#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 April 18, 2026; 9:01 GMT TreeBASE (cc) 1994-2008 Study reference: Du plessis I.L., Druzhinina I., Yarden O., & Jacobs K. 2016. The diversity of Trichoderma spp. in South Africa. Mycologia, . TreeBASE Study URI: http://purl.org/phylo/treebase/phylows/study/TB2:S19505] [ The following blocks are input data for analysis step 18711 ] BEGIN TAXA; TITLE TaxaForAnalysisStep18711; DIMENSIONS NTAX=23; TAXLABELS 'Trichoderma crassum DAOM_164916' 'Trichoderma fertile DAOM_167161' 'Trichoderma gelatinosum CPK_1618' 'Trichoderma gelatinosum GJS_88-17' 'Trichoderma helicum DAOM_230016' 'Trichoderma helicum DAOM_230017' 'Trichoderma longipile CBS_120953' 'Trichoderma longipile DAOM_177227' 'Trichoderma longipile GJS_91-93' 'Trichoderma phyllostachydis CBS_114071' 'Trichoderma phyllostachydis GJS_92-123' 'Trichoderma spirale CBS_120963' 'Trichoderma spirale DAOM_177714' 'Trichoderma spirale DAOM_183974' 'Trichoderma spirale DAOM_229883' 'Trichoderma spirale PPRI_20681' 'Trichoderma strictipile DAOM_167072' 'Trichoderma strictipile DAOM_172827' 'Trichoderma virens DAOM_237548' 'Trichoderma virens GJS_06_114' 'Trichoderma virens GJS_95-78' 'Trichoderma virens GLI_39' 'Trichoderma virens PPRI_20676' ; END; BEGIN CHARACTERS; [! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M37201] TITLE Trichoderma_virens_clade_sup._fig._3; LINK TAXA = TaxaForAnalysisStep18711; DIMENSIONS NCHAR=371; FORMAT DATATYPE=DNA SYMBOLS= "A C G T" MISSING=? GAP= -; MATRIX [ 10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220 230 240 250 260 270 280 290 300 310 320 330 340 350 360 370 ] [ . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ] 'Trichoderma crassum DAOM_164916' AGT-GGGGGTGCGCCAGCA----ACCCCACCACTACCT--CGCTGC-TTTTTGCCCTCGT-CTACCACTTCCCAGTCCTCATTC--AACG-ATCTGTGTCTCGTTA--GTTGCAGCAATGCTAACCACCGTTCCCTCAACAGGAAGCCGCCGAACTCGGCAAGGGTTCCTTCAAGTACGCATGGGTTCTTGACAAGCTCAAGGCCGAGCGTGAGCGTGGTATCACCATCGACATTGCCCTGTGGAAGTTCGAGACTCCCCGATACTATGTCACCGTCATTGGTATGTCTCATCA----CATTCATCCCGCAACTACAAACCAGTGCTAACCAAAACCT--CACAGACGCCCCCGGCCACCGTGATTTCATC 'Trichoderma fertile DAOM_167161' AGT--GGGGTGTACCGGCA----ACCCCACTGCCGCTCACT------GTTCTGCCCTTGA-TTACCACTGCCCAG-TGTCATTC--AACGCTTTTGTGCCT-GTCA--CTTGCAGCGATGCTAACCACGTTTCCCTCAACAGGAAGCCGCCGAACTCGGCAAGGGTTCTTTCAAGTACGCATGGGTTCTTGACAAGCTCAAGGCCGAGCGTGAGCGTGGTATCACCATTGACATCGCTCTGTGGAAGTTCGAGACTCCCAAGTACTATGTCACCGTCATTGGTATGTCTGATTCATCACATTCATGCGGCATCGGCAAGCATGTGCTAACACAAACTT--GACAGACGCTCCCGGCCATCGTGATTTCATC 'Trichoderma gelatinosum CPK_1618' AGT-GGGGTGGCACCAGCATTCCCCCCCACCACCACCTCTCACTGC-TTTCTGCTCTTGT-CTACCGCTACACTGTTGCCATTC--AGCGCTTTTGTGTCTCGT----------GCGATGCTAACCGCCTTTCCCTCAACAGGAAGCCGCCGAACTCGGCAAGGGTTCCTTCAAGTACGCTTGGGTTCTTGACAAGCTCAAGGCCGAGCGTGAGCGTGGTATCACCATCGACATTGCCCTGTGGAAGTTCGAGACTCCCAAGTACTATGTCACTGTCATTGGTATGTCTGATCTATGA---CCGTCCTCCGACAGCTAGCCCGTGCTAATCGAAGTCTCACACAGATGCTCCCGGCCATCGTGATTTCATC 'Trichoderma gelatinosum GJS_88-17' AGT-GGGGTGGCACCAGCATTCCCCCCCACCACCACCTCTCACTGC-TTTCTGCTCTTGT-CTACCGCTACACTGTTGCCATTC--AGCGCTTTTGCGTCTCGT----------GCGATGCTAACCGCCTTTCCCTCAACAGGAAGCCGCCGAACTCGGCAAGGGTTCCTTCAAGTACGCTTGGGTTCTTGACAAGCTCAAGGCCGAGCGTGAGCGTGGTATCACCATCGACATTGCCCTGTGGAAGTTCGAGACTCCCAAGTACTATGTCACTGTCATTGGTATGTCTGATCTATGA---CCGTCCTCCGACAGCTAGCCCGTGCTAATCGAAGTCTCACACAGATGCTCCCGGCCATCGTGATTTCATC 'Trichoderma helicum DAOM_230016' AGT-GGGGGCGCACAAGCA----ACCCCACCACTATCT--CGTAGC-TTTTTTTCCCTGCTCTATCAAT---------------------------TGTATCAATA---GTTCAGCGATGCTAACCACCTTTCCCTCTACAGGAAGCCGCCGAACTCGGCAAGGGTTCCTTCAAGTATGCTTGGGTTCTTGACAAGCTCAAGGCCGAGCGTGAGCGTGGTATCACCATCGACATTGCTCTGTGGAAGTTCGAGACTCCCAAGTACTATGTCACCGTCATTGGTATGTCTCATTCATCGCATCCGAGTCGCATCAGTCAGCCAGTGCTAACAATAGCTT--CACAGACGCTCCCGGCCACCGTGATTTCATC 'Trichoderma helicum DAOM_230017' AGT-GGGGGCGCACAAGCA----ACCCCACCACTATCT--CGAAGC-TTTTTTTCCCTGCTCTATCAAT---------------------------TGTATCAATA---GTTCAGCGATGCTAACCACCTTTCCCTCTACAGGAAGCCGCCGAACTCGGCAAGGGTTCCTTCAAGTATGCTTGGGTTCTTGACAAGCTCAAGGCCGAGCGTGAGCGTGGTATCACCATCGACATTGCTCTGTGGAAGTTCGAGACTCCCAAGTACTATGTCACCGTCATTGGTATGTCTCATTCATCGCATCCGAGTCGCATCAGTCAGCCAGTGCTAACAATAGCTT--CACAGACGCTCCCGGCCACCGTGATTTCATC 'Trichoderma longipile CBS_120953' AGT-GGGGGCGCA-CAGCA----ACCCCACCACTGCCATTCACTGG-TTTTTGCACTTCA-CTACAACTCC-CAGCTGCCACTC--AGCACCTCTATATCTCGTCA--CTTTCAGCGATGCTAACCATCTTTCCCCCAACAGGAAGCCGCCGAACTCGGCAAGGGTTCTTTCAAGTACGCATGGGTTCTTGACAAGCTCAAGGCCGAGCGTGAGCGTGGTATCACCATCGACATTGCTCTGTGGAAGTTCGAGACTCCCAAGTACTATGTCACCGTCATTGGTATGTCTGATTCATCATTTCTGTGCTGCGTCTGCAAGCTTGTGCTAATGCAAACAT--GACAGACGCTCCCGGCCACCGTGATTTCATC 'Trichoderma longipile DAOM_177227' AGT-GGGGGCGCA-CAGCA----ACCCCACCACTGCCATTCACTGG-TTTTTGCACTTCA-CTACAACTCC-CAGCTGCCACTC--AGCACCTCTATATCTCGTCA--CTTTCAGCGATGCTAACCATCTTTCCCCCAACAGGAAGCCGCCGAACTCGGCAAGGGTTCTTTCAAGTACGCATGGGTTCTTGACAAGCTCAAGGCCGAGCGTGAGCGTGGTATCACCATCGACATTGCTCTGTGGAAGTTCGAGACTCCCAAGTACTATGTCACCGTCATTGGTATGTCTGATTCATCATTTCTGTGCTGCGTCTGCAAGCTTGTGCTAATGCAAACAT--GACAGACGCTCCCGGCCACCGTGATTTCATC 'Trichoderma longipile GJS_91-93' AGT-GGGGGCGCA-CAGCA----ACCCCACCACTGCCATTCACTGC-TTTTTGCACTTCA-CTACAACTCC-CAGCTGCCACTC--AGCACCTCTATATCTCGTCA--CTTTCAGCGATGCTAACCATCTTTCCCCCAACAGGAAGCCGCCGAACTCGGCAAGGGTTCTTTCAAGTACGCATGGGTTCTTGACAAGCTCAAGGCCGAGCGTGAGCGTGGTATCACCATCGACATTGCTCTGTGGAAGTTCGAGACTCCCAAGTACTATGTCACCGTCATTGGTATGTCTGATTCATCATTTCTGTGCTGTGTCTGCAAGCTTGTGCTAATGCAAACAT--GACAGACGCTCCCGGCCACCGTGATTTCATC 'Trichoderma phyllostachydis CBS_114071' AGT-GGGGGCGCACCGGCA----ACCCCACCACTGCCA---------CTTTTGCCCTTCA-CTGCCGTTATCCAGTTACCATTTCAAACGCTTTTGTGTGTCATCACTTTCACAGCGATGCTAACCATTTTTCCCTCGATAGGAAGCCGCTGAACTCGGCAAGGGTTCCTTCAAGTACGCTTGGGTTCTTGACAAGCTCAAGGCCGAGCGTGAGCGTGGCATCACCATCGACATTGCTCTGTGGAAGTTCGAGACTCTCAACTACGTGGTCACCGTCATTGGTATGTCTGATCCATCACCTCGATGCGGCATTCGCAAGCCTATGCTAACGCAAACTT--GACAGACGCTCCCGGCCACCGTGATTTCATC 'Trichoderma phyllostachydis GJS_92-123' AGT-GGGGGCGCACCGGCA----ACCCCACCACTGCCA---------CTTTTGCCCTTCA-CTGCCGTTATCCAGTTACCATTTCAAACGCTTTTGTGTGTCATCACTTTCACAGCGATGCTAACCATTTTTCCCTCGATAGGAAGCCGCTGAACTCGGCAAGGGTTCCTTCAAGTACGCTTGGGTTCTTGACAAGCTCAAGGCCGAGCGTGAGCGTGGCATCACCATCGACATTGCTCTGTGGAAGTTCGAGACTCTCAACTACGTGGTCACCGTCATTGGTATGTCTGATCCATCACCTCGATGCGGCATTCGCAAGCCTATGCTAACGCAAACTT--GACAGACGCTCCCGGCCACCGTGATTTCATC 'Trichoderma spirale CBS_120963' AGT-GGGGTTGCTGGTGC-----ACCCCACTGCTGCCTGTCACTGC-TTTTTGTCCTTCA-CTACGACCACCT------------------------------TCA--TTTTCAACGATGCTAACCATCTTTCCCTCAATAGGAAGCCGCCGAACTCGGCAAGGGTTCCTTCAAGTACGCTTGGGTTCTTGACAAGCTCAAGGCCGAGCGTGAGCGTGGTATCACCATTGATATCGCTCTGTGGAAGTTCGAGACTCCTAAGTACTATGTCACCGTCATTGGTATGTTTGACTCATTACCTTCATGCTATAATTGCAACTCGGTGCTAACGCAAACAT--TACAGACGCCCCCGGCCACCGTGATTTCATC 'Trichoderma spirale DAOM_177714' AGTGGGGGTTGCACCAGCA----ACCCCACCGCTGCCTATCACTGCTTTTTTGTCCTTCA-CTACGACGACACAGTTAT------------------------TCA--TTTTCAGCGATGCTAATCATCTTTCCCTCAACAGGAAGCCGCCGAACTCGGCAAGGGTTCCTTCAAGTACGCTTGGGTTCTTGACAAGCTCAAGGCCGAGCGTGAGCGTGGTATCACCATCGATATCGCTCTGTGGAAGTTCGAGACTCCTAAGTACTATGTCACCGTCATTGGTATGTCTGATTCACTACTTCCATGCTGCAATTGCAACTCGGTGCTAACGCAAACAT--CACAGACGCCCCCGGCCACCGTGATTTCATC 'Trichoderma spirale DAOM_183974' AGT--GGGGTGCACCAGCA----ACCCCACCGCCGCCTATCGCTGC-TTTTTGCCCTTCA-CTACGACTACACAGTTAC------------------------TCA--TTTTCAACGATGCTAACCATCTTTCCCTCAACAGGAAGCCGCCGAACTCGGCAAGGGTTCCTTCAAGTACGCTTGGGTTCTTGACAAGCTCAAGGCCGAGCGTGAGCGTGGTATCACCATTGATATCGCTCTGTGGAAGTTCGAGACTCCCAAGTACTATGTCACCGTCATTGGTATGTCTCATTTATTACCTCCATGCTACAATTGCAACTCGGTGCTAATGCAAACAT--TACAGACGCCCCCGGCCACCGTGATTTCATC 'Trichoderma spirale DAOM_229883' AGT-GGGGTTGCTGGTGC-----ACCCCACTGCTGCCTGTCACTGC-TTTTTGTCCTTCA-CTACGACCACCT------------------------------TCA--TTTTCAACGATGCTAACCATCTTTCCCTCAATAGGAAGCCGCCGAACTCGGCAAGGGTTCCTTCAAGTACGCTTGGGTTCTTGACAAGCTCAAGGCCGAGCGTGAGCGTGGTATCACCATTGATATCGCTCTGTGGAAGTTCGAGACTCCTAAGTACTATGTCACCGTCATTGGTATGTTTGACTCATTACCTTCATGCTATAATTGCAACTCGGTGCTAACGCAAACAT--TACAGACGCCCCCGGCCACCGTGATTTCATC 'Trichoderma spirale PPRI_20681' AGT-GGGGTTGCTGGTGC-----ACCCCACTGCTGCCTGTCACTGC-TTTTTGTCCTTCA-CTACGACCACCT------------------------------TCA--TTTTCAACGATGCTAACCATCTTTCCCTCAATAGGAAGCCGCCGAACTCGGCAAGGGTTCCTTCAAGTACGCTTGGGTTCTTGACAAGCTCAAGGCCGAGCGTGAGCGTGGTATCACCATTGATATCGCTCTGTGGAAGTTCGAGACTCCTAAGTACTATGTCACCGTCATTGGTATGTTTGACTCATTACCTTCATGCTATAATTGCAACTCGGTGCTAACGCAAACAT--TACAGACGCCCCCGGCCACCGTGATTTCATC 'Trichoderma strictipile DAOM_167072' AGT--GGGGTGTACCAGCA----ACCCCACTGTCGCTCACT------GTTCTGCCCTTCA-TTCCCACTACCCAG-TGTCATTC--AACGCTTTTGTGCCT-GTCA--CTTGCAGCGATGCTAACCATGTTTCCCTCAACAGGAAGCCGCCGAACTCGGCAAGGGTTCTTTCAAGTACGCATGGGTTCTTGACAAGCTCAAGGCCGAGCGTGAGCGTGGTATCACCATTGACATCGCTCTGTGGAAGTTCGAGACTCCCAAGTACTATGTCACCGTCATTGGTATGTCTGATTCATCACATTCATGCGGCATCGGCAAGCATGTGCTAACACAAACTT--GACAGACGCTCCCGGCCATCGTGATTTCATC 'Trichoderma strictipile DAOM_172827' AGT--GGGGTGTACCAGCA----ACCCCACTGCCGCTCACT------GTTCTGCCCTTCA-TTCCCACTACCCAG-TGTCATTC--AACGCTTTGGTGCCT-GTCA--CTTGCAGCGATGCTAACCATGTTTCCCTCAACAGGAAGCCGCCGAACTCGGCAAGGGTTCTTTCAAGTACGCATGGGTTCTTGACAAGCTCAAGGCCGAGCGTGAGCGTGGTATCACCATTGACATCGCTCTGTGGAAGTTCGAGACTCCCAAGTACTATGTCACCGTCATTGGTATGTCTGATTCATCACATTCATGCGGCATCGGCAAGCATGTGCTAACACAAACTT--GACAGACGCTCCCGGCCATCGTGATTTCATC 'Trichoderma virens DAOM_237548' AGT-GGGGGTGCACCAGCA----ACCCCACCACTACCT--CGCTGC-TCTTTGCCCTTGTCCTATCACCTCCCAGTCCTCGTCC--AACG-ATCTGTGTCTCGATA--ATTGCAGCGATGCTAACCACCGTTCCCTCAACAGGAAGCCGCCGAACTCGGCAAGGGTTCCTTCAAGTACGCTTGGGTTCTTGACAAGCTCAAGGCCGAGCGTGAGCGTGGTATCACCATCGACATTGCCCTGTGGAAGTTCGAGACTCCCAAGTACTATGTCACCGTCATTGGTATGTCTCATCAC---TTTTCATCCAGCTCCCGCAAACCAGTGCTAACCAGGACCT--CACAGACGCCCCCGGCCACCGTGATTTCATC 'Trichoderma virens GJS_06_114' AGT-GGGGGTGCACCAGCA----ACCCCGCCACTACCT--CGCTGC-TCTTTGCCCTCGT-CTACCACTTCCTAGTCCTCATTC--AACG-ATCTGTGTCTCGTTA--TTTGCAGCGATGCTAACCACCGTCCCCTCAACAGGAAGCCGCCGAACTCGGCAAGGGTTCCTTCAAGTACGCTTGGGTTCTTGACAAGCTCAAGGCCGAGCGTGAGCGTGGTATCACCATCGACATTGCCCTGTGGAAGTTCGAGACTCCCAAGTACTATGTCACCGTCATTGGTATGTCTCGTCC----CATTCATCCAGCTCCCGCAAACCAGTGCTAACCAGGACCT--CACAGACGCCCCCGGCCACCGTGACTTCATC 'Trichoderma virens GJS_95-78' AGT-GGGGGTGCACCAGCA----ACCCCACCACTACCT--CGCTGC-TCTTTGCCATCGT-CTACCACTTCCCAGTCCTCATTC--AACG-ATCTGTGTCTCGTTA--TTTGCAGCGATGCTAACCACCGTTCCCTCAACAGGAAGCCGCCGAACTCGGCAAGGGTTCCTTCAAGTACGCTTGGGTTCTTGACAAGCTCAAGGCCGAGCGTGAGCGTGGTATCACCATCGACATTGCCCTGTGGAAGTTCGAGACTCCCAAGTACTATGTCACCGTCATTGGTATGTCTCGTCC----CATTCATCCAGCCCCCGCAAACCAGTGCTAACCAGGACCT--CACAGACGCCCCCGGCCACCGTGATTTCATC 'Trichoderma virens GLI_39' AGT-GGGGGTGCACCAGCA----ACCCCACCACTACCT--CGCTGC-TCTTTGCCATCGT-CTACCACTTCCCAGTCCTCATTC--AACG-ATCTGTGTCTCGTTA--TTTGCAGCGATGCTAACCACCGTTCCCTCAACAGGAAGCCGCCGAACTCGGCAAGGGTTCCTTCAAGTACGCTTGGGTTCTTGACAAGCTCAAGGCCGAGCGTGAGCGTGGTATCACCATCGACATTGCCCTGTGGAAGTTCGAGACTCCCAAGTACTATGTCACCGTCATTGGTATGTCTCGTCC----CATTCATCCAGCCCCCGCAAACCAGTGCTAACCAGGACCT--CACAGACGCCCCCGGCCACCGTGATTTCATC 'Trichoderma virens PPRI_20676' AGT-GGGGGTGCACCAGCA----ACCCCACCACTACCT--CGCTGC-TCTTTGCCCTTGT-CTATCACTTCCCAGTCCTCATTC--AACA-ATCTGTGCCTCGTTA--GCTGCAGCGATGCTAACCACCATTCCCTCAACAGGAAGCCGCCGAACTCGGCAAGGGTTCCTTCAAGTACGCTTGGGTTCTTGACAAGCTCAAGGCCGAGCGTGAGCGTGGTATCACCATCGACATTGCCCTGTGGAAGTTCGAGACTCCCAAGTACTATGTCACCGTCATTGGTATGTCTCGTCC----CATTCATCCAGCTCCCGCAAGCCAGTGCTAACCAGGACCT--CACAGACGCCCCCGGCCACCGTGATTTCATC ; END; [ The following blocks are output data for analysis step 18711 ] BEGIN TREES; TITLE Trichoderma_virens_clade_sup._fig._3; LINK TAXA = TaxaForAnalysisStep18711; TREE Fig._3 = [&R] ('Trichoderma phyllostachydis CBS_114071':0.0,'Trichoderma phyllostachydis GJS_92-123':0.0,(((('Trichoderma helicum DAOM_230017':0.006037,'Trichoderma helicum DAOM_230016':0.0):0.22248,(('Trichoderma gelatinosum GJS_88-17':0.005443,'Trichoderma gelatinosum CPK_1618':0.0):0.196219,('Trichoderma crassum DAOM_164916':0.062047,(('Trichoderma virens PPRI_20676':0.032477,'Trichoderma virens DAOM_237548':0.052705):0.015508,(('Trichoderma virens GJS_95-78':0.0,'Trichoderma virens GLI_39':0.0):0.011203,'Trichoderma virens GJS_06_114':0.022613):4.0E-6):0.044173):0.096627):0.030254):0.063065,('Trichoderma fertile DAOM_167161':0.021467,('Trichoderma strictipile DAOM_167072':0.005413,'Trichoderma strictipile DAOM_172827':0.005514):0.006347):0.158012):0.009075,(('Trichoderma longipile GJS_91-93':0.004706,('Trichoderma longipile DAOM_177227':0.0,'Trichoderma longipile CBS_120953':0.0):0.005991):0.141148,('Trichoderma spirale DAOM_183974':0.038971,('Trichoderma spirale DAOM_177714':0.041946,('Trichoderma spirale PPRI_20681':0.0,('Trichoderma spirale DAOM_229883':0.0,'Trichoderma spirale CBS_120963':0.0):0.0):0.101682):0.023782):0.103946):0.026998):0.197439); [! TreeBASE tree URI: http://purl.org/phylo/treebase/phylows/tree/TB2:Tr97200] END;