Table 3.

Alignments of 16S rRNA gene sequences of colonies isolated on blood agar from oral swabs of wild type and Car6^−/− mice.

Colony	Reference Sequences	Genus	Species	GenBank Accession	Score (bits)	% Identities
Large Grey	RDP	Actinobacillus	muris	AF024526	2154	98.5
	HOMD	Haemophilus	aegyptius	M75044	1902	93.9
Large Yellow	RDP	Staphylococcus	saprophyticus	EU855227	2257	100
	HOMD	Staphylococcus	warneri	L37603	2169	98.3
Grey (α-Hemolytic)	RDP	Streptococcus	Unassigned	EU453973	2126	99.7
	HOMD	Streptococcus	sanguinis	AF003928	2076	96.7
White (Cocci)	RDP	Streptococcus	Unassigned	FJ893080	2090	97.7
	HOMD	Streptococcus	parasanguinis II	AY278635	1986	95.2
White (Rods)	RDP	Lactobacillus	murinus	AF157049.1	2261	100
	HOMD	Lactobacillus	salivarious	AF089108.2	1959	94.9
Small Grey	RDP	Corynebacterium	mastitidis	AY834747.1	2081	97.5
	HOMD	Corynebacterium	diphtheriae	X82059	1882	94.5

High quality consensus 16S rRNA sequences from colony PCR of single isolates under aerobic conditions from three mice of each genotype were aligned by the BLAST server at Human Oral Microbiome Database (HOMD) [29] to two sets of 16S rRNA reference sequences, HOMD 16S rRNA RefSeq and sequences of the Ribosome Database Project, release 10 [30]. Highest scoring alignments were identical between consensus sequences from wild type and Car6 ^−/− mice. Thus, only the lowest alignment score and percent identities for each pair of consensus sequences are given. Percent identities are the total nucleotide mismatches per total matching nucleotides, including gaps.