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. 2000 Aug;66(8):3616–3620. doi: 10.1128/aem.66.8.3616-3620.2000

TABLE 1.

Derivation of phylogenic inference from TAPa

Fragment length (bp)
RDP sequence RDP phylogenetic subgroup
HhaI MspI RsaI
1,098 136 626 Eubacterium biforme 2.30.8.2.9 EUB.CYLINDROIDES_SUBGROUP
1,098 139 1,221 Eubacterium cylindroides 2.30.8.2.9 EUB.CYLINDROIDES_SUBGROUP
1,098 496 427 Buchnera aphidicola 2.28.3.27.1 BUCHNERA_SUBGROUP
1,099 495 223 Vibrio sp. 2.28.3.20.4 MRT.MARINA_SUBGROUP
1,099 496 74 Actinobacillus capsulatus 2.28.3.26.17 ACB.PLEUROPNEUMONIAE_SUBGROUP
1,099 496 650 Pasteurella haemolytica 2.28.3.26.18 MNH.HAEMOLYTICA_SUBGROUP
1,099 496 650 Pasteurella sp. 2.28.3.26.18 MNH.HAEMOLYTICA_SUBGROUP
1,099 496 650 Actinobacillus suis 2.28.3.26.17 ACB.PLEUROPNEUMONIAE_SUBGROUP
1,099 496 650 Actinobacillus equuli 2.28.3.26.17 ACB.PLEUROPNEUMONIAE_SUBGROUP
1,099 496 650 Actinobacillus capsulatus 2.28.3.26.17 ACB.PLEUROPNEUMONIAE_SUBGROUP
1,099 496 650 Actinobacillus hominis 2.28.3.26.17 ACB.PLEUROPNEUMONIAE_SUBGROUP
1,099 496 741 Pasteurella sp. 2.28.3.26.18 MNH.HAEMOLYTICA_SUBGROUP
1,099 496 882 Pasteurella sp. 2.28.3.26.18 MNH.HAEMOLYTICA_SUBGROUP
1,099 496 882 Pasteurella haemolytica 2.28.3.26.18 MNH.HAEMOLYTICA_SUBGROUP
1,099 496 882 Haemophilus paracuniculus 2.28.3.26.12 H.PARACUNICULUS_SUBGROUP
1,099 496 882 Haemophilus parasuis 2.28.3.26.11 H.PARASUIS_SUBGROUP
1,100 138 630 Eubacterium cylindroides 2.30.8.2.9 EUB.CYLINDROIDES_SUBGROUP
1,101 97 459 Porphyromonas levii 2.15.1.2.7 PPM.MACACAE_SUBGROUP
1,101 283 755 Thiobacillus hydrothermalis 2.28.3.7 DICHELOBACTER_GROUP
1,101 496 224 Vibrio sp. 2.28.3.20.4 MRT.MARINA_SUBGROUP
1,101 498 652 Actinobacillus pleuropneumoniae 2.28.3.26.17 ACB.PLEUROPNEUMONIAE_SUBGROUP
1,101 498 652 Actinobacillus lignieresii 2.28.3.26.17 ACB.PLEUROPNEUMONIAE_SUBGROUP
1,101 498 884 Haemophilus parasuis 2.28.3.26.11 H.PARASUIS_SUBGROUP
1,101 606 224 Vibrio sp. 2.28.3.20.4 MRT.MARINA_SUBGROUP
1,102 140 592 Streptococcus pleomorphus 2.30.8.2.9 EUB.CYLINDROIDES_SUBGROUP
1,102 496 224 Environmental isolate 2.28.3.20.4 MRT.MARINA_SUBGROUP
1,102 496 884 Environmental isolate 2.28.3.20.4 MRT.MARINA_SUBGROUP
1,104 499 430 Buchnera aphidicola 2.28.3.27.1 BUCHNERA_SUBGROUP
1,104 501 432 Buchnera aphidicola 2.28.3.27.1 BUCHNERA_SUBGROUP
1,105 496 224 Vibrio sp. 2.28.3.20.4 MRT.MARINA_SUBGROUP
a

Two additional separate enzymatic digestions on the group defined by an HhaI terminal fragment size of between 1,098 and 1,105 bp were carried out. The values in bold indicate coherent groups of terminal fragment phylotypes and the corresponding phylogenetic subgroups (determined with RDP release 7.1)