#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 May 11, 2024; 22:12 GMT TreeBASE (cc) 1994-2008 Study reference: Donadío S., Giussani L., Kellogg E., Zuloaga F., & Morrone O. 2008. A preliminary molecular phylogeny of Pennisetum and Cenchrus (Poaceae-Paniceae) based on the trnL-F, rpl16 chloroplast markers. Taxon, null. TreeBASE Study URI: http://purl.org/phylo/treebase/phylows/study/TB2:S2136] BEGIN TAXA; TITLE 'PI trnL-F PI coded indels'; DIMENSIONS NTAX=41; TAXLABELS Cenchrus_brownii Cenchrus_ciliaris Cenchrus_echinatus Cenchrus_incertus Cenchrus_myosuroides Cenchrus_pilosus Cenchrus_setigerus Chasmanthium_latifolium Ixophorus_unisetus Panicum_repens Paspalidium_geminatum Pennisetum_alopecuroides Pennisetum_chilense Pennisetum_clandestinum Pennisetum_flaccidum Pennisetum_frutescens Pennisetum_glaucum Pennisetum_lanatum Pennisetum_latifolium Pennisetum_macrourum Pennisetum_montanum_Morrone_4931 Pennisetum_montanum_Morrone_sn Pennisetum_nervosum Pennisetum_polystachion Pennisetum_purpureum_Morrone_4220 Pennisetum_purpureum_Morrone_4473 Pennisetum_ramosum Pennisetum_setaceum Pennisetum_sieberianum Pennisetum_squamulatum Pennisetum_tristachyon Pennisetum_unisetum Pennisetum_villosum_Doust_1500 Pennisetum_villosum_PI_304750 Pseudoraphis_paradoxa Sacciolepis_vilvoides Setaria_lachnea Setaria_sulcata Stenotaphrum_secundatum Urochloa_panicoides Zea_mays ; END; BEGIN CHARACTERS; [! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M3800] TITLE 'PI trnL-F + PI coded indels'; LINK TAXA = 'PI trnL-F PI coded indels'; DIMENSIONS NCHAR=66; FORMAT DATATYPE=DNA SYMBOLS= "A C G T" MISSING=? GAP= -; MATRIX [ 10 20 30 40 50 60 ] [ . . . . . . ] Cenchrus_brownii AGAAGCGGGCACTATCACTCATTACGTGA?AGTCGACGACATGCCAGGATGATAATTTAT?AATTT Cenchrus_ciliaris AGAAGCGGGCACTATCACTCATTACGTGA?GATCGACGACATGCCAGGATGATTATTTAT?AATTT Cenchrus_echinatus AGAAGCGGGCACTATCACTCATTACGTGA?AGTCGACGACATGCCAGGATGATAATTTAT?AATTT Cenchrus_incertus AGAAACGGGCACTATCGCTCATTACGTGA?GGTCGACGACATGCCAGGATGATAATTTAT?AATTT Cenchrus_myosuroides AGAAACGGGCACTATCGCTCATTACGTGA?GGTCGACGACATGCCAGGATGATAATTTAT?AATTT Cenchrus_pilosus AGAAGCGGGCACTATCACTCATTACGTGA?AGTCGACGACATGCCAGGATGATAATTTAT?AATTT Cenchrus_setigerus AGAAGCGGGCACTGTCACTCATTACGTGA?GATCGACGACATGCCAGGATGATTATTTAT?AATTT Chasmanthium_latifolium GACAGCGTACTAGACCAATCAGATTGATGTGG???ACTGATTCCCAGGCTGAAAATAA?A?ATAAA Ixophorus_unisetus AACAGCGTGCACTATCGCTCATTATGTGG?AACCAACTGCCGCCCAGGCTAAAAATTTAT?AATTT Panicum_repens GGCAGCGTGCTATACCAATCATATTTTGGAGA???????????????????AAAAATA???????? Paspalidium_geminatum AGCAGCGTGCACTGTCACTCATAATGTGG?GATCAGCTGCCGCCCAGGCTGAAAATTTAT?AATTT Pennisetum_alopecuroides AGAAGCGGGCACTATCACTCATAACGTGG?GATCGACGGCATCCCAGTCTGAAAATTTAT?AATTT Pennisetum_chilense AGAAGCGGGCACTATCGCTCGTAACGTGG?GATCGAC???ATCCCAG????AAAATTTAT?T?TTT Pennisetum_clandestinum AGCAGCGGGCACTATCACTCGTCACGTGG?GATCAACGGCATGCCAGGCTGTAAATTTAT?AATTT Pennisetum_flaccidum AGAGGCGGGCACTATCACTCATTACTTGG?GATCGACGGCATGCCAGGATGATAATTTAT?AATTT Pennisetum_frutescens AGAAGCGGGCACTATCACTCATTACGTGA?GATCGACGGCATGCCAGGATGATAATTTAT?AATTT Pennisetum_glaucum AGAGGCGGGCACTATTACTCATAACGTGG?GATCGACGGTATGCTAGGCGGAAAATTTAT?AATTT Pennisetum_lanatum AGCAGCGTGCACTATCACTCATAATGTGG?GA??AACTGCCGCCCAAGCTGAAAATTTAA?AATTT Pennisetum_latifolium AGAAGCGGGCACTATCACTCGTAACGTGG?GATCGAC???ATGCCAGGCTGAAAATTTAT?T?TTT Pennisetum_macrourum ?GCAGCGGGGACTATCGCTCGTAACGTGG?GATCAATGGCATGCCAGGCTGTAAATTTAT?AATTT Pennisetum_montanum_Morrone_4931 AGAAGCGGGAACTATCACCCGTAACGTGG?GATCGAC???ATGCCAGGCTGAAAATTTAT?T?TTT Pennisetum_montanum_Morrone_sn AGAAGCGGGAACTATCACCCGTAACGTGG?GATCGAC???ATGCCAGGCTGAAAATTTAT?T?TTT Pennisetum_nervosum AGAAGCGGGCACTATTACTCATAACGTGG?GATCGACGGTAT?????????AAAATTTAT?AATT? Pennisetum_polystachion AGAAGCGGGCACTATCTCTCGTTACGTGA?GATCGACGGC??????GGATGATAATTTAT?AA??? Pennisetum_purpureum_Morrone_4220 AGAAGCGGGCACTATTACTCATAACGTGG?GATCGACGGTATGCTAGGCGGAAAATTTAT?AATTT Pennisetum_purpureum_Morrone_4473 AGAAGCGGGCACTATCACTCATTACGTGA?GATCGACGACATGCCAGGATGATTATTTAT?AATTT Pennisetum_ramosum AGAAGCGGGCACTATCACTCATTACGTGA?GATCGACGGCATGCCAGGATGATAATTTAT?AATTT Pennisetum_setaceum AGAAGCGGGCACTATCACTCATGACGTGA?GGTCGACGACATGCCAGGATGATAATTTAT?AATTT Pennisetum_sieberianum AGAGGCGGGCACTATTACTCATAACGTGG?GATCGACGGTATGCTAGGCGGAAAATTTAT?AATTT Pennisetum_squamulatum AGAAGCGGGCACTATTACTCATAACGTGG?GA??GACGGTATGCTAGGCGGAAAATTT?T?AATTT Pennisetum_tristachyon AGAAGCGGGCACTATCACTCGTCACGTGG?GATCGAC???ATGCCAG????AAAATTTAT?T?TTT Pennisetum_unisetum AGAAGCGGGCACTATCACTTATAACGTGG?GA????TAGCATGCCAAGCT?AAAATTT???AATTT Pennisetum_villosum_Doust_1500 AGCAGAAGTCACTGTCGC??ATAACGTGG?GATCAACGGCATGCCAGGCTGTTATTTTAATAATTT Pennisetum_villosum_PI_304750 AGCAGAAGTCACTGTCGC??ATAACGTGG?GATCAACGGCATGCCAGGCTGTTATTTTAATAATTT Pseudoraphis_paradoxa AGCAGCGTGCACTATCACTCATTATGAGG?GATCAACTGCCGCCCAGGCTGAAAATTTAAAAATTT Sacciolepis_vilvoides GGCAGCGTGCTAGACCAATCAGATTGAGGAGACTAGCTGCTGCCCTGGCTGAAAATTATT?ATAAA Setaria_lachnea AGCAGCGTGCACTATCACTCATAATGTGG?GATCAACTGCCGCCCAGGCTGAAAATTTAT?AATTT Setaria_sulcata GGCAGCGTGCACTATCACTCATAATGTGG?GATTAACTGCCGCCCAGTCTGAAAATTTAT?AATTT Stenotaphrum_secundatum AGCAGCGTGCACTATCACTCATAATGTGG?GATCAACTGCCGCCCAGGC??AAAATTTAT?AATTT Urochloa_panicoides GGCAGCGTGCTATACCAATCATAATGTGGAGATCAACTGCTGCTCAGGCTGAAAATTATAAATTTA Zea_mays GGCAGC??????????AATTATATTGATGTGGTCAACTGCTGCTCTGGCTAATAAAAATT?ATAAA ; END; BEGIN CODONS; CODONPOSSET * CodonPositions (CHARACTERS = 'PI trnL-F + PI coded indels') = N: 1-66; CODONPOSSET CodonPositions (CHARACTERS = 'PI trnL-F + PI coded indels') = N: 1-66; END;