TABLE 1.
Association of factors with specific OTUs and genera detected in HMM with 16S NGS.
| Factor | Class | Number of samples | Genus (OTU) | LogMax mean | LDA | p-value |
| Milk collection technique | MANUAL | 22 | Pseudomonas (Otu006) | 4.7136 | 4.3693 | 0.0003 |
| Cellulomonas (Otu008) | 4.3273 | 3.9683 | 0.0002 | |||
| Leifsonia (Otu009) | 3.4457 | 3.1532 | 0.0008 | |||
| Massilia (Otu010) | 3.8316 | 3.5199 | 0.0007 | |||
| Bacilaceae (Otu021) | 3.5045 | 3.1846 | 0.0002 | |||
| Reylanella (Otu032) | 2.9498 | 2.8352 | 0.0020 | |||
| Herbaspirillum (Otu046) | 2.8724 | 2.7494 | 0.0407 | |||
| PUMP | 9 | Stenotrophomonas (Otu017) | 4.3792 | 4.0706 | 0.0093 | |
| Rhizobium (Otu027) | 4.0009 | 3.7721 | 0.0100 | |||
| Actinomyces (Otu040) | 3.1918 | 2.9276 | 0.0237 | |||
| Brevundimonas (Otu092) | 3.1321 | 2.9378 | 0.0002 | |||
| Mother’s consumption of probiotics | NO | 24 | Acinetobacter (Otu004) | 4.8072 | 4.4810 | 0.0137 |
| Enhydrobacter (Otu022) | 3.6079 | 3.4985 | 0.0365 | |||
| YES | 7 | Haemophilus (Otu094) | 2.8270 | 3.1140 | 0.0040 | |
| Baby’s consumption of probiotics | P1 | 6 | Corynebacterium (Otu025) | 3.2552 | 3.0337 | 0.0209 |
| P2 | 5 | Lactobacillus (Otu024) | 3.6063 | 3.2836 | 0.0366 | |
| Actinomyces (Otu075) | 3.0170 | 2.7680 | 0.0366 | |||
| Microbacterium (Otu105) | 2.5051 | 2.4253 | 0.0366 | |||
| P∗ | 11 | Lactobacillus | 3.9988 | 3.9534 | 0.0110 |
P1, Lactobacillus reuteri DSM 17938; P2, Lactobacillus rhamnosus GG. ∗Reads binned according to taxonomic classification.