TABLE 3.
Comparison of Chao estimates of OTU diversity and ecotype diversity predicted from ecotype simulation analysis of ∼70 variants and 3 loci of Synechococcus A-like and B′-like populations
| Sample | Synechococcus type | Gene | No. of variants | AED (%) | Chao richness estimates |
Ecotype simulation |
|||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| Average observed no. of taxaa | Sc-peb | Sc-nt (95% CI) | Prediction of n parameter (95% CI) | No. of demarcated PEsc | Omega (95% CI) | Sigma (95% CI) | |||||
| M60 + M65 | A | 16S rRNA | 70 | 0.002 | 1 | 1 | 1 (1-1) | 58 (2-71) | 1 | 5.42 (5-18.8) | 3.39 (0.05->100) |
| ITS | 70 | 0.002 | 3 | 2 | 3 (0-3) | 3 (2-10) | 2 | 0.136 (0.01-0.45) | 4.04 (0.58-20.1) | ||
| apcAB | 73 | 0.016 | 10 | 5.5 | 7.8 (7-30) | 11 (3-11) | 5 | 0.035 (0.01-0.12) | 1.82 (0.01->100) | ||
| aroA | 73 | 0.013 | 3 | 4 | 3.5 (0-3) | 5 (2-30) | 4 | 0.373 (0.17-1.2) | 143 (0.64->100) | ||
| rbsK | 72 | 0.095 | 13 | 14.3 | 13 (12-23) | 15 (8-30) | 14 | 0.043 (0.02-0.09) | 3.76 (0.25->100) | ||
| M60 | B′ | 16S rRNA | 73 | 0.002 | 2 | 1 | 2 (2-2) | 7 (2-75) | 1 | 0.519 (0.01-13.2) | 5.48 (0.25->100) |
| ITS | 70 | 0.01 | 6 | 2 | 7 (0-7) | 51 (3-70) | 2 | 1.00 (0.68-3) | 1.60 (0.03->100) | ||
| apcAB | 67 | 0.01 | 5 | 11 | 7 (10-35) | 32 (9-70) | 8 | 0.314 (0.1-0.68) | 1.09 (0.02->100) | ||
| aroA | 70 | 0.03 | 13 | 15 | 15 (11-23) | 32 (3-70) | 13 | 0.242 (0.11-0.81) | 23.8 (0.01->100) | ||
| rbsK | 68 | 0.05 | 15 | 14.5 | 15 (14-25) | 20 (11-46) | 13 | 0.092 (0.04-0.14) | 1.8 (0.12->100) | ||
a
At 99% cutoff.
b
Data do not include 95% confidence intervals; discrete values only are provided.
c
No 95% confidence interval for demarcated PE value; see n parameter confidence interval values.