Table 2 Summary of prominent bacterial ASVs in term cesarean delivered placental samples before and after removal of background DNA contaminants using the R package DECONTAM. The top five ASVs as determined by mean relative abundance across placental samples after DADA2 processing are provided for studies which could be restricted to term cesarean delivered placental samples. Asterisks indicate ASV sequence genus level classifications which were assigned by NCBI BLAST with the highest percent identity in excess of 95%. The Liu et al. [57] dataset could not be assessed post-DECONTAM since no technical controls were included in the study.
Study | 16S rRNA gene hypervariable region | ASV1 | ASV2 | ASV3 | ASV4 | ASV5 |
|---|---|---|---|---|---|---|
| Â | Â | Before DECONTAM | ||||
Olomu | V4 | Escherichia/Shigella | Lactobacillus | Lactobacillus | Finegoldia | Fenollaria |
Parnell | V4 | Leptospira | Leptospira | Leptospira | Cutibacterium | Leptospira |
Theis | V4 | Achromobacter | Delftia | Phyllobacterium | Clostridium sensu stricto 5 | Stenotrophomonas |
Theis, Winters | V4 | Lactobacillus | Staphylococcus | Escherichia/Shigella | Serratia* | Streptococcus |
Liu | V4-V5 | Pseudomonas | Pantoea* | Pantoea* | Lactobacillus | Pantoea* |
Sterpu | V6-V8 | Cutibacterium | Staphylococcus | Streptococcus | Streptococcus | Streptococcus |
| Â | Â | After DECONTAM | ||||
Olomu | V4 | Fenollaria | Acinetobacter | Lactobacillus | Campylobacter | Peptoniphilus |
Parnell | V4 | Leptospira | Leptospira | Leptospira | Cutibacterium | Leptospira |
Theis | V4 | Achromobacter | Alcaligenaceae | Escherichia/Shigella | Achromobacter | Alcaligenaceae |
Theis, Winters | V4 | Corynebacterium | Serratia* | Mycoplasma | Corynebacterium | Fusobacterium |
Sterpu | V6-V8 | Staphylococcus | Gardnerella | Staphylococcus | Staphylococcus | Streptococcus |