Table 2 Expected and observed relative species abundances of the mock community for the V1–V3 and V3–V4 regions using OTUs picked with two closed-reference protocols

Escherichia coli

21.91

11.94 (±0.68)

22.60 (±0.61)

15.88 (±0. 72)

22.78 (±0.62)

Rhodobacter sphaeroides

21.91

39.07 (±1.57)

12.27 (±0.52)

39.21 (±1.58)

12.33 (±0.52)

Staphylococcus epidermidis

21.91

29.93 (±0.92)

0.12 (±0.00)

30.10 (±0.94)

0.24 (±0.02)

Streptococcus mutans

21.91

2.96 (±0.39)

20.42 (±0.65)

3.00 (±0.41)

20.49 (±0.65)

Bacillus cereus

2.19

0.14 (±0.05)

2.30 (±0.07)

0.15 (±0.05)

2.33 (±0.07)

Clostridium beijerinckii

2.19

1.60 (±0.21)

4.01 (±0.16)

1.61 (±0.21)

4.08 (±0.17)

Pseudomonas aeruginosa

2.19

2.08 (±0.27)

1.16 (±0.17)

2.10 (±0.28)

1.17 (±0.17)

Staphylococcus aureus

2.19

3.39 (±0.19)

30.84 (±1.33)

3.45 (±0.20)

31.38 (±1.33)

Streptococcus agalactiae

2.19

1.13 (±0.13)

3.07 (±0.12)

1.14 (±0.13)

3.09 (±0.12)

Acinetobacter baumannii

0.22

0.15 (±0.06)

0.31 (±0.03)

0.15 (±0.06)

0.31 (±0.03)

Helicobacter pylori

0.22

2.89 (±0.12)

0.67 (±0.05)

2.90 (±0.12)

0.67 (±0.05)

Lactobacillus gasseri

0.22

0.01 (±0.01)

0.40 (±0.04)

0.01 (±0.01)

0.40 (±0.04)

Listeria monocytogenes

0.22

0.03 (±0.01)

0.20 (±0.01)

0.03 (±0.01)

0.20 (±0.01)

Neisseria meningitidis

0.22

0.05 (±0.02)

0.38 (±0.03)

0.05 (±0.02)

0.38 (±0.03)

Propionibacterium acnes

0.22

0.03 (±0.01)

0.01 (±0.00)

0.03 (±0.01)

0.01 (±0.00)

Actinomyces odontolyticus

0.02

0.00 (±0.00)

0.00 (±0.00)

0.00 (±0.00)

0.00 (±0.00)

Bacteroides vulgatus

0.02

0.02 (±0.02)

0.06 (±0.01)

0.02 (±0.02)

0.06 (±0.01)

Deinococcus radiodurans

0.02

0.00 (±0.00)

0.03 (±0.00)

0.00 (±0.00)

0.03 (±0.00)

Enterococcus faecalis

0.02

0.00 (±0.01)

0.02 (±0.00)

0.00 (±0.01)

0.02 (±0.00)

Streptococcus pneumoniae

0.02

0.00 (±0.01)

0.01 (±0.00)

0.00 (±0.01)

0.01 (±0.00)

Others

0

4.56 (±0.13)

1.10 (±0.06)

0.16 (±0.07)

0.01 (±0.00)