Table 1.
Taxon and sequence list
| Accession numbers | ||||
|---|---|---|---|---|
| Higher classification | Taxon ID | 28S | 18S | Voucher |
| Bilateria | ||||
| Annelida | Proceraea cornuta | AF212165 | AF212179 | |
| Annelida | Urechis caupo | AF342804 | AF342805 | |
| Arthropoda | Limulus polyphemus | AF212167 | U91490 | |
| Arthropoda | Tenebrio sp./Tenebrio molitor | AY210843 | X07801 | |
| Brachiopoda | Phoronis vancouverensis | AF342797 | U12648 | |
| Chordata | Oncorhynchus sp./O. kisutch | U34341 | AF030250 | |
| Chordata | Petromyzon marinus | AF061798 | M97575.1 | |
| Chordata | Raja schmidti | AF278683 | AF278682 | |
| Chordata | Triakis semifasciata | AF212182 | AF212180 | |
| Echinodermata | Strongylocentrotus purpuratus | AF212171 | L28056. | |
| Hemichordata | Cephalodiscus gracilis | AF212172 | AF236798 | |
| Hemichordata | Harrimania sp. | AF212173 | AF236799 | |
| Hemichordata | Ptychodera flava | AF212176 | AF278681 | |
| Hemichordata | Ptychoderidae | AF278684 | D14359 | |
| Hemichordata | Saccoglossus kowalevskii | AF212175 | L28054 | |
| Kinorhyncha | Pycnophyes sp.Tjarno | AY859597 | AY859598 | |
| Mollusca | Parvicardium minimum | DQ279966 | DQ279942 | |
| Mollusca | Placopecten magellanicus | AF342798 | X53899 | |
| Nematoda | Caenorhabditis elegans | X03680 | X03680 | |
| Nematomorpha | Chordodes morgani | AF342787 | AF036639 | |
| Nemertea | Amphiporus sp. | AF342786 | AF119077 | |
| Nemertodermatida | Meara stichopi | AY157605 | AF119085 | |
| Onychophora | Peripatus sp. | AY210836 | AY210837 | |
| Platyhelminthes | Diclidophora denticulata | AY157169 | AJ228779 | |
| Platyhelminthes | Stenostomum leucops | AY157151 | D85095 | |
| Platyhelminthes | Stylochus zebra | AF342800 | AF342801 | |
| Priapulida | Priapulus caudatus | AY210840 | Z38009 | |
| Sipuncula | Phascolopsis gouldii | AF342795 | AF342796 | |
| Tardigrada | Milnesium.sp.\M. tardigradum | AY210826 | U49909 | |
| Urochordata | Styela plicata | AF158724 | L12444 | |
| Urochordata | Thalia democratica | AF158725 | D14366 | |
| Cnidaria | ||||
| Polypodiozoa | Polypodium (Host: Acipenser ruthenus) | EU272585 | EU272630 | |
| Polypodiozoa | Polypodium (Host: Polyodon spathula) | EU272629 | ||
| Polypodiozoa | Polypodium (Host:Scaphirhynchus platorynchus) | EU272586 | ||
| Anthozoa, Antipatharia | Antipathes galapagensis | AY026365 | AF100943 | |
| Anthozoa, Scleractinia | Montastraea franksi | AY026375 | AY026382 | |
| Cubozoa, Carybdeidae | Carybdea rastonii | AY920787 | AF358108 | |
| Cubozoa, Carybdeidae | Darwin carybdeid sp. | AY920788 | AF358105 | |
| Cubozoa, Carybdeidae | Tripedalia cystophora | EU272595 | EU272637 | |
| Cubozoa, Chirodropidae | Chironex fleckeri | AY920785 | AF358104 | |
| Cubozoa, Chirodropidae | Chiropsalmus sp. | AY920786 | AF358103 | |
| Hydrozoa, Capitata | Dipurena ophiogaster | EU272560 | EU272615 | KUNHM 2803 |
| Hydrozoa, Capitata | Ectopleura dumortieri | EU272561 | EU272616 | |
| Hydrozoa, Capitata | Euphysora bigelowi | EU272563 | EU272618 | KUNHM 2829 |
| Hydrozoa, Capitata | Moerisia sp. | AY920801 | AF358083 | |
| Hydrozoa, Capitata | Pennaria disticha | EU272581 | AY920762 | |
| Hydrozoa, Capitata | Polyorchis penicillatus | AF358090 | ||
| Hydrozoa, Capitata | Porpita sp. | AY920803 | AF358086 | |
| Hydrozoa, Capitata | Ralpharia gorgoniae | EU272590 | EU272633 | KUNHM 2778 |
| Hydrozoa, Capitata | Scrippsia pacifica | AY920804 | AF358091 | |
| Hydrozoa, Capitata | Solanderia ericopsis | EU272593 | EU272636 | MHNG INVE29593 |
| Hydrozoa, Capitata | Velella sp. | EU272597 | AF358087 | |
| Hydrozoa, Capitata | Zanclea prolifera | EU272598 | EU272639 | KUNHM 2793 |
| Hydrozoa, Capitata | Zyzzyzus warreni | EU272599 | EU272640 | KUNHM 2777 |
| Hydrozoa, Capitata | Candelabrum cocksii | AY920796 | AY920758 | MHNG INVE29531 |
| Hydrozoa, Capitata | Cladocoryne floccosa | EU272551 | EU272608 | |
| Hydrozoa, Filifera | Bimeria vestita | EU272548 | EU272605 | |
| Hydrozoa, Filifera | Bougainvillia carolinensis | EU272549 | EU272606 | |
| Hydrozoa, Filifera | Brinckmannia hexactinellidophila | EU272550 | EU272607 | MHNG INVE38148 |
| Hydrozoa, Filifera | Clava multicornis | EU272552 | EU272609 | |
| Hydrozoa, Filifera | Clavactinia gallensis | EU272553 | EU272610 | MHNG INVE33470 |
| Hydrozoa, Filifera | Cordylophora caspia | EU272556 | EU272612 | |
| Hydrozoa, Filifera | Corydendrium sp. | EU272557 | EU272613 | KUNHM 2764 |
| Hydrozoa, Filifera | Dicoryne conybearei | EU272559 | EU272614 | MHNG INVE32949 |
| Hydrozoa, Filifera | Eudendrium.racemosum | EU272562 | EU272617 | |
| Hydrozoa, Filifera | Fabienna sphaerica | AY920797 | AY920767 | |
| Hydrozoa, Filifera | Garveia annulata/Garveia sp. | EU272564 | AY920766 | KUNHM 2860 |
| Hydrozoa, Filifera | Hydra circumcincta | AY026371 | AF358080 | |
| Hydrozoa, Filifera | Hydractinia symbiolongicarpus | EU272568 | EU272621 | |
| Hydrozoa, Filifera | Hydrichthella epigorgia | EU272569 | EU272622 | KUNHM 2665 |
| Hydrozoa, Filifera | Hydrichthys boycei | EU272570 | MHNG INVE37417 | |
| Hydrozoa, Filifera | Koellikerina fasciculata | EU272571 | EU272623 | |
| Hydrozoa, Filifera | Leuckartiara octona | EU272573 | EU272624 | |
| Hydrozoa, Filifera | Lizzia blondina | EU272574 | EU272625 | |
| Hydrozoa, Filifera | Pachycordyle pusilla | EU272579 | EU272627 | MHNG INVE32953 |
| Hydrozoa, Filifera | Pandea sp. | EU272580 | AY920765 | |
| Hydrozoa, Filifera | Podocoryne carnea | AY920802 | AF358092 | |
| Hydrozoa, Filifera | Proboscidactyla ornata | EU272587 | EU272631 | KUNHM 2767 |
| Hydrozoa, Filifera | Pruvotella grisea | EU272588 | EU272632 | MHNG INVE34436 |
| Hydrozoa, Filifera | Rathkea octopunctata | EU272591 | EU272634 | KUMIP 314321 |
| Hydrozoa, Filifera | Rhizogeton nudus | EU272592 | EU272635 | MHNG INVE35757 |
| Hydrozoa, Filifera | Turritopsis dohrnii | EU272596 | EU272638 | MHNG INVE29753 |
| Hydrozoa, Leptothecata | Abietinaria filicula | EU272540 | EU272600 | MHNG INVE29947 |
| Hydrozoa, Leptothecata | Aglaophenia tubiformis | EU272543 | EU272601 | MHNG INVE29967 |
| Hydrozoa, Leptothecata | Amphisbetia minima | EU272544 | EU272602 | MHNG INVE25071 |
| Hydrozoa, Leptothecata | Anthohebella parasitica | EU272545 | EU272603 | MHNG INVE29762 |
| Hydrozoa, Leptothecata | Clytia noliformis | EU272554 | EU272611 | |
| Hydrozoa, Leptothecata | Halecium muricatum | EU272565 | EU272619 | MHNG INVE29028 |
| Hydrozoa, Leptothecata | Halopteris minuta | EU272567 | EU272620 | MHNG INVE25073 |
| Hydrozoa, Leptothecata | Melicertum octocostatum | EU272575 | AY920757 | USNM 1073342 |
| Hydrozoa, Leptothecata | Octophialucium indicum | EU272577 | EU272626 | MHNG INVE29970 |
| Hydrozoa, Leptothecata | Plumularia setacea | EU272583 | EU272628 | MHNG INVE36298 |
| Hydrozoa, Siphonophorae | Agalma elegans | EU272542 | AY937313 | YPM 35029 |
| Hydrozoa, Siphonophorae | Apolemia sp. | EU272546 | AY937331 | YPM 35090 |
| Hydrozoa, Siphonophorae | Cordagalma cordiforme | EU272555 | AY937317 | YPM 35032 |
| Hydrozoa, Siphonophorae | Halistemma rubrum | EU272566 | AY937358 | YPM 35359 |
| Hydrozoa, Siphonophorae | Nanomia bijuga | EU272576 | AY937338 | YPM 35043 |
| Hydrozoa, Siphonophorae | Nectopyramis sp. | AY026377 | AF358068 | |
| Hydrozoa, Siphonophorae | Physophora hydrostatica | EU272582 | AY937342 | YPM 35046 |
| Hydrozoa, Siphonophorae | Sulculeolaria quadrivalvis | EU272594 | AY937353 | YPM 35357 |
| Hydrozoa, Stylasteridae | Crypthelia cryptotrema | EU272558 | EU272641 | USNM1027758 |
| Hydrozoa, Stylasteridae | Lepidopora microstylus | EU272572 | EU272644 | USNM1027724 |
| Hydrozoa, Stylasteridae | Pseudocrypthelia pachypoma | EU272589 | EU272643 | USNM1027728 |
| Hydrozoa, Stylasteridae | Adelopora crassilabrum | EU272541 | EU272642 | USNM1027760 |
| Hydrozoa, Trachylina | Limnocnida tanganyicae | AY920795 | AY920755 | |
| Hydrozoa, Trachylina | Maeotias marginata | EU247810 | ||
| Hydrozoa, Trachylina | Olindias phosphorica | EU247808 | AY920753 | MHNG INVE29811 |
| Scyphozoa, Coronatae | Atolla vanhoeffeni | AY026368 | AF100942 | |
| Scyphozoa, Coronatae | Nausithoe rubra | AY920776 | AF358095 | |
| Scyphozoa, Rhizostomea | Catostylus sp. | AY920777 | AF358100 | |
| Scyphozoa, Semaeostomeae | Chrysaora melanaster | AY920780 | AF358099 | |
| Scyphozoa, Semaeostomeae | Aurelia sp. | EU272547 | EU272604 | |
| Scyphozoa, Semaeostomeae | Phacellophora camtschatica | AY920778 | AF358096 | |
| Staurozoa, Stauromedusae | Craterolophus convolvulus | AY920781 | AY845344 | |
| Staurozoa, Stauromedusae | Haliclystus octoradiatus | AH014894 | AY845346 | |
| Staurozoa, Stauromedusae | Haliclystus sanjuanensis | AY920782 | AF358102 | |
| Myxozoa | ||||
| Malacosporea | Buddenbrockia plumatellae | AJ937883 | ||
| Myxosporea | Henneguya salminicola | AY302726 | ||
| Myxosporea | Kudoa trifolia | AM490336 | AM183300 | |
| Myxosporea | Kudoa unicapsula | AM490335 | AM490334 | |
| Myxosporea | Myxobolus cerebralis | EF370481 | ||
| Myxosporea | Myxobolus dogieli | EU003978 | ||
| Myxosporea | Parvicapsula limandae | EF429096 | ||
| Outgroups | ||||
| Choanoflagellida | ||||
| Codonosigidae | Monosiga brevicollis | AY026374 | AF084618 | |
| Salpingoecidae | Salpingoeca infusionum | AY026380 | AF100941 | |
| Ctenophora, | ||||
| Cyclocoela | Beroe ovata | AY026369 | AF293694 | |
| Cyclocoela | Mnemiopsis leidyi | AY026373 | AF293700 | |
| Typhlocoela | Pleurobrachia bachei | AY026378 | AF293677 | |
| Fungi | ||||
| Ascomycota | Candida albicans | X70659 | X53497 | |
| Ascomycota | Saccharomyces cerevisiae | J01355 | M27607 | |
| Basidiomycota | Tricholoma matsutake | U62964 | U62538.1 | |
| Mucoromycotina | Mucor racemosus | AJ271061 | AJ271061 | |
| Porifera, | ||||
| Calcarea | Leucosolenia sp. | AY026372 | AF100945 | |
| Demospongia | Mycale fibrexilis | AY026376 | AF100946 | |
| Demospongia | Suberites ficus | AY026381 | AF100947 | |
A complete list of sequences used in the analyses with GenBank accession numbers and museum voucher numbers. Bold numbers indicate new sequences generated for this study. KUMIP = University of Kansas Museum of Invertebrate Paleontology, KUNHM = University of Kansas Natural History Museum, MHNG = Muséum d'histoire naturelle de Genève, YPM = Yale Peabody Museum, USNM = US National Museum of Natural History.