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Augmented murine hematopoietic stem and progenitor cell reconstruction through conventional co-housing

ABSTRACT: Augmented murine hematopoietic stem and progenitor cell reconstruction through conventional co-housing

PROVIDER: PRJNA596264 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR10721815.fastq.gz	Fastqsanger.gz
	SRR10721816.fastq.gz	Fastqsanger.gz
	SRR10721817.fastq.gz	Fastqsanger.gz
	SRR10721818.fastq.gz	Fastqsanger.gz
	SRR10721819.fastq.gz	Fastqsanger.gz

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Augmented murine hematopoietic stem and progenitor cell reconstruction through conventional co-housing

Project description:Background and methods: The effects of microbiota toward hematopoietic stem and progenitor cells (HSPCs) were very much complicated based on previous reports. In the current study, normal inbred C57BL6 (B6) mice from the Jackson Laboratory were maintained in the SPF environment for three weeks. Baseline complete blood counts were normal, and animals were then separated into two groups: 1) SPF mice stayed in the SPF facility, and 2) SPF mice being transferred to a conventional facility for co-housing (CVT). At one month of co-housing, we bled and euthanized animals, sorted lineage-CD117+ cells from bone marrow of SPF and CVT mice respectively, and performed single cell RNA sequencing on sorted hematopoietic stem and progenitor cells using 10XGenomics Chromium Single Cell 3' Solution and sequenced with Illumina HiSeq 3000 Systems. Results: We characterized heterogeneity of HSPCs, defined differential gene expression and performed pathway analysis. Proportion of LTHSC was lower and the proportion of GMP was higher from CVT mice than those from SPF mice. Pathway analyses of differentially-expressed genes in HSPCs we found down-regulation of genes related to immune responses and cell proliferation and activation, and up-regulation of genes associated with cellular metabolism, including protein, ribosome, and energy metabolic processes, in cells from CVT mice. Conclusion: Observations from our study demonstrated a positive effect in co-housed CVT mice that promotes HSPC reconstitution through modulation of molecular elements involving multiple signaling pathways.

2020-10-02 | GSE142235 | GEO

Transcriptional profiling of murine small intestine in conventional or SPF housing conditions

Project description:Transcriptional profiling of murine small intestine in conventional or SPF housing conditions

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Effect of thermoneutral housing on non-alcoholic fatty liver disease in mice

Project description:Purpose: To identify the impact of thermoneutral housing as opposed to standard housing on gene expression profiles in the mouse peripheral blood mononuclear cells (PBMCs), focusing on proinflammatory immune responses and high-fat diet induced non-alcoholic fatty liver disease pathogenesis. Methods: Expression profiles from PBMCs collected from C57Bl6 mice fed chow or high-fat diet for 8 weeks, following 2 weeks at either standard or thermoneutral housing conditions. Sequencing was performed in duplicate, the Illumina HiSeq 2500. Transcripts that passed quality filters were analyzed at the gene level, using Strand NGS for accurate alignment and quantification. Results: We mapped approximately 20million reads per sample to the mm10 genome using annotations produced by Ensembl, which represented 36186 transcripts. Approximately 14000 genes exhibited reasonable expression in at least one experimental condition. The primary focus was the effect of housing temperature while holding diet consistent (i.e. thermoneutral vs standard, both on high-rat diet), where ~2700 genes exhibited differential regulation. Conclusions: We present the transcriptomic profile of PBMCs from mice fed chow of high-fat diets, following either standard or thermoneutral housing. We obseve an augmented proinflammatory immune response.

2017-02-12 | GSE80976 | GEO

Littermate vs co-housing mice

Project description:Comparison of co-housing and littermate methods for microbiota standardization in mouse models

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Effect of housing condition (group- or single-housing) on gene expression in African turquoise killifish I.

Project description:To explore the effects of the housing condition (group- or single-housing) on killifish, we performed RNA-seq analysis for the whole bodies of male and female juveniles, gonads of males and females from puberty to middle age, and livers of young and old males.

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Effect of housing condition (group- or single-housing) on gene expression in African turquoise killifish II.

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Transcriptional profiling of murine small intestine in conventional or SPF housing conditions

Project description:We studied the influence of the microbiota on intestinal homeostasis and tumor development after loss of the intestinal tumor phenotype in Msh2-Lynch mice upon rederivation of the mouse line in an SPF facility. We generated RNA seq data from total RNA of small intestine (jejunum) derived from either conventional or SPF mice.

2022-02-08 | GSE171996 | GEO

Conventional Co-Housing Modulates Murine Gut Microbiota and Hematopoietic Gene Expression.

Project description:Specific-pathogen-free (SPF) mice have improved hematopoietic characteristics relative to germ-free mice, however, it is not clear whether improvements in hematopoietic traits will continue when the level of microorganism exposure is further increased. We co-housed SPF C57BL/6 mice in a conventional facility (CVT) and found a significant increase in gut microbiota diversity along with increased levels of myeloid cells and T cells, especially effector memory T cells. Through single cell RNA sequencing of sorted KL (c-Kit+Lin-) cells, we imputed a decline in long-term hematopoietic stem cells and an increase in granulocyte-monocyte progenitors in CVT mice with up-regulation of genes associated with cell survival. Bone marrow transplantation through competitive repopulation revealed a significant increase in KSL (c-Kit+Sca-1+Lin-) cell reconstitution in recipients of CVT donor cells which occurred when donors were co-housed for both one and twelve months. However, there was minimal to no gain in mature blood cell engraftment in recipients of CVT donor cells relative to those receiving SPF donor cells. We conclude that co-housing SPF mice with mice born in a conventional facility increased gut microbiota diversity, augmented myeloid cell production and T cell activation, stimulated KSL cell reconstitution, and altered hematopoietic gene expression.

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Thermoneutral housing regulates intestinal tissue tolerance

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Dianthus ancestral sequence reconstruction

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