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Table 1 Overview of rRNA sequencing — average number of reads and OTUs generated for each site

From: Systematic profiling of the chicken gut microbiome reveals dietary supplementation with antibiotics alters expression of multiple microbial pathways with minimal impact on community structure

GI site

Raw (pairs)

Merged (pairs)

Filtered (reads)

Final (reads)

Observed OTUs

Gizzard

78297.38

68914.39

56924.55

56770.07

20.41

Duodenum

20298.34

17733.02

9225.90

9127.33

40.34

Jejunum

41324.11

35743.49

25318.60

25236.29

21.06

Ileum

84388.45

73348.41

58219.43

57851.79

19.12

Ceca

77254.05

66116.41

47573.59

46057.88

51.95

Colon

121839.81

104843.98

86704.26

84930.36

51.45

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Microbiome

ISSN: 2049-2618

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