Table 1 Shared genera between human milk and infant faeces at each week as average percentage relative abundances and p-values.

	Milk Week 1	Faeces Week 1	p-value	Milk Week 3	Faeces Week 3	p-value	Milk Week 6	Faeces Week 6	p-value	Milk Week 12	Faeces Week 12	p-value
Actinobacteria
Actinomyces				0.01	0.07	ns	0.01	0.26	ns	0.05	0.60	0.0384
Bifidobacterium	2.67	9.68	ns	1.86	18.20	0.0433	1.07	12.67	0.0206	1.54	13.82	0.0370
Atopobium							0.02	0.03	ns	0.02	0.01	ns
Corynebacterium				1.18	0.02	ns	0.18	0.02	ns	0.45	0.01	ns
Rhodococcus							0.05	0.02	ns	0.14	0.11	ns
Rothia				0.01	0.17	0.0216				0.18	0.02	ns
Propionibacterium							0.11	0.06	ns	0.31	0.02	ns
Bacteroidetes
Bacteroides	1.06	1.37	ns				0.13	6.77	0.0271
Prevotella										0.06	0.01	ns
Firmicutes
Gemella	1.18	0.07	ns	2.20	0.05	ns	0.32	0.04	ns
Staphylococcus	12.44	18.91	ns	5.57	7.27	ns	6.90	2.62	ns	1.33	0.15	Ns
Granulicatella	0.04	0.01	ns				0.15	0.01	ns
Enterococcus	0.59	0.71	ns	1.52	0.15	0.0293	0.13	1.57	ns	0.16	4.47	0.0005
Lactobacillus	2.56	6.15	0.0038	2.49	7.20	ns	2.99	6.43	ns	2.02	2.20	ns
Streptococcus	10.17	11	ns	31.58	13.85	ns	5.67	14.80	ns	6.46	5.98	ns
Anaerococcus										0.05	0.08	ns
Finegoldia										0.21	0.08	ns
Peptoniphilus										0.06	0.03	ns
Coprococcus										0.19	0.07	ns
Lachnospiraceae incertae sedis	0.46	1.25	ns	0.15	0.71	0.0398	0.20	2.49	ns	1.34	6.92	ns
Peptostreptococcaceae incertae sedis							0.03	0.29	ns
Veillonella	0.98	13.66	0.0369	1.94	14.69	ns	0.24	22.73	0.0011	1.32	10.47	0.0109
Erysipelotrichaceae incertae sedis	0.23	2.54	ns	0.13	1.32	ns	0.13	0.34	ns	0.46	0.67	ns
Proteobacteria
Citrobacter	0.21	4.35	0.0065	0.38	1.08	0.0019	0.12	3.71	ns	0.18	0.79	ns
Enterobacter	1.87	1.24	0.0010	1.74	1.36	0.002	1.95	3.85	0.0290	2.93	7.14	ns
Erwina							0.09	0.03	ns
Escherichia-Shigella	0.03	11.81	0.0171	0.48	17.28	ns	0.38	7.26	0.0182	0.17	20.65	0.0077
Hemophilus	2.77	3.82	ns	0.16	1.12	ns	0.02	0.87	ns	0.03	0.02	ns

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