Table 1

Cumulative and average number of taxa per body habitat

Total taxa

Mean ± SE


Body habitat

Project

Subjects (n)

Reads

Phylum

Class

Order

Family

Genus

Reads (m ± sd)

Phylum

Class

Order

Family

Genus

Genus_1000a


Gut

Stool

HMP

209

1774406

13

23

38

76

203

8490 ± 8308.1

6 ± 0.1

10 ± 0.2

12 ± 0.3

25 ± 0.5

54 ± 1.2

32 ± 0.7

Stool (preterm)

NEC

10

84574

6

12

21

39

90

8457 ± 3505.8

4 ± 0.3

5 ± 0.4

7 ± 0.6

12 ± 1.1

26 ± 2.5

14 ± 0.7

Nasal

Anterior nares

HMP

166

1178682

20

38

75

165

457

7100 ± 4031.8

7 ± 0.1

12 ± 0.2

17 ± 0.3

34 ± 0.8

53 ± 1.5

27 ± 0.9

Oral

Buccal mucosa

HMP

186

1542387

15

25

46

99

241

8292 ± 5166.5

7 ± 0.1

12 ± 0.2

17 ± 0.2

33 ± 0.5

59 ± 1.1

33 ± 0.7

Hard palate

HMP

193

1551365

19

34

62

127

301

8038 ± 4518.7

7 ± 0.1

13 ± 0.2

18 ± 0.3

36 ± 0.5

63 ± 1

39 ± 0.6

Keratinized gingiva

HMP

199

1553381

13

22

37

88

218

7806 ± 4591.9

6 ± 0.1

11 ± 0.1

14 ± 0.2

25 ± 0.4

41 ± 0.9

23 ± 0.5

Palatine tonsil

HMP

199

1648985

15

25

47

93

242

8286 ± 5068.5

8 ± 0.1

14 ± 0.2

18 ± 0.3

35 ± 0.5

62 ± 1

40 ± 0.6

Saliva

HMP

182

1335119

17

29

49

99

266

7336 ± 4083.7

9 ± 0.1

15 ± 0.2

20 ± 0.3

39 ± 0.5

72 ± 0.9

50 ± 0.6

Subgingival plaque

HMP

201

1603380

14

23

42

84

244

7977 ± 4364.2

8 ± 0.1

14 ± 0.2

19 ± 0.2

38 ± 0.4

68 ± 0.9

46 ± 0.6

Supragingival plaque

HMP

208

1677580

15

24

40

77

219

8065 ± 4539.6

8 ± 0.1

13 ± 0.2

17 ± 0.3

35 ± 0.5

62 ± 0.9

41 ± 0.7

Throat

HMP

186

1455561

18

29

53

119

322

7826 ± 3784.6

8 ± 0.1

13 ± 0.2

18 ± 0.3

36 ± 0.5

63 ± 1

41 ± 0.6

Tongue dorsum

HMP

206

1769242

13

21

35

74

185

8589 ± 7921.7

7 ± 0.1

13 ± 0.2

16 ± 0.2

32 ± 0.4

56 ± 0.8

35 ± 0.5

Skin

Antecubital fossa (left)

HMP

75

470729

21

41

78

168

501

6276 ± 4981.6

8 ± 0.2

13 ± 0.4

23 ± 0.7

48 ± 1.7

81 ± 3.9

56 ± 2.5

Antecubital fossa (right)

HMP

87

541278

21

42

81

186

534

6222 ± 5348.3

8 ± 0.2

14 ± 0.4

23 ± 0.8

48 ± 1.9

80 ± 3.9

52 ± 2.4

Retroauricular crease (left)

HMP

181

1762310

20

38

75

162

474

9737 ± 6158.1

7 ± 0.1

11 ± 0.2

17 ± 0.4

31 ± 1

47 ± 1.9

19 ± 1.0

Retroauricular crease (right)

HMP

189

1710301

23

42

79

173

484

9049 ± 4839.4

6 ± 0.1

11 ± 0.2

16 ± 0.4

30 ± 0.9

44 ± 1.7

19 ± 1.0

Ocular

Conjunctiva

The Gambia

15

158577

20

37

70

165

409

10571 ± 10554.

8 ± 0.8

14 ± 0.9

21 ± 1.4

37 ± 2.8

81 ± 8.7

54 ± 5.7

Urogenital

Mid vagina

HMP

89

732322

10

19

36

75

218

8228 ± 6675.7

5 ± 0.1

8 ± 0.2

11 ± 0.4

20 ± 0.8

29 ± 1.5

12 ± 0.9

Posterior fornix

HMP

89

822111

10

18

31

70

176

9237 ± 7652

5 ± 0.1

7 ± 0.2

9 ± 0.4

15 ± 0.7

20 ± 1.2

7 ± 0.6

Vaginal introitus

HMP

80

660867

13

20

35

75

203

8261 ± 4389.5

5 ± 0.1

9 ± 0.2

12 ± 0.4

23 ± 0.8

34 ± 1.5

16 ± 0.9

Urine

Urethritis

18

152360

23

38

64

131

312

8464 ± 4694.9

9 ± 0.5

14 ± 1.4

24 ± 2.5

49 ± 5.6

61 ± 5.2

38 ± 4.8

Penis

Urethritis

18

203866

20

35

64

135

333

11326 ± 3523.4

8 ± 0.7

14 ± 1

22 ± 1.9

42 ± 3.3

68 ± 5.5

30 ± 3.0

Total

All projects

279

24385112

30

109

125

493

929

8173 ± 5556

ND

ND

ND

ND

ND

ND


a1,000 reads were subsampled from each sample and the average number of genera is listed.

Zhou et al. Genome Biology 2013 14:R1   doi:10.1186/gb-2013-14-1-r1

Open Data