Thiobaca trueperi (DSM 13587, ATCC BAA-132, BCH)

Name: Thiobaca trueperi (DSM 13587, ATCC BAA-132, BCH)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 2463

Type strain

Strain Designation BCH

Culture col. no. DSM 13587 ATCC BAA-132 BCH

NCBI tax ID(s) 127458

Special Collections DSMZ

History <- G. N. Rees; BCH

Links

Thiobaca trueperi BCH is an anaerobe, mesophilic prokaryote that was isolated from sediment from a shallow, freshwater eutrophic lake.

anaerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 49493

DSM 13587,ATCC BAA-132

@ref 20215

Last LPSN update 2026-02-09 11:18:17

Domain Bacteria

Phylum Pseudomonadota

Class Gammaproteobacteria

Order Chromatiales

Family Chromatiaceae

Genus Thiobaca

Species Thiobaca trueperi

Full scientific name Thiobaca trueperi Rees et al. 2002

BacDive ID	Other strains from **Thiobaca trueperi** (1)	Type strain
2464	T. trueperi OCH, DSM 13588

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	negative	96.3
125438	negative	99.994

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
5095	PFENNIG'S MEDIUM I (modified 1988, for purple sulfur bacteria) (DSMZ Medium 28)		Medium recipe at MediaDive	Name: PFENNIG'S MEDIUM I (DSMZ Medium 28) Composition: NaHCO3 1.5 g/l Na2S x 9 H2O 0.592592 g/l MgSO4 x 7 H2O 0.500001 g/l KCl 0.349999 g/l KH2PO4 0.349999 g/l Ammonium chloride 0.349999 g/l Pyruvic acid sodium salt 0.25 g/l Dextrose 0.25 g/l CaCl2 x 2 H2O 0.25 g/l Yeast extract 0.25 g/l Ammonium acetate 0.25 g/l Na2-EDTA 0.003 g/l Resazurin 0.00225 g/l FeSO4 x 7 H2O 0.0011 g/l Vitamin B12 0.001 g/l H3BO3 0.0003 g/l CoCl2 x 6 H2O 0.00019 g/l MnCl2 x 2 H2O 5e-05 g/l ZnCl2 4.2e-05 g/l NiCl2 x 6 H2O 2.4e-05 g/l Na2MoO4 x 2 H2O 1.8e-05 g/l CuCl2 x 2 H2O 2e-06 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
5095	positive	growth	25	mesophilic

Physiology and metabolism

Oxygen tolerance

5095

Oxygen toleranceanaerobe

Spore formation

@ref	Spore formation	Confidence
125439		93.4

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	hydrogen production	100	5 of 5
66794	palmitate biosynthesis	100	22 of 22
66794	C4 and CAM-carbon fixation	100	8 of 8
66794	methylglyoxal degradation	100	5 of 5
66794	butanoate fermentation	100	4 of 4
66794	CMP-KDO biosynthesis	100	4 of 4
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	ubiquinone biosynthesis	100	7 of 7
66794	cardiolipin biosynthesis	100	7 of 7
66794	acetoin degradation	100	3 of 3
66794	ppGpp biosynthesis	100	4 of 4
66794	biotin biosynthesis	100	4 of 4
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	folate polyglutamylation	100	1 of 1
66794	suberin monomers biosynthesis	100	2 of 2
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	photosynthesis	92.86	13 of 14
66794	phenylalanine metabolism	92.31	12 of 13
66794	NAD metabolism	88.89	16 of 18
66794	gluconeogenesis	87.5	7 of 8
66794	heme metabolism	85.71	12 of 14
66794	reductive acetyl coenzyme A pathway	85.71	6 of 7
66794	propanol degradation	85.71	6 of 7
66794	vitamin B1 metabolism	84.62	11 of 13
66794	pentose phosphate pathway	81.82	9 of 11
66794	cellulose degradation	80	4 of 5
66794	vitamin K metabolism	80	4 of 5
66794	citric acid cycle	78.57	11 of 14
66794	tetrahydrofolate metabolism	78.57	11 of 14
66794	lipid A biosynthesis	77.78	7 of 9
66794	chorismate metabolism	77.78	7 of 9
66794	molybdenum cofactor biosynthesis	77.78	7 of 9
66794	serine metabolism	77.78	7 of 9
66794	aspartate and asparagine metabolism	77.78	7 of 9
66794	valine metabolism	77.78	7 of 9
66794	d-mannose degradation	77.78	7 of 9
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
66794	acetate fermentation	75	3 of 4
66794	isoleucine metabolism	75	6 of 8
66794	glycogen biosynthesis	75	3 of 4
66794	sulfopterin metabolism	75	3 of 4
66794	vitamin B12 metabolism	73.53	25 of 34
66794	flavin biosynthesis	73.33	11 of 15
66794	peptidoglycan biosynthesis	73.33	11 of 15
66794	purine metabolism	70.21	66 of 94
66794	starch degradation	70	7 of 10
66794	threonine metabolism	70	7 of 10
66794	sulfate reduction	69.23	9 of 13
66794	alanine metabolism	68.97	20 of 29
66794	pyrimidine metabolism	68.89	31 of 45
66794	enterobactin biosynthesis	66.67	2 of 3
66794	octane oxidation	66.67	2 of 3
66794	formaldehyde oxidation	66.67	2 of 3
66794	L-lactaldehyde degradation	66.67	2 of 3
66794	glycolate and glyoxylate degradation	66.67	4 of 6
66794	CO2 fixation in Crenarchaeota	66.67	6 of 9
66794	glycolysis	64.71	11 of 17
66794	glutamate and glutamine metabolism	64.29	18 of 28
66794	vitamin B6 metabolism	63.64	7 of 11
66794	isoprenoid biosynthesis	61.54	16 of 26
66794	methionine metabolism	61.54	16 of 26
66794	leucine metabolism	61.54	8 of 13
66794	lipid metabolism	61.29	19 of 31
66794	propionate fermentation	60	6 of 10
66794	glycogen metabolism	60	3 of 5
66794	lipoate biosynthesis	60	3 of 5
66794	cysteine metabolism	55.56	10 of 18
66794	non-pathway related	55.26	21 of 38
66794	Entner Doudoroff pathway	50	5 of 10
66794	dTDPLrhamnose biosynthesis	50	4 of 8
66794	selenocysteine biosynthesis	50	3 of 6
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	adipate degradation	50	1 of 2
66794	mannosylglycerate biosynthesis	50	1 of 2
66794	lysine metabolism	50	21 of 42
66794	coenzyme A metabolism	50	2 of 4
66794	arginine metabolism	50	12 of 24
66794	ethanol fermentation	50	1 of 2
66794	oxidative phosphorylation	49.45	45 of 91
66794	phosphatidylethanolamine bioynthesis	46.15	6 of 13
66794	proline metabolism	45.45	5 of 11
66794	histidine metabolism	44.83	13 of 29
66794	tryptophan metabolism	44.74	17 of 38
66794	nitrate assimilation	44.44	4 of 9
66794	glutathione metabolism	42.86	6 of 14
66794	degradation of aromatic, nitrogen containing compounds	41.67	5 of 12
66794	arachidonate biosynthesis	40	2 of 5
66794	coenzyme M biosynthesis	40	4 of 10
66794	glycine metabolism	40	4 of 10
66794	glycine betaine biosynthesis	40	2 of 5
66794	androgen and estrogen metabolism	37.5	6 of 16
66794	ketogluconate metabolism	37.5	3 of 8
66794	metabolism of disaccharids	36.36	4 of 11
66794	tyrosine metabolism	35.71	5 of 14
66794	phenol degradation	35	7 of 20
66794	acetyl CoA biosynthesis	33.33	1 of 3
66794	sphingosine metabolism	33.33	2 of 6
66794	cyanate degradation	33.33	1 of 3
66794	pantothenate biosynthesis	33.33	2 of 6
66794	arachidonic acid metabolism	33.33	6 of 18
66794	IAA biosynthesis	33.33	1 of 3
66794	3-phenylpropionate degradation	33.33	5 of 15
66794	ascorbate metabolism	31.82	7 of 22
66794	urea cycle	30.77	4 of 13
66794	polyamine pathway	30.43	7 of 23
66794	4-hydroxyphenylacetate degradation	30	3 of 10
66794	myo-inositol biosynthesis	30	3 of 10
66794	aclacinomycin biosynthesis	28.57	2 of 7
66794	degradation of pentoses	28.57	8 of 28
66794	degradation of hexoses	27.78	5 of 18
66794	chlorophyll metabolism	27.78	5 of 18
66794	carnitine metabolism	25	2 of 8
66794	lactate fermentation	25	1 of 4
66794	cyclohexanol degradation	25	1 of 4
66794	toluene degradation	25	1 of 4
66794	methanogenesis from CO2	25	3 of 12
66794	degradation of sugar alcohols	25	4 of 16
66794	phenylpropanoid biosynthesis	23.08	3 of 13
66794	carotenoid biosynthesis	22.73	5 of 22

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Freshwater
#Environmental	#Aquatic	#Lake (large)
#Environmental	#Aquatic	#Sediment

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
5095	sediment from a shallow, freshwater eutrophic lake	New South Wales, Albury	Australia	AUS	Australia and Oceania

Taxonmaps

69479

Global distribution of 16S sequence AJ404006 (>99% sequence identity) for Thiobaca trueperi from Microbeatlas

Aquatic Samples	577
Soil Samples	78
Animal Samples	111
Plant Samples	17
Total Samples	783

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
5095	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM434217v1 assembly for Thiobaca trueperi DSM 13587	scaffold	GCA_004342175	127458.4	2784746805	127458	74.2

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
20218	Thiobaca trueperi 16s rRNA gene, strain BCH	AJ404006	1370		127458

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Thiobaca trueperi DSM 13587
NCBI: GCA_004342175

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	aerobe	88.70	no
125439	gram_stain	BacteriaNetⓘ	negative	96.30	no
125439	motility	BacteriaNetⓘ	yes	69.40	no
125439	spore_formation	BacteriaNetⓘ	no	93.40	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Thiobaca trueperi DSM 13587
NCBI: GCA_004342175.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	99.99	no
125438	anaerobic	anaerobicⓘ	yes	68.24	yes
125438	aerobic	aerobicⓘ	no	76.65	yes
125438	spore-forming	spore-formingⓘ	no	88.19	no
125438	thermophilic	thermophileⓘ	no	92.34	no
125438	flagellated	motile2+ⓘ	yes	75.75	no

Literature

References

#5095	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 13587
#20215	Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.: List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ. IJSEM ( DOI 10.1099/ijsem.0.004332 )
#20218	Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )
#66792	Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .
#66794	Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )
#69479	João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.: MicrobeAtlas 1.0 beta .
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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