Table 2 The significant differentially abundant taxa at the genus level obtained from DESeq2 analysis, with log 2 fold change for the variable listed compared to the base value.

From: The bacterial gut microbiome of probiotic-treated very-preterm infants: changes from admission to discharge

Log 2 fold change

lfcSE

padj

Genus

Variable

Sample

3.09

0.99

*

Staphylococcus

Chorioamnionitis: yes

Admission

−17.58

3.22

***

Enhydrobacter

Sepsis: yes

Admission

−15.38

3.95

**

Pseudomonas

Sepsis: yes

Admission

10.33

2.84

**

Bifidobacterium

Sepsis: yes

Admission

−11.62

2.31

***

Bifidobacterium

NEC: yes

Admission

4.84

1.00

***

Staphylococcus

ROP: yes

Admission

−27.65

2.64

***

Escherichia/Shigella

Preeclampsia: yes

Discharge

−4.25

1.67

*

Veillonella

Diet: breastmilk

Discharge

2.54

0.87

*

Bifidobacterium

Diet: breastmilk

Discharge

3.64

1.46

*

Klebsiella

Diet: breastmilk

Discharge

−5.52

1.91

*

Lactobacillus

Diet: formula

Discharge

  1. p-adj adjusted p value, lfc log-fold change, lfcSE log-fold change standard error, NEC necrotising enterocolitis, ROP retinopathy of prematurity.
  2. *P < 0.05, **p < 0.01 and ***p < 0.001 .
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