#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

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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 16726 ]
BEGIN TAXA;
        TITLE  TaxaForAnalysisStep16726;
        DIMENSIONS NTAX=14;
        TAXLABELS
            'Caldanaerobacter subterraneus tengcongensis_NP_621824.1'
            'Caldanaerobacter subterraneus yonseiensis_ERM91335.1'
            'Coprothermobacter platensis WP_018962516.1'
            'Thermoanaerobacter ethanolicus WP_003868938.1'
            'Thermoanaerobacter indiensis WP_019907184.1'
            'Thermoanaerobacter italicus YP_003477429.1'
            'Thermoanaerobacter mathranii YP_003677325.1'
            'Thermoanaerobacter siderophilus WP_006569904.1'
            'Thermoanaerobacter thermohydrosulfuricus WP_004399990.1'
            'Thermoanaerobacter wiegelii YP_004818929.1'
            'Thermoanaerobacterium saccharolyticum YP_006391299.1'
            'Thermoanaerobacterium thermosaccharolyticum YP_003850791.1'
            'Thermoanaerobacterium thermosaccharolyticum YP_007297549.1'
            'Thermoanaerobacterium xylanolyticum YP_004469842.1'
            ;
END;

BEGIN CHARACTERS;
[! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M32952]

	TITLE EchB_alignment;
	LINK TAXA = TaxaForAnalysisStep16726;
	DIMENSIONS NCHAR=307;
	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       210       220       230       240       250       260       270       280       290       300       ]
[                                                                       .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .       ]
'Caldanaerobacter subterraneus tengcongensis_NP_621824.1'      ---------MIKEILIF-VAAVILAPIIGGFLSGIDRKLTAFIQGRYGPPIWQPFYDIVKLLYKQKILVNNFQVFSAYMYLLTAILSVGLFAIKADLLMILFVMSVGLVFYIAGALSTKSPYSQVGAQRELMQMLAYEPMLIFFAIALYNATGSFNIGQIMTHGR-LLLDLPLMFILLALVLTIKLKKSPFDLSASEHAHQELVRGILTDYSGPYLALIHIADWYEMVLILMMIAILWSENL----LIGALIALLTFFLDIVLDNITARMTVKWML-AFSWTISILFTIVNIAYI-YF---RR----
'Caldanaerobacter subterraneus yonseiensis_ERM91335.1'         ---------MIKEILIF-VAAIILAPIIGGFLSGIDRKLTAFIQGRYGPPIWQPFYDIVKLLYKQKILVNNFQVFSAYMYLLTAILSVGLFAIKADLLMILFVMSVGLVFYIAGALSTKSPYSQVGAQRELMQMLAYEPMLIFFAIALYNATGSFNIGQIMIHGR-LLLDLPLMFILLALVLTIKLKKSPFDLSASEHAHQELVRGILTDYSGPYLALIHIADWYEMVLILMMIAILWSENL----LIGALIALLTFFLDIVLDNITARMTVKWML-AFSWTISILFTIVNIAYI-YF---RR----
'Coprothermobacter platensis WP_018962516.1'                   --------MNVLNIVFRLLLALVVFPIIGGLIVGLDRKLTARLQGRYGPPILQPFYDVLKLFSKQRIIVNEFQVISVFIYLASSVLSLVLFTFQSDLLMIIFVMSIGAVFLVVGALSVKSAYSQVGAQRELMQMLSYEPLLILIIVGMYLMRGSFNIAVIMSQGRPLIEELPLLFLVMVIVLGIKMRKSPFDLSASEHAHQELVRGLLTDYSGLYLGLIDIAHWFDLMLLLGISTLFFYPHI----VLGIIASLFLVILEIVIDNVTARLTVKWML-TYSYGLGLVLAAINIAVV-YI---L---R-
'Thermoanaerobacter ethanolicus WP_003868938.1'                ---------MIKEIGIF-VVAVILAPLIGGFLSGIDRKLTAFIQGRYGPPIWQPFYDVIKLLYKQRLLVNDFQVFSAYMYLLSAILSVGLFAIKADLLMILFIMSVGLVFYIAGALSTKSPYSQVGAQRELMQMLAYEPMLIFFAIAVYNVTGSFNLAQIMTHGK-LLLDLPLMFILLGLVLTIKLKKSPFDLSASEHAHQELVRGILTDYSGPYLALIHIADWYEMILILAMIAILWSQNL----VIGALIALATFFVDIVIDNITARMTVKWML-AFSWSISILFTIVNIAYI-YF---RR----
'Thermoanaerobacter indiensis WP_019907184.1'                  ---------MIKEIRIF-VVAVILAPLIGGFLSGIDRKLTAFIQGRYGPPIWQPFYDVIKLLYKQRLLVNDFQVFSAYMYLLSAILSVGLFAIKADLLMILFIMSVGLVFYIAGALSTKSPYSQVGAQRELMQMLAYEPMLIFFAIAVYNVTGSFNLAQIMTHGK-LLLDLPLMFILLGLVLTIKLKKSPFDLSASEHAHQELVRGILTDYSGPYLALIHIADWYELVLILAMIAILWSQNL----VIGALIALATFFVDIVIDNITARMTVKWML-TFSWSISILFTIVNIAYI-YF---RR----
'Thermoanaerobacter italicus YP_003477429.1'                   --------MTLYKIIIF-VTAIIVAPLIGGFLSGIDRKLTAHIQGRYGPPIWQPFYDVIKLLHKQRLLVNDFQVFSAYMYLLSGILSVGLFALKTDLLMILFIMSVGVVFYIAGALSTKSPYSQVGAQRELMQMLGYEPMLIFFVIAVYNVTGSFNLAQIMIYGR-LLLDLPLMFILLGLVLTIKLKKSPFDLSASEHAHQELVRGILTDYSGPYLGLIQIADWYELVLILAMIAILWSQNL----VIGALIALATFFADIVLDNISARMTVKWML-VFSWSISILLTIVNIAYI-YF---RR----
'Thermoanaerobacter mathranii YP_003677325.1'                  --------MTLYKIIIF-VTAIIVAPLIGGFLSGIDRKLTAHIQGRYGPPIWQPFYDVIKLLHKQRLLVNDFQVFSAYMYLLSGILSVGLFALKTDLLMILFIMSVGVVFYIAGALSTKSPYSQVGAQRELMQMLGYEPMLIFFVIAVYNVTGSFNLAQIMIHGR-LLLDLPLMFILLGLVLTIKLKKSPFDLSASEHAHQELVRGILTDYSGPYLGLIQIADWYELVLILAMIAILWSQNL----VIGALIALATFFADIVLDNISARMTVKWML-VFSWSISILLTIVNVAYI-YF---RR----
'Thermoanaerobacter siderophilus WP_006569904.1'               ---------MIKEIGIF-VVAVILAPLIGGFLSGIDRKLTAFIQGRYGPPIWQPFYDVIKLLYKQRLLVNDFQVFSAYMYLLSAILSVGLFAIKADLLMILFIMSVGLVFYIAGALSTKSPYSQVGAQRELMQMLAYEPMLIFFAIAVYNVTGSFNLAQIMTHGK-LLLDLPLMFILLGLVLTIKLKKSPFDLSASEHAHQELVRGILTDYSGPYLALIHIADWYELVLILAMIAILWSQNL----VIGALIALAAFFVDIVIDNITARMTVKWML-AFSWSISILFTIVNIAYI-YF---RR----
'Thermoanaerobacter thermohydrosulfuricus WP_004399990.1'      ---------MIKEIGIF-VVAVILAPLIGGFLSGIDRKLTAFIQGRYGPPIWQPFYDVIKLLYKQRLLVNDFQVFSAYMYLLSAILSVGLFAIKADLLMILFIMSVGLVFYIAGALSTKSPYSQVGAQRELMQMLAYEPMLIFFAIAVYNVTGSFNLAQIMTHGK-LLLDLPLMFILLGLVLTIKLKKSPFDLSASEHAHQELVRGILTDYSGPYLALIHIADWYELVLILAMIAILWSQNL----VIGALIALATFFVDIVIDNITARMTVKWML-TFSWSISILFTIVNIAYI-YF---RR----
'Thermoanaerobacter wiegelii YP_004818929.1'                   ---------MIKEIGIF-VVAVILAPLIGGFLSGIDRKLTAFIQGRYGPPIWQPFYDVIKLLYKQRLLVNDFQVFSAYMYLLSAILSVGLFAIKADLLMILFIMSVGLVFYIAGALSTKSPYSQVGAQRELMQMLAYEPMLIFFAIAVYNVTGSFNLAQIMTHGK-LLLDLPLMFILLGLVLTIKLKKSPFDLSASEHAHQELVRGILTDYSGPYLALIHIADWYELVLILAMIAILWSQNL----VIGALIALATFFVDIVIDNITARMTVKWML-AFSWSISILFTIVNIAYI-YF---RR----
'Thermoanaerobacterium saccharolyticum YP_006391299.1'         --------MTWTDYLIF-LAAVILTPLIGGLITGLDRKVTALIQGRYGPPVLQPFYDVVKLLSKEKMIVNDFQIFAAYIYLLSAILSVGFFAIKADLLMIIFIMSIGLVFYVIGALATRSPYSQVGAQRELMQMLAYEPLLIFVLIGMYYVAGSFNLHDIMSHGR-LLLDLPLIFVVLSLVLDIKIKKSPFDFSTSEHAHQELVRGILTDYAGPYLALIEIADWYELVLLLAMLAIFWSQNL----VIGALISLFVFFLDIIVDNISARMTLKWML-SFSWIVGISFTVLNIAYL-YF---SNVSR-
'Thermoanaerobacterium thermosaccharolyticum YP_003850791.1'   --------MTWMEYLVF-AIAVIVTPIIGGLITGLDRKVTALIQGRYGPPILQPFYDVTKLLSKEKMIVNDFQIFAAYIYLLSAILSIGFFAIKADLLMIIFIMSIGLVFYIVGALATRSPYSQVGAQRELMQMLAYEPLLIFVLIGMYYVSGSFSLKSIMSHGR-LLLDLPLIFLVLCLVLDIKIKKSPFDFSTSEHAHQELVRGILTDYSGPYLALIEIADWYELVLLLSMIAIFWSQNL----IIGALISLLILFLDIIVDNISARMTLKWML-SFSWIVGIVFTVVNIGYL-YF---SNVSR-
'Thermoanaerobacterium thermosaccharolyticum YP_007297549.1'   --------MTWMEYLVF-AIAIIVTPIIGGFITGLDRKVTALIQGRYGPPILQPFYDVTKLLSKEKMIVNDFQIFAAYIYLLSAILSIGFFAIKADLLMIVFIMSIGLVFYIVGALATRSPYSQVGAQRELMQMLAYEPLLIFVLIGMYYVSGSFSLKSIMSHGR-LLLDLPLIFLVLCLVLDIKIKKSPFDFSTSEHAHQELVRGILTDYSGPYLALIEIADWYELVLLLSMIAIFWSQNL----IIGALISLLILFLDIIVDNISARMTLKWML-SFSWIVGIVFTVVNIGYL-YF---SNLLR-
'Thermoanaerobacterium xylanolyticum YP_004469842.1'           --------MTWVDYLVF-AAAVILTPLIGGFITGLDRKVTALIQGRYGPPVLQPFYDVVKLLSKEKMIVNDFQIFAAYIYLLSAILSVGFFAIKADLLMIIFIMSIGLVFYVIGALATRSPYSQVGAQRELMQMLAYEPLLIFVLIGMYYVAGSFNLHDIMSHGR-LLLDLPLIFVVLSLVLDIKIKKSPFDFSTSEHAHQELVRGILTDYAGPYLALIEIADWYELVLLLAMLAIFWSQNL----VIGALISLFVFFLDIIIDNISARMTLKWML-SFSWIVGISFTVLNIAYL-YF---SNVSR-
;
END;

[ The following blocks are output data for analysis step 16726 ]
BEGIN TREES;
      TITLE EchB_phylogeny;
      LINK TAXA = TaxaForAnalysisStep16726;
      TREE EchB_ML = [&R] ('Coprothermobacter platensis WP_018962516.1':0.360671,((('Thermoanaerobacterium thermosaccharolyticum YP_003850791.1':0.003884,'Thermoanaerobacterium thermosaccharolyticum YP_007297549.1':0.00737)0.9780:0.056311,('Thermoanaerobacterium saccharolyticum YP_006391299.1':0.015292,'Thermoanaerobacterium xylanolyticum YP_004469842.1':1.0E-6)0.9240:0.045476)0.9790:0.107308,(('Thermoanaerobacter ethanolicus WP_003868938.1':0.00405,((('Thermoanaerobacter italicus YP_003477429.1':1.0E-6,'Thermoanaerobacter mathranii YP_003677325.1':0.003744)1.0000:0.074348,('Thermoanaerobacter thermohydrosulfuricus WP_004399990.1':1.0E-6,'Thermoanaerobacter indiensis WP_019907184.1':1.0E-6)0.7220:0.003744)0.0000:1.0E-6,('Thermoanaerobacter siderophilus WP_006569904.1':0.003743,'Thermoanaerobacter wiegelii YP_004818929.1':1.0E-6)0.0000:1.0E-6)0.7420:0.003415)0.4720:0.028006,('Caldanaerobacter subterraneus yonseiensis_ERM91335.1':0.003728,'Caldanaerobacter subterraneus tengcongensis_NP_621824.1':1.0E-6)0.9870:0.055874)0.9910:0.136507)0.9980:0.214799)root;
[!  TreeBASE tree URI: http://purl.org/phylo/treebase/phylows/tree/TB2:Tr89889]


END;