TABLE 2.
Nucleotides that vary in the rRNA ITSa
| Source | Genotype | Nucleotide at positiona:
|
||||||||||||||||||||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 17 | 31 | 34 | 35 | 76 | 77 | 80 | 81 | 88 | 93 | 95 | 97 | 103 | 113 | 117 | 118 | 124 | 129 | 130 | 131 | 134 | 136 | 137 | 141 | 143 | 145 | 147 | 148 | 149 | 157 | 158 | 178 | 190 | 193 | 196 | ||
| Consensus | G | A | G | T | C | G | G | C | G | T | G | C | T | T | G | G | G | G | G | G | C | G | C | T | A | A | G | T | G | G | T | G | T | G | A | |
| Human | A | - | G | - | - | - | - | - | - | - | - | - | - | - | C | - | - | - | - | - | - | - | - | T | - | - | - | - | - | - | - | - | - | - | - | - |
| Human | B | - | - | - | - | - | A | - | - | - | - | - | - | - | C | - | - | - | - | - | - | - | - | T | - | - | - | - | - | - | - | - | - | - | - | - |
| Human | C | T | - | - | - | - | - | - | T | - | - | - | - | - | - | - | - | A | - | - | - | - | - | - | - | - | - | - | - | T | - | - | A | - | - | - |
| Human and pig | D | - | G | - | - | - | - | - | - | - | C | - | - | - | C | T | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - |
| Pig | E | - | G | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | C | - | - | - | - | - | - | - | - | - | - | - |
| Pig | F | - | - | - | - | - | - | - | T | - | - | T | - | - | - | - | - | - | - | - | - | - | A | - | - | G | - | - | - | - | - | - | - | - | - | G |
| Pig | G | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | C | - | - | - | - | - | - | - | - | - | - | G |
| Pig | H | - | G | - | - | - | - | - | T | - | - | T | - | - | - | - | - | - | - | - | - | - | A | - | - | G | - | - | - | - | - | - | - | - | - | G |
| Cow | I | - | G | A | - | - | - | - | T | - | - | - | - | - | - | - | - | - | A | - | C | - | - | T | - | - | - | A | - | - | - | A | - | - | - | - |
| Cow | J | - | G | - | - | - | - | - | T | - | - | - | - | - | - | - | - | - | A | - | C | - | - | T | - | - | - | A | - | - | - | A | - | - | - | - |
| Cat and human | K | - | G | - | - | - | - | - | - | - | - | - | - | - | C | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - |
| Cat | L | - | G | - | - | - | - | - | - | - | A | - | - | - | C | T | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - |
| Cow | M | - | - | - | - | - | - | - | T | - | - | T | - | - | - | - | - | - | - | - | - | - | A | T | - | G | - | - | - | - | - | - | - | - | - | G |
| Cow | N | - | G | - | - | - | - | - | T | - | - | - | T | - | - | - | - | - | A | - | C | - | - | T | - | - | - | A | - | - | - | A | - | - | - | - |
| Pig | O | - | - | - | - | - | - | - | T | - | - | T | - | - | - | - | A | - | - | - | - | - | A | C | - | G | - | - | - | - | - | - | - | - | - | G |
| Llama | P | - | G | A | - | - | - | - | - | - | - | - | - | - | C | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - |
| Human | Type III | - | G | - | - | - | - | - | - | - | - | G | - | - | - | - | - | - | - | - | - | T | - | - | T | - | - | - | - | - | - | - | - | - | - | - |
| Human | Type V | T | - | - | - | - | - | A | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | A | - | - | - | - | - |
| Cat | EbfelA | - | G | - | - | - | - | - | - | - | C | - | - | - | C | T | A | - | - | A | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - |
| Pig | EbpD | - | - | - | - | - | - | - | T | - | - | T | - | - | - | - | - | - | - | - | - | - | - | - | C | - | - | - | - | - | - | - | - | - | - | - |
| Pig | EbpB | - | - | - | - | T | - | - | T | - | - | T | - | - | - | - | - | - | - | - | - | T | A | - | - | - | - | - | - | - | - | - | - | - | - | G |
| Pig | Pig EBITS9 | - | - | - | - | - | - | - | T | - | - | T | - | - | - | - | - | - | - | - | - | - | A | - | - | G | - | - | C | - | - | - | - | - | - | G |
| Pig | PigEBITS1 | - | G | - | - | - | - | - | T | A | - | T | - | - | - | - | - | - | - | - | - | - | A | - | - | G | - | - | - | - | - | - | - | - | - | G |
| Pig | PigEBITS2 | - | - | - | - | - | - | - | - | - | - | T | - | - | - | - | - | - | - | - | - | - | A | - | C | - | - | - | - | - | - | - | - | - | - | - |
| Pig | PigEBITS3 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | A | - | - | G | - | - | - | - | - | - | - | - | - | G |
| Pig | PigEBITS4 | - | - | - | - | - | - | - | - | - | - | T | - | - | - | - | - | - | - | - | - | - | - | - | C | - | - | - | - | - | - | - | - | - | - | - |
| Pig | PigEBITS5 | - | - | - | - | - | - | - | T | - | - | T | - | - | - | - | - | - | - | - | - | - | - | - | - | G | - | - | - | - | - | - | - | - | - | - |
| Pig | PigEBITS8 | - | G | - | - | - | - | - | - | - | C | - | - | - | C | T | - | - | - | - | - | - | - | - | - | - | T | - | - | - | - | - | - | - | - | - |
| Pig | PigEBITS6 | - | G | - | - | - | - | - | - | - | C | - | - | T | C | T | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | A | A | - |
| Pig | PigEBITS7 | - | - | - | C | - | - | - | - | - | C | - | - | - | C | T | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - |
a
Nucleotides found at 35 polymorphic sites in the E. bieneusi small-subunit rRNA ITSs of 30 representative sequences. A to P, type III, type V, EdpD, EbfelA, and EdpB are genotypes presently in GenBank. PigEBITS1 to -9 are new ITS sequence types discovered during this work in positive pig samples from a slaughterhouse. The type(s) of organism from which each sequence was derived is displayed. The accession numbers for the previously sequenced E. bieneusi types are as follows: AF10197 to AF101200 for types A to D, AF135832 to AF135837 for types E to J, AF267141 to AF267146 for types K to P, AF118144 for type EbfelA, AF076043 for type EbpD, and AF06041 for type EbpB.