Supporting Information Sebé-Pedrós et al. 10.1073/pnas.1002257107 Daphnia pulex 5 Integrin α Daphnia pulex 2 -/ - Capitella sp. 2 Capitella sp. 1 Daphnia pulex 1 Lottia gigantea 2 Amphimedon queenslandica 1 Geodia cydonium Drosophila melanogaster PS5 Drosophila melanogaster scab Drosophila melanogaster PS4 Podocoryne carnea Acropora millepora Homo sapiens 9 Homo sapiens 4 Daphnia pulex 4 Nematostella vectensis Homo sapiens 10 Homo sapiens 11 Homo sapiens 1 Homo sapiens 2 Amastigomonas sp. Homo sapiens 5 Homo sapiens 8 30/ 0.99 Homo sapiens IIb Homo sapiens V Lottia gigantea 1 Amphimedon queenslandica 4 Amphimedon queenslandica 2 Amphimedon queenslandica 3 Amphimedon queenslandica 5 Drosophila melanogaster inflated Drosophila melanogaster mew Daphnia pulex 3 Homo sapiens 6 Homo sapiens 7 Capsaspora owczarzaki 3 Capsaspora owczarzaki 4 Capsaspora owczarzaki 2 Capsaspora owczarzaki 1 Kordia algicida Monosiga brevicollis XP_001749484 Chloroherpeton thalassium Flavobacteriales bacterium Gloeobacter violaceus 88/ 1.00 Nostoc punctiforme Stigmatella aurantiaca Other FG-GAP containing proteins Homo sapiens GPI-PL Nematostella vectensis GPI-PL Capitella sp. GPI-PL Proterospongia sp. GPI-PL Capsaspora owczarzaki GPI-PL GPI-PLs Fig. S1. Maximum likelihood tree of the integrin α homolog and other proteins containing FG-GAP repeats. Alignment has been done using the only common region between all these proteins, which are three consecutive FG-GAP repeats. The taxon sampling includes all of the integrin α homologs here described and a wide representation of metazoan homologs. The putative integrin α from Monosiga brevicollis and some FG-GAP repeat-containing bacteria proteins ob- tained when blasting the M. brevicollis sequence have also been included, together with several glycosylphosphatidylinositol phospholipases. The tree is rooted using the midpoint-rooted tree option. Statistical support was obtained by RAxML with 1,000-bootstrap replicates (bootstrap value, BV) and Bayesian posterior probabilities. BV values are <50% for most branches. Both values are only shown for the some external key branches. The general topology is the same for Bayesian and maximum likelihood analyses. Sebé-Pedrós et al. www.pnas.org/cgi/content/short/1002257107 1of8 Deuterostomia Homo sapiens 6 Gallus gallus 6 Xenopus tropicalis 6 Homo sapiens 3 Gallus gallus 3 Xenopus tropicalis 3 Homo sapiens 5 Gallus gallus 5 Xenopus tropicalis 5 Homo sapiens 8 Gallus gallus 8 Xenopus tropicalis 8 Homo sapiens 2 Gallus gallus 2 Xenopus tropicalis 2 Homo sapiens 7 Xenopus tropicalis 7 Homo sapiens 1 Gallus gallus 1 Xenopus tropicalis 1 Anopheles gambiae Protostomia Daphnia pulex 2 Daphnia pulex 1 Lottia gigantea 3 Capitella sp 2 Capitella sp 1 Lottia gigantea 2 Biomphalaria glabrata Lottia gigantea 1 Strongylocentrotus purpuratus C Deuterostomia Strongylocentrotus purpuratus G Strongylocentrotus purpuratus L-like Strongylocentrotus purpuratus L Acropora millepora 2 Cnidaria Nematostella vectensis 1 Nematostella vectensis 2 Podocoryne carnea Trichoplax adhaerens 2 Placozoa Trichoplax adhaerens 1 Acropora millepora 1 Cnidaria Nematostella vectensis 3 Nematostella vectensis 4 Nematostella vectensis 5 Amphimedon queenslandica 1 Porifera Ophlitaspongia tenuis Suberites domuncula Geodia cydonium Amphimedon queenslandica 2 Amphimedon queenslandica 4 Amphimedon queenslandica 3 Amphimedon queenslandica 5 Amphimedon queenslandica 6 Amphimedon queenslandica 7 3 95.5/1.00 Capsaspora owczarzaki Filasterea 63.5/ - Capsaspora owczarzaki 2 59.8/0.90 Capsaspora owczarzaki 1 Capsaspora owczarzaki 4 84.2/1.00 84.4/1.00 Amastigomonas sp. Apusozoa Trichodesmium erythraeum Cyanobacteria Fig. S2. Maximum likelihood tree of the integrin β protein. The tree is rooted using the midpoint-rooted tree option. Statistical support was obtained by RAxML with 1,000-bootstrap replicates (bootstrap value, BV) and Bayesian posterior probabilities (BPP). Both values are shown on key branches. A black dot indicates BV >90% and BPP >0.95. Sebé-Pedrós et al. www.pnas.org/cgi/content/short/1002257107 2of8 Amastigomonas EG-ADC--TSYTSCSACISSAD--QCGWCFTPGS--------AGCQAASTS---TCAAPDFLNPMSEVQSQSTTS S-----------------VMTPTDV Homo --MNLQPIFWIGLISSVC C--------------------------------------------------------------------------------- - Cow_Ib1 TS-DPC--SAFTICEDCINNAALTMCGWCGDHGQ----------CQSAAGT----CS--NWQSP-------ASRVLGTSGSTP----------EVSPTTT Cow_Ib2 -----C--TDILTCNECITGDSIYGCSWCVADGT----------CRSPSDNALL-CPNPAGVLNPTSNIR-STTNVANADGVV----------EIRPTTA Amastigomonas -------XEATRTTHRRHV--------------------------------------------------------------------------------- - Cow_Ib3 VDPNTC--AALTDCKSCVNNLNIAGCGWCAQDGT----------CRSAQG----DCPAASYHNPS------STYTAAPISGTP----------EIYPAAA -MAAKRVLALLALALLLCL--------------------------------------------------------------------------------- - Ophlitaspongia (sponge) LG-RLC--NAQVSCGDCIFSSP--NCVWCADQNY------NGTRCYAIGDPDFENLCSGMEQNPMGEI---TDTVDPPLQDLT----------QVSPSRV Cow_Ib1 Capitella (annelid) ----------QRTCGSCVSAGP--LCGWCQQEGF---DATNHERCDTTDNLALHGCDEHYMVFPEHNITYDSELKPRNAEGG Q-------EAIQLSPQKV Cow_Ib2 ----MKLFAALLLLLALAS--------------------------------------------------------------------------------- - Homo (vertebrate) TDENRCLKANAKSCGECIQAGP--NCGWCTNSTFLQEGMPTSARCDDLEALKKKGCPPDDIENPRGSKDIKKNKNVTNRSKGTAEKLKPEDIHQIQPQQL 123 4 567 Cow_Ib3 MRCWTALLAAVALMLALSASSAD AAVAPPTTICNAVDEYGGGMTLTCPTGQTISAIVFASYGLPQPSPFTVGTTPCSSMAYDPCNSRSSRSVVESFCLGQ- Integrin beta domain -----------MLLLVSCISSVE----------------------------------------------------------------------------- - Cow_Ib4 Trichodesmium ------------------------------------------- --------------------------------------------------------- - KVFLRLNDPLSFVVTVTPG P-IPLDLVLVEDLSGSMSDDVNTLRALAR D-MVTRVRTEI----------QADTNFGIAGFIDKPAEPIAWNR D--- NTE Amastigomonas 89 C Cow_Ib1 NVFLRAGQPLLVTVSVTPQPCKPVDLYLLMDFSGSMDDDLTKVRSLAQ P-LATKVTQLCTDTSNPTCSNTNCARLGFGSFLEKPAYPMGRWTTSGWIKDS Cow_Ib2 VVELRKGVPQTVSIVVTIPQRKEVEFFYLFDLSGSMGDDLRNVKNLGN N-LRDKMQSLCRGSSSIS---SDCHYWRLGSHVDRPNGPFGGSGDYEFR IEG Cow_Ib3 NVTLRYNIPVVVPITVTVSTSKPLDLFILLDVSATMADDLATLKSFTQTAFSNSINK NCNGGTAPPSG-SECAYVRFGTFVDKPVVPLGGPTDWNFKIAS Ophlitaspongia (sponge) SINVRPGQPQTFNLNVRPARNFPIDLYLLMDLSYSMRDDLDNLKQLGA D-LAASIVGL-----------STNFRIGFGSFVEKVVAPFTTLDVRFQQ NPC Capitella (annelid) SIKLRPNDAFKFSVNFRQAENYPVDLYYVMDLSNSMSDDKSKLAELGD L-LSEEMGKI-----------TKNFHLGFGSFVDKETMPYISTVPTKLVS PC -------------VFAQTD--E-NRCLK---------------- -ANAKSCGECIQAGP--NCGWCTNSTFLQEGMPTSARCDDLEALKKKGC P-PDDIE Homo (vertebrate) VLRLRSGEPQTFTLKFKRAEDYPIDLYYLMDLSYSMKDDLENVKSLGT D-LMNEMRRI-----------TSDFRIGFGSFVEKTVMPYISTTPAKLR NPC Homo 8 Amastigomonas -------------GGGGTG--EGADC------------------ -TSYTSCSACISSAD--QCGWC--------FTPGSAGCQAASTST---CA-APDFL Cow_Ib1 -------------GQARAQ--TSDPC------------------ -SAFTICEDCINNAALTMCGW C--------GDHGQCQSAAGT------CS---NWQ Cow_Ib2 -------------SA------YGQAC------------------ -TDILTCNECITGDSIYGCSW C--------VADGTCRSPSDNALL---CPNPAGVL Amastigomonas SPLANQDCW-NYEYMGWLAAASDENLFFDALENSLENHG N----KDWPESMSEGAFHAAVCTARSGWRS-----NSRHIMLISTDADFHIAGDSELIGVY Cow_Ib1 TYTGGTSLPTNHAFRARLPLSYNLGQFVTLVQGISGIQG N----IDTPENMIDGMLQAILCQKLIDWPSFNTTYQPRRLMLMLTDDTTHFRKE GYMAGIV Cow_Ib3 QTCTITNTNNAAQGGGGFNSYFNDPCQNVVKRLYVSALCVDPNTCAALTDCKSCVNNLNIAGCGW C--------AQDGTCRSAQGD------CP-AASYH Cow_Ib2 IASGDDRSFGSF------------GAFSTALGNAD-TEWG----NDFPESQYSSMLQSLLCVN---WNP-----ARRHILLLATDATGHMEFDSN RLSSA --------------------------------- -VSALTVEDCTALELQSCNACLSK T--SSCGWCKST--------GACMLNTDGTAQ---CPQ-ASWI Cow_Ib3 ------------QYAASSAFSRDFSIARSAVQEP T-ASTNGYSVNDRPNSFLDAAVQAA LCSN---WDP-----THRHMLLVVTDAPFHFAGD AEALSSA Cow_Ib4 Ophlitaspongia (sponge) LNRNDIVCEPTYSYRHIISLTDDADEFNDLVQEQ M-ISGN----QDLPEGGFDGFLQSLLCTNLIGWRD-----VSRKLLLYITDAGFHFAGDGKLGGLI Trichodesmium ----------------------------------------------------------------------------------------------------- - Capitella (annelid) -----NGCAAPYAFRNQLPLTDDTSKFKTKVERT Q-ISGN----LDGPEGGFDAIMQAVSCNNEIGWRE-----TARKLLIYSSDAPYHFAGD GKLGGIV Homo (vertebrate) --TSEQNCTTPFSYKNVLSLTNKGEVFNELVGKQ R-ISGN----LDSPEGGFDAIMQVAVCGSLIGWRN-----VTR-LLVFSTDAGFHFAGDGKLGGIV 9 10 NPRGSKDIKKNKNVTNRSKGTAEKLKPEDIHQIQPQQLVLRLRSGEPQTFTLKFKRAEDYPIDLYYL M L Y MK LENVKSLGTD-LMNEMRRITSD- Amastigomonas NPHSRLCEDAVGGDGYGPGMA---------------EDY--PSASLIRDALLRQNVVPIFAVTAGDGGNSRFDNIQLYQDIVNEWGF G-FVYTLESDSSN Homo D S S DD Cow_Ib1 EPFPYKC--YVPDSAFTLPSTNTNAVNRFIDDASTKYD Y--PSFSQLKNALIENNIVPIFGSTA T------GINQRTFQDLVTALGFG-QSGTLATNSDN 11 Amastigomonas NP--------MSEVQSQSTTSSV---------MTPTDVKVFLRLNDPLSFVVTVTPGP I-PLDLVLVEDLSGSMSDDVNTLRALARD-MVTRVRTEIQAD Cow_Ib2 TAFPQRRALQKCHVTPG---TASSSSNFANTINAATLDHEIPSWPQIKAAFLDKNVVPILAITA Y------SSNNDHYDSFINALGFG-GRAGLSGDSSN Cow_Ib3 PHAVYKYAQQRCFTGTDAVWASTE------------YEY--PTLGLLSAALLSEFVVPAFIVT N-------AASNNIYTSLVNQLGFGRADLSLASDSNN Cow_Ib1 SP--------ASRVLGTSGSTPE---------VSPTTTNVFLRAGQPLLVTVSVTPQPCKPVDLYLL MDFSGSMDDDLTKVRSLAQP-LATKVTQLCTDT Ophlitaspongia (sponge) LPHQSIC--RLPNSGPHTGSVPVEYMD------AELFDY--PSVGQIAQALREQDIIPIFAA Q--------RDAREFYDVLAAEIGEGASTGTLASDSSN NPTSN---IRSTTNVANADGVVE---------IRPTTAVVELRKGVPQTVSIVVTIPQRKEVEFFYL F L G MG LRNVKNLGNN-LRDKMQSLCRGS Capitella (annelid) TPNDGHC--HLDDDGLYSASLS--------------QDY--PSIGQLSKIISDKKVNVIFAV T--------KSRVPIYRLLGDFIEGS-TVGELANDSSN Cow_Ib2 D S S DD Homo (vertebrate) LPNDGQC--HLENNMYTMSHY---------------YDY--PSIAHLVQKLSENNIQTIFAV T--------EEFQPVYKELKNLIPKS-AVGTLSANSSN Cow_Ib3 NPS-------STYTAAPISGTPE---------IYPAAANVTLRYNIPVVVPITVTVSTSKPLDLFIL LDVSATMADDLATLKSFTQTAFSNSINKNCNGG 11 Cow_Ib4 NPTGQ---LLPNNVPGASAGAFQPSPSAS V--FSPANGTAQLRMGREFTFDITVTPVQYPPVDFYLL