Name: Tepidiphilus succinatimandens 4BON
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 6138

Type strain:

Species: Tepidiphilus succinatimandens

Strain Designation: 4BON

Culture col. no.: DSM 15512, CIP 107790

Strain history: CIP <- 2002, B. Ollivier, IRD, Marseille, France: strain 4BON

NCBI tax ID(s): 224436 (species)

SI-ID 132024

CIP 107790, DSM 15512

Section

Tepidiphilus succinatimandens 4BON is an aerobe, thermophilic, Gram-negative bacterium that was isolated from oil field.

Gram-negative
motile
rod-shaped
aerobe
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 succinatimandens**
	Full Scientific Name (LPSN)	Tepidiphilus succinatimandens (Bonilla Salinas et al. 2004) Poddar et al. 2014

Synonym

Petrobacter succinatimandens

Information on morphological and physiological properties Morphology

[Ref.: #29947]	Gram stain	negative
[Ref.: #123363]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %100

[Ref.: #29947]	Cell length	2 µm

[Ref.: #29947]	Cell width	0.35 µm

[Ref.: #29947]	Cell shape	rod-shaped
[Ref.: #123363]	Cell shape	rod-shaped

[Ref.: #29947]	Motility	yes
[Ref.: #123363]	Motility	yes
[Ref.: #69480]	Motility	yes Confidence in %97.794

[Ref.: #123363]	Pigment production	no
[Ref.: #123363]	Pigment name	Flexirubin

Information on culture and growth conditions Culture and growth conditions

[Ref.: #5970]

Culture medium

PETROBACTER SUCCINIMANDENS MEDIUM (DSMZ Medium 979)

[Ref.: #5970]

Culture medium growth

[Ref.: #5970]

Culture medium link

Medium recipe at MediaDive

[Ref.: #5970]

Culture medium composition

expand / minimize

[Ref.: #36204]

Culture medium

MEDIUM 72- for trypto casein soja agar

[Ref.: #36204]

Culture medium growth

[Ref.: #36204]

Culture medium composition

expand / minimize

[Ref.: #123363]

Culture medium

CIP Medium 72

[Ref.: #123363]

Culture medium growth

[Ref.: #123363]

Culture medium link

Medium recipe provided by DSMZ

	Kind of temperature		Temperature
[Ref.: #5970]		growth	55 °C
[Ref.: #29947]		growth	35-60 °C
[Ref.: #29947]		optimum	55 °C
[Ref.: #36204]		growth	55 °C
[Ref.: #123363]		growth	37-45 °C
[Ref.: #123363]	no	growth	25 °C
[Ref.: #123363]	no	growth	30 °C

[Ref.: #5970]	Temperature range	thermophilic
[Ref.: #29947]	Temperature range	thermophilic
[Ref.: #36204]	Temperature range	thermophilic
[Ref.: #123363]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #29947]			optimum	6.9
[Ref.: #29947]			growth	5.5-8

Information on physiology and metabolism Physiology and metabolism

[Ref.: #5970]	Oxygen tolerance	aerobe
[Ref.: #5970]	Oxygen tolerance	anaerobe
[Ref.: #29947]	Oxygen tolerance	aerobe
[Ref.: #123363]	Oxygen tolerance	obligate aerobe

[Ref.: #29947]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.996

	Salt	Tested relation		Salt conc.
[Ref.: #29947]	NaCl		growth	0-3	%
[Ref.: #29947]	NaCl		optimum	0.5	%
[Ref.: #123363]	NaCl		growth	0-2	%
[Ref.: #123363]	NaCl	no	growth	4	%
[Ref.: #123363]	NaCl	no	growth	6	%
[Ref.: #123363]	NaCl	no	growth	8	%
[Ref.: #123363]	NaCl	no	growth	10	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #123363]	citrate ChEBI	-	carbon source
[Ref.: #123363]	esculin ChEBI	+	hydrolysis
[Ref.: #29947]	ethanol ChEBI	+	carbon source
[Ref.: #29947]	formate ChEBI	+	carbon source
[Ref.: #123363]	hippurate ChEBI	+	hydrolysis
[Ref.: #123363]	malonate ChEBI	-	assimilation
[Ref.: #29947]	nitrate ChEBI	+	reduction
[Ref.: #123363]	nitrate ChEBI	-	builds gas from
[Ref.: #123363]	nitrate ChEBI	+	reduction
[Ref.: #123363]	nitrate ChEBI	-	respiration
[Ref.: #123363]	nitrite ChEBI	-	builds gas from
[Ref.: #123363]	nitrite ChEBI	-	reduction
[Ref.: #29947]	pyruvate ChEBI	+	carbon source
[Ref.: #29947]	succinate ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Antibiotica	Metabolite	Antibiotic sensitivity	Antibiotic resistance
[Ref.: #123363]		0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)	no	yes

	Metabolite production	Metabolite	Production
[Ref.: #123363]		indole ChEBI	no

	Physiological tests	Metabolite	Voges-Proskauer-test	Methylred-test
[Ref.: #123363]		acetoin ChEBI	-
[Ref.: #123363]		glucose ChEBI		-

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #123363]	alcohol dehydrogenase	-	1.1.1.1
[Ref.: #68382]	alkaline phosphatase	-	3.1.3.1	* from API zym
[Ref.: #68382]	alpha-chymotrypsin	-	3.4.21.1	* from API zym
[Ref.: #68382]	alpha-fucosidase	-	3.2.1.51	* from API zym
[Ref.: #68382]	alpha-galactosidase	-	3.2.1.22	* from API zym
[Ref.: #68382]	alpha-glucosidase	-	3.2.1.20	* from API zym
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #123363]	amylase	-
[Ref.: #123363]	beta-galactosidase	-	3.2.1.23
[Ref.: #68382]	beta-galactosidase	-	3.2.1.23	* from API zym
[Ref.: #68382]	beta-glucosidase	+	3.2.1.21	* from API zym
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym
[Ref.: #123363]	caseinase	+	3.4.21.50
[Ref.: #29947]	catalase	+	1.11.1.6
[Ref.: #123363]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #29947]	cytochrome oxidase	+	1.9.3.1
[Ref.: #123363]	DNase	+
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #123363]	gamma-glutamyltransferase	+	2.3.2.2
[Ref.: #123363]	gelatinase	+/-
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #123363]	lysine decarboxylase	-	4.1.1.18
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #123363]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #123363]	oxidase	+
[Ref.: #123363]	phenylalanine ammonia-lyase	-	4.3.1.24
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #123363]	tryptophan deaminase	-
[Ref.: #123363]	tween esterase	+
[Ref.: #123363]	urease	+	3.5.1.5
[Ref.: #68382]	valine arylamidase	-		* from API zym
	Only first 10 entries are displayed. Click here to see all.

API® Biotype100:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	ControlQ	D-glucose as carbon sourceGLU	D-fructose as carbon sourceFRU	D-galactose as carbon sourceGAL	D-trehalose as carbon sourceTRE	D-mannose as carbon sourceMNE	L-sorbose as carbon sourceSBE	D-melibiose as carbon sourceMEL	sucrose as carbon sourceSAC	D-raffinose as carbon sourceRAF	maltotriose as carbon sourceMTE	maltose as carbon sourceMAL	lactose as carbon sourceLAC	lactulose as carbon sourceLTE	1-O-methyl-beta-galactopyranoside as carbon sourceMbGa	1-O-methyl-alpha-galactopyranoside as carbon sourceMaGa	D-cellobiose as carbon sourceCEL	gentiobiose as carbon sourceGEN	1-O-methyl-beta-D-glucopyranoside as carbon sourceMbGu	esculin as carbon sourceESC	D-ribose as carbon sourceRIB	L-arabinose as carbon sourceARA	D-xylose as carbon sourceXYL	palatinose as carbon sourcePLE	L-rhamnose as carbon sourceRHA	L-fucose as carbon sourceFUC	D-melezitose as carbon sourceMLZ	D-arabitol as carbon sourceDARL	L-arabitol as carbon sourceLARL	xylitol as carbon sourceXLT	dulcitol as carbon sourceDUL	D-tagatose as carbon sourceTAG	glycerol as carbon sourceGLY	myo-inositol as carbon sourceINO	D-mannitol as carbon sourceMAN	maltitol as carbon sourceMTL	D-turanose as carbon sourceTUR	D-sorbitol as carbon sourceSOR	adonitol as carbon sourceADO	hydroxyquinoline-beta-glucuronide as carbon sourceHBG	D-lyxose as carbon sourceLYX	i-erythritol as carbon sourceERY	1-O-methyl-alpha-D-glucoside as carbon sourceMDG	3-O-methyl-D-glucose as carbon source3MDG	D-saccharate as carbon sourceSAT	mucate as carbon sourceMUC	L-tartrate as carbon sourceLTAT	D-tartrate as carbon sourceDTAT	meso-tartrate as carbon sourceMTAT	D-malate as carbon sourceDMLT	L-malate as carbon sourceLMLT	cis-aconitate as carbon sourceCATE	trans-aconitate as carbon sourceTATE	tricarballylate as carbon sourceTTE	citrate as carbon sourceCIT	D-glucuronate as carbon sourceGRT	D-galacturonate as carbon sourceGAT	2-ketogluconate as carbon source2KG	5-ketogluconate as carbon source5KG	tryptophan as carbon sourceTRY	N-acetyl-D-glucosamine as carbon sourceNAG	D-gluconate as carbon sourceGNT	phenylacetate as carbon sourcePAC	protocatechuate as carbon sourcePAT	4-hydroxybenzoate as carbon sourcepOBE	quinate as carbon sourceQAT	gentisate as carbon sourceGTE	3-hydroxybenzoate as carbon sourcemOBE	benzoate as carbon sourceBAT	3-phenylpropionate as carbon sourcePPAT	m-coumarate as carbon sourceCMT	trigonelline as carbon sourceTGE	betaine as carbon sourceBET	putrescine as carbon sourcePCE	4-aminobutyrate as carbon sourceABT	histamine as carbon sourceHIN	DL-lactate as carbon sourceLAT	caprate as carbon sourceCAP	caprylate as carbon sourceCYT	L-histidine as carbon sourceHIS	succinate as carbon sourceSUC	fumarate as carbon sourceFUM	glutarate as carbon sourceGRE	DL-glycerate as carbon sourceGYT	5-aminovalerate as carbon sourceAVT	ethanolamine as carbon sourceETN	tryptamine as carbon sourceTTN	D-glucosamine as carbon sourceGLN	itaconate as carbon sourceITA	3-hydroxybutyrate as carbon source3OBU	L-aspartate as carbon sourceAPT	L-glutamate as carbon sourceGTT	L-proline as carbon sourcePRO	D-alanine as carbon sourceDALA	L-alanine as carbon sourceLALA	L-serine as carbon sourceSER	malonate as carbon sourceMNT	propionate as carbon sourcePROP	L-tyrosine as carbon sourceTYR	2-ketoglutarate as carbon source2KT
[Ref.: #123363]	2432	not determinedn.d.	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	+	-	+	+	+	-	-	-	-	-	-	+	+	+	-	-	-	-	-	+	-	+

API® zym:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Control	2-naphthyl phosphateAlkaline phosphatase	2-naphthyl butyrateEsterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	2-naphthyl myristateLipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	N-benzoyl-DL-arginine-2-naphthylamideTrypsin	N-glutaryl-phenylalanine-2-naphthylamidealpha- Chymotrypsin	2-naphthyl phosphateAcid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	6-Br-2-naphthyl-alphaD-galactpyranosidealpha- Galactosidase	2-naphthyl-betaD-galactpyranosidebeta- Galactosidase	Naphthol-AS-BI-betaD-glucuronidebeta- Glucuronidase	2-naphthyl-alphaD-glucopyranosidealpha- Glucosidase	6-Br-2-naphthyl-betaD-glucopyranosidebeta- Glucosidase	1-naphthyl-N-acetyl-betaD-glucosaminideN-acetyl-beta- glucosaminidase	6-Br-2-naphthyl-alphaD-mannopyranosidealpha- Mannosidase	2-naphthyl-alphaL-fucopyranosidealpha- Fucosidase
[Ref.: #123363]	10649	-	-	+	+	-	+	-	-	-	-	+	+	-	-	-	-	+	-	-	-

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

[Ref.: #5970]	Sample type/isolated from	oil field
[Ref.: #5970]	Geographic location (country and/or sea, region)	Queensland
[Ref.: #5970]	Country	Australia
[Ref.: #5970]	Country ISO 3 Code	AUS
[Ref.: #5970]	Continent	Australia and Oceania

[Ref.: #123363]	Sample type/isolated from	Oil field
[Ref.: #123363]	Country	Australia
[Ref.: #123363]	Country ISO 3 Code	AUS
[Ref.: #123363]	Continent	Australia and Oceania
[Ref.: #123363]	Isolation date	1989
* marker position based on {}

Isolation sources categories

#Engineered	#Industrial	#Oil reservoir
#Environmental	#Terrestrial	#Geologic

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AY219713 (>99% sequence identity) for Tepidiphilus from Microbeatlas

Aquatic Samples	442
Soil Samples	118
Animal Samples	1041
Plant Samples	27
Total Samples	1628

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

[Ref.: #5970]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #123363]	Biosafety level	1	Risk group (French classification)

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.: #5970]	Petrobacter succinimandens BON4 16S ribosomal RNA gene, partial sequence	AY219713	1529	ENA	224436 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Tepidiphilus succinatimandens DSM 15512	GCA_006503695	scaffold	GenBank	224436 tax ID	*
[Ref.: #66792]	Tepidiphilus succinatimandens strain DSM 15512	224436.3	wgs	PATRIC	224436 tax ID	*

[Ref.: #5970]

GC-content

58.6 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 succinatimandens DSM 15512 NCBI: GCA_006503695.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Tepidiphilus succinatimandens DSM 15512 NCBI: GCA_006503695.1
[Ref.: #69480]	motile	yes	92.467	yes
[Ref.: #69480]	flagellated	yes	78.347	no
[Ref.: #69480]	gram-positive	no	98.99	yes
[Ref.: #69480]	anaerobic	no	88.954	no
[Ref.: #69480]	aerobic	no	54.91	no
[Ref.: #69480]	halophile	no	90.673	no
[Ref.: #69480]	spore-forming	no	95.792	yes
[Ref.: #69480]	glucose-util	no	84.388	no
[Ref.: #69480]	thermophile	yes	98.804	yes
[Ref.: #69480]	glucose-ferment	no	87.062	no

Availability in culture collections External links

[Ref.: #5970]

Culture collection no.

DSM 15512, CIP 107790

[Ref.: #75625]

SI-ID 132024

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	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	Petrobacter succinatimandens gen. nov., sp. nov., a moderately thermophilic, nitrate-reducing bacterium isolated from an Australian oil well.	Salinas MB, Fardeau ML, Cayol JL, Casalot L, Patel BKC, Thomas P, Garcia JL, Ollivier B	Int J Syst Evol Microbiol	10.1099/ijs.0.02732-0	2004	*

References

#5970

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 15512

#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 )

#29947

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 #26316 (see below)

#36204 ; Curators of the CIP;

#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) .

#68382

Automatically annotated from API zym .

#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 )

#75625

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-ID132024.1 )

#123363 Collection of Institut Pasteur ; Curators of the CIP; CIP 107790

#26316

IJSEM 645 2004 ( DOI 10.1099/ijs.0.02732-0 , PubMed 15143002 )

* These data were automatically processed and therefore are not curated

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Tepidiphilus succinatimandens DSM 15512

Tepidiphilus succinatimandens DSM 15512

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