TABLE 4.

Relative abundance of genera affected by human milk or milk formula in piglets at postnatal day 51¹

Regions	Genus	HM	MF	log2 FC	P adj
Jejunum	Streptococcus	0.158 ± 0.4	0.58 ± 0.8	−3.0	0.034
Jejunum	Moraxella	0.044 ± 0.1	1.226 ± 3.2	−4.6	0.034
Ileum	f__Enterobacteriaceae	0.559 ± 0.9	1.25 ± 4.8	5.5	0.001
Ileum	Streptococcus	0.166 ± 0.4	1.234 ± 2.6	−4.0	0.001
Cecum	c__Chloroplast	0.337 ± 0.8	0.03 ± 0.05	3.1	0.010
Cecum	Sutterella	1.169 ± 1.3	3.37 ± 3.5	−1.7	0.035
Cecum	Faecalibacterium	0.152 ± 0.1	0.643 ± 0.9	−2.1	0.009
Cecum	CF231	0.003 ± 0.009	0.58 ± 1.2	−7.7	0.001
Cecum	YRC22	0.002 ± 0.007	2.915 ± 3.9	−10.1	0.001
Cecum	c__4C0d-2	ND	1.895 ± 3.6	−11.6	0.001
Proximal colon	Faecalibacterium	0.091 ± 0.1	0.307 ± 0.4	−1.7	0.048
Proximal colon	Collinsella	0.01 ± 0.01	0.05 ± 0.1	−2.2	0.048
Proximal colon	CF231	0.003 ± 0.008	1.289 ± 2.9	−7.9	0.007
Proximal colon	YRC22	0.001 ± 0.003	3.662 ± 5.3	−11.4	0.001
Proximal colon	c__4C0d-2	ND	0.386 ± 0.8	−7.6	0.002
Distal colon	c__Bacteroidia	13.468 ± 6.7	6.189 ± 5.1	1.5	0.012
Distal colon	c__RF3	0.029 ± 0.05	1.067 ± 3.4	−2.1	0.049
Distal colon	YRC22	ND	2.419 ± 3.5	−12.3	0.001
Distal colon	c__4C0d-2	ND	0.445 ± 0.9	−23.6	0.001
Distal colon	c__Alphaproteobacteria	ND	1.003 ± 3.2	−7.2	0.001
Rectum	YRC22	0.037 ± 0.1	2.893 ± 4.0	−6.7	0.011
Rectum	c__4C0d-2	0.003 ± 0.006	0.738 ± 1.0	−7.6	0.001

¹Values are mean relative abundance ± SEMs, n = 8–15 per diet group. Adjusted P values from Wald test indicate differences between log2 FC values, calculated by DeSeq2 where reference group is HM. Genera that were significant with an adjusted P value < 0.05 are shown. c__, Class; f__, Family; FC, fold change; HM, human milk; MF, milk formula; ND, not detected.