Name: Hydrogenophaga caeni EMB71
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 2972

Type strain:

Species: Hydrogenophaga caeni

Strain Designation: EMB71

Culture col. no.: DSM 17962, KCTC 12613

Strain history: <- C. O. Jeon, Gyeongsang Nat. Univ. (GSNU), Jinju, Korea; EMB71

NCBI tax ID(s): 370976 (species)

SI-ID 408351

DSM 17962

Section

Hydrogenophaga caeni EMB71 is a facultative aerobe, mesophilic, Gram-negative bacterium that forms circular colonies and was isolated from activated sludge.

colony-forming
Gram-negative
motile
rod-shaped
facultative aerobe
mesophilic
16S sequence
Bacteria

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	*Betaproteobacteria*
	Order	*Burkholderiales*
	Family	*Comamonadaceae*
	Genus	*Hydrogenophaga*
	Species	**Hydrogenophaga caeni**
	Full Scientific Name (LPSN)	Hydrogenophaga caeni Chung et al. 2007

Information on morphological and physiological properties Morphology

[Ref.: #23087]	Gram stain	negative

[Ref.: #23087]	Cell length	1.4-2.0 µm

[Ref.: #23087]	Cell width	0.8-1.2 µm

[Ref.: #23087]	Cell shape	rod-shaped

[Ref.: #23087]	Motility	yes

[Ref.: #23087]	Flagellum arrangement	monotrichous, polar

[Ref.: #23087]	Colony color	white
[Ref.: #23087]	Colony shape	circular
[Ref.: #23087]	Cultivation medium used	R2A agar

Information on culture and growth conditions Culture and growth conditions

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Culture medium

R2A MEDIUM (DSMZ Medium 830)

[Ref.: #7294]

Culture medium growth

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Culture medium link

Medium recipe at MediaDive

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Culture medium composition

expand / minimize

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Culture medium

Reasoner's 2A agar (R2A)

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Culture medium growth

		Temperature
[Ref.: #7294]	growth	25 °C
[Ref.: #23087]	growth	15.0-35.0 °C
[Ref.: #23087]	optimum	30.0 °C

[Ref.: #7294]	Temperature range	mesophilic
[Ref.: #23087]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #23087]			optimum	7.0-8.0
[Ref.: #23087]			growth	6.0-9.0

Information on physiology and metabolism Physiology and metabolism

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Oxygen tolerance

facultative aerobe

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Ability of spore formation

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #23087]	(-)-quinic acid ChEBI	-	oxidation
[Ref.: #23087]	2,3-butanediol ChEBI	+	oxidation
[Ref.: #23087]	2-hydroxybutyrate ChEBI	+	oxidation
[Ref.: #23087]	2-oxobutanoate ChEBI	-	oxidation
[Ref.: #23087]	2-oxoglutarate ChEBI	+	oxidation
[Ref.: #23087]	2-oxopentanoate ChEBI	-	oxidation
[Ref.: #23087]	3-hydroxybutyrate ChEBI	+	oxidation
[Ref.: #23087]	4-hydroxy-L-proline ChEBI	+	oxidation
[Ref.: #23087]	4-hydroxybutyrate ChEBI	-	oxidation
[Ref.: #23087]	4-hydroxyphenylacetic acid ChEBI	-	oxidation
[Ref.: #23087]	acetate ChEBI	-	oxidation
[Ref.: #23087]	alpha-cyclodextrin ChEBI	-	oxidation
[Ref.: #23087]	alpha-D-glucose ChEBI	+	oxidation
[Ref.: #23087]	alpha-lactose ChEBI	+	oxidation
[Ref.: #23087]	amygdalin ChEBI	-	builds acid from
[Ref.: #23087]	arbutin ChEBI	-	builds acid from
[Ref.: #23087]	bromosuccinate ChEBI	-	oxidation
[Ref.: #23087]	casein	-	hydrolysis
[Ref.: #23087]	cellobiose ChEBI	-	oxidation
[Ref.: #23087]	cis-aconitate ChEBI	+	oxidation
[Ref.: #23087]	citrate ChEBI	-	oxidation
[Ref.: #23087]	D-alanine ChEBI	+	oxidation
[Ref.: #23087]	D-arabitol ChEBI	-	oxidation
[Ref.: #23087]	D-fructose ChEBI	-	builds acid from
[Ref.: #23087]	D-fructose ChEBI	-	oxidation
[Ref.: #23087]	D-galactonic acid lactone ChEBI	+	oxidation
[Ref.: #23087]	D-galactose ChEBI	-	builds acid from
[Ref.: #23087]	D-galactose ChEBI	-	oxidation
[Ref.: #23087]	D-galacturonic acid ChEBI	-	oxidation
[Ref.: #23087]	D-glucarate ChEBI	-	oxidation
[Ref.: #23087]	D-gluconate ChEBI	-	oxidation
[Ref.: #23087]	D-glucosaminic acid ChEBI	-	oxidation
[Ref.: #23087]	D-glucose ChEBI	-	builds acid from
[Ref.: #23087]	D-glucose 6-phosphate ChEBI	-	oxidation
[Ref.: #23087]	D-glucuronate ChEBI	-	oxidation
[Ref.: #23087]	D-mannitol ChEBI	-	builds acid from
[Ref.: #23087]	D-mannitol ChEBI	-	oxidation
[Ref.: #23087]	D-mannose ChEBI	-	builds acid from
[Ref.: #23087]	D-mannose ChEBI	-	oxidation
[Ref.: #23087]	D-psicose ChEBI	-	oxidation
[Ref.: #23087]	D-serine ChEBI	-	oxidation
[Ref.: #23087]	D-sorbitol ChEBI	+	oxidation
[Ref.: #23087]	dextrin ChEBI	-	oxidation
[Ref.: #23087]	DL-carnitine ChEBI	-	oxidation
[Ref.: #23087]	erythritol ChEBI	-	oxidation
[Ref.: #23087]	esculin ChEBI	-	hydrolysis
[Ref.: #23087]	ethanolamine ChEBI	-	oxidation
[Ref.: #23087]	formate ChEBI	+	oxidation
[Ref.: #23087]	gamma-aminobutyric acid ChEBI	+	oxidation
[Ref.: #23087]	gelatin ChEBI	-	hydrolysis
[Ref.: #23087]	gentiobiose ChEBI	-	oxidation
[Ref.: #23087]	glucose 1-phosphate ChEBI	-	oxidation
[Ref.: #23087]	glucuronamide ChEBI	-	oxidation
[Ref.: #23087]	glycerol ChEBI	-	oxidation
[Ref.: #23087]	glycerol 1-phosphate ChEBI	-	oxidation
[Ref.: #23087]	glycogen ChEBI	-	oxidation
[Ref.: #23087]	glycyl L-aspartic acid ChEBI	-	oxidation
[Ref.: #23087]	glycyl-l-glutamate ChEBI	-	oxidation
[Ref.: #23087]	inosine ChEBI	-	oxidation
[Ref.: #23087]	itaconate ChEBI	-	oxidation
[Ref.: #23087]	L-alaninamide ChEBI	+	oxidation
[Ref.: #23087]	L-alanine ChEBI	-	oxidation
[Ref.: #23087]	L-alanylglycine ChEBI	+	oxidation
[Ref.: #23087]	L-arabinose ChEBI	-	builds acid from
[Ref.: #23087]	L-arabinose ChEBI	-	growth
[Ref.: #23087]	L-arabinose ChEBI	-	oxidation
[Ref.: #23087]	L-asparagine ChEBI	+	oxidation
[Ref.: #23087]	L-fucose ChEBI	-	oxidation
[Ref.: #23087]	L-glutamate ChEBI	-	oxidation
[Ref.: #23087]	L-histidine ChEBI	+	growth
[Ref.: #23087]	L-histidine ChEBI	+	oxidation
[Ref.: #23087]	L-leucine ChEBI	-	oxidation
[Ref.: #23087]	L-ornithine ChEBI	-	oxidation
[Ref.: #23087]	L-phenylalanine ChEBI	-	oxidation
[Ref.: #23087]	L-proline ChEBI	+	oxidation
[Ref.: #23087]	L-pyroglutamic acid ChEBI	-	oxidation
[Ref.: #23087]	L-rhamnose ChEBI	+	oxidation
[Ref.: #23087]	L-serine ChEBI	-	oxidation
[Ref.: #23087]	L-threonine ChEBI	+	oxidation
[Ref.: #23087]	lactate ChEBI	+	oxidation
[Ref.: #23087]	lactose ChEBI	-	builds acid from
[Ref.: #23087]	lactulose ChEBI	-	oxidation
[Ref.: #23087]	malonate ChEBI	-	oxidation
[Ref.: #23087]	maltose ChEBI	+	growth
[Ref.: #23087]	maltose ChEBI	+	oxidation
[Ref.: #23087]	mannitol ChEBI	-	growth
[Ref.: #23087]	melibiose ChEBI	-	builds acid from
[Ref.: #23087]	melibiose ChEBI	-	oxidation
[Ref.: #23087]	methyl beta-D-glucopyranoside ChEBI	-	oxidation
[Ref.: #23087]	methyl pyruvate ChEBI	-	oxidation
[Ref.: #23087]	monomethyl succinate ChEBI	+	oxidation
[Ref.: #23087]	myo-inositol ChEBI	+	builds acid from
[Ref.: #23087]	myo-inositol ChEBI	+	oxidation
[Ref.: #23087]	N-acetylgalactosamine ChEBI	+	oxidation
[Ref.: #23087]	N-acetylglucosamine ChEBI	+	oxidation
[Ref.: #23087]	nitrate ChEBI	+	reduction
[Ref.: #23087]	phenylethylamine ChEBI	+	oxidation
[Ref.: #23087]	propionate ChEBI	-	oxidation
[Ref.: #23087]	putrescine ChEBI	+	oxidation
[Ref.: #23087]	raffinose ChEBI	-	oxidation
[Ref.: #23087]	raffinose ChEBI	+	builds acid from
[Ref.: #23087]	rhamnose ChEBI	-	builds acid from
[Ref.: #23087]	ribitol ChEBI	+	oxidation
[Ref.: #23087]	salicin ChEBI	-	builds acid from
[Ref.: #23087]	sebacic acid ChEBI	-	oxidation
[Ref.: #23087]	sorbitol ChEBI	-	builds acid from
[Ref.: #23087]	sorbitol ChEBI	+	growth
[Ref.: #23087]	starch ChEBI	-	hydrolysis
[Ref.: #23087]	succinamate ChEBI	-	oxidation
[Ref.: #23087]	succinate ChEBI	+	oxidation
[Ref.: #23087]	sucrose ChEBI	-	builds acid from
[Ref.: #23087]	sucrose ChEBI	-	oxidation
[Ref.: #23087]	thiosulfate ChEBI	+	oxidation
[Ref.: #23087]	thymidine ChEBI	-	oxidation
[Ref.: #23087]	trehalose ChEBI	-	oxidation
[Ref.: #23087]	turanose ChEBI	-	oxidation
[Ref.: #23087]	tween 20 ChEBI	-	hydrolysis
[Ref.: #23087]	tween 40 ChEBI	+	oxidation
[Ref.: #23087]	tween 80 ChEBI	+	hydrolysis
[Ref.: #23087]	tween 80 ChEBI	+	oxidation
[Ref.: #23087]	tyrosine ChEBI	-	hydrolysis
[Ref.: #23087]	urea ChEBI	-	hydrolysis
[Ref.: #23087]	uridine ChEBI	-	oxidation
[Ref.: #23087]	urocanic acid ChEBI	-	oxidation
[Ref.: #23087]	xylitol ChEBI	-	oxidation
	Only first 10 entries are displayed. Click here to see all.

	Enzyme	Enzyme activity	EC number
[Ref.: #23087]	acid phosphatase	-	3.1.3.2
[Ref.: #23087]	alkaline phosphatase	+	3.1.3.1
[Ref.: #23087]	alpha-chymotrypsin	-	3.4.21.1
[Ref.: #23087]	alpha-fucosidase	-	3.2.1.51
[Ref.: #23087]	alpha-galactosidase	-	3.2.1.22
[Ref.: #23087]	alpha-glucosidase	-	3.2.1.20
[Ref.: #23087]	alpha-mannosidase	-	3.2.1.24
[Ref.: #23087]	beta-galactosidase	-	3.2.1.23
[Ref.: #23087]	beta-glucosidase	-	3.2.1.21
[Ref.: #23087]	beta-glucuronidase	-	3.2.1.31
[Ref.: #23087]	catalase	+	1.11.1.6
[Ref.: #23087]	cystine arylamidase	-	3.4.11.3
[Ref.: #23087]	cytochrome oxidase	+	1.9.3.1
[Ref.: #23087]	esterase (C 4)	-
[Ref.: #23087]	esterase lipase (C 8)	+
[Ref.: #23087]	leucine arylamidase	+	3.4.11.1
[Ref.: #23087]	lipase (C 14)	-
[Ref.: #23087]	N-acetyl-beta-glucosaminidase	-	3.2.1.52
[Ref.: #23087]	naphthol-AS-BI-phosphohydrolase	-
[Ref.: #23087]	trypsin	-	3.4.21.4
	Only first 10 entries are displayed. Click here to see all.

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

[Ref.: #7294]	Sample type/isolated from	activated sludge
[Ref.: #7294]	Geographic location (country and/or sea, region)	Pohang
[Ref.: #7294]	Country	Republic of Korea
[Ref.: #7294]	Country ISO 3 Code	KOR
[Ref.: #7294]	Continent	Asia

[Ref.: #23087]	Enrichment culture	R2A agar
[Ref.: #23087]	Enrichment culture duration	7 days
[Ref.: #23087]	Enrichment culture temperature	20.0 ̊C
* marker position based on {}

Isolation sources categories

#Engineered

#Waste

#Activated sludge

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence DQ372983 (>99% sequence identity) for Hydrogenophaga caeni from Microbeatlas

Aquatic Samples	17
Soil Samples
Animal Samples	1
Plant Samples	1
Total Samples	19

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

[Ref.: #7294]

Biosafety level

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.: #7294]	Hydrogenophaga caeni strain EMB71 16S ribosomal RNA gene, partial sequence	DQ372983	1446	ENA	370976 tax ID

[Ref.: #7294]

GC-content

61.6 mol%

high performance liquid chromatography (HPLC)

Availability in culture collections External links

[Ref.: #7294]

Culture collection no.

DSM 17962, KCTC 12613

[Ref.: #72494]

SI-ID 408351

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Hydrogenophaga soli sp. nov., isolated from rice field soil.	Yang D, Cha S, Choi J, Seo T	Int J Syst Evol Microbiol	10.1099/ijsem.0.002277	2017	*
Phylogeny	Hydrogenophaga temperata sp. nov., a betaproteobacterium isolated from compost in Korea.	Kim YJ, Kim MK, Weon HY, Kim HB, Yang DC	J Gen Appl Microbiol	10.2323/jgam.56.419	2010	*
Phylogeny	Hydrogenophaga caeni sp. nov., isolated from activated sludge.	Chung BS, Ryu SH, Park M, Jeon Y, Chung YR, Jeon CO	Int J Syst Evol Microbiol	10.1099/ijs.0.64629-0	2007	*

References

#7294

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 17962

#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 )

#23087

Bok Sil Chung,Seung Hyun Ryu,Minjeong Park,Yeji Jeon,Young Ryun Chung,Che Ok Jeon: Hydrogenophaga caeni sp. nov., isolated from activated sludge. IJSEM 57: 1126 - 1130 2007 ( DOI 10.1099/ijs.0.64629-0 , PubMed 17473270 )

#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 .

#72494

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-ID408351.1 )

* These data were automatically processed and therefore are not curated

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