#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 September 17, 2025; 19:41 GMT

TreeBASE (cc) 1994-2008

Study reference:
Sant'anna F.H., Lebedinsky A.V., Sokolova T.G., Robb F.T., & Gonzalez J.M. 2015.
Analysis of three genomes within the thermophilic bacterial species Caldanaerobacter
subterraneus with a focus on carbon monoxide dehydrogenase evolution and hydrolase
diversity. BMC Genomics, .

TreeBASE Study URI:  http://purl.org/phylo/treebase/phylows/study/TB2:S18113]

[ The following blocks are input data for analysis step 16734 ]
BEGIN TAXA;
        TITLE  TaxaForAnalysisStep16734;
        DIMENSIONS NTAX=12;
        TAXLABELS
            'Caldanaerobacter subterraneus pacificus_CDSM653_0929'
            'Caldanaerobacter subterraneus tengcongensis_NP_622542.1'
            'Caldanaerobacter subterraneus yonseiensis_ERM93006.1'
            'Coprothermobacter platensis WP_018962525.1'
            'Coprothermobacter proteolyticus YP_002246547.1'
            'Thermoanaerobacter italicus YP_003476666.1'
            'Thermoanaerobacter mathranii YP_003676612.1'
            'Thermoanaerobacter pseudethanolicus YP_001665446.1'
            'Thermoanaerobacter wiegelii YP_004819689.1'
            'Thermoanaerobacterium saccharolyticum YP_006392733.1'
            'Thermoanaerobacterium thermosaccharolyticum YP_003851720.1'
            'Thermoanaerobacterium xylanolyticum YP_004471287.1'
            ;
END;

BEGIN CHARACTERS;
[! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M32959]

	TITLE HydC_algnment;
	LINK TAXA = TaxaForAnalysisStep16734;
	DIMENSIONS NCHAR=202;
	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  ]
[                                                                       .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .  ]
'Caldanaerobacter subterraneus pacificus_CDSM653_0929'         ---------------MQGMKEASLEEKLVEKF---GKDKVEKFKKSIEDYREIPGSLIAVMNDAQEIFGYLPIEVQLFISQEMKVPLTEIFGISTFYSRFTLKPSGKYKINLCMGTACYVRGAAMLLEKIKEKLGIEVGETTEDGKFSLEPTRCLGACALAPVMMINGEVFGRLTPNDVDEILKKFE---------------
'Caldanaerobacter subterraneus tengcongensis_NP_622542.1'      ---------------MQGMKEASLEEKLVEKF---GKDKVEKFKKSIENYREIPGSLIAVMNDAQEIFGYLPIEVQLFISQEMKVPLTEIFGISTFYSRFTLKPSGKYKINLCMGTACYVRGAAMLLEKIKEKLGIEVGETTEDGKFSLEPTRCLGACALAPVMMINGEVFGRLTPNDVDEILKKFE---------------
'Caldanaerobacter subterraneus yonseiensis_ERM93006.1'         ---------------MQGMKEASLEEKLVEKF---GKDKVEKFKKSIEDYREIPGSLIAVMNDAQEIFGYLPIEVQLFISQEMKVPLTEIFGISTFYSRFTLKPSGKYKINLCMGTACYVRGAAMLLEKIKEKLGIEVGETTEDGKFSLEPTRCLGACALAPVMMINGEVFGRLTPNDVDEILKKFE---------------
'Coprothermobacter platensis WP_018962525.1'                   ------------------------MEQLYELF---GTDRVEEFRAKLDELKNVPGSMISILNEAQEIFGYVPFEVQELISRETGVPLTEIFGIVTFYSRFSIIPAGKYKISLCLGTACYVKGSGQILEKLEEKLGIKEGNTTSDGMFSLSAARCLGACALAPVMMINGEVYGRLTPDSAVKVIEKIKQQDLSQAASE---VE
'Coprothermobacter proteolyticus YP_002246547.1'               ------------------------MEQLYELF---GIDRVEEFRAKLEELKKVPGSMISILNEAQEMFGYIPFQVQELISKETGVPLTEIFGIVTFYSRFSIVPAGKYKISLCLGTACYVRGSGQILEKLKENLGINEGETTSDGMFSLEAARCLGACALAPVMMINGEVYGRLTPDEAVKVIQRIKKQDLSQAAAE---VE
'Thermoanaerobacter italicus YP_003476666.1'                   ------------------------MDALYQKF---GEEKVERFKKALEELKNIPGSLIAIMNEAQEIFGYLPIEVQLYISKEMNVPLSEIFGIATFYSRFTLKPSGKYKINLCMGTACYVRGAAMVLEKIKEKLGIEVGETTEDGKFSLEPTRCLGACGLAPVMMINGEVFGRLTPDDVDEILSKFE---------------
'Thermoanaerobacter mathranii YP_003676612.1'                  ------------------------MDALCQKF---GEEKVERFKKALEELKNIPGSLIAIMNEAQEIFGYLPIEVQLYISKEMNVPLTEIFGIATFYSRFTLKPSGKYKINLCMGTACYVRGAAMVLEKIKEKLGIEVGEATEDGKFSLEPTRCLGACGLAPVMMINGEVFGRLTPDDVDEILSKFE---------------
'Thermoanaerobacter pseudethanolicus YP_001665446.1'           ------------------------METLCRKF---GEEKVERFKKALEELKNIPGSLIAIMNEAQEIFGYLPIEVQLYISKEMNVPLTEIFGIATFYSRFTLKPSGKYKINLCMGTACYVRGAAMVLEKIKEKLGIQVGETTPDGKFSLEPTRCLGACGLAPVMMINGEVFGRLTPDDVDEILSKFE---------------
'Thermoanaerobacter wiegelii YP_004819689.1'                   ------------------------METLYQKF---GKEKVERFKKALEELKNIPGSLIAIMNEAQEIFGYLPIEVQLYISKEMNVPLTEIFGIATFYSRFTLKPSGKYKINLCMGTACYVRGAAMVLGKIKEKLGIQVGETTPDGKFSLEPTRCLGACGLAPVMMINGEVFGRLTPDDVDEILSKFE---------------
'Thermoanaerobacterium saccharolyticum YP_006392733.1'         ------------------------MQAIYEKF---SEENINKLKKVIDQLKDTDGSLIAVMNEAQEIFGYLPIEVQQFISEEMNVPLTEIFGIATFYSRFTLKPSGKYKIGVCLGTACYVKGSAMVLDKLKEKLGISVGDVTGDGKFSLEATRCLGACGLAPVMMINGEVFGRLTPDDVEDILKKFD---------------
'Thermoanaerobacterium thermosaccharolyticum YP_003851720.1'   ------------------------MQAIYEKF---DEEKVNKFKKVIDELKNVDGSLIAVMNEAQEIFGYLPIEVQQFISEEMNVPLTEIFGIATFYSRFTLKPSGKYKIGLCLGTACYVKGSAMVLDKLKEKLGISVGDVTSDGKFSLEATRCLGACGLAPVMMINGEVFGRLTPDDVDDILKKFD---------------
'Thermoanaerobacterium xylanolyticum YP_004471287.1'           ------------------------MQAIYEKF---SQENINKLKKVIDQLKDTDGSLIAVMNEAQEIFGYLPIEVQQFISEEMNVPLTEIFGIATFYSRFTLKPSGKYKIGVCLGTACYVKGSAMVLDKLKEKLGISVGDVTGDGKFSLEATRCLGACGLAPVMMINGEVFGRLTPDDVEDILKKFD---------------
;
END;

[ The following blocks are output data for analysis step 16734 ]
BEGIN TREES;
      TITLE HydC_phylogeny;
      LINK TAXA = TaxaForAnalysisStep16734;
      TREE HydC_ML = [&R] (('Coprothermobacter platensis WP_018962525.1':0.054575,'Coprothermobacter proteolyticus YP_002246547.1':0.062816)1.0000:0.296303,((('Thermoanaerobacterium saccharolyticum YP_006392733.1':1.0E-6,'Thermoanaerobacterium xylanolyticum YP_004471287.1':1.0E-6)0.9110:0.023302,'Thermoanaerobacterium thermosaccharolyticum YP_003851720.1':1.0E-6)0.8560:0.04601,((('Thermoanaerobacter pseudethanolicus YP_001665446.1':1.0E-6,'Thermoanaerobacter wiegelii YP_004819689.1':0.007767)0.9040:0.015401,('Thermoanaerobacter mathranii YP_003676612.1':0.007563,'Thermoanaerobacter italicus YP_003476666.1':0.007548)0.0000:1.0E-6)0.8650:0.026544,('Caldanaerobacter subterraneus yonseiensis_ERM93006.1':1.0E-6,('Caldanaerobacter subterraneus tengcongensis_NP_622542.1':1.0E-6,'Caldanaerobacter subterraneus pacificus_CDSM653_0929':1.0E-6)0.0000:1.0E-6)0.9670:0.053767)0.9430:0.074525)0.4980:0.063894)root;
[!  TreeBASE tree URI: http://purl.org/phylo/treebase/phylows/tree/TB2:Tr89896]


END;