#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 22, 2026; 17:28 GMT TreeBASE (cc) 1994-2008 Study reference: Hafner M., Hafner D.J., Demastes J.W., Gonzales E.E., Spradling T., & Cervantes F.A. 2014. Rediscovery of the pocket gopher Orthogeomys lanius (Rodentia: Geomyidae) in Veracruz, Mexico. Journal of Mammalogy, . TreeBASE Study URI: http://purl.org/phylo/treebase/phylows/study/TB2:S15492] [ The following blocks are input data for analysis step 13272 ] BEGIN TAXA; TITLE TaxaForAnalysisStep13272; DIMENSIONS NTAX=14; TAXLABELS Geomys_breviceps_LSUMZ29336 Orthogeomys_dariensis_LSUMZ25434 Orthogeomys_grandis_CMNH112150 Orthogeomys_grandis_LSUMZ34392 Orthogeomys_heterodus_LSUMZ29261 Orthogeomys_hispidus_CMNH112140 Orthogeomys_hispidus_CNMA41025 Orthogeomys_hispidus_LSUMZ36090 Orthogeomys_hispidus_LSUMZ36761 Orthogeomys_hispidus_LSUMZ36767 Orthogeomys_lanius_CNMA46463 Orthogeomys_lanius_CNMA46483 Orthogeomys_lanius_FMNH13836 Thomomys__bulbivorus_TSD535 ; END; BEGIN CHARACTERS; [! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M21222] TITLE Orthogeomys_359_cyb; LINK TAXA = TaxaForAnalysisStep13272; DIMENSIONS NCHAR=359; 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 ] [ . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ] Geomys_breviceps_LSUMZ29336 ATGGCAGTTATACGAAAATCACACCCCTTAATAAAAATTGTCAACCACGCATTCATCGACCTACCAACTCCCCCTAATATTTCTGGCTGATGAAATTTTGGCTCCCTATTGGGTCTGTGCTTAATTCTTCAAATCCTAACAGGCTTATTTCTAGCAATACACTACACATCGGACACTCTCACAGCTTGACTCATCCGATATATGCACGCCAACGGAGCTTCTCTATTCTTCATCTGTCTATATATCCACATCGGACGAGGTATTTACTACGGATCTTATCTATACACAGAAACATGAAATATCGGCATCCTACTGCTATTCCTAACCATAGCCACTGCTTTCGTAGGCTACGTATTACC Orthogeomys_dariensis_LSUMZ25434 ATGACAATAATACGAAAATCCCATCCGCTTATAAAAATTGTCAACCATGCTTTCATCGACCTACCAACACCACCCAACATTTCCGGATGATGAAACTTTGGCTCCCTACTAGGACTATGCTTAATCTTACAAATCTCAACAGGCCTATTTTTAGCAATACACTATACGTCAGACACACTTACAGCTTGATTAATCCGATATCTACATGCCAATGGTGCCTCCCTATTCTTCATTTGCCTTTACATTCACATCGGACGAGGAATTTACTACGGATCTTATCTTTATACAGAAACATGGAATATAGGCATTTTACTGCTATTCTTAACTATAGCCACTGCATTCATAGGATATGTGCTGCC Orthogeomys_grandis_CMNH112150 ATGACAATCCTACGAAAATCACATCCTTTAATAAAAATTGTCAACCACGCTTTCATCGATCTACCAACACCCCCTAACATCTCCAGTTGATGAAATTTCGGTTCCCTATTAGGACTATGTTTAATCCTTCAAATCTTAACAGGCTTATTTTTAGCAATACACTACACATCAGACACTCTCACGGCTTGATTAATCCGATACATACATGCCAACGGCGCTTCCCTATTCTTCATCTGCCTATATATCCATATCGGACGAGGCATCTACTACGGATCCTACCTATATTCAGAAACATGAAATATTGGAATCTTACTATTACTCCTAACTATGGCAACTGCATTTATAGGCTACGTACTACC Orthogeomys_grandis_LSUMZ34392 ATGACAATCCTACGAAAATCACACCCTTTAATAAAAATTGTCAACCATGCTTTCATCGACCTACCAACACCCCCTAACATCTCCAGTTGATGAAATTTTGGTTCCCTATTAGGACTATGTCTAACCCTTCAAATCTTAACAGGCTTATTCTTAGCAATACACTACACATCAGACACCCTCACAGCTTGATTAATTCGATACATACATGCCAATGGCGCTTCCCTATTCTTCATCTGCCTCTACATCCATATCGGACGAGGTATCTACTATGGATCTTATTTATACTCAGAAACATGAAACATTGGAATCCTGCTACTATTCCTAACTATAGCAACTGCATTTGTGGGTTACGTACTACC Orthogeomys_heterodus_LSUMZ29261 ACGACAATGATACGAAAATCCCATCCACTAATAAAAATTGTTAACCATGCTTTCATCGACTTACCAACACCACCCAACATCTCAGGATGATGAAACTTTGGTTCCCTGCTAGGACTATGCTTAATTTTACAAATTTCAACAGGCCTATTTTTAGCAATACACTACACGTCAGACACACTTACAGCTTGATTAATCCGATATATACATGCCAACGGTGCCTCCCTATTCTTCATTTGCCTCTACATTCACATCGGACGAGGCATTTACTATGGGTCCTACCTCTATAAAGAAACATGAAATATCGGCATTTTATTACTATTTTTAACTATAGCCACTGCATTCATAGGATATGTACTGCC Orthogeomys_hispidus_CMNH112140 ATGACAATTATACGAAAATCCCACCCACTAATAAAAATTGTCAACCATGCTTTCATTGACCTACCAACACCACCCAATATCTCAGGTTGATGAAATTTCGGCTCCCTATTAGGACTATGCTTAATTCTACAAATCTCTACAGGCCTATTTCTAGCAATACACTACACATCTGACACACTTACAGCCTGATTAATCCGATACATACATGCCAACGGCGCCTCCCTATTCTTCATTTGCCTTTATATTCACATCGGACGAGGAATTTACTATGGATCCTACCTTTATACAGAAACATGAAACATCGGCATTTTATTACTATTCTTAACTATAGCCACTGCATTCGTAGGATATGTACTACC Orthogeomys_hispidus_CNMA41025 ATGACAATTATACGAAAATCTCACCCACTAATAAAAATTGTCAACCATGCTTTCATTGACCTACCAACACCACCTAATATCTCAGGTTGATGAAATTTCGGCTCCCTATTAGGACTATGCTTAATTCTACAAATCTCTACAGGCCTATTTCTAGCAATACACTACACATCTGACACACTTACAGCCTGATTAATCCGATACATACATGCCAACGGCGCCTCCCTATTCTTCATTTGCCTTTATATTCACATCGGACGAGGAATTTACTATGGATCCTATCTTTATACAGAAACATGAAACATCGGCATTTTATTACTATTTTTAACTATAGCCACTGCATTCGTAGGATACGTACTACC Orthogeomys_hispidus_LSUMZ36090 ATGGCAATTATACGAAAATCTCACCCACTAATAAAAATTGTCAACCATGCTTTCATTGACCTACCAACACCACCTAATATCTCAGGTTGATGAAATTTCGGCTCCCTATTAGGACTATGCTTAATTCTACAAATCTCTACAGGCCTATTTCTAGCAATACACTACACATCTGACACACTCACAGCCTGATTAATCCGATATATACATGCTAACGGCGCCTCCCTATTCTTCATTTGCCTTTATATTCACATCGGACGAGGAATCTACTATGGATCCTATCTTTATACAGAAACATGAAACATCGGTATTTTATTGCTATTTTTAACTATAGCCACTGCATTCGTGGGATATGTACTACC Orthogeomys_hispidus_LSUMZ36761 ATGACAATTATACGAAAATCTCACCCACTAATAAAAATTGTCAACCATGCTTTCATTGACCTACCAACACCACCTAATATCTCAGGTTGATGAAATTTCGGCTCCCTATTAGGACTATGCTTAATTCTACAAATCTCTACAGGCCTATTTCTAGCAATACACTACACATCTGACACACTTACAGCCTGATTAATCCGATACATACATGCCAACGGCGCCTCCCTATTCTTCATTTGCCTTTATATTCACATCGGACGAGGAATTTACTATGGATCCTATCTTTATACAGAAACATGAAACATCGGCATTTTATTACTATTTTTAACTATAGCCACTGCATTCGTAGGATATGTACTACC Orthogeomys_hispidus_LSUMZ36767 ATGGCAATTATACGAAAATCTCACCCACTAATAAAAATTGTCAACCATGCTTTCATTGACCTACCAACACCACCTAACATCTCAGGTTGATGAAATTTCGGCTCCCTATTAGGACTATGCTTAATTCTACAAATCTCTACAGGCCTATTTCTAGCAATACACTACACATCTGACACACTTACAGCCTGATTAATCCGATATATACATGCCAACGGCGCCTCCCTATTCTTCATTTGCCTTTATATTCACATCGGACGAGGAATTTACTATGGATCCTATCTTTATACAGAAACATGAAACATCGGCATTTTACTACTATTTTTAACTATAGCCACTGCATTCGTAGGATATGTACTACC Orthogeomys_lanius_CNMA46463 ATGACAATTATACGAAAATCACACCCACTAATAAAAATTGTCAACCATGCTTTCATTGACCTACCAACACCACCTAATATCTCAGGTTGATGAAACTTCGGCTCCCTATTAGGACTATGCTTAATCCTACAAATCTCAACAGGCCTATTTCTAGCAATACATTACACATCTGATACACTTACAGCCTGATTAATCCGACATATACATGCCAACGGCGCCTCCTTATTCTTCATTTGTATTTATATCCACATCGGACGAGGAATCTACTACGGATCCTATCTTTACACAGAAACATGAAACATCGGCATTTTACTGTTATTTCTAACTATAGCCACTGCATTCGTAGGATATGTACTACC Orthogeomys_lanius_CNMA46483 ATGACAATTATACGAAAATCACACCCACTAATAAAAATTGTCAACCATGCTTTCATTGACCTACCAACACCACCTAATATCTCAGGTTGATGAAACTTCGGCTCCCTATTAGGACTATGCTTAATCCTACAAATCTCAACAGGCCTATTTCTAGCAATACATTACACATCTGATACACTTACAGCCTGATTAATCCGACATATACATGCCAACGGCGCCTCCTTATTCTTCATTTGTATTTATATCCACATCGGACGAGGAATCTACTACGGATCCTATCTTTACACAGAAACATGAAACATCGGCATTTTACTGTTATTTCTAACTATAGCCACTGCATTCGTAGGATATGTACTACC Orthogeomys_lanius_FMNH13836 ATGACAATTATACGAAAATCACACCCACTAATAAAAATTGTCAACCATGCTTTCATTGACCTACCAACACCACCTAATATCTCAGGTTGATGAAACTTCGGCTCCCTATTAGGACTATGCTTAATCCTACAAATCTCAACAGGCCTATTTCTAGCAATACATTACACATCTGATACACTCACAGCCTGATTAATCCGACATATACATGCCAACGGCGCCTCCTTATTCTTCATTTGTATTTATATCCACATCGGACGAGGAATCTACTACGGATCCTATCTTTACACAGAAACATGAAACATCGGCATTTTACTGTTATTTCTAACTATAGCCACTGCATTCGTAGGATATGTACTACC Thomomys__bulbivorus_TSD535 ATGAAAATTATACGCAAGTCCCATCCGTTATTTAAAATCGTAAATCATGCCTTTATTGACTTACCTACCCCACCTAATATTTCAGGTTGATGAAATTTTGGCTCTCTCTTAGGTATATGCTTGATCCTACAAATCTCAACTGGCCTATTCTTAGCCATACACTATACATCTGACACCCTAACAGCTTGATTAATCCGATATATACATGCAAATGGAGCATCACTATTCTTCATCTGCTTATATATACACATTGGTCGTGGTATCTACTATGGCTCCTACCTTTATAAGGAAACATGAAATATTGGCATCTTGCTCCTATTCTTATCAATAGCTACAGCATTCGTTGGTTACGTACTACC ; END; [ The following blocks are output data for analysis step 13272 ] BEGIN TREES; TITLE Orthogeomys_359; LINK TAXA = TaxaForAnalysisStep13272; TREE tree_1 = [&R] ((((((Orthogeomys_hispidus_CNMA41025:0.00274186,Orthogeomys_hispidus_LSUMZ36761:5.144E-5):0.00723304,Orthogeomys_hispidus_CMNH112140:0.01664953,Orthogeomys_hispidus_LSUMZ36767:0.00756875,Orthogeomys_hispidus_LSUMZ36090:0.01610754):0.00889719,(Orthogeomys_lanius_FMNH13836:0.00218737,(Orthogeomys_lanius_CNMA46483:0.0,Orthogeomys_lanius_CNMA46463:0.0):6.0594E-4):0.03835745):0.02071534,(Orthogeomys_heterodus_LSUMZ29261:0.04427237,Orthogeomys_dariensis_LSUMZ25434:0.04246435):0.02879371):0.02171997,(Geomys_breviceps_LSUMZ29336:0.08973366,(Orthogeomys_grandis_LSUMZ34392:0.04695882,Orthogeomys_grandis_CMNH112150:0.03758518):0.04151684):0.01712243):0.02277789,Thomomys__bulbivorus_TSD535:0.12963397); [! TreeBASE tree URI: http://purl.org/phylo/treebase/phylows/tree/TB2:Tr71585] END;