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Table 3 Relative abundance (%) of ASVs observed in PCR water samples in setups 2 and 3

From: Exploring protocol bias in airway microbiome studies: one versus two PCR steps and 16S rRNA gene region V3 V4 versus V4

ASV

Lowest Classification

Setup 2

Setup 3

06f825b512d903b9230e1a55d87359ee

f__Streptococcaceae; g__Streptococcus

35.39

20.77

ddfd49f939f92958b1ec816741055348

f__Oxalobacteraceae; g__Ralstonia; s__

12.36

0.00

394eda29c886632f514dd94b58381186

f__Pasteurellaceae

8.99

0.00

d32e579b3ae7b2aae8d5bf9f027c29af

f__Comamonadaceae

8.99

0.00

5648dccee530d68ceb3e4d7d22cf8756

f__Pseudomonadaceae; g__Pseudomonas

7.87

0.00

4f5efd25dacb5d639316e7291ff6ff8b

f__Neisseriaceae; g__Neisseria

7.87

7.69

85c44c83eddc5d3028261a1000b7d0e1

f__Gemellaceae

5.62

0.00

923f521b9cf313f1f95c9367e09bbc1c

f__Veillonellaceae; g__Veillonella; s__dispar

5.62

12.31

dcba105f35d8ebc9e22269c7491ad3a7

f__Xanthomonadaceae; g__Stenotrophomonas; s__geniculata

5.06

0.00

df8456a1abbfb4c8a2c450b44378d4cb

f__Actinomycetaceae; g__Actinomyces; s__

2.25

0.00

d46e2205f0c6ecf67b51f83d111c509c*

f__Enterobacteriaceae

0.00

35.38

edc9e5c16e40aff1eadce6597940f08f

f__Streptococcaceae; g__Streptococcus; s__

0.00

13.85

65d43491988bfe557da4d86a5ba25dae

f__Staphylococcaceae; g__Staphylococcus

0.00

10.00

  1. *Escherichia ASV also observed to differentiate mock community samples and NCS in setups 2 and 3. Bioinformatic processing steps were performed up until the removal of contaminants identified using Decontam. Taxonomic rank is described using prefixes (f__: family, g__: genus, s__: species)