TABLE 2.

Nucleotides that vary in the rRNA ITSa

SourceGenotypeNucleotide at positiona:
173134357677808188939597103113117118124129130131134136137141143145147148149157158178190193196
ConsensusGAGTCGGCGTGCTTGGGGGGCGCTAAGTGGTGTGA
HumanA-G-----------C--------T------------
HumanB-----A-------C--------T------------
HumanCT------T--------A-----------T--A---
Human and pigD-G-------C---CT--------------------
PigE-G---------------------C-----------
PigF-------T--T----------A--G---------G
PigG-----------------------C----------G
PigH-G-----T--T----------A--G---------G
CowI-GA----T---------A-C--T---A---A----
CowJ-G-----T---------A-C--T---A---A----
Cat and humanK-G-----------C---------------------
CatL-G-------A---CT--------------------
CowM-------T--T----------AT-G---------G
CowN-G-----T---T-----A-C--T---A---A----
PigO-------T--T----A-----AC-G---------G
LlamaP-GA----------C---------------------
HumanType III-G--------G---------T--T-----------
HumanType VT-----A----------------------A-----
CatEbfelA-G-------C---CTA--A----------------
PigEbpD-------T--T------------C-----------
PigEbpB----T--T--T---------TA------------G
PigPig EBITS9-------T--T----------A--G--C------G
PigPigEBITS1-G-----TA-T----------A--G---------G
PigPigEBITS2----------T----------A-C-----------
PigPigEBITS3---------------------A--G---------G
PigPigEBITS4----------T------------C-----------
PigPigEBITS5-------T--T-------------G----------
PigPigEBITS8-G-------C---CT----------T---------
PigPigEBITS6-G-------C--TCT-----------------AA-
PigPigEBITS7---C-----C---CT--------------------
  • 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.