#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 July 24, 2025; 16:48 GMT TreeBASE (cc) 1994-2008 Study reference: Ferreira filho J.A., Horta M.C., Beloti L.L., Dos santos C.A., & De souza A.P. 2017. Carbohydrate-active enzymes in Trichoderma harzianum: a bioinformatic analysis bioprospecting for key enzymes for the biofuels industry. BMC Genomics , 18(179). TreeBASE Study URI: http://purl.org/phylo/treebase/phylows/study/TB2:S21560] [ The following blocks are input data for analysis step 21597 ] BEGIN TAXA; TITLE TaxaForAnalysisStep21597; DIMENSIONS NTAX=22; TAXLABELS Beauveria_bassiana_EJP65452.1 Cordyceps_militaris_EGX90755.1 Fusarium_oxysporum_KNB10101.1 Metarhizium_acridum_EFY92676.1 'Metarhizium robertsii XP_011411637.1' Neurospora_crassa_KHE80150.1 Neurospora_crassa_KHE84465.1 Neurospora_crassa_KHE85031.1 Neurospora_crassa_KHE85853.1 Neurospora_crassa_KHE87501.1 Pochonia_chlamydosporia_OAQ64763.1 Pochonia_chlamydosporia_OAQ68931.1 'Trichoderma atroviride XP_013941775.1' 'Trichoderma atroviride XP_013944427.1' 'Trichoderma atroviride XP_013949120.1' Trichoderma_harzianum_KKO97781.1 Trichoderma_harzianum_KKO97863.1 Trichoderma_harzianum_KKP05760.1 Trichoderma_reesei_ETS03449.1 'Trichoderma virens XP_013953575.1' 'Trichoderma virens XP_013954128.1' 'Trichoderma virens XP_013957375.1' ; END; BEGIN CHARACTERS; [! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M42583] TITLE Trichoderma_harzianum_AA9; LINK TAXA = TaxaForAnalysisStep21597; DIMENSIONS NCHAR=265; 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 90 100 110 120 130 140 150 160 170 180 190 200 210 220 230 240 250 260 ] [ . . . . . . . . . . . . . . . . . . . . . . . . . . ] Beauveria_bassiana_EJP65452.1 -------MKLLHMLVMASAATAHTMFTTLYVDGKNQGDGTCVRMPMNGAT---GTAPIYPITGDA--MACGYGGRDPVPFVCP---AASGAKLTFEFRLWPNAQHPGALDV-GHK-GPCAVYLKRVDDM---FSE-PA--AGDGWFKIWDDGYDNKTQEWCSDRLISHDGL-LSVRLPTGLAPGYYLVRPEILALHFA-YKGDPQFYLGCAQIFVQGAGAS-VPKEMVSIPGYVNADTPGLGFNIH-KDVIPAYPMLGPSVYAPP Cordyceps_militaris_EGX90755.1 ------------MLALASAATAHTLFTTLYINGKNQGDGTCVRMPKSGAT---GTSPIYPITGDA--MACGYGGRDPVPFVCP---AASGAKLTFEFRLWPDAQHPGAIDE-GHK-GPCAVYLKRVDDM---FAD-PP--AGDGWFKIWDDGYDSETKEWCSDRLRAHDGL-LSVNLPTGLAPGYYLVRPEILALHFA-YKGDPQFFLGCAQIFVQGAGAV-IPKDTVSIPGYVNAQTPGLGFDIN-KEPLPAYPMPGPAVYLPP Fusarium_oxysporum_KNB10101.1 ------MHFLYSLLATAGLAAAHGYVETGTIETQTYQFYNPYTDPYMNPV---PKRISRPIPGNGPVEDVTSIDMQCNGYTAGGIKGSSPAALHADAKAGSTVNLKWTLWPDSHV-GPVITYMARCPDSG--CDTWQP-GTQKVWFKIQEAGRDGTSNNWATSPLMKSGNSGVNYTIPECIKPGYYLVRHELIALHSASGYPGAQFYPGCHQLKVSGSGSTT-PSNLVAFPGAYASTDPGVTYNPY-Q-ATS-YKIPGPAVFKC- Metarhizium_acridum_EFY92676.1 --------MKFGVLVLASAASAHTLFTTLYINGKNQGDGTCVRMPHDSST---ANGPIYPITGDD--MSCGRDGNNAVAFTCP---APHNATLTFKFREWTDGSNSRVIAP-EHK-GPCSVYLKKVDDM---YANNSA--AGPGWFKVWEDGYDSASGQWCVDKLIDREGL-LSVRLPEGLPTGYYLVRPEILALHNA-VQGDPQFYLGCAQIYVQQDGPLRIPDENVSIPGHVSADTPGLTFDIY-KKPHGEYPIPGPKVFIPM 'Metarhizium robertsii XP_011411637.1' --------MKFGVLVLASAASAHTLFTTLYVNGKNQGDGTCVRMPHDSST---ANGPIYPITGED--MSCGRDGNKAVAYTCP---APHNATLTFKFREWTDGTRPGVIAP-EHK-GPCSVYLKKMDDM---YADNAA--AGPGWFKVWEDGYDAGSGQWCVDKLIEKEGL-LSVRLPEGLPAGYYLVRPEILALHNA-PQGDPQFYLGCAQIYVQEDGPLRIPDENVSIPGHVSADTPGLTYNIY-KKSQGEYPIPGPKVFVPM Neurospora_crassa_KHE80150.1 --MVRALRLLASC-AMFSQALAHSHILYLIINGQQYRGFNPHAPDAITNS------IGWSTSAVD-DGFVTPSNYSNPDIICH--RDGKPAKAHAPVKAGDKIQIQWNGWPQSHK-GPVLSYLAPCANTTDGCASVDK--RKLSWTKIDDSSKGGPPGRWATDVLIAQNNT-WLLGLPNDLEPGPYVLRHELIALHYANLKNGAQNYPQCVNLWVEGPGPKAITVGGVPATALYKATDPGVAIDIY-TAVLSTYVIPGPTLAPE- Neurospora_crassa_KHE84465.1 --MRSTTVLAGLATVLAPLASAHTVLTTVFVNDKNQGDGTGVRMPMDGNI---ANAPVINMNSDD--MICGRDGLKKVNYAIP---ATAGSKMTFEFRTYVDGSRPQFIDK-SHQ-GPISVYAKAVSD----FDQ-SP--GGSGWFKIWHDGYDESTGKWAVQKVIDTNGL-LSISLPTGMPTGAYLLRTEVIAMQNVTTKADPQFYVNCAQVYVQGSGPLSIPKDETSIPGHVHPSDKGLNFNMYDMKGLLPYQIPGPVPFRPV Neurospora_crassa_KHE85031.1 ---MARMSILTAL-AGASLVAAHGHVSKVIVNGVEYQNYDPTSFPYNSNP---PTVIGWTIDQKD-NGFVSPDAFDSGDIICH--KSAKPAGGHATVKAGDKISLQWDQWPESHK-GPVIDYLAACDGD---CESVDK--TALKFFKIDGAGYDATNG-WASDTLIKDGNS-WVVEIPESIKPGNYVLRHEIIALHSAGQANGAQNYPQCFNLKVEGSGSTV-PAG-VAGTELYKATDAGILFDIY-KNDIS-YPVPGPSLIAGC Neurospora_crassa_KHE85853.1 ------MKTFATLLASIGLVAAHGFVDNATIGG---QFYQPYQDPYMGSP---PDRISRKIPGNGPVEDVTSLAIQCN---AD----SAPAKLHASAAAGSTVTLRWTIWPDSHV-GPVITYMARCPDTG--CQDWTPSASDKVWFKIKEGGREGTSNVWAATPLM-TAPANYEYAIPSCLKPGYYLVRHEIIALHSAYSYPGAQFYPGCHQLQVTGSGTKT-PSSLVSFPGAYKSTDPGVTYDAY-Q-AAT-YTIPGPAVFTC- Neurospora_crassa_KHE87501.1 MPSFTSKSLLAVL-AGAASVAAHGHVSNIVINGEYYRGFD-SSLNYMANP---PAVVGWKANNQD-NGFVGPDAFSSPDIICH--KDATNAKGHAVVKAGDKISIQWETWPESHK-GPVIDYLANCGASG--CETVDK--TSLEFFKIDEVG-DGQK--WGSDQLIANNNS-WLVEIPPTIAPGFYVLRHEIIALHSAGQPNGAQNYPQCFNIQVTGSGTEK-PAG-VKGTALYKPDDAGISVNIY-QSLSS-YSIPGPALIKG- Pochonia_chlamydosporia_OAQ64763.1 --MLETHHLLTLL-AYAITASAHGHISNVVINGVSYPGYDSPAWYGNPNA---PNVFGWTISQQD-NGFVSPDAFGSSDIICH--REAVPAKSHVQVAAGDILTLQWTPWPDSHH-GPVIDYLANCNGP---CESVDK--TTLEFFKIDGVGSQGSPGTYADDVLISKNNT-WEVKIPANIAPGNYVLRHEIIALHSAGSENGAQAYPQCFNLKITGSGSLK-PAG-VKGTALYKATDPGILVNIY-TSSVN-YIVPGPTLVAGC Pochonia_chlamydosporia_OAQ68931.1 --------MKFGLLTLASVASAHTLFSTLFINGKNQGDGTCVRMPRGGSG---ATAPIYPIDGAD--MACGRDGNKPVEFTCP---VPHKATLTVQFRIYSDGSRQGAIAP-GHL-GPCAVYLKKVDDM---YANNSA--AGPGWFKIWEDGLDTASGKWCVDRLIASKGL-LSVNLPTGLPAGYYLVRPEILALHNA-VDGDPQFYVGCAQIYVQQDGPLNIPDGSVSIPGYVSADTPGVKFNIY-KKPLPKYTIPGPKVFIPP 'Trichoderma atroviride XP_013941775.1' --MKAYTNARLLMLGLAALANAHTTFTTLYVDRKSQGDGTCVRMPYDGET---ATFPIKSVVSED--MVCGRNGTEPVPFVCP---TKKGSLLTFEFRLWPDAQKPGSIDP-GHL-GPCAVYLKKVDNM---LTD-SA--SGDGWFKIWEDGYNPETQKWCVDTLVEKNGL-LSVNLPQGLPAGYYLVRPEILALHWAAHRNDPQYYLGCAQIFLDSKGALDVPKELATIPGYVDLDTPGLTFDVY-QDDIEYYPIPGPKVFTPM 'Trichoderma atroviride XP_013944427.1' MAQKLSNLFAIAL-TVATGVVGHGHVNNIVVNGVYYQGYDPTSFPYMPDP---PIVVGWTAADTD-NGFVSPDAYQTPDIVCH--KNGTNAKGHASVKAGDSVLFQWVPVPWPHK-STVVDYLANCNGP---CETVDK--TTLEFFKIDGIGSGGNPGTWGSDVLIGNNNT-WVIQIPEDLQTGNYVLRHELIALHSAEQADGAQNYPQCFNLAVTGTGSLQ-PSG-VLATDLYHETDPGILFNIY-TSPLT-YIIPGPTVVSGC 'Trichoderma atroviride XP_013949120.1' -MKSAAKLTLTALGCLAGSVLGHGQVQNFTINGAYNQGFILDYYYDKVNTGKFPNVAGWYAEDLD-LGFIAPDAYTTPDIICH--KNSAPGAITATIPAGGTVVFYWGPNPWPHPYGPIITYLAQCSGS---CTNVDK--TSLRWVKIQESGYSTQV--WANQVLINQGNK-WSVTIPSSLKAGNYVIRHEILAAHGAGSADGMQNYPQCINLAITGSGTKSLPAG-TAATALYKPTDPGILFNPY-TTITN-YTIPGPALWQG- Trichoderma_harzianum_KKO97781.1 -MKSS---VVAALGCLAGSALGHGQIQNFTVNGAYNQGFILDYYYQKVNTGHFPNVAGWYAEDLD-LGFISPDAYTTPDIICH--KNAAPGAATATAAAGSTIVFSWGPGPWPHPYGPILTYVAQCSGS---CTAVDK--ASLRWVKIQESGYNTQV--WAQQDLINQGNK-WTVKIPSSLKPGNYVFRNELLAAHGASSQNGMQNYPQCVNIVVTGSGTKSLPAG-TPATSLYKPTDPGILFNPY-TTITN-YTIPGPALWQG- Trichoderma_harzianum_KKO97863.1 --MK-HCIATFLLLSLASMASAHTSFTTLFIDRKNQGDGTCVRTPSDGET---ATNPIHPITSED--IVCGRDGNQAVSFICP---ANQGSLLTFEWRQWPDAQQPGSIDP-GHL-GPCAVYIKKVDDM---FTE-SA--AGGGWFKIWEDGYNPVTQKWCVDRLVENNGL-LSVNLPRGLPSGYYIVRPEIVALHWAVHRDDPQYFVGCAQIFVNSQGPLNVPEELTSIPGYVDLSTPGLKYDIY-QNNLPPYPIPGPKVYIPM Trichoderma_harzianum_KKP05760.1 MAQKLSNLLATAL-TVATGVVGHGHVNNIIVNGVYYQGYDPTSFPYMSDP---PIVIGWTAADLD-NGFVSPDAYQSPDIVCH--KNATNAKGHASVKAGDSILLQWLPLPWPHP-GPIVDYLANCNGD---CETVDK--TTLEFFKIDGVGSGADPGNWAQNVLVTNNNT-WVVQIPKDLQTGNYVLRHELIALHSSGQPDGAQNYPQCFNLAVTGTGSLQ-PTG-VLATDLYHESDPGILVNIY-TSSLA-YTMPGPSVVAGC Trichoderma_reesei_ETS03449.1 --MK-LWIG-LLLLGLACRASAHTTFTTLFIDKKNQGDGTCVRMPYDDKT---ATNPVKPITSSD--MACGRNGGDPVPFICS---AKKGSLLTFEFRLWPDAQQPGSIDP-GHL-GPCAVYLKKVDNM---FSD-SA--AGGGWFKIWEDGYDSKTQKWCVDRLVKNNGL-LSVRLPRGLPAGYYIVRPEILALHWAAHRDDPQFYLGCAQIFVDSRGPLEIPRRQATIPGYVNAKTPGLTFDIY-QDKLPPYPMPGPKVYIPM 'Trichoderma virens XP_013953575.1' MTQKLTSLLVTAL-TVATGVIGHGHVNNIVINGAYYQGYDPTLFPYEPNP---PIVVGWTASDTD-NGFVAPDAYQSPDIICH--RNATNARGHASVMAGSSVLIQWVPIPWPHP-GPVLDYLANCNGD---CETVDK--TTLEFFKIDGIGSGGNPGRWASDVLIGNNGT-WVVQIPADLETGNYVLRHELIALHSAGSVDGAQNYPQCFNLAVTGTGSLQ-PTG-VLGTKLYQESDPGILFNIY-TSPLT-YTIPGPTVVSGC 'Trichoderma virens XP_013954128.1' -MKSSTTHILTALGCLTWGVLGHGQIQNFTVNGVYNQGFILDYYYQKVNTGHFPNVAGWYAEDLD-LGFVAPDAYTTPDIVCH--KNSAPGAASATVPAGGTIVFQWGPGPWPHPYGPILTYLAQCSGS---CTTVDK--TSLRWVKIQEQGYNTQV--WAQQDLINQGSK-WTVKIPSSLKPGNYVIRSELLAAHGATSLNGMQNYPQCINIVVTGSGTKSLPAG-TPATSLYKPTDPGILFNPY-TTIKS-YTIPGPALWVG- 'Trichoderma virens XP_013957375.1' --MK-RSIAGLLSLGLASVASAHTSFTTLFIDRKSQGDGTCVRTPFDGET---ATVPIRPITSDD--MVCGRNGTEAVSFICP---AKKGSLLTFEFRLWPDAQAPGSIDP-GHL-GPCAVYVKKVDDM---FTE-SA--AGAGWFKIWEDGYDPVTRKWCVDRLVENNGL-LSVNLPRGLPAGYYIVRPEILALHWAVHRNDPQYFLGCAQIFLNSQGPLDVPKDLTSIPGYVDATTPGLTYDIY-REDLPPYPIPGPKVHVPM ; END; [ The following blocks are output data for analysis step 21597 ] BEGIN TREES; TITLE Trichoderma_harzianum_AA9; LINK TAXA = TaxaForAnalysisStep21597; TREE tree_1 = [&R] (((((('Trichoderma atroviride XP_013944427.1':1.0,Trichoderma_harzianum_KKP05760.1:1.0):1.0,'Trichoderma virens XP_013953575.1':1.0):1.0,(Pochonia_chlamydosporia_OAQ64763.1:1.0,(Neurospora_crassa_KHE85031.1:1.0,Neurospora_crassa_KHE87501.1:1.0):1.0):1.0):1.0,(Neurospora_crassa_KHE80150.1:1.0,('Trichoderma atroviride XP_013949120.1':1.0,('Trichoderma virens XP_013954128.1':1.0,Trichoderma_harzianum_KKO97781.1:1.0):1.0):1.0):1.0):1.0,(Fusarium_oxysporum_KNB10101.1:1.0,Neurospora_crassa_KHE85853.1:1.0):1.0):1.0,(Neurospora_crassa_KHE84465.1:1.0,(((Metarhizium_acridum_EFY92676.1:1.0,'Metarhizium robertsii XP_011411637.1':1.0):1.0,Pochonia_chlamydosporia_OAQ68931.1:1.0):1.0,((Beauveria_bassiana_EJP65452.1:1.0,Cordyceps_militaris_EGX90755.1:1.0):1.0,(Trichoderma_reesei_ETS03449.1:1.0,('Trichoderma atroviride XP_013941775.1':1.0,(Trichoderma_harzianum_KKO97863.1:1.0,'Trichoderma virens XP_013957375.1':1.0):1.0):1.0):1.0):1.0):1.0):1.0); [! TreeBASE tree URI: http://purl.org/phylo/treebase/phylows/tree/TB2:Tr106864] END;