Tepidiphilus margaritifer N2-214 | Type strain | DSM 15129, LMG 21637 | BacDiveID:6139

Strain identifier

BacDive ID: 6139

Type strain:

Species: Tepidiphilus margaritifer

Strain Designation: N2-214

Culture col. no.: DSM 15129, LMG 21637

Strain history: <- C. M. Manaia; N2-214

NCBI tax ID(s): 1123354 (strain), 203471 (species)

SI-ID 87495

LMG 21637, DSM 15129

Section

Tepidiphilus margaritifer N2-214 is a thermophilic, motile bacterium that was isolated from thermophilic digester of wastewater-treatment sludge.

motile
thermophilic
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	*Pseudomonadota*
	Class	*Hydrogenophilia*
	Order	*Hydrogenophilales*
	Family	*Hydrogenophilaceae*
	Genus	*Tepidiphilus*
	Species	**Tepidiphilus margaritifer**
	Full Scientific Name (LPSN)	Tepidiphilus margaritifer Manaia et al. 2003

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	negative Confidence in %100

[Ref.: #69480]	Motility	yes Confidence in %98.249

Multimedia content

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Information on culture and growth conditions Culture and growth conditions

Culture medium

LB (Luria-Bertani) MEDIUM (DSMZ Medium 381)

Culture medium growth

Culture medium link

Medium recipe at MediaDive

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #5722]			growth	50 °C

Temperature range

thermophilic

Information on physiology and metabolism Physiology and metabolism

Ability of spore formation

no Confidence in %99.995

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

[Ref.: #5722]	Sample type/isolated from	thermophilic digester of wastewater-treatment sludge
[Ref.: #5722]	Geographic location (country and/or sea, region)	Porto
[Ref.: #5722]	Country	Portugal
[Ref.: #5722]	Country ISO 3 Code	PRT
[Ref.: #5722]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Engineered	#Biodegradation	-
#Engineered	#Waste	#Wastewater
#Environmental	#Terrestrial	#Mud (Sludge)
#Condition	#Thermophilic (>45°C)	-

What are isolation sources categories?

Global distribution of 16S sequence AJ504663 (>99% sequence identity) for Tepidiphilus margaritifer from Microbeatlas

Aquatic Samples	415
Soil Samples	18
Animal Samples	193
Plant Samples	19
Total Samples	645

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

Biosafety level

1

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.: #5722]	Tepidiphilus margaritifer partial 16S rRNA gene, type strain N2-214T	AJ504663	1456	ENA	1123354 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Tepidiphilus margaritifer DSM 15129	GCA_000425565	scaffold	GenBank	1123354 tax ID	*
[Ref.: #66792]	Tepidiphilus margaritifer DSM 15129	1123354.4	wgs	PATRIC	1123354 tax ID	*
[Ref.: #66792]	Tepidiphilus margaritifer DSM 15129	2524023151	draft	JGI IMG/M	1123354 tax ID	*

GC-content

64.8 mol%

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: Tepidiphilus margaritifer DSM 15129 DSM 15129 NCBI: GCA_000425565.1
[Ref.: #69481]	spore-forming	no	84	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Tepidiphilus margaritifer DSM 15129 DSM 15129 NCBI: GCA_000425565.1
[Ref.: #69480]	motile	yes	92.956	no
[Ref.: #69480]	flagellated	yes	75.927	no
[Ref.: #69480]	gram-positive	no	99.08	no
[Ref.: #69480]	anaerobic	no	88.631	no
[Ref.: #69480]	aerobic	no	65.668	no
[Ref.: #69480]	halophile	no	93.589	no
[Ref.: #69480]	spore-forming	no	95.375	no
[Ref.: #69480]	thermophile	yes	99.421	yes
[Ref.: #69480]	glucose-util	no	83.274	no
[Ref.: #69480]	glucose-ferment	no	87.659	no

Availability in culture collections External links

Culture collection no.

DSM 15129, LMG 21637

SI-ID 87495

*

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Tepidiphilus olei sp. nov., isolated from the production water of a water-flooded oil reservoir in PR China.	Wang XT, Shan JJ, Li XZ, Lin W, Xiu JL, Li DA, Zhang YZ, Wang L	Int J Syst Evol Microbiol	10.1099/ijsem.0.004297	2020	*
Phylogeny	Tepidiphilus baoligensis sp. nov., a Novel Bacterium of the Family Hydrogenophilaceae Isolated from an Oil Reservoir.	Zhang X, Wang G, Ma X, Yu J, You J, Xue Y, Ma Y	Curr Microbiol	10.1007/s00284-020-01983-8	2020	*
Phylogeny	Taxonomic study of the genus Tepidiphilus: transfer of Petrobacter succinatimandens to the genus Tepidiphilus as Tepidiphilus succinatimandens comb. nov., emended description of the genus Tepidiphilus and description of Tepidiphilus thermophilus sp. nov., isolated from a terrestrial hot spring.	Poddar A, Lepcha RT, Das SK	Int J Syst Evol Microbiol	10.1099/ijs.0.056424-0	2013	*
Phylogeny	Characterization of a microbial consortium capable of degrading lignocellulose.	Wang W, Yan L, Cui Z, Gao Y, Wang Y, Jing R	Bioresour Technol	10.1016/j.biortech.2011.07.065	2011	*
Phylogeny	Tepidiphilus margaritifer gen. nov., sp. nov., isolated from a thermophilic aerobic digester.	Manaia CM, Nogales B, Nunes OC	Int J Syst Evol Microbiol	10.1099/ijs.0.02538-0	2003	*

References

#5722

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 15129

#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 )

#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) .

#66793

Mukherjee et al.: GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life. 35: 676 - 683 2017 ( DOI 10.1038/nbt.3886 , PubMed 28604660 )

#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 )

#75626

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-ID87495.1 )

* These data were automatically processed and therefore are not curated

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