#NEXUS
[!This data set was downloaded from TreeBASE, a relational database of phylogenetic knowledge. TreeBASE has been supported by the NSF, Harvard University, Yale University, SDSC and UC Davis. Please do not remove this acknowledgment from the Nexus file.


Generated on September 19, 2025; 0:33 GMT

TreeBASE (cc) 1994-2008

Study reference:
Belahbib H., Renard E., Santini S., Jourda C., Clavery J., Borchiellini C., & Le
bivic A. 2018. New Genomic Data and Analyses Challenge the Traditional Vision of
Epithelium Evolution in Sponges and Ctenophores. BMC Genomics, .

TreeBASE Study URI:  http://purl.org/phylo/treebase/phylows/study/TB2:S22408]

BEGIN TAXA;
        TITLE  Taxa;
        DIMENSIONS NTAX=17;
        TAXLABELS
            'A.digitifera-1'
            'A.digitifera-2'
            A.queenslandica
            A.vestus
            B.floridae
            D.melanogaster
            L.complicata
            M.leidyi
            M.musculus
            O.carmela
            O.lobularis
            O.minuta
            'Oscarella-sp'
            P.ficiformis
            S.ciliatum
            S.coactum
            T.adhaerens
            ;
END;

BEGIN CHARACTERS;
[! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M45575]

	TITLE Character_Matrix_figure_S1A_tree;
	LINK TAXA = Taxa;
	DIMENSIONS NCHAR=250;
	FORMAT DATATYPE=Protein SYMBOLS= "A C D E F G H I K L M N P Q R S T V W Y" MISSING=? GAP= -;

MATRIX
[                           10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250]
[                            .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .]
'A.digitifera-1'    TYAH-EPDLQDLLEYL-ESDDVTLIVNAANYLQHLSFSDDQVKIKVRGLGGIAILVRLLDHELE-EVHRSAAACLRNLSFSKARDENKLAIAECFGIEALIRLLKRTRKDEVKEVVLGVLWNLSSCEDLKLRIIEVCLIVLITIIIVPYSGWTKT----AAQSNAPIPSIKWSTVFRNASGVLRNVSSAGP-EARRVMRDCDGLVDSFVWIIKAPIGKNDIDNKSVENSICI----LRNLSYRLENEVD-
'A.digitifera-2'    LVGQ-EPEIPDLIDYM-QSGDDVKVINAARYLQHLCFSKESVKDKVRELGGVPVIVRLLRHSEW-RVRYAAICLLRNLSFSMKYDANRLAIADCGGIEALIEILQQTNTIEHKEAILGVLCNLSSVQSLRLRILLVCLHIIVVVIIVPYSEWTAV----AARSQLPKREHPWPMVLVHATRLVRNLSSAGT-RARQELREEKDLVDCLVWIIRVGVKSGQFDDRCLEHSVCT----LRNLSYRLESEID-
A.queenslandica     HGSQHEPNLNDVVDYL-SHSDPSTVANAASYIQHLAYGDDNMKAKIRQFGGIPALLSQVRNPDP-RVQLAVLGALRNLSYGRANNESKSQIAQDAGLPNIVYLLRNNSQPEVRELVTSVLWNLSSCEDIKLRILQCSLKDIVDTILIPSTGYGPTYPA-ARDFSQRTSVLHWTAEMKNSLGAIRNISSAGV-EARRFLRASNNLVDTLVWIVRAAATQENVDEKTVENAICI----LRNLSFQIEDEVD-
A.vestus            TLSPTEAKAQELVRLIVTSQDLTTLCRSATIIQQMTYGDDVNKNYFREVGAIQALISHLQSRQD-SMLSCVLGALRNLSYGV--EFNKRIIASGWGLSNLMQLLMRTQFPELRELTTSVLWNASSSEYVKRAFLDVCVDDLVRSSVIPLANWDTESIPLNAMNPLNPSHVKWNAELKNSTGVLRNLASFGK-DCRRRLRRSVGLVDSVLYIVCSALGRDDLDNQIVENCLCI----LRNLSYRLEVEVD-
B.floridae          MAWR-DPDLPELIEML-REPHPPVQANAAAYLQHLCYGDDPVKAKIRSLGGIPELVQLLDHPSP-DVHRNAAGALRNLAYGKANDENKSAINNANGIPALVRLLRKTPDTEVQELVTGVLWNLSSHPPLKQAVIDDALTVLTNRIIIPHSGWEAS----PDADSKP-RDIQWSVVFRNATGCLRNVSSAGP-DARRKMRECDGLVDALLHVLQTAIGKNDMDNKSVENCQYMVPTELTNLKFVMTSSNC-
D.melanogaster      MRWR-DPNLSEVISFL-SNPSSAIKANAAAYLQHLCYMDDPNKQRTRSLGGIPPLVRLLSYDSP-EIHKNACGALRNLSYGRQNDENKRGIKNAGGIAALVHLLCRSQETEVKELVTGVLWNMSSCEDLKRSIIDEALVAVVCSVIKPHSGWDAV----------CCGETCFSTVFRNASGVLRNVSSAGE-HARGCLRNCEHLVECLLYVVRTSIEKNNIGNKTVENCVCI----LRNLSYRCQ-EVD-
L.complicata        GPTH-QLSLGDVIGFL-NSRDTMVVANAAGYLQHASYNNDHVKSQLRDLGAIPVLVGLILQRDE-MVQHAAVGVLRNISYGSRSMPNKYSICENGGVEVLVRLLRNARSEDVQELVTGVLWNLSSCEELKMHILSQSTTELVRTVIVPASGWDPAGD-DTADSSEPMQRIGWTPVLRNATGILRNLSSAGP-SARELLRSTEGLADALLRMLRAAAGNNEVDNKSVENSMCV----LRNLSFRMESEVD-
M.leidyi            TTSS-EPELQDIIKILTGSSNLSLVNTAAGALQHLSYGDDHMKNKIREAGAIPILVHMLSLDD--LVCISSLGVLRNLSFGKSNHLNRIAIQDAHGITLLVQLLNTTESFEIQELVTGVFWNLSSSDTLKLPILKQALESLVKNIIIPLSGWQETKSI-PFDQNGYNANISWTTVFRNATGCLKNLSSAGL-EGRTLLRLCHGLVDSLLWTVRCAQGKNDVDNKAVENAVCI----LRNLSYRLEAEVA-
M.musculus          SNWR-QPELPEVIAML-GFRLDAVKSNAAAYLQHLCYRNDKVKTDVRKLKGIPILVGLLDHPKK-EVHLGACGALKNISFGR-DQDNKIAIKNCDGVPALVRLLRKARDMDLTEVITGTLWNLSSHDSIKMEIVDHALHALTDEVIIPHSGWERE----PNEDCKP-RHIEWESVLTNTAGCLRNVSSERS-EARRKLRECDGLVDALIFIVQAEIGQKDSDSKLVENCVCL----LRNLSYQVHREIP-
O.carmela           KEDE-NMDLPEIIDML-GSDDYRKVTHAAGLLQHLSYKDDMMKARIKSEGTIPVLIDLLGSRHV-EVCHAVAGVLRNLCYGSSNNENKLAVRDAGGITALVHLLKTTRSIEVKELVCSVLWNISSFDGLKEDLLRESLHVLTHYVIRPESGIQPS----FQLTSRVAGELNNTLLLRNATGVFRNLSSASD-NARKSMRISPGLVDALFFVILSAENTPDVDSKTVENCICI----LRNLSFRLEIEVS-
O.lobularis         KQEQ-ELDLPEIIDLL-ASDDYLKVTNAAGLLQHMSYKDDEMKSQIKNEGAIPVLIDLLGSRHM-EVCHAVAGVLRNLCYGSTNNENKLAVRDAGGITALVHLLKTTRSIEVKELVCSVLWNISSFEGLKEDLLQESLHVLTHYVIRPESGIQAS----FQLTSRVAGELNNTLLLRNATGVFRNLSSASE-NARKAMRISPGLVDALFFIILSAENTPDVDSKTVENCVCI----LRNLSFRLENEVT-
O.minuta            TLSPTEAKAQELVRILVTSQDITSLCRAATLIQQMTYGDDVVKAYFREVGAIQALISHLQSRQD-SVLSSSLGALRNLSYGV--ELNKRVIASGWGLSNLMQLLLRTQLPELRELTTGVLWNVSSSEYLKRGFLDICIDDLVRSSVIPLANWNTESVPLSAMDPSILSHVKWNAELKNSTGVLRNLTSFGK-ECRRRLRGCVGLVDSVLYIICSALGREDLDNQIVENCLCI----LRNLSYRMESEVD-
'Oscarella-sp'      ------MDLLEIIDLL-NSDDYQRVTHAAGLLQHLSYKDDDMKARIKNEGAIPVLIDLLGSRHV-EVCHAVAGVLRNLCYGSTNNENKLAVRDAGGINALVHLLKTTRSIEVKELVCSVLWNISSFEGLKEDLLRESLHVLTHYVIRPESGIQPS----FQLTSRVAGELNNTLLLRNATGVFRNLSSASE-NARKAMRISPGLVDALFFVILSAENTPDVDSKTVENCVCI----LRNLSFRLENEVP-
P.ficiformis        TNTR-EPNLNDVVDFL-SSSDPTHVANAASYLQHLAYSDDNMKAKIRQFGGIPALISQLRTHDDIRVQVPVLGALRNLSYGRANIGNKIQIANDAGLTEMTLLLKTTQHSEIRELVTSVLWNLSSCEEIKLRIIHVCLKDVVEHILIPHSGYSHTHLA-AKDFSVRPDVTHWSPEMRNILGALRNISSAGE-EARRFLRSCNGLVDCLVWIIRAATGQENTDEKTAESAMCI----LRNLSYQLEDEVD-
S.ciliatum          SPAH-QLSLHDVVGFL-NSRDTMVVANAAGYLQHASYNNDHVKTQLRDLGAIPALVGLILQRDE-MVQHAAVGVLRNMSYGPHSVPNKYAVCEAGGVEVLVRLLRNARSEDVQELVTGVLWNLSSCEELKKHILSQSTTELVRSVIVPASGWDPSGDEDNEDNNDVLAQILWTSVLRNATGILRNLSSAGP-DARDVLRSTEGLVDALLRMLRAAVGNNEVDNKSVENSMCV----LRNLSFRMETEVD-
S.coactum           SPAH-QLSLHDVVGFL-NSRDTMVVANAAGYLQHASYNNDHVKAQLRDLGAIPVLVGLILQRDE-MVQHAAVGVLRNMSYGPRSVPNKYAVCEAGGVEVLVRLLRNARSEDVQELVTGVLWNLSSCEELKKHILTQGTTELVRSVIVPASGWDPSGDEDNEDNNDVLARIGWTSVLRNATGILRNLSSAGP-EARDVLRSTEGLVDALLRMLRAAVGNNEVDNKSVENSMCV----LRNLSFRMESEVD-
T.adhaerens         SQKY-SLTIEDAVNML-KSDNSIHSINAAVHLQHACFNNDGVKATIKRLGGILHLVRMVDSKNE-EIQLSAIATLRNLAYGKANDESKGAILRHKGIPVLANVLRRTGSPHVREEIVRLLWNLSTLEAAKEQLLNLTLDVLAK-LIEDHS---------ISAGEGSLSDTQWPTIYANATGTLRNLSSSTNLSSRQMMRKLDHLINALITVTHLSVQRKDFDGKCVENSVCI----LRNLSYNLEEEVD-
;
END;