#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 June 14, 2024; 10:58 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 16700 ]
BEGIN TAXA;
        TITLE  TaxaForAnalysisStep16700;
        DIMENSIONS NTAX=10;
        TAXLABELS
            'Caldanaerobacter subterraneus yonseiensis_ERM91252.1'
            'Caldithrix abyssi WP_006928793.1'
            'Caloramator australicus WP_008908954.1'
            'Clostridium WP_006776763.1'
            'Pyrococcus horikoshii NP_877851.1'
            Thermoanaerobacter_ethanolicus_EGD52039.1
            Thermoanaerobacter_siderophilus_EIW00250.1
            Thermoanaerobacter_thermohydrosulfuricus_EMT39678.1
            'Thermoanaerobacter wiegelii YP_004818835.1'
            'Thermobrachium celere WP_018663241.1'
            ;
END;

BEGIN CHARACTERS;
[! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M32871]

	TITLE MbxD_alignment;
	LINK TAXA = TaxaForAnalysisStep16700;
	DIMENSIONS NCHAR=95;
	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     ]
[                                                                 .         .         .         .         .         .         .         .         .     ]
'Caldanaerobacter subterraneus yonseiensis_ERM91252.1'   ----MFLSVIIAVIMIFGAMWTIVTEDLFKAIVIFAIVSLSSSIMFLLMQAPDVAITEAAIGSGITTALFIFTYKKV----EEEKDER-------
'Caldithrix abyssi WP_006928793.1'                       ---MTLIVILLGIGMVVAALAAVYFNNLIAAVVAGGIVSLFASVLYLILAAPDVAMTEAAIGAGLSTAIFIYAVKKT----REQEVEHD------
'Caloramator australicus WP_008908954.1'                 ---MYYLGLIIAFIMAFGSLWALLTDDLFKAIVVFGIVSLSSSVMFLLMQAPDVAITEAAIGSGITTALFIFTYKKL----EDRKDER-------
'Clostridium WP_006776763.1'                             ---MKLFEIILLICLIVCAVSVAFTKDLLTSIVIFMSYSLIMCIIWILLQSPDLAITEAAVGAGVTSILFFITLKKIRAIRKEERDEQDEGSL--
'Pyrococcus horikoshii NP_877851.1'                      MNCIACVEDIIVLLMIISAILSVEWRDLLAATVGMAAVSLFASILFFLLQAPDVAMTEAAIGAALSGAVFIFAIKRTYRY-ESEEEEKPGWWVRW
Thermoanaerobacter_ethanolicus_EGD52039.1                ----MFLSVIIAVIMIFGAMWTIVTEDLFKAIVIFAIVSLSSSIMFLLMQAPDVAITEAAIGSGITTALFIFTYKKV----EEEKDER-------
Thermoanaerobacter_siderophilus_EIW00250.1               ----MFLSVIIAVIMIFGAMWTIVTEDLFKAIVIFAIVSLSSSIMFLLMQAPDVAITEAAIGSGITTALFIFTYKKV----EEEKDER-------
Thermoanaerobacter_thermohydrosulfuricus_EMT39678.1      ----MFLSVIIAVIMIFGAMWTIVTEDLFKAIVIFAIVSLSSSIMFLLMQAPDVAITEAAIGSGITTGLFIFTYKKV----EEEKDER-------
'Thermoanaerobacter wiegelii YP_004818835.1'             ----MFLSVIIAVIMIFGAMWTIVTEDLFKAIVIFAIVSLSSSIMFLLMQAPDVAITEAAIGSGITTALFIFTYKKV----EEEKDER-------
'Thermobrachium celere WP_018663241.1'                   ---MINLAIFIAVVMFLGAIWTVLTEDVFKAIVIFGIVSLMSSVMFLLMQAPDVAITEAAIGSGITTALFIFTYKKM----EERKDER-------
;
END;

[ The following blocks are output data for analysis step 16700 ]
BEGIN TREES;
      TITLE MbxD_phylogeny;
      LINK TAXA = TaxaForAnalysisStep16700;
      TREE MbxD_ML = [&R] (((('Caldanaerobacter subterraneus yonseiensis_ERM91252.1':1.0E-6,(((Thermoanaerobacter_thermohydrosulfuricus_EMT39678.1:0.012048,'Thermoanaerobacter wiegelii YP_004818835.1':1.0E-6)0.0000:1.0E-6,Thermoanaerobacter_ethanolicus_EGD52039.1:1.0E-6)0.0000:1.0E-6,Thermoanaerobacter_siderophilus_EIW00250.1:1.0E-6)0.0000:1.0E-6)0.0000:2.0E-6,('Thermobrachium celere WP_018663241.1':0.152565,'Caloramator australicus WP_008908954.1':0.185618)0.8570:0.121578)0.8460:0.264251,'Clostridium WP_006776763.1':0.843393)0.9490:0.0765135,('Pyrococcus horikoshii NP_877851.1':0.419348,'Caldithrix abyssi WP_006928793.1':0.580609)0.9490:0.3392975)root;
[!  TreeBASE tree URI: http://purl.org/phylo/treebase/phylows/tree/TB2:Tr89854]


END;