#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 16745 ]
BEGIN TAXA;
        TITLE  TaxaForAnalysisStep16745;
        DIMENSIONS NTAX=11;
        TAXLABELS
            'Caldanaerobacter subterraneus pacificus_CDSM653_0110'
            'Caldanaerobacter subterraneus tengcongensis_NP_621832.1'
            'Caldanaerobacter subterraneus yonseiensis_ERM91342.1'
            'Thermoanaerobacter ethanolicus WP_003868946.1'
            'Thermoanaerobacter italicus YP_003477421.1'
            'Thermoanaerobacter mathranii YP_003677317.1'
            'Thermoanaerobacter wiegelii YP_004818937.1'
            'Thermoanaerobacterium saccharolyticum YP_006391307.1'
            'Thermoanaerobacterium thermosaccharolyticum YP_003850799.1'
            'Thermoanaerobacterium thermosaccharolyticum YP_007297557.1'
            'Thermoanaerobacterium xylanolyticum YP_004469850.1'
            ;
END;

BEGIN CHARACTERS;
[! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M32963]

	TITLE HypC_alignment;
	LINK TAXA = TaxaForAnalysisStep16745;
	DIMENSIONS NCHAR=133;
	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   ]
[                                                                       .         .         .         .         .         .         .         .         .         .         .         .         .   ]
'Caldanaerobacter subterraneus pacificus_CDSM653_0110'         --------------------VCIAVPSKVLKI---E-----------GKIAETELGGVIRRVSIEMVPDVKVGDYVMVHAGVAISIVDKEEAEAQRGLWNELMEVLNDAAEGNS-------------------
'Caldanaerobacter subterraneus tengcongensis_NP_621832.1'      --------------------MCIAVPSKVLKI---E-----------GKIAETELGGVIRRVSIEMVPDVKVGDYVMVHAGVAISIVDKEEAEAQRGLWNELMEVLNDAAEGNS-------------------
'Caldanaerobacter subterraneus yonseiensis_ERM91342.1'         --------------------MCIAVPSKVLKI---E-----------GKIAETELGGVIRRVSIEMVPDVKVGDYVMVHAGVAISIVDKEEAEAQRELWNELMEVLNDAAEGNS-------------------
'Thermoanaerobacter ethanolicus WP_003868946.1'                --------------------MCIAVPSKVLKI---E-----------GKVAETELGGVIRRVSIEMVPEVKVGDYVMVHAGLAISIVDKEEAEMERELWEELMEVLNDAADRND-------------------
'Thermoanaerobacter italicus YP_003477421.1'                   --------------------MCIAVPSKVLKI---E-----------GKIAETELGGVIRRVSIEMVPEVKVGDYVMVHAGLAISIVNKEEAEMERELWEELMEVLQDATNGND-------------------
'Thermoanaerobacter mathranii YP_003677317.1'                  --------------------MCIAVPAKVLKI---E-----------GKIAETELGGVIRRVSIEMVPEVKVGDYVMVHAGLAISIVNKEEAEVERELWEELMEVLQDATNGND-------------------
'Thermoanaerobacter wiegelii YP_004818937.1'                   --------------------MCIAVPSKVIKI---E-----------GKVAETELGGVIRKVSIEMVPEVKVGDYVMVHAGLAISIVDKEEAEMERELWEELMEVLNDAADRND-------------------
'Thermoanaerobacterium saccharolyticum YP_006391307.1'         --------------------MCIAVAQKVLKI---D-----------GDVAETELNGLKRRVSISMVPDVKIGDYVMVHAGVAISIVDKETAEEDLKLWEEMEEALRESFKQN--------------------
'Thermoanaerobacterium thermosaccharolyticum YP_003850799.1'   --------------------MCIAVAQKVVKI---D-----------GDVAETELNGLKRRVSISMVPGVKIGDYVMVHAGVAISIVDKETAEEDLKLWKEMEEALRESLE----------------------
'Thermoanaerobacterium thermosaccharolyticum YP_007297557.1'   --------------------MCIAVAQKVVKI---D-----------GDVAETELNGLKRRVSIAMVPDVKIGDYVMVHAGVAISIVDKETAEEDLKLWKEMEEALRESFKQN--------------------
'Thermoanaerobacterium xylanolyticum YP_004469850.1'           --------------------MCIAVAQKVVKI---E-----------GDVAETELNGLKRRVSISMVPDVKIGDYVMVHAGVAISIVDKETAEEDLRLWEEMEEALRESFKQN--------------------
;
END;

[ The following blocks are output data for analysis step 16745 ]
BEGIN TREES;
      TITLE HypC_phylogeny;
      LINK TAXA = TaxaForAnalysisStep16745;
      TREE HypC_ML = [&R] (('Thermoanaerobacterium saccharolyticum YP_006391307.1':1.0E-6,('Thermoanaerobacterium xylanolyticum YP_004469850.1':0.024328,('Thermoanaerobacterium thermosaccharolyticum YP_007297557.1':0.012174,'Thermoanaerobacterium thermosaccharolyticum YP_003850799.1':0.012331)0.7640:0.012305)0.5240:0.012382)0.9680:0.209017,((('Thermoanaerobacter wiegelii YP_004818937.1':0.024538,'Thermoanaerobacter ethanolicus WP_003868946.1':1.0E-6)0.7670:0.011266,('Thermoanaerobacter mathranii YP_003677317.1':0.024942,'Thermoanaerobacter italicus YP_003477421.1':1.0E-6)0.7700:0.013178)0.8290:0.039399,('Caldanaerobacter subterraneus yonseiensis_ERM91342.1':1.0E-6,('Caldanaerobacter subterraneus tengcongensis_NP_621832.1':1.0E-6,'Caldanaerobacter subterraneus pacificus_CDSM653_0110':0.012386)0.8460:0.012475)0.8030:0.028049)0.8150:0.065699)root;
[!  TreeBASE tree URI: http://purl.org/phylo/treebase/phylows/tree/TB2:Tr89900]


END;