Table 2

Diversity and richness of the tonsillar microbial communities

# Reads

# OTUsa

Chao-1b

Shannonc

Simpsond

Simpson evennesse


Pig E

43770

582

980

3.14

0.10

0.02


Pig F

11386

197

268

3.40

0.07

0.07


Pig G

16519

485

820

3.73

0.05

0.04


Pig H

28219

730

1224

3.42

0.11

0.01


Herd 2 Time 1

99894

1525

2513

3.58

0.06

0.01


Pig A

12268

128

161

2.37

0.21

0.03


Pig B

14885

190

235

3.17

0.09

0.05


Pig C

9392

182

237

2.81

0.14

0.04


Pig D

18387

135

291

3.23

0.07

0.11


Herd 1 Time 1

54932

453

628

3.23

0.07

0.03


Pig J

5523

122

191

3.26

0.07

0.12


Pig K

2760

67

88

2.70

0.11

0.14


Pig L

6295

167

233

3.12

0.09

0.06


Pig M

1351

57

87

2.45

0.15

0.11


Herd 1 Time 2

15929

273

382

3.23

0.08

0.05


Pig J Brush

13361

155

228

2.04

0.29

0.02


Pig K Brush

5672

102

141

2.38

0.14

0.07


Pig L Brush

9380

251

465

2.35

0.26

0.01


Pig M Brush

11265

136

164

2.83

0.11

0.06


Herd 1 Brush

39678

418

650

2.53

0.18

0.01


a number of OTUs (based on 0.03 cut-off) found in each sample or herd

b the estimated richness of an environment based on 0.03 cut-off

c computed at the RDP Pyrosequencing Pipeline

d calculated with MOTHUR [21] using a distance matrix computed at RDP Pyrosequencing Pipeline

e derived from Simpson's Index where E = (1/D)/S, D is the Simpson's Index and S is the total number of species (OTUs)

Lowe et al. BMC Microbiology 2012 12:20   doi:10.1186/1471-2180-12-20

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