Name: Treponema phagedenis B43.1
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 159392

Type strain:

Species: Treponema phagedenis

Strain Designation: B43.1

Culture col. no.: DSM 110455, NCTC 14362

Strain history: <- P. Kuhnert, Univ. Bern; B43.1

NCBI tax ID(s): 166 (species)

SI-ID 397395

DSM 110455

Other strains from Treponema phagedenis

T. phagedenis T 320A, DSM 18690

Section

Treponema phagedenis B43.1 is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from cow foot with bovine digital dermatitis.

Gram-negative
anaerobe
mesophilic
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Spirochaetota*
	Class	*Spirochaetia*
	Order	*Spirochaetales*
	Family	*Treponemataceae*
	Genus	*Treponema*
	Species	**Treponema phagedenis**
	Full Scientific Name (LPSN)	Treponema phagedenis (ex Brumpt 1922) Kuhnert et al. 2020

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	negative Confidence in %99.074

Information on culture and growth conditions Culture and growth conditions

[Ref.: #66215]

Culture medium

OTEB-MEDIUM (DSMZ Medium 1245)

[Ref.: #66215]

Culture medium growth

[Ref.: #66215]

Culture medium link

Medium recipe at MediaDive

[Ref.: #66215]

Culture medium composition

expand / minimize

[Ref.: #66215]

Culture medium

OMIZ-PAT (DSMZ Medium 1494)

[Ref.: #66215]

Culture medium growth

[Ref.: #66215]

Culture medium link

Medium recipe at MediaDive

[Ref.: #66215]

Culture medium composition

expand / minimize

Name: . OMIZ-PAT Medium (modified) (DSMZ Medium 1494)
Composition:
(NH4)6Mo7O24 x 4 H2O 12.4 g/l
Yeast extract 3.0 g/l
Fe SO4 x 7 H2O 2.78015 g/l
D-Glucose 2.0 g/l
D-Mannose 2.0 g/l
D-Arabinose 2.0 g/l
L-Fucose 2.0 g/l
D-Trehalose 2.0 g/l
D-Sucrose 2.0 g/l
L-Rhamnose 2.0 g/l
NH4Cl 1.6 g/l
Glutathione 1.5366 g/l
Ascorbic acid 1.0 g/l
NaHCO3 1.0 g/l
Ethanol 1.0 g/l
KCl 0.968 g/l
D-Maltose 0.8 g/l
D-glucuronic acid 0.8 g/l
D-Mannitol 0.8 g/l
D-galacturonic acid 0.8 g/l
D-Fructose 0.8 g/l
L-Glutamine 0.68 g/l
L-Histidine 0.62 g/l
NaVO3 0.61 g/l
D 0.56 g/l
Pyruvic acid 0.55 g/l
L-Serine 0.525 g/l
Fumaric acid 0.5 g/l
HCl 0.3646 g/l
L-Cysteine HCl 0.35 g/l
L-Glutamic acid 0.3 g/l
Formic acid 0.3 g/l
ZnSO4 x 7 H2O 0.287 g/l
MgSO4 x 7 H2O 0.25 g/l
DL-carnitine 0.2 g/l
N-Acetylglucosamine 0.2 g/l
Citric acid 0.2 g/l
L-Lysine HCl 0.182 g/l
L-Arginine 0.175 g/l
L-Ornithine HCl 0.17 g/l
L-Phenylalanine 0.165 g/l
CaCl2 x H2O 0.15 g/l
L-Methionine 0.15 g/l
L-Asparagine 0.15 g/l
NaH2PO4 x H2O 0.14 g/l
L-Leucine 0.131 g/l
L-Isoleucine 0.131 g/l
NiSO4 x 6 H2O 0.131 g/l
L-Threonine 0.12 g/l
L-Aspartic acid 0.118 g/l
SnCl2 x 2 H2O 0.118 g/l
L-Valine 0.117 g/l
L-Proline 0.115 g/l
L-Tryptophan 0.102 g/l
Nicotinic acid 0.1 g/l
Folinic acid 0.1 g/l
L-Tyrosine 0.09 g/l
NaOH 0.079994 g/l
Glycine 0.075 g/l
Nicotinamide 0.05 g/l
Folic acid 0.05 g/l
D-(+)-biotin 0.05 g/l
Vitamine B12 0.05 g/l
Choline chloride 0.05 g/l
Myo-inositol 0.05 g/l
L-Alanine 0.045 g/l
Hemin 0.026076 g/l
N-acetylmuramic acid 0.025 g/l
Na2SeO3 0.0173 g/l
MnSO4 x H2O 0.0169 g/l
Riboflavine 0.01 g/l
2-Mercaptoethanesulfonic acid 0.01 g/l
Phenol red 0.01 g/l
Putrescine 2 HCl 0.005 g/l
Pyridoxal hydrochloride 0.005 g/l
Pyridoxal phosphate 0.005 g/l
Calcium D-(+)-pantothenate 0.005 g/l
Thiamine HCl 0.005 g/l
Thiamin pyrophosphate 0.005 g/l
Thymidine 0.0024 g/l
N-(2-acetamido)-2-aminoethanesulfonic acid 0.0018 g/l
Hypoxanthine 0.0014 g/l
Uracil 0.0011 g/l
Flavin adenine dinucleotide 0.001 g/l
ß-nicotinamide adenine dinucleotide 0.001 g/l
Coenzym A 0.001 g/l
CuSO4 0.000789 g/l
Cholesterol
Asialofetuin
2-Mercaptoethanol
Isovaleric acid
Valeric acid
2-Methylbutyric acid
Isobutyric acid
DL-alpha-lipoic acid
Rabbit serum
Distilled water

	Temperatures	Kind of temperature		Temperature
[Ref.: #66215]			growth	37 °C

[Ref.: #66215]

Temperature range

mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69480]

Oxygen tolerance

anaerobe Confidence in %99.259

[Ref.: #69480]

Ability of spore formation

no Confidence in %99.998

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #66215]	Sample type/isolated from	cow foot with bovine digital dermatitis
[Ref.: #66215]	Geographic location (country and/or sea, region)	Bern
[Ref.: #66215]	Country	Switzerland
[Ref.: #66215]	Country ISO 3 Code	CHE
[Ref.: #66215]	Continent	Europe
[Ref.: #66215]	Geographic location	46.9479°/7.4446°
* marker position based on {}

Isolation sources categories

#Host	#Mammals	#Bovinae (Cow, Cattle)
#Host Body-Site	#Limb	#Foot
#Infection	#Disease	-

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence MN396624 (>99% sequence identity) for Treponema phagedenis subclade from Microbeatlas

Aquatic Samples	121
Soil Samples	56
Animal Samples	1412
Plant Samples	22
Total Samples	1611

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #66215]	Treponema phagedenis strain B43.1 16S ribosomal RNA gene, partial sequence	MN396624	1546	ENA	162 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Treponema phagedenis B43.1	GCA_008153345	complete	GenBank	162 tax ID	*

Data predicted using genome information as a basis Genome-based predictions

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Treponema phagedenis B43.1 NCBI: GCA_008153345.1
[Ref.: #69481]	spore-forming	no	82	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Treponema phagedenis B43.1 NCBI: GCA_008153345.1
[Ref.: #69480]	motile	yes	74.768	no
[Ref.: #69480]	flagellated	no	89.159	no
[Ref.: #69480]	gram-positive	no	92.309	no
[Ref.: #69480]	anaerobic	yes	99.105	no
[Ref.: #69480]	aerobic	no	98.621	no
[Ref.: #69480]	halophile	no	67.639	no
[Ref.: #69480]	spore-forming	no	95.22	no
[Ref.: #69480]	glucose-util	yes	85.352	no
[Ref.: #69480]	thermophile	no	97.477	no
[Ref.: #69480]	glucose-ferment	yes	71.025	no

Availability in culture collections External links

[Ref.: #66215]

Culture collection no.

DSM 110455, NCTC 14362

[Ref.: #111887]

SI-ID 397395

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Treponema phagedenis (ex Noguchi 1912) Brumpt 1922 sp. nov., nom. rev., isolated from bovine digital dermatitis.	Kuhnert P, Brodard I, Alsaaod M, Steiner A, Stoffel MH, Jores J	Int J Syst Evol Microbiol	10.1099/ijsem.0.004027	2020	*

References

#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 )

#66215

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 110455

#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) .

#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 .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#111887

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID397395.1 )

* These data were automatically processed and therefore are not curated

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