#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; 22:57 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 16686 ]
BEGIN TAXA;
        TITLE  TaxaForAnalysisStep16686;
        DIMENSIONS NTAX=8;
        TAXLABELS
            'Caldanaerobacter subterraneus pacificus_CDSM653_01578'
            'Caldanaerobacter subterraneus tengcongensis_NP_623294.1'
            'Caldanaerobacter subterraneus yonseiensis_WP_022587807.1'
            'Escherichia coli WP_001291921.1'
            Geobacillus_sp._Y4.1MC1_YP_003989198.1
            'Geobacillus thermoglucosidasius WP_003250309.1'
            'Moorella thermoacetica YP_431015.1'
            'Thermoanaerobacter sp. YS13 THYS13_RS04620'
            ;
END;

BEGIN CHARACTERS;
[! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M32845]

	TITLE HycH_alignment;
	LINK TAXA = TaxaForAnalysisStep16686;
	DIMENSIONS NCHAR=151;
	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 ]
[                                                                     .         .         .         .         .         .         .         .         .         .         .         .         .         .         . ]
'Caldanaerobacter subterraneus pacificus_CDSM653_01578'      MPGKVKFFKLSKRFVD---EKDA-PAEVEQLKYYALAIGHHIGIVDCLSPVMTMEEKDYLEWISKFPPG-KVRRKLEGLTKWGEIEINREHVALLVSTLSQAFPSFLPEEKEWANCLLKLLHSIQKEPAIYVVVRLSEENSDYCRQ-----
'Caldanaerobacter subterraneus tengcongensis_NP_623294.1'    MPGKVKFFKLSKRFVD---EKDA-PAEVEQLKYYALAIGHHIGIVDCLSPVMTMEEKDYLEWISKFPPG-KVRRKLEGLTKWGEIEINREHVALLVSTLSQAFPSFLPEEKEWANCLLKLLHSIQKEPAIYVVVRLSEENSDYCRQ-----
'Caldanaerobacter subterraneus yonseiensis_WP_022587807.1'   MPGKVKFFKLSKRFVD---EKDA-PAEVEQLKYYALAIGHHIGIVDCLSPVMTMEEKDYLEWISKFPPG-KVRRKLEGLTKWGEIEINREHVALLVSALSQAFPSFLPEEKEWANCLLKLLHSIQKEPAIYVVVRLSEENSDYCRQ-----
'Escherichia coli WP_001291921.1'                            MSEKVVFSQLSRKFID---ENDATPAEAQQVVYYSLAIGHHLGVIDCLEAALTCPWDEYLAWIATLEAGSEARRKMEGVPKYGEIVIDINHVPMLANAFDKARAAQTSQQQEWSTMLLSMLHDIHQENAIYLMVRRLRD------------
Geobacillus_sp._Y4.1MC1_YP_003989198.1                       MPGKVKFFKLYKKFVDEGNENNV-APEVKQLKYYALAIGHHIGVVDCLSPVMVIEKEDYFNWIGKLPQG-KAKRKLEGLAKWGELEINRDHVAALGSALSEADPSFLPEEKKWANNLLQLLQMIKKEPAVYLVVRLSEEVSDYSR------
'Geobacillus thermoglucosidasius WP_003250309.1'             MPGKVKFFKLYKKFVDEGNENNV-APEVKQLKYYALAIGHHIGVVDCLSPVMVIEKEDYFNWIGKLPQG-KAKRKLEGLAKWGELEINRDHVAALGSALSEADPSFLPEEKKWANNLLQLLQMIKKEPAVYLVVRLSEEVSDYSR------
'Moorella thermoacetica YP_431015.1'                         MPGRVEFYKLCKRFVD---EKDV-PAEVQQLEYYALAIGHHIGVVDCLASIMAMDKEAYFKWISKLPRG-KARSKLEGLARWGELEINKEHVPALIAALEEANASFLPEEKQWTDCLLRLLYAMEKEPAIYLVVRLSEGASDYCRQRTDGR
'Thermoanaerobacter sp. YS13 THYS13_RS04620'                 MPGKVKFFKLSKRFVD---KKDV-PAEVEQLKYYALAIGHHIGIVDCLSPVMTMEEKDYLEWISKFPPG-KIRRKLEGLTKWGEIEINREHVALLVSTLSQAFPSFLPEEKEWANCLLKLLHSIQKEPAIYVVVRLSEENSDYCRQ-----
;
END;

[ The following blocks are output data for analysis step 16686 ]
BEGIN TREES;
      TITLE HycH_phylogeny;
      LINK TAXA = TaxaForAnalysisStep16686;
      TREE HycH_ML = [&R] ((((('Thermoanaerobacter sp. YS13 THYS13_RS04620':0.02258,('Caldanaerobacter subterraneus tengcongensis_NP_623294.1':1.0E-6,'Caldanaerobacter subterraneus pacificus_CDSM653_01578':1.0E-6)0.000000:1.0E-6)0.769000:0.0075,'Caldanaerobacter subterraneus yonseiensis_WP_022587807.1':1.0E-6)0.859000:0.081603,'Escherichia coli WP_001291921.1':0.787115)0.669000:0.07516,'Moorella thermoacetica YP_431015.1':0.246855)0.996000:0.178489,'Geobacillus thermoglucosidasius WP_003250309.1':1.0E-6,Geobacillus_sp._Y4.1MC1_YP_003989198.1:1.0E-6)root;
[!  TreeBASE tree URI: http://purl.org/phylo/treebase/phylows/tree/TB2:Tr89838]


END;