Name: Ornithinimicrobium humiphilum 2115-015
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 6275

Type strain:

Species: Ornithinimicrobium humiphilum

Strain Designation: 2115-015

Culture col. no.: DSM 12362, CIP 106634, HKI 0124, JCM 11540, KCTC 19900, KCTC 19901, NBRC 106159, NCIMB 13784

Strain history: CIP <- 2000, I. Groth, Hans Knoll Inst., Jena, Germany: strain HKI 0124

NCBI tax ID(s): 125288 (species)

SI-ID 49278

DSM 12362, CIP 106634, NCIMB 13784, KCTC 19900, KCTC 19901, JCM 11540, NBRC 106159

Special Collections

Other strains from Ornithinimicrobium humiphilum

Section

Ornithinimicrobium humiphilum 2115-015 is an obligate aerobe bacterium that was isolated from garden soil.

obligate aerobe
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	*Actinomycetota*
	Class	*Actinomycetes*
	Order	*Micrococcales*
	Family	*Ornithinimicrobiaceae*
	Genus	*Ornithinimicrobium*
	Species	**Ornithinimicrobium humiphilum**
	Full Scientific Name (LPSN)	Ornithinimicrobium humiphilum Groth et al. 2001

Information on morphological and physiological properties Morphology

[Ref.: #119988]	Gram stain	positive
[Ref.: #69480]	Gram stain	positive Confidence in %90.268

[Ref.: #119988]	Cell shape	rod-shaped

[Ref.: #119988]	Motility	no
[Ref.: #69480]	Motility	no Confidence in %91.5

[Ref.: #18499]	Colony color	Lemon yellow (1012)
[Ref.: #18499]	Incubation period	10-14 days
[Ref.: #18499]	Cultivation medium used	ISP 2

[Ref.: #18499]	Colony color	Lemon yellow (1012)
[Ref.: #18499]	Incubation period	10-14 days
[Ref.: #18499]	Cultivation medium used	ISP 3

[Ref.: #18499]	Colony color	Lemon yellow (1012)
[Ref.: #18499]	Incubation period	10-14 days
[Ref.: #18499]	Cultivation medium used	ISP 4

[Ref.: #18499]	Colony color	Lemon yellow (1012)
[Ref.: #18499]	Incubation period	10-14 days
[Ref.: #18499]	Cultivation medium used	ISP 5

[Ref.: #18499]	Colony color	Lemon yellow (1012)
[Ref.: #18499]	Incubation period	10-14 days
[Ref.: #18499]	Cultivation medium used	ISP 6

[Ref.: #18499]	Colony color	Lemon yellow (1012)
[Ref.: #18499]	Incubation period	10-14 days
[Ref.: #18499]	Cultivation medium used	ISP 7

[Ref.: #18499]	Multicellular complex forming ability	no
[Ref.: #18499]	Medium Name (multicellularity)	ISP 2

[Ref.: #18499]	Multicellular complex forming ability	no
[Ref.: #18499]	Medium Name (multicellularity)	ISP 3

[Ref.: #18499]	Multicellular complex forming ability	no
[Ref.: #18499]	Medium Name (multicellularity)	ISP 4

[Ref.: #18499]	Multicellular complex forming ability	no
[Ref.: #18499]	Medium Name (multicellularity)	ISP 5

[Ref.: #18499]	Multicellular complex forming ability	no
[Ref.: #18499]	Medium Name (multicellularity)	ISP 6

[Ref.: #18499]	Multicellular complex forming ability	no
[Ref.: #18499]	Medium Name (multicellularity)	ISP 7

Information on culture and growth conditions Culture and growth conditions

[Ref.: #4621]

Culture medium

RICH MEDIUM (DSMZ Medium 736)

[Ref.: #4621]

Culture medium growth

[Ref.: #4621]

Culture medium link

Medium recipe at MediaDive

[Ref.: #4621]

Culture medium composition

expand / minimize

[Ref.: #18499]

Culture medium

ISP 2

[Ref.: #18499]

Culture medium growth

[Ref.: #18499]

Culture medium composition

expand / minimize

[Ref.: #18499]

Culture medium

ISP 3

[Ref.: #18499]

Culture medium growth

[Ref.: #18499]

Culture medium composition

expand / minimize

[Ref.: #18499]

Culture medium

ISP 4

[Ref.: #18499]

Culture medium growth

[Ref.: #18499]

Culture medium composition

expand / minimize

[Ref.: #18499]

Culture medium

ISP 5

[Ref.: #18499]

Culture medium growth

[Ref.: #18499]

Culture medium composition

expand / minimize

[Ref.: #18499]

Culture medium

ISP 6

[Ref.: #18499]

Culture medium growth

[Ref.: #18499]

Culture medium composition

expand / minimize

[Ref.: #18499]

Culture medium

ISP 7

[Ref.: #18499]

Culture medium growth

[Ref.: #18499]

Culture medium composition

expand / minimize

[Ref.: #39551]

Culture medium

MEDIUM 29- Brain heart agar

[Ref.: #39551]

Culture medium growth

[Ref.: #39551]

Culture medium composition

expand / minimize

[Ref.: #119988]

Culture medium

CIP Medium 29

[Ref.: #119988]

Culture medium growth

[Ref.: #119988]

Culture medium link

Medium recipe provided by DSMZ

	Kind of temperature		Temperature
[Ref.: #4621]		growth	28 °C
[Ref.: #18499]		optimum	28 °C
[Ref.: #39551]		growth	37 °C
[Ref.: #67770]		growth	28 °C
[Ref.: #119988]		growth	10-45 °C
[Ref.: #119988]	no	growth	5 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #119988]

Oxygen tolerance

obligate aerobe

[Ref.: #69481]

Ability of spore formation

no Confidence in %97

	Salt	Tested relation		Salt conc.
[Ref.: #119988]	NaCl		growth	0-6	%
[Ref.: #119988]	NaCl	no	growth	8	%
[Ref.: #119988]	NaCl	no	growth	10	%

[Ref.: #4621]	Murein short key	A21.14
[Ref.: #4621]	Murein types	A4ß L-Orn-L-Ala-Gly-D-Asp

[Ref.: #67770]

Observation

quinones: MK-8(H₄)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #18499]	arabinose ChEBI	+
[Ref.: #68368]	arginine ChEBI	-	hydrolysis	* from API 20E
[Ref.: #18499]	cellulose ChEBI	+
[Ref.: #119988]	citrate ChEBI	-	carbon source
[Ref.: #68368]	citrate ChEBI	+	assimilation	* from API 20E
[Ref.: #68379]	D-glucose ChEBI	-	fermentation	* from API Coryne
[Ref.: #68379]	D-mannitol ChEBI	-	fermentation	* from API Coryne
[Ref.: #68379]	D-ribose ChEBI	-	fermentation	* from API Coryne
[Ref.: #68379]	D-xylose ChEBI	-	fermentation	* from API Coryne
[Ref.: #119988]	esculin ChEBI	-	hydrolysis
[Ref.: #68379]	esculin ChEBI	-	hydrolysis	* from API Coryne
[Ref.: #18499]	fructose ChEBI	+
[Ref.: #68368]	gelatin ChEBI	-	hydrolysis	* from API 20E, API Coryne
[Ref.: #18499]	glucose ChEBI	+
[Ref.: #68379]	glycogen ChEBI	-	fermentation	* from API Coryne
[Ref.: #119988]	hippurate ChEBI	-	hydrolysis
[Ref.: #68379]	lactose ChEBI	-	fermentation	* from API Coryne
[Ref.: #68368]	lysine ChEBI	-	degradation	* from API 20E
[Ref.: #68379]	maltose ChEBI	-	fermentation	* from API Coryne
[Ref.: #18499]	mannitol ChEBI	+
[Ref.: #18499]	myo-inositol ChEBI	+
[Ref.: #119988]	nitrate ChEBI	+	reduction
[Ref.: #119988]	nitrate ChEBI	-	respiration
[Ref.: #68379]	nitrate ChEBI	-	reduction	* from API Coryne
[Ref.: #119988]	nitrite ChEBI	-	reduction
[Ref.: #68368]	ornithine ChEBI	-	degradation	* from API 20E
[Ref.: #18499]	raffinose ChEBI	+
[Ref.: #18499]	rhamnose ChEBI	+
[Ref.: #18499]	sucrose ChEBI	+
[Ref.: #68379]	sucrose ChEBI	+	fermentation	* from API Coryne
[Ref.: #119988]	tributyrin ChEBI	-	hydrolysis
[Ref.: #68368]	tryptophan ChEBI	-	energy source	* from API 20E
[Ref.: #68368]	urea ChEBI	-	hydrolysis	* from API 20E, API Coryne
[Ref.: #18499]	xylose ChEBI	+
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Production
[Ref.: #68368]	acetoin ChEBI	no	* from API 20E
[Ref.: #68368]	hydrogen sulfide ChEBI	no	* from API 20E
[Ref.: #68368]	indole ChEBI	no	* from API 20E

	Metabolite	Voges-Proskauer-test	Methylred-test	Indole test
[Ref.: #119988]	acetoin ChEBI	-
[Ref.: #119988]	glucose ChEBI		-
[Ref.: #68368]	acetoin ChEBI	-			* from API 20E
[Ref.: #68368]	indole ChEBI			-	* from API 20E

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #119988]	alcohol dehydrogenase	-	1.1.1.1
[Ref.: #68382]	alkaline phosphatase	+	3.1.3.1	* from API zym, API Coryne
[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, API Coryne
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #119988]	amylase	-
[Ref.: #68368]	arginine dihydrolase	-	3.5.3.6	* from API 20E
[Ref.: #119988]	beta-galactosidase	-	3.2.1.23
[Ref.: #68382]	beta-galactosidase	-	3.2.1.23	* from API zym, API Coryne, API 20E
[Ref.: #68379]	beta-glucosidase	-	3.2.1.21	* from API Coryne
[Ref.: #68379]	beta-glucuronidase	-	3.2.1.31	* from API Coryne
[Ref.: #119988]	caseinase	-	3.4.21.50
[Ref.: #119988]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	+	3.4.11.3	* from API zym
[Ref.: #119988]	DNase	-
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #119988]	gamma-glutamyltransferase	-	2.3.2.2
[Ref.: #119988]	gelatinase	+/-
[Ref.: #68379]	gelatinase	-		* from API Coryne, API 20E
[Ref.: #119988]	lecithinase	-
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #119988]	lipase	-
[Ref.: #119988]	lysine decarboxylase	-	4.1.1.18
[Ref.: #68368]	lysine decarboxylase	-	4.1.1.18	* from API 20E
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym, API Coryne
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #119988]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #68368]	ornithine decarboxylase	-	4.1.1.17	* from API 20E
[Ref.: #119988]	oxidase	-
[Ref.: #119988]	protease	-
[Ref.: #68379]	pyrazinamidase	-	3.5.1.B15	* from API Coryne
[Ref.: #68379]	pyrrolidonyl arylamidase	+	3.4.19.3	* from API Coryne
[Ref.: #68368]	tryptophan deaminase	-	4.1.99.1	* from API 20E
[Ref.: #119988]	tween esterase	-
[Ref.: #68379]	urease	-	3.5.1.5	* from API Coryne, API 20E
[Ref.: #68382]	valine arylamidase	+		* from API zym
	Only first 10 entries are displayed. Click here to see all.

API® 20E:

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

	API ID	beta-GalactosidaseONPG	Arginine dihydrolaseADH (Arg)	Lysine decarboxylaseLDC (Lys)	Ornithine decarboxylaseODC	Citrate utilizationCIT	H2S productionH2S	Urease/urea hydrolysisURE	Tryptophan deaminaseTDA (Trp)	Indole productionIND	Acetoin production (Voges Proskauer test)VP	Gelatinase/gelatin hydrolysisGEL	Fermentation/oxidation of D-glucoseGLU	Fermentation/oxidation of D-mannitolMAN	Fermentation/oxidation of inositolINO	Fermentation/oxidation of sorbitolSor	Fermentation/oxidation of L-rhamnoseRHA	Fermentation/oxidation of sucroseSAC	Fermentation/oxidation of melibioseMEL	Fermentation/oxidation of amygdalinAMY	Fermentation/oxidation of L-arabinoseARA	Cytochrome oxidaseOX	Nitrite productionNO2	Reduction to N2N2	MotilityMOB	Growth on MacConkey mediumMAC	Oxidative catabolisation of D-glucoseOF-O	Fermentation of D-glucoseOF-F
[Ref.: #18499]	80	-	-	-	-	+	-	-	-	-	-	-	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.

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.: #119988]	1745	not determinedn.d.	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-

API® Coryne:

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

	API ID	Reduction of nitrateNIT	PyrazinamidasePYZ	Pyrrolidonyl arylamidasePYRA	Alkaline phosphatasePAL	beta-Glucuronidasebeta GUR	beta-Galactosidasebeta GAL	alpha-Glucosidasealpha GLU	N-Acetyl-beta-Glucosidasebeta NAG	Esculin hydrolysis/beta-GlucosidaseESC	Urease/urea hydrolysisURE	Gelatinase/gelatin hydrolysisGEL	Control fermentationControl	Fermentation of D-glucoseGLU	Fermentation of D-riboseRIB	Fermentation of D-xyloseXYL	Fermentation of D-mannitolMAN	Fermentation of maltoseMAL	Fermentation of lactoseLAC	Fermentation of sucroseSAC	Fermentation of glycogenGLYG	CatalaseCAT
[Ref.: #18499]	139	-	-	+	+	-	-	+	-	-	-	-	not determinedn.d.	-	-	-	-	-	-	+	-	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.: #18499]	193	not determinedn.d.	+	-	+	+	+	+	+	+	+	+	+	-	-	+	+	+	-	-	-
[Ref.: #119988]	9684	-	+	+	+	-	+	+	+	-	-	+	+	-	-	-	+	-	-	-	-

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	cellulose degradation	100	5 of 5
[Ref.: #66794]	starch degradation	100	10 of 10
[Ref.: #66794]	methylglyoxal degradation	100	5 of 5
[Ref.: #66794]	ppGpp biosynthesis	100	4 of 4
[Ref.: #66794]	palmitate biosynthesis	100	22 of 22
[Ref.: #66794]	cis-vaccenate biosynthesis	100	2 of 2
[Ref.: #66794]	adipate degradation	100	2 of 2
[Ref.: #66794]	vitamin K metabolism	100	5 of 5
[Ref.: #66794]	formaldehyde oxidation	100	3 of 3
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	denitrification	100	2 of 2
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	sulfopterin metabolism	100	4 of 4
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	phenylalanine metabolism	92.31	12 of 13
[Ref.: #66794]	pentose phosphate pathway	90.91	10 of 11
[Ref.: #66794]	molybdenum cofactor biosynthesis	88.89	8 of 9
[Ref.: #66794]	serine metabolism	88.89	8 of 9
[Ref.: #66794]	allantoin degradation	88.89	8 of 9
[Ref.: #66794]	isoleucine metabolism	87.5	7 of 8
[Ref.: #66794]	C4 and CAM-carbon fixation	87.5	7 of 8
[Ref.: #66794]	photosynthesis	85.71	12 of 14
[Ref.: #66794]	reductive acetyl coenzyme A pathway	85.71	6 of 7
[Ref.: #66794]	glycolate and glyoxylate degradation	83.33	5 of 6
[Ref.: #66794]	flavin biosynthesis	80	12 of 15
[Ref.: #66794]	metabolism of amino sugars and derivatives	80	4 of 5
[Ref.: #66794]	factor 420 biosynthesis	80	4 of 5
[Ref.: #66794]	threonine metabolism	80	8 of 10
[Ref.: #66794]	glycogen metabolism	80	4 of 5
[Ref.: #66794]	valine metabolism	77.78	7 of 9
[Ref.: #66794]	chorismate metabolism	77.78	7 of 9
[Ref.: #66794]	vitamin B12 metabolism	76.47	26 of 34
[Ref.: #66794]	glycogen biosynthesis	75	3 of 4
[Ref.: #66794]	gluconeogenesis	75	6 of 8
[Ref.: #66794]	acetate fermentation	75	3 of 4
[Ref.: #66794]	purine metabolism	72.34	68 of 94
[Ref.: #66794]	heme metabolism	71.43	10 of 14
[Ref.: #66794]	glutamate and glutamine metabolism	71.43	20 of 28
[Ref.: #66794]	cardiolipin biosynthesis	71.43	5 of 7
[Ref.: #66794]	tetrahydrofolate metabolism	71.43	10 of 14
[Ref.: #66794]	citric acid cycle	71.43	10 of 14
[Ref.: #66794]	non-pathway related	71.05	27 of 38
[Ref.: #66794]	propionate fermentation	70	7 of 10
[Ref.: #66794]	lysine metabolism	69.05	29 of 42
[Ref.: #66794]	pyrimidine metabolism	68.89	31 of 45
[Ref.: #66794]	CO2 fixation in Crenarchaeota	66.67	6 of 9
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	66.67	8 of 12
[Ref.: #66794]	peptidoglycan biosynthesis	66.67	10 of 15
[Ref.: #66794]	acetyl CoA biosynthesis	66.67	2 of 3
[Ref.: #66794]	d-mannose degradation	66.67	6 of 9
[Ref.: #66794]	IAA biosynthesis	66.67	2 of 3
[Ref.: #66794]	octane oxidation	66.67	2 of 3
[Ref.: #66794]	selenocysteine biosynthesis	66.67	4 of 6
[Ref.: #66794]	L-lactaldehyde degradation	66.67	2 of 3
[Ref.: #66794]	aspartate and asparagine metabolism	66.67	6 of 9
[Ref.: #66794]	tryptophan metabolism	65.79	25 of 38
[Ref.: #66794]	histidine metabolism	65.52	19 of 29
[Ref.: #66794]	glycolysis	64.71	11 of 17
[Ref.: #66794]	lipid metabolism	64.52	20 of 31
[Ref.: #66794]	glutathione metabolism	64.29	9 of 14
[Ref.: #66794]	proline metabolism	63.64	7 of 11
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
[Ref.: #66794]	alanine metabolism	62.07	18 of 29
[Ref.: #66794]	vitamin B1 metabolism	61.54	8 of 13
[Ref.: #66794]	urea cycle	61.54	8 of 13
[Ref.: #66794]	leucine metabolism	61.54	8 of 13
[Ref.: #66794]	cysteine metabolism	61.11	11 of 18
[Ref.: #66794]	phenylacetate degradation (aerobic)	60	3 of 5
[Ref.: #66794]	lipoate biosynthesis	60	3 of 5
[Ref.: #66794]	arginine metabolism	58.33	14 of 24
[Ref.: #66794]	oxidative phosphorylation	58.24	53 of 91
[Ref.: #66794]	isoprenoid biosynthesis	57.69	15 of 26
[Ref.: #66794]	propanol degradation	57.14	4 of 7
[Ref.: #66794]	ubiquinone biosynthesis	57.14	4 of 7
[Ref.: #66794]	tyrosine metabolism	57.14	8 of 14
[Ref.: #66794]	degradation of pentoses	57.14	16 of 28
[Ref.: #66794]	degradation of sugar alcohols	56.25	9 of 16
[Ref.: #66794]	carotenoid biosynthesis	54.55	12 of 22
[Ref.: #66794]	metabolism of disaccharids	54.55	6 of 11
[Ref.: #66794]	CMP-KDO biosynthesis	50	2 of 4
[Ref.: #66794]	kanosamine biosynthesis II	50	1 of 2
[Ref.: #66794]	degradation of hexoses	50	9 of 18
[Ref.: #66794]	aminopropanol phosphate biosynthesis	50	1 of 2
[Ref.: #66794]	mannosylglycerate biosynthesis	50	1 of 2
[Ref.: #66794]	Entner Doudoroff pathway	50	5 of 10
[Ref.: #66794]	butanoate fermentation	50	2 of 4
[Ref.: #66794]	methionine metabolism	50	13 of 26
[Ref.: #66794]	phenylmercury acetate degradation	50	1 of 2
[Ref.: #66794]	glycine metabolism	50	5 of 10
[Ref.: #66794]	biotin biosynthesis	50	2 of 4
[Ref.: #66794]	vitamin E metabolism	50	2 of 4
[Ref.: #66794]	dTDPLrhamnose biosynthesis	50	4 of 8
[Ref.: #66794]	ketogluconate metabolism	50	4 of 8
[Ref.: #66794]	ribulose monophosphate pathway	50	1 of 2
[Ref.: #66794]	ethanol fermentation	50	1 of 2
[Ref.: #66794]	vitamin B6 metabolism	45.45	5 of 11
[Ref.: #66794]	nitrate assimilation	44.44	4 of 9
[Ref.: #66794]	NAD metabolism	44.44	8 of 18
[Ref.: #66794]	benzoyl-CoA degradation	42.86	3 of 7
[Ref.: #66794]	arachidonate biosynthesis	40	2 of 5
[Ref.: #66794]	3-phenylpropionate degradation	40	6 of 15
[Ref.: #66794]	bacilysin biosynthesis	40	2 of 5
[Ref.: #66794]	phenol degradation	40	8 of 20
[Ref.: #66794]	coenzyme M biosynthesis	40	4 of 10
[Ref.: #66794]	myo-inositol biosynthesis	40	4 of 10
[Ref.: #66794]	ethylmalonyl-CoA pathway	40	2 of 5
[Ref.: #66794]	arachidonic acid metabolism	38.89	7 of 18
[Ref.: #66794]	sulfate reduction	38.46	5 of 13
[Ref.: #66794]	cholesterol biosynthesis	36.36	4 of 11
[Ref.: #66794]	d-xylose degradation	36.36	4 of 11
[Ref.: #66794]	bile acid biosynthesis, neutral pathway	35.29	6 of 17
[Ref.: #66794]	cyanate degradation	33.33	1 of 3
[Ref.: #66794]	lipid A biosynthesis	33.33	3 of 9
[Ref.: #66794]	sphingosine metabolism	33.33	2 of 6
[Ref.: #66794]	enterobactin biosynthesis	33.33	1 of 3
[Ref.: #66794]	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
[Ref.: #66794]	ascorbate metabolism	31.82	7 of 22
[Ref.: #66794]	phosphatidylethanolamine bioynthesis	30.77	4 of 13
[Ref.: #66794]	4-hydroxyphenylacetate degradation	30	3 of 10
[Ref.: #66794]	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
[Ref.: #66794]	toluene degradation	25	1 of 4
[Ref.: #66794]	carnitine metabolism	25	2 of 8
[Ref.: #66794]	lactate fermentation	25	1 of 4
[Ref.: #66794]	androgen and estrogen metabolism	25	4 of 16
[Ref.: #66794]	cyclohexanol degradation	25	1 of 4
[Ref.: #66794]	4-hydroxymandelate degradation	22.22	2 of 9
		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.: #4621]	Sample type/isolated from	garden soil
[Ref.: #4621]	Country	Germany
[Ref.: #4621]	Country ISO 3 Code	DEU
[Ref.: #4621]	Continent	Europe

[Ref.: #67770]	Sample type/isolated from	Garden soil
[Ref.: #67770]	Geographic location (country and/or sea, region)	Giessen
[Ref.: #67770]	Country	Germany
[Ref.: #67770]	Country ISO 3 Code	DEU
[Ref.: #67770]	Continent	Europe

[Ref.: #119988]	Sample type/isolated from	Environment, Soil, garden
[Ref.: #119988]	Geographic location (country and/or sea, region)	Giessen, Hessen
[Ref.: #119988]	Country	Germany
[Ref.: #119988]	Country ISO 3 Code	DEU
[Ref.: #119988]	Continent	Europe
[Ref.: #119988]	Isolation date	1996
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Soil
#Engineered	#Agriculture	#Garden

What are isolation sources categories?

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

[Ref.: #18499]	Biosafety level	1	German classification
[Ref.: #4621]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #119988]	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.: #4621]	Ornithinimicrobium humiphilum partial 16S rRNA gene, strain DSM 12362	AJ277650	1306	GenBank ENA	125288 tax ID
[Ref.: #67770]	Ornithinimicrobium humiphilum gene for 16S rRNA, partial sequence	AB530139	1475	GenBank ENA	125288 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Ornithinimicrobium humiphilum DSM 12362	GCA_006716885	contig	GenBank ENA	125288 tax ID
[Ref.: #66792]	Ornithinimicrobium humiphilum strain DSM 12362	125288.3	wgs	PATRIC	125288 tax ID	*
[Ref.: #66792]	Ornithinimicrobium humiphilum DSM 12362	2818991433	draft	JGI IMG/M	125288 tax ID	*

[Ref.: #4621]

GC-content

70 mol%

high performance liquid chromatography (HPLC)

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

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Ornithinimicrobium humiphilum strain DSM 12362 PATRIC: 125288.3
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	97	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Ornithinimicrobium humiphilum strain DSM 12362 PATRIC: 125288.3
[Ref.: #69480]	gram-positive	gram-positiveⓘ	yes	90.268	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	96.357	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	78.863	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	88.364	yes
[Ref.: #69480]	thermophilic	thermophileⓘ	no	91.75	no
[Ref.: #69480]	flagellated	motile2+ⓘ	no	91.5	no

Availability in culture collections External links

[Ref.: #4621]

Culture collection no.

DSM 12362, CIP 106634, HKI 0124, JCM 11540, KCTC 19900, KCTC 19901, NBRC 106159, NCIMB 13784

[Ref.: #75752]

SI-ID 49278

Literature:

Only first 10 entries are displayed. Click here to see all.

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Ornithinimicrobium laminariae sp. nov., isolated from the kelp Laminaria japonica.	Cao WR, Yu XR, Sun YY, Jiang MY, Xu XD, Li YJ	Int J Syst Evol Microbiol	10.1099/ijsem.0.005187	2022	*
Phylogeny	Ornithinimicrobium algicola sp. nov., a marine actinobacterium isolated from the green alga of the genus Ulva.	Ramaprasad EVV, Sasikala C, Ramana CV	Int J Syst Evol Microbiol	10.1099/ijsem.0.000624	2015	*
Phylogeny	Ornithinimicrobium tianjinense sp. nov., isolated from a recirculating aquaculture system.	Liu LZ, Liu Y, Chen Z, Liu HC, Zhou YG, Liu ZP	Int J Syst Evol Microbiol	10.1099/ijs.0.052514-0	2013	*
Phylogeny	Ornithinimicrobium murale sp. nov., isolated from an indoor wall colonized by moulds.	Kampfer P, Glaeser SP, Schafer J, Lodders N, Martin K, Schumann P	Int J Syst Evol Microbiol	10.1099/ijs.0.035873-0	2012	*
Phylogeny	Ornithinimicrobium pekingense sp. nov., isolated from activated sludge.	Liu XY, Wang BJ, Jiang CY, Liu SJ	Int J Syst Evol Microbiol	10.1099/ijs.0.65229-0	2008	*
Phylogeny	Ornithinimicrobium kibberense sp. nov., isolated from the Indian Himalayas.	Mayilraj S, Saha P, Suresh K, Saini HS	Int J Syst Evol Microbiol	10.1099/ijs.0.64138-0	2006	*
Phylogeny	Ornithinimicrobium humiphilum gen. nov., sp. nov., a novel soil actinomycete with L-ornithine in the peptidoglycan.	Groth I, Schumann P, Weiss N, Schuetze B, Augsten K, Stackebrandt E	Int J Syst Evol Microbiol	10.1099/00207713-51-1-81	2001	*

References

#4621

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 12362

#18499

Wink, J.: Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig .

#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 )

#39551 ; 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) .

#66794

Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#68368

Automatically annotated from API 20E .

#68379

Automatically annotated from API Coryne .

#68382

Automatically annotated from API zym .

#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 )

#75752

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-ID49278.1 )

#119988 Collection of Institut Pasteur ; Curators of the CIP; CIP 106634
* These data were automatically processed and therefore are not curated

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Ornithinimicrobium humiphilum strain DSM 12362

Ornithinimicrobium humiphilum strain DSM 12362

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