Bubier2: Gut microbial abundance QTL in Collaborative Cross emerging lines of mice (2014)

Bubier JA, Philip VM, Quince C, Campbell J, Zhou Y, Vishnivetskaya T, Duvvuru S, Hageman Blair R, Ndukum J, Donohue KD, Foster CM, Mellert DJ, Weinstock G, Culiat CT, O'Hara B, Palumbo AV, Podar M, Chesler EJ. A Microbe Associated with Sleep Revealed by a Novel Systems-Genetic Analysis of the Microbiome in Collaborative Cross Mice. Genetics. pii: genetics.303013.2019. doi: 10.1534/genetics.119.303013.   PubMed 31896565  

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Investigators Jason A Bubier       The Jackson Laboratory,  Bar Harbor, ME
ContactJason A Bubier     jason.bubier@jax.org
Affiliated CenterQTL Archive
Project type QTL Archive data set
MPD identifiersBubier2     MPD:288
Data changelog No updates/corrections.       Initial release date: 05/2018.
Host genetic diversity is an important selection environment for microbiota, which in turn may influence characteristics of host physiology and disease. To assess this relation across the whole genome and microbiome, we sampled intestinal mRNA and luminal microflora from Collaborative Cross emerging lines of mice. In addition, for these same mice, we acquired various metabolic phenotypes and basal behavioral measure that can be correlated to the genetic diversity of the population, the gene co-expression networks in the gut and the individual microbiomes. Using GeneWeaver, the networks of microbe and gene coexpression set were examined to identify molecular relations among various biological processes and various disease states.

See also Chesler5, a related intestinal microbiome study for 10 inbred strains including the 8 CC founders.

QTL data set parameters:
Progenitor strains CC8 founder strains    
Cross typeAdvanced intercross
Population size 94 ♀     100 ♂

For information on measured phenotypes please see the Excel file.

Project / data set:   Bubier2     a.k.a. Bubier_2014
Excel file:   Data_Description_preCC_Bubier2014.xlsx
CSV file:   Bubier2014_geno.csv
CSV file:   Bubier2014_pheno.csv