Name: Treponema pedis T3552B
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 14349

Type strain:

Species: Treponema pedis

Strain Designation: T3552B

Culture col. no.: DSM 18691, NCTC 13403

Strain history: <- N.J. Evans; T3552B <- J. M. Brown <- I. Demirkan

NCBI tax ID(s): 409322 (species)

SI-ID 408108

DSM 18691

Section

Treponema pedis T3552B is an anaerobe, mesophilic, Gram-negative animal pathogen that was isolated from bovine digital dermatitis lesions in Holstein-Friesian cows.

Gram-negative
motile
anaerobe
animal pathogen
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 pedis**
	Full Scientific Name (LPSN)	Treponema pedis Evans et al. 2009

Information on morphological and physiological properties Morphology

[Ref.: #28943]	Gram stain	negative

[Ref.: #28943]	Cell length	10.5 µm

[Ref.: #28943]	Cell width	0.25 µm

[Ref.: #28943]	Motility	yes

[Ref.: #28943]

Pigment production

Information on culture and growth conditions Culture and growth conditions

[Ref.: #7659]

Culture medium

OMIZ-PAT (DSMZ Medium 1494)

[Ref.: #7659]

Culture medium growth

[Ref.: #7659]

Culture medium link

Medium recipe at MediaDive

[Ref.: #7659]

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

[Ref.: #7659]

Culture medium

OTEB-MEDIUM (DSMZ Medium 1245)

[Ref.: #7659]

Culture medium growth

[Ref.: #7659]

Culture medium link

Medium recipe at MediaDive

[Ref.: #7659]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #7659]			growth	37 °C

[Ref.: #7659]

Temperature range

mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #7659]	Oxygen tolerance	anaerobe
[Ref.: #28943]	Oxygen tolerance	anaerobe

[Ref.: #28943]

Observation

aggregates in clumps

	Metabolite utilization	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #28943]		glycerol ChEBI	+	carbon source

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

[Ref.: #7659]	Sample type/isolated from	bovine digital dermatitis lesions in Holstein-Friesian cows
[Ref.: #7659]	Country	United Kingdom
[Ref.: #7659]	Country ISO 3 Code	GBR
[Ref.: #7659]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Infection	#Inflammation	-
#Host	#Mammals	#Bovinae (Cow, Cattle)

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence EF061268 (>99% sequence identity) for Treponema pedis subclade from Microbeatlas

Aquatic Samples	36
Soil Samples	62
Animal Samples	2554
Plant Samples	10
Total Samples	2662

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #7659]	Pathogenicity (animal)	yes
[Ref.: #7659]	Biosafety level	2	Risk group (German classification) According to TRBA 466

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.: #7659]	Treponema pedis strain T3552B 16S ribosomal RNA gene, partial sequence	EF061268	1417	ENA	409322 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Treponema pedis T3552B	GCA_017161325	complete	GenBank	409322 tax ID	*
[Ref.: #66792]	Treponema pedis strain T3552B	409322.5	complete	PATRIC	409322 tax ID	*
[Ref.: #66792]	Treponema pedis DSM 18691	2913380516	draft	JGI IMG/M	409322 tax ID	*

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Treponema pedis T3552B NCBI: GCA_017161325.1
[Ref.: #69480]	flagellated	no	89.153	no
[Ref.: #69480]	gram-positive	no	94.624	yes
[Ref.: #69480]	anaerobic	yes	99.484	yes
[Ref.: #69480]	aerobic	no	99.256	yes
[Ref.: #69480]	halophile	no	80.511	no
[Ref.: #69480]	spore-forming	no	83.067	no
[Ref.: #69480]	thermophile	no	95.351	yes
[Ref.: #69480]	glucose-util	yes	84.169	no
[Ref.: #69480]	motile	yes	86.076	yes
[Ref.: #69480]	glucose-ferment	yes	63.569	no

Availability in culture collections External links

[Ref.: #7659]

Culture collection no.

DSM 18691, NCTC 13403

[Ref.: #83492]

SI-ID 408108

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Treponema pedis sp. nov., a spirochaete isolated from bovine digital dermatitis lesions.	Evans NJ, Brown JM, Demirkan I, Murray RD, Birtles RJ, Hart CA, Carter SD	Int J Syst Evol Microbiol	10.1099/ijs.0.002287-0	2009	*

References

#7659

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 18691

#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 )

#28943

Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #25382 (see below)

#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) .

#83492

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-ID408108.1 )

#25382

IJSEM 987 2009 ( DOI 10.1099/ijs.0.002287-0 , PubMed 19406779 )

* These data were automatically processed and therefore are not curated

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