TABLE 1.

Generated sequences, identified operational taxonomic units (OTUs), bacterial diversity, and species richness along the GIT of preweaned dairy calves

GIT region	Totala				Mucosa				Digesta
	No. of sequences	No. of OTUs	Chao1 indexb	Shannon indexc	No. of sequences	No. of OTUs	Chao1 index	Shannon index	No. of sequences	No. of OTUs	Chao1 index	Shannon index
Rumen	94,116	5,693	6,046	8.6	48,639	6,051	3,908	8.2	46,110	7,374	4,608	8.8
Jejunum	96,086	2,632	2,522	6.2	75,960	3,394	2,970	6.3	20,796	2,362	2,041	6.1
Ileum	112,404	2,685	3044	6.1	57,783	3,744	3,865	6.9	55,416	2,571	2,036	5.2
Cecum	81,567	2,893	4,372	7.2	49,232	4,196	3,836	7.1	33,292	3,251	3,348	6.9
Colon	177,978	4,694	4,644	7.1	49,119	3,950	3,335	6.9	129,507	7,264	3,968	6.9

^aValues are for mucosa and digesta samples together for each gut region.

^bThe Chao1 index is an estimation of species richness.

^cThe Shannon index is an an estimation of diversity.