TABLE 2.

Diversity indices based on RsaI-BstUI RFLP phylotypes in 16S rDNA clone libraries and culture collections from four soil environments

Index	Clone libraries				Culture collections
	C0	C1	S0	S1	iC0	iC1	iS0	iS1
E(S)a	150 (1.3)	147 (4.3)	127 (2.3)	150 (NA)f	7 (0.5)	14 (NA)	7 (0.6)	15 (1.6)
Hb	7.067	7.092	6.612	7.018	2.405	3.254	1.541	3.337
Evennessc	0.972	0.967	0.936	0.971	0.802	0.855	0.514	0.800
Dd	0.991	0.990	0.981	0.990	0.757	0.859	0.448	0.843
D/Dmaxe	0.997	0.997	0.989	0.997	0.865	0.925	0.512	0.893

^aE(S) was calculated by rarefaction (21, 43) for a standardized sample size of 190 clones for each clone library and 37 isolates for each culture collection. The values in parentheses are the variances arising from inherent statistical uncertainty during the estimation of phylotype richness for sample sizes smaller than the actual sample size. 

^bH was calculated as follows (31): H = − Σ (p_i)(log₂p_i) where p_i is the proportion of the ith phylotype. 

^cEvenness (E) (31) was calculated from H as follows: E = H/H_max, where H_max = log₂(S) and S is the total number of phylotypes. 

^dD was calculated as follows (44): D = 1 − Σ (p_i)². The scale for D ranges from 1 to D_max, where D_max = 1 − 1/(S). 

^eSince the scale for D varies between communities according to S, we standardized the measure by dividing by D_max. This provided an evenness index conceptually similar to the index derived from the Shannon-Weiner function. 

^fNA, not applicable.