#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 03, 2025; 22:42 GMT TreeBASE (cc) 1994-2008 Study reference: Nozaki H., Matsuzaki R., Yamamoto K., Kawachi M., & Takahashi F. 2015. Delineating a New Heterothallic Species of Volvox (Volvocales, Chlorophyceae) Using New Strains of "Volvox africanus". PLoS ONE, 10(11): e0142632. TreeBASE Study URI: http://purl.org/phylo/treebase/phylows/study/TB2:S18363] [ The following blocks are input data for analysis step 17307 ] BEGIN TAXA; TITLE TaxaForAnalysisStep17307; DIMENSIONS NTAX=11; TAXLABELS 'Volvox africanus 2013-0703-VO4' Volvox_africanus_UTEX_1889 'Volvox africanus UTEX 1890, 1891' Volvox_africanus_UTEX_1892 Volvox_africanus_UTEX_1893 Volvox_africanus_UTEX_2907 Volvox_dissipatrix Volvox_ovalis 'Volvox reticuliferus 2013-0703-VO1 VO2 VO3' Volvox_spermatosphaera Volvox_tertius ; END; BEGIN CHARACTERS; [! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M34416] TITLE Volvocales_ITS2; LINK TAXA = TaxaForAnalysisStep17307; DIMENSIONS NCHAR=646; FORMAT DATATYPE=DNA SYMBOLS= "A C G T" MISSING=? GAP= -; MATRIX [ 10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220 230 240 250 260 270 280 290 300 310 320 330 340 350 360 370 380 390 400 410 420 430 440 450 460 470 480 490 500 510 520 530 540 550 560 570 580 590 600 610 620 630 640 ] [ . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ] 'Volvox africanus 2013-0703-VO4' ---TTGT--CC---CTCACGAAACGG---G-AGA-A----GAGCTC-TGG-TGCTC-----T----CTGCTCT----CCGTCAC-GTGGATCTGGCTATCCCAGC-------------------CCCGT-AGCCCCTGC-------GGAT-----------GTGGGG-GGT---GCACA------------------------GCTGGGTTCGCTAAAG--TGATGATGCTAGACTCTGTGGA-CCGCTGAA--CGAGTCTCTACTAGGTAGTGTAGGCGAGGCAAGTAATGTGTATTATTCTAACGTCATA-----CGG---TACACTGTACATGTCATG-TGGATGTGTACATGTACTTGTATGCACTGTTATACATATAATACCATACATG-TATGCCTTTGCTC----T--AT-CT---GAATAGTGGATGGCTTG---GG-C-CC--AC-TGT-GTTTGGCACACAATAAGCAGGGGAGGCGTGCTGTATGTATGAGTGTATGATATATATGTAGGATGAGATCAGATATGA--GGAATCATATCTGTATTCCTAT---ACGTG-CAT-ACACGTA-TAT-AT---ATGTACAC-GT--GCCTTGTA----CACAAG-TTCA-A-----TA--CCACTC-- Volvox_africanus_UTEX_1889 GTCATATCACA----TCACA------------------------TCCACG---------------------------------T-GTGGATATGGCTGTCCCAGC----------------------TCGAGTGTACAT---------TTTCAC-------ATGTAT-ATTATAGG---------------------------GCTGGGTCGGCTGAAG--CGAAGATGTTGAAC-C-GTGGA-CCACTCAATGGGGGCCTCTGCTGGGTA--GTTGGC-AG-CAATATATATGGTATATCGTA----CATATATCTCGTATATACA---TATGCAT-ATGATC-GTGTATA--TGCACAGGTG-----TATTATGTATTATTTAC-ATATACATTTT--CT--GCTCTTTAT--AT-CTTTTGAA-AGCAGAT-GCCCT---GG-C-CC--A-ATAC-GTTCGGCACACAACAAACAGGAGGTGTGGTATATAAATATGA-TGTCAT---TATTATTAT--TGG----TGTTACTATCCTAA--ATGACG-TAT--ATAA---TAATA-ATGTACAC-TA-TATGATAAAATAT-ACCTGTACGCGTA----------ACA-A--AAACATTTTA--CC------ 'Volvox africanus UTEX 1890, 1891' CT-TT----CC---TTCACCATATTGCA-A-AGAGGGGGCGATC-AATA---GATTATCCCTCGATATACT-T--TGCA-TGTG-GTGGATGTGGCCGTCCCAGC-----------------ATGTGGT-CATTCTTCC---------TTTG---------GGGTGATATG---AC-TC--GT---------------------CTGGGTTGGCTGAAG--TGTAGATGCTGAACT--GTGGA-CCGTTATA--TGGGCCTCTACTAGGTA-----GGCAA-----------------------------------------------------TGA-ATT-A--TGTT----------------------------------------------------TT-GCT-----TTGAC-CT---TAC-AGTAGATGGCTCA---GG-A-GC--ACAAG--GTTCGGTT--GAATGCGCAGGA----------------------------------------------------------ATAC--------------------------------------------------------------TTTTGCTTTTGCACAAG-TACAGA--TAATATGATAATTTA Volvox_africanus_UTEX_1892 -----GT--CC---TTCACGCAACGG---A-AGA-A----GAGCTCAAAGCTGCTT-----T------GCTGT----CCGTCAC-GTGGATATGGCTATCCCAGC-------------------CCCGT-AGCCCCTTC-------GGATGTAA-------GAGGGG-G-T---GCACA------------------------GCTGGGTTTGCTAAAA--TGATGATGTTGGACTCTGTGGA-CCGCTTAA--CGAGTCTCTACTAGGTAGT----GC-AGGCAAGACAT------------------------------------------ATATACTC---TATAT------------------------------------------ATGATATGCCTATGCTC----T--AT-CT---GAATAGTGGAT-GCTTG---GG-C-CC--AC-TGT-GTTTGGCACACAAAAGGCAGGAGAGGTGTTGTGT----ATG---ATATGAT-GATCGATAT----------GGTAAGAT-AGTGTCTTACCT------ATATATATGATCTAAT-AT---CGGT--------ACAC-GAC-GC--CTTCA-------CCCACA-A--A-AGAAGATA---CACTC-- Volvox_africanus_UTEX_1893 -----GT--CC---CTCACGAAACGG---G-AGA-A----GAGCTC-TGG-TGCTC-----T----CTGCTCT----CCGTCAC-GTGGATCTGGCTATCCCAGC-------------------CCCGT-AGCCCCTGC-------GGAT-----------GTGGGG-GGT---GCACA------------------------GCTGGGTTCGCTAAAG--TGATGATGCTAGACTCTGTGGA-CCGCTGAA--CGAGTCTCTACTAGGTAGTGTAGGCGAGGCAAGTAATGTGTATTATTTTAACGTCATA-----CGG---TACACTGTACATGTCATG-TGGATGTGTACATGTACTTGTATGCACTGTTATACATATAGTACCATACATG-TATGCCTTTGCTC----T--AT-CT---GAATAGTGGATGGCTTG---GG-C-CC--AC-TGT-GTTTGGCACACAATAAGCAGGGGAGGCGTGCTGTATGTATGAGTGTATGATATATATGTAGGATGAGATCAGATATGA--GGAATCATATCTGTATTCCTAT---ACGTG-CAT-ACACGTA-TAT-ATT--ATGTACAC-GT--GCCTTGTA----CACAAG-TTCA-A-----TA--CCACTC-- Volvox_africanus_UTEX_2907 CT-TT----CC---TTCATCATATTGCA-A-ACAGGGGGCGATC-AATA---GATTATCCCTCGATATACT-T--TGCA-TGTG-GTGGATGTGGCCGTCCCAGC-----------------ATGTGGT-CATTCTTCC---------TTTG---------GGGTGATATG---AC-TC--GT---------------------CTGGGTTGGCTGAAG--TGTAGATGCTGAACT--GTGGA-CCGTTACA--TGGGCCTCTACTAGGTA-----GGCAA-----------------------------------------------------TGA-ATT-A--TCTT----------------------------------------------------TT-GCT-----TTGAC-CT---TAC-AGTAGATGGCTTA---GG-T-GC--ACAAG--GTTCGGTT--GAATGCGCAGGA----------------------------------------------------------ATAC--------------------------------------------------------------TTTTGCTGTTGCACAAG-TATACAAGTAATATGGTAATCTA Volvox_dissipatrix -AAAAC---------TCGCC--TGTTTGTACA-------------CTC-TGT------------------TGT-ACACACACGT-GCGGAACTGGCTGTCTCAGCA-----------------------------------------TATATT-------------------------------------------------TGCTGGGTCAGCTGAAGTATGCAGCTGTTGATG-C-ATGGACCCGCTATA--TGGGCCTCTACTGGGTA-----GGCAA---------------------------------------------------------TTGATT---------------------------------------------------------TT-GCT-GTCAT--GCTTT-------AGTAGATGGCCTA---GGAT-CTGTGT--G--TATCAGCA--CAA--AACAGGA-AACACC-----------------------------------------------GA--CTC-G-TC--------------------------------------------------GG-TGTT--------------CAAC-TATT--------ACT-TTAT--C Volvox_ovalis -TATACCCTCACACCCCACA------TACACAT-------GCAT----ATG-GTGC-------------ATGTGGTG------T-GTGGACATGGCTGTCTCGGTGCGTCATATGCTGCATGAACCTCC-TGCGTTATGC---GC----TTGT--GC---TCGTAAT-GCA---AT-GGCATTCATGAAGCATATG-ACCTGTGCTGGGTTGGCTGAAG--AACAGCTGCTGTAC-C-ATGGA-CCAAACAA--CAGGTCTCTACTAGGTA-----GGCAA---------------------------------------------------------TCCCTT---------------------------------------------------------TT-GCT---GC---ACTTT-------AGTAGAAGATTTG---GG-TGCT--GT-----GTGCGGCT--CAA--AGCAGGA-GTGCTT--------------------------------------------------CCTCAGC----------------------------------------------------AA-GCAC-TAC---------ACAACCTC--------------ATATATC 'Volvox reticuliferus 2013-0703-VO1 VO2 VO3' AT-ATAT-ACC----TCATT-----GCA-A-AGA-TGAA-TATC-AATATC-GATA--TCCT-----T-CT-TCTTGC-----ATGTGGATATGGCCGTCCCAG------------------------------------------GTTTTGA---------------------------------------------------CTGGGTTGGCTGAAA--CGTAGATGCTGAACT--GTGGA-CCGCTATATATGGGCCTCTACTAGGTA-----GGCAA-----------------------------------------------------TGA-AAT-T--ACCT----------------------------------------------------TT-GCT-----CTGAC-CT---TAC-AGTAGATGGCTTGGTGGG-T-GC--ACAAGTTGTTCGGTT--AAATGAGCAGGA----------------------------------------------------------ATAC--------------------------------------------------------------TTTTGCTATA--------TATACA----ATAT-----TATA Volvox_spermatosphaera ---TACCC-------TCACA--CCCC--CAC-------------TTTCATGT-------------------GT-G-AT--G--T-GTGGATCTGGCTGTCTCAGTACATCATGCT--ACGTGAACGTCT-TGTATGATGCATAGCA--ACA---TGCATAGCATCAT-GCA---ACAAC-ATTTGCG--GTACATGAATG-GCGCTGGGTTGGCTGAAG--TACAGCTGCTGTAC-C-ATGGA-CCATACAA--CAGGTCTCTACTAGGTA-----GGCAA---------------------------------------------------------TAAC-----------------------------------------------------------TT-GCT---AC---ACTTT-------AGTAGAAGACTTG---GG-TGCT--GT-----GTACGGCA--CAA--AGCAGGA-ATGCTT--------------------------------------------------CTTTTGC----------------------------------------------------AA-GCAT-GTC---------A-AAC-TC--------------ATAT--C Volvox_tertius -TATACCCCCTC---TCACA--C--CT-TAC--------------ATA-T---------------------GT-G-AT--G--T-GTGGATCTGGCTGTCTCAGTTG-TCATGTT-----TGATGTAAT-TGTGTTACG--------TATT----------TGTGAT-GCA---AT-TC--ATTA------ACGTG-AGATGCGCTGGGTTGGCTGAAG--TGCAGCTGCTGTAC-C-ATGGA-CCATACAA--CAGGTCTCTACTAGGTA-----GGCAA---------------------------------------------------------TCAC-----------------------------------------------------------TT-GCT-GAAC---GCTTT-------AGTAGACGACTTG---GG-TGCT--GT-----GTACAGCA--CGA--AGCAGGA-ATGCTT--------------------------------------------------GTTT-GC----------------------------------------------------AA-GCAT-GCC---------A-TAC-TT--------------ATAT--C ; END; [ The following blocks are output data for analysis step 17307 ] BEGIN TREES; TITLE Volvocales_ITS2; LINK TAXA = TaxaForAnalysisStep17307; TREE Fig._3 = [&R] ((Volvox_dissipatrix:0.46784,((Volvox_ovalis:0.22208,Volvox_spermatosphaera:0.05851)0.7070:0.08532,Volvox_tertius:0.07284)0.9080:0.32503):0.35823,((Volvox_africanus_UTEX_1889:0.48438,(Volvox_africanus_UTEX_1892:0.16664,(Volvox_africanus_UTEX_1893:9.7E-4,'Volvox africanus 2013-0703-VO4':0.00343)0.9690:0.11729)0.8060:0.24342)0.7930:0.24793,(('Volvox africanus UTEX 1890, 1891':0.03556,Volvox_africanus_UTEX_2907:0.00742)0.7690:0.08888,'Volvox reticuliferus 2013-0703-VO1 VO2 VO3':0.08747)0.9510:0.28242):0.31177)0.9950; [! TreeBASE tree URI: http://purl.org/phylo/treebase/phylows/tree/TB2:Tr92139] END;