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Description

The commensal gut microbiota has been implicated as a determinant in several human diseases and conditions. There is mounting evidence that the gut microbiota of laboratory mice (Mus musculus) similarly modulates the phenotype of mouse models used to study human disease and development. While differing model phenotypes have been reported using mice purchased from different vendors, the composition and uniformity of the fecal microbiota in mice of various genetic backgrounds from different vendors is unclear. Using culture-independent methods and robust statistical analysis, we demonstrate significant differences in the richness and diversity of fecal microbial populations in mice purchased from two large commercial vendors. Moreover, the abundance of many operational taxonomic units, often identified to the species level, as well as several higher taxa, differed in vendor- and strain-dependent manners. Such differences were evident in the fecal microbiota of weanling mice and persisted throughout the study, to twenty-four weeks of age. These data provide the first in-depth analysis of the developmental trajectory of the fecal microbiota in mice from different vendors, and a starting point from which researchers may be able to refine animal models affected by differences in the gut microbiota and thus possibly reduce the number of animals required to perform studies with sufficient statistical power.

Summary

Project accession BioProject accession Keywords PMID #Samples
SRP056326 PRJNA263829 Feces C57BL/6 A/J BALB/c Jackson Laboratory Harlan Sprague Dawley Laboratory 25675094 180

Alpha diversity

Samples

Sample accession Project accession Sampling location Genotype Vendor Origin
SRS876956 SRP056326 Feces C57BL/6 Jackson Laboratory Laboratory
SRS876955 SRP056326 Feces C57BL/6 Jackson Laboratory Laboratory
SRS876954 SRP056326 Feces C57BL/6 Jackson Laboratory Laboratory
SRS876953 SRP056326 Feces C57BL/6 Jackson Laboratory Laboratory
SRS876951 SRP056326 Feces C57BL/6 Harlan Sprague Dawley Laboratory
SRS876950 SRP056326 Feces C57BL/6 Harlan Sprague Dawley Laboratory
SRS876952 SRP056326 Feces C57BL/6 Harlan Sprague Dawley Laboratory
SRS876949 SRP056326 Feces C57BL/6 Harlan Sprague Dawley Laboratory
SRS876948 SRP056326 Feces A/J Jackson Laboratory Laboratory
SRS876945 SRP056326 Feces A/J Jackson Laboratory Laboratory
SRS876946 SRP056326 Feces A/J Jackson Laboratory Laboratory
SRS876947 SRP056326 Feces A/J Jackson Laboratory Laboratory
SRS876944 SRP056326 Feces A/J Harlan Sprague Dawley Laboratory
SRS876942 SRP056326 Feces A/J Harlan Sprague Dawley Laboratory
SRS876943 SRP056326 Feces A/J Harlan Sprague Dawley Laboratory
SRS876941 SRP056326 Feces A/J Harlan Sprague Dawley Laboratory
SRS876940 SRP056326 Feces BALB/c Jackson Laboratory Laboratory
SRS876939 SRP056326 Feces BALB/c Jackson Laboratory Laboratory
SRS876935 SRP056326 Feces BALB/c Jackson Laboratory Laboratory
SRS876938 SRP056326 Feces BALB/c Jackson Laboratory Laboratory
SRS876936 SRP056326 Feces BALB/c Harlan Sprague Dawley Laboratory
SRS876937 SRP056326 Feces BALB/c Harlan Sprague Dawley Laboratory
SRS876931 SRP056326 Feces BALB/c Harlan Sprague Dawley Laboratory
SRS876932 SRP056326 Feces BALB/c Harlan Sprague Dawley Laboratory
SRS876934 SRP056326 Feces C57BL/6 Jackson Laboratory Laboratory
SRS876933 SRP056326 Feces C57BL/6 Jackson Laboratory Laboratory
SRS876930 SRP056326 Feces C57BL/6 Jackson Laboratory Laboratory
SRS876925 SRP056326 Feces C57BL/6 Jackson Laboratory Laboratory
SRS876926 SRP056326 Feces C57BL/6 Harlan Sprague Dawley Laboratory
SRS876929 SRP056326 Feces C57BL/6 Harlan Sprague Dawley Laboratory
SRS876927 SRP056326 Feces C57BL/6 Harlan Sprague Dawley Laboratory
SRS876928 SRP056326 Feces C57BL/6 Harlan Sprague Dawley Laboratory
SRS876924 SRP056326 Feces A/J Jackson Laboratory Laboratory
SRS876923 SRP056326 Feces A/J Jackson Laboratory Laboratory
SRS876922 SRP056326 Feces A/J Jackson Laboratory Laboratory
SRS876920 SRP056326 Feces A/J Jackson Laboratory Laboratory
SRS876921 SRP056326 Feces A/J Harlan Sprague Dawley Laboratory
SRS876917 SRP056326 Feces A/J Harlan Sprague Dawley Laboratory
SRS876918 SRP056326 Feces A/J Harlan Sprague Dawley Laboratory
SRS876919 SRP056326 Feces A/J Harlan Sprague Dawley Laboratory
SRS876916 SRP056326 Feces BALB/c Jackson Laboratory Laboratory
SRS876915 SRP056326 Feces BALB/c Jackson Laboratory Laboratory
SRS876907 SRP056326 Feces C57BL/6 Jackson Laboratory Laboratory
SRS876906 SRP056326 Feces C57BL/6 Jackson Laboratory Laboratory
SRS876908 SRP056326 Feces C57BL/6 Jackson Laboratory Laboratory
SRS876905 SRP056326 Feces C57BL/6 Jackson Laboratory Laboratory
SRS876904 SRP056326 Feces C57BL/6 Harlan Sprague Dawley Laboratory
SRS876903 SRP056326 Feces C57BL/6 Harlan Sprague Dawley Laboratory
SRS876901 SRP056326 Feces C57BL/6 Harlan Sprague Dawley Laboratory
SRS876902 SRP056326 Feces C57BL/6 Harlan Sprague Dawley Laboratory
SRS876900 SRP056326 Feces A/J Jackson Laboratory Laboratory
SRS876898 SRP056326 Feces A/J Jackson Laboratory Laboratory
SRS876897 SRP056326 Feces A/J Jackson Laboratory Laboratory
SRS876896 SRP056326 Feces A/J Harlan Sprague Dawley Laboratory
SRS876893 SRP056326 Feces A/J Harlan Sprague Dawley Laboratory
SRS876892 SRP056326 Feces A/J Harlan Sprague Dawley Laboratory
SRS876891 SRP056326 Feces A/J Harlan Sprague Dawley Laboratory
SRS876895 SRP056326 Feces BALB/c Jackson Laboratory Laboratory
SRS876894 SRP056326 Feces BALB/c Jackson Laboratory Laboratory
SRS876889 SRP056326 Feces BALB/c Jackson Laboratory Laboratory
SRS876890 SRP056326 Feces BALB/c Jackson Laboratory Laboratory
SRS876887 SRP056326 Feces BALB/c Harlan Sprague Dawley Laboratory
SRS876888 SRP056326 Feces BALB/c Harlan Sprague Dawley Laboratory
SRS876886 SRP056326 Feces BALB/c Harlan Sprague Dawley Laboratory
SRS876883 SRP056326 Feces BALB/c Harlan Sprague Dawley Laboratory
SRS876882 SRP056326 Feces C57BL/6 Jackson Laboratory Laboratory
SRS876885 SRP056326 Feces C57BL/6 Jackson Laboratory Laboratory
SRS876884 SRP056326 Feces C57BL/6 Jackson Laboratory Laboratory
SRS876878 SRP056326 Feces C57BL/6 Jackson Laboratory Laboratory
SRS876877 SRP056326 Feces C57BL/6 Harlan Sprague Dawley Laboratory
SRS876881 SRP056326 Feces C57BL/6 Harlan Sprague Dawley Laboratory
SRS876879 SRP056326 Feces C57BL/6 Harlan Sprague Dawley Laboratory
SRS876880 SRP056326 Feces C57BL/6 Harlan Sprague Dawley Laboratory
SRS876876 SRP056326 Feces A/J Jackson Laboratory Laboratory
SRS876875 SRP056326 Feces A/J Jackson Laboratory Laboratory
SRS876873 SRP056326 Feces A/J Jackson Laboratory Laboratory
SRS876872 SRP056326 Feces A/J Jackson Laboratory Laboratory
SRS876874 SRP056326 Feces A/J Harlan Sprague Dawley Laboratory
SRS876869 SRP056326 Feces A/J Harlan Sprague Dawley Laboratory
SRS876868 SRP056326 Feces A/J Harlan Sprague Dawley Laboratory
SRS876867 SRP056326 Feces A/J Harlan Sprague Dawley Laboratory
SRS876865 SRP056326 Feces BALB/c Jackson Laboratory Laboratory
SRS876871 SRP056326 Feces BALB/c Jackson Laboratory Laboratory
SRS876870 SRP056326 Feces BALB/c Jackson Laboratory Laboratory
SRS876864 SRP056326 Feces BALB/c Harlan Sprague Dawley Laboratory
SRS876863 SRP056326 Feces BALB/c Harlan Sprague Dawley Laboratory
SRS876859 SRP056326 Feces BALB/c Harlan Sprague Dawley Laboratory
SRS876856 SRP056326 Feces BALB/c Harlan Sprague Dawley Laboratory
SRS876857 SRP056326 Feces A/J Harlan Sprague Dawley Laboratory
SRS876858 SRP056326 Feces A/J Harlan Sprague Dawley Laboratory
SRS876860 SRP056326 Feces A/J Harlan Sprague Dawley Laboratory
SRS876862 SRP056326 Feces A/J Harlan Sprague Dawley Laboratory
SRS876861 SRP056326 Feces A/J Harlan Sprague Dawley Laboratory
SRS876853 SRP056326 Feces A/J Harlan Sprague Dawley Laboratory
SRS876854 SRP056326 Feces A/J Harlan Sprague Dawley Laboratory
SRS876852 SRP056326 Feces A/J Harlan Sprague Dawley Laboratory
SRS876855 SRP056326 Feces A/J Jackson Laboratory Laboratory
SRS876850 SRP056326 Feces A/J Jackson Laboratory Laboratory
SRS876851 SRP056326 Feces A/J Jackson Laboratory Laboratory
SRS876849 SRP056326 Feces A/J Jackson Laboratory Laboratory
SRS876848 SRP056326 Feces A/J Jackson Laboratory Laboratory
SRS876846 SRP056326 Feces A/J Jackson Laboratory Laboratory
SRS876847 SRP056326 Feces A/J Jackson Laboratory Laboratory
SRS876845 SRP056326 Feces A/J Jackson Laboratory Laboratory
SRS876843 SRP056326 Feces C57BL/6 Harlan Sprague Dawley Laboratory
SRS876842 SRP056326 Feces C57BL/6 Harlan Sprague Dawley Laboratory
SRS876844 SRP056326 Feces C57BL/6 Harlan Sprague Dawley Laboratory
SRS876841 SRP056326 Feces C57BL/6 Harlan Sprague Dawley Laboratory
SRS876840 SRP056326 Feces C57BL/6 Harlan Sprague Dawley Laboratory
SRS876839 SRP056326 Feces C57BL/6 Harlan Sprague Dawley Laboratory
SRS876838 SRP056326 Feces C57BL/6 Harlan Sprague Dawley Laboratory
SRS876837 SRP056326 Feces C57BL/6 Harlan Sprague Dawley Laboratory
SRS876836 SRP056326 Feces C57BL/6 Jackson Laboratory Laboratory
SRS876835 SRP056326 Feces C57BL/6 Jackson Laboratory Laboratory
SRS876834 SRP056326 Feces C57BL/6 Jackson Laboratory Laboratory
SRS876832 SRP056326 Feces C57BL/6 Jackson Laboratory Laboratory
SRS876833 SRP056326 Feces C57BL/6 Jackson Laboratory Laboratory
SRS876831 SRP056326 Feces C57BL/6 Jackson Laboratory Laboratory
SRS876830 SRP056326 Feces C57BL/6 Jackson Laboratory Laboratory
SRS876829 SRP056326 Feces BALB/c Harlan Sprague Dawley Laboratory
SRS876828 SRP056326 Feces BALB/c Harlan Sprague Dawley Laboratory
SRS876826 SRP056326 Feces BALB/c Harlan Sprague Dawley Laboratory
SRS876827 SRP056326 Feces BALB/c Harlan Sprague Dawley Laboratory
SRS876824 SRP056326 Feces BALB/c Harlan Sprague Dawley Laboratory
SRS876825 SRP056326 Feces BALB/c Harlan Sprague Dawley Laboratory
SRS876823 SRP056326 Feces BALB/c Harlan Sprague Dawley Laboratory
SRS876822 SRP056326 Feces BALB/c Harlan Sprague Dawley Laboratory
SRS876819 SRP056326 Feces BALB/c Jackson Laboratory Laboratory
SRS876818 SRP056326 Feces BALB/c Jackson Laboratory Laboratory
SRS876817 SRP056326 Feces BALB/c Jackson Laboratory Laboratory
SRS876820 SRP056326 Feces BALB/c Jackson Laboratory Laboratory
SRS876821 SRP056326 Feces BALB/c Jackson Laboratory Laboratory
SRS876816 SRP056326 Feces BALB/c Jackson Laboratory Laboratory
SRS876815 SRP056326 Feces BALB/c Jackson Laboratory Laboratory
SRS876814 SRP056326 Feces BALB/c Jackson Laboratory Laboratory
SRS876811 SRP056326 Feces C57BL/6 Jackson Laboratory Laboratory
SRS876813 SRP056326 Feces C57BL/6 Jackson Laboratory Laboratory
SRS876810 SRP056326 Feces C57BL/6 Jackson Laboratory Laboratory
SRS876807 SRP056326 Feces C57BL/6 Harlan Sprague Dawley Laboratory
SRS876808 SRP056326 Feces C57BL/6 Harlan Sprague Dawley Laboratory
SRS876809 SRP056326 Feces C57BL/6 Harlan Sprague Dawley Laboratory
SRS876806 SRP056326 Feces C57BL/6 Harlan Sprague Dawley Laboratory
SRS876805 SRP056326 Feces A/J Jackson Laboratory Laboratory
SRS876804 SRP056326 Feces A/J Jackson Laboratory Laboratory
SRS876803 SRP056326 Feces A/J Jackson Laboratory Laboratory
SRS876802 SRP056326 Feces A/J Jackson Laboratory Laboratory
SRS876801 SRP056326 Feces A/J Harlan Sprague Dawley Laboratory
SRS876800 SRP056326 Feces A/J Harlan Sprague Dawley Laboratory
SRS876799 SRP056326 Feces A/J Harlan Sprague Dawley Laboratory
SRS876798 SRP056326 Feces A/J Harlan Sprague Dawley Laboratory
SRS876795 SRP056326 Feces BALB/c Jackson Laboratory Laboratory
SRS876794 SRP056326 Feces BALB/c Jackson Laboratory Laboratory
SRS876797 SRP056326 Feces BALB/c Jackson Laboratory Laboratory
SRS876796 SRP056326 Feces BALB/c Jackson Laboratory Laboratory
SRS876793 SRP056326 Feces BALB/c Harlan Sprague Dawley Laboratory
SRS876792 SRP056326 Feces BALB/c Harlan Sprague Dawley Laboratory
SRS876791 SRP056326 Feces BALB/c Harlan Sprague Dawley Laboratory
SRS876790 SRP056326 Feces BALB/c Harlan Sprague Dawley Laboratory
SRS876789 SRP056326 Feces C57BL/6 Jackson Laboratory Laboratory
SRS876788 SRP056326 Feces C57BL/6 Jackson Laboratory Laboratory
SRS876787 SRP056326 Feces C57BL/6 Jackson Laboratory Laboratory
SRS876786 SRP056326 Feces C57BL/6 Jackson Laboratory Laboratory
SRS876784 SRP056326 Feces C57BL/6 Harlan Sprague Dawley Laboratory
SRS876785 SRP056326 Feces C57BL/6 Harlan Sprague Dawley Laboratory
SRS876783 SRP056326 Feces C57BL/6 Harlan Sprague Dawley Laboratory
SRS876781 SRP056326 Feces A/J Jackson Laboratory Laboratory
SRS876779 SRP056326 Feces A/J Jackson Laboratory Laboratory
SRS876776 SRP056326 Feces A/J Jackson Laboratory Laboratory
SRS876777 SRP056326 Feces A/J Harlan Sprague Dawley Laboratory
SRS876778 SRP056326 Feces A/J Harlan Sprague Dawley Laboratory
SRS876775 SRP056326 Feces A/J Harlan Sprague Dawley Laboratory
SRS876774 SRP056326 Feces A/J Harlan Sprague Dawley Laboratory
SRS876773 SRP056326 Feces BALB/c Jackson Laboratory Laboratory
SRS876772 SRP056326 Feces BALB/c Jackson Laboratory Laboratory
SRS876771 SRP056326 Feces BALB/c Jackson Laboratory Laboratory
SRS876957 SRP056326 Feces BALB/c Jackson Laboratory Laboratory
SRS876770 SRP056326 Feces BALB/c Harlan Sprague Dawley Laboratory
SRS876769 SRP056326 Feces BALB/c Harlan Sprague Dawley Laboratory
SRS876767 SRP056326 Feces BALB/c Harlan Sprague Dawley Laboratory
SRS876768 SRP056326 Feces BALB/c Harlan Sprague Dawley Laboratory