSE135472. Mus musculus. 86 samples. Type: Expression profiling by high throughput sequencing.
scRNA sequencing of the small intestine lamina propria of laboratory and rewilded mice
GEO Series GSE282735. Mus musculus. 2 samples. Type: Expression profiling by high throughput sequencing.
Laboratory mice engrafted with natural gut microbiota possess a wildling-like phenotype
GEO Series GSE287225. Mus musculus. 160 samples. Type: Expression profiling by high throughput sequencing.
Genome-wide analysis of tumor-infiltrating dendritic cells comparing C57BL/6 mice obtained from Jackson laboratories or Taconic farms, untreated or treated with Bifidobacterium.
GEO Series GSE73475. Mus musculus. 6 samples. Type: Expression profiling by array.
Gene expression in the brains of different strains of laboratory mice upon intranasal infection with vaccine strain (TC83) of Venezuelan equine encephalitis virus
GEO Series GSE91074. Mus musculus. 15 samples. Type: Expression profiling by array.
Figure 3. Bone marrow ICR mouse metaphase with many breaks and fragments after Mitomycin C in Comparative analysis of the karyotype sensitivities of Apodemus flavicollis and laboratory mice to DNA-damaging agents
Figure 3. Bone marrow ICR mouse metaphase with many breaks and fragments after Mitomycin C treatment.
7 Brain Regions in 20 Inbred Strains of Laboratory Mice
GEO Series GSE10415. Mus musculus. 437 samples. Type: Expression profiling by array.
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International Brain Laboratory public data
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OpenNeuro
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