Stackebrandtia albiflava (DSM 45044, CCTCC AA 206003, YIM 45751)

Name: Stackebrandtia albiflava (DSM 45044, CCTCC AA 206003, YIM 45751)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 5849

Type strain

Culture col. no. DSM 45044 CCTCC AA 206003 YIM 45751 JCM 18122

NCBI tax ID(s) 1123293 406432

Special Collections DSMZ JCM Wink compendium Literature strains

History DSMZ <- S.-K. Tang; YIM 45751 <- Y.-X. Wang JCM <-- S.-K. Tang YIM 45751.

Links

Stackebrandtia albiflava DSM 45044 is a Gram-positive bacterium that was isolated from soil.

Gram-positive genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 293692

DSM 45044,JCM 18122

@ref 20215

Last LPSN update 2026-05-29 08:26:16

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Glycomycetales

Family Glycomycetaceae

Genus Stackebrandtia

Species Stackebrandtia albiflava

Full scientific name Stackebrandtia albiflava Wang et al. 2009

Morphology

Cell morphology

@ref	Gram stain	Confidence
28938	positive
125439		97.482
125439	positive	99.571

Colony morphology

@ref	Colony color	Incubation period	Medium used
19715	Ivory	10-14 days	ISP 2
19715	Ivory	10-14 days	ISP 3
19715	Ivory	10-14 days	ISP 4
19715	Ivory	10-14 days	ISP 5
19715	Ivory	10-14 days	ISP 6
19715	Ivory	10-14 days	ISP 7

Multicellular morphology

@ref	Forms multicellular complex	Medium name
19715		ISP 2
19715		ISP 3
19715		ISP 4
19715		ISP 5
19715		ISP 6
19715		ISP 7

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
12271	N-Z-AMINE-MEDIUM (DSMZ Medium 554)	Medium recipe at MediaDive	Name: N-Z-AMINE-MEDIUM (DSMZ Medium 554) Composition: Starch 20.0 g/l Agar 20.0 g/l Glucose 10.0 g/l N-Z amine 5.0 g/l Yeast extract 5.0 g/l CaCO3 1.0 g/l Distilled water
12271	GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)	Medium recipe at MediaDive	Name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) Composition: Agar 18.0 g/l Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l CaCO3 2.0 g/l Distilled water
19715	ISP 2		Name: ISP 2 / Yeast Malt Agar (5265); 5265 Composition Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l Agar 15.0 g/l Preparation: Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.0 Usage: Maintenance and Taxonomy Organisms: All Actinomycetes
19715	ISP 3		Name: ISP 3; 5315 Composition Dog oat flakes 20.0 g/l Trace element solution (5314) 2.5 ml/l Agar 18.0 g/l Preparation: Oat flakes are cooked for 20 minutes, trace element solution and agar are added (in the case of non rolled oat flakes the suspension has to bee filtrated). Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.8 Usage: Maintenance and taxonomy (e.g. SEM As liquid medium for metabolite production) Organisms: All Actinomycetes Trace element solution 5314 Name: Trace element solution 5314; 5314 Composition CaCl2 x H2O 3.0 g/l Fe-III-citrate 1.0 g/l MnSO4 0.2 g/l ZnCl2 0.1 g/l CuSO4 x 5 H2O 0.025 g/l Sodium tetra borate 0.2 g/l CoCl2 x 6 H2O 0.004 g/l Sodium molybdate 0.01 g/l Preparation: Use double destillated water. Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Trace element solution for different media Organisms:
19715	ISP 4		Name: ISP 4; DSM 547 Solution I: Difco soluble starch, 10.0 g. Make a paste of the starch with a small amount of cold distilled water and bring to a volume of 500 ml. Solution II: CaCO3 2.0 g K2HPO4 (anhydrous) 1.0 g MgSO4 x 7 H2O 1.0 g NaCl 1.0 g (NH4)2SO4 2.0 g Distilled water 500.0 ml Trace salt solution (see below) 1.0 ml The pH should be between 7.0 and 7.4. Do not adjust if it is within this range. Mix solutions I and II together. Add 20.0 g agar. Liquify agar by steaming at 100°C for 10 to 20 min. Trace element solution: FeSO4 x 7 H2O 0.1 g MnCl2 x 4 H2O 0.1 g ZnSO4 x 7 H2O 0.1 g Distilled water 100.0 ml
19715	ISP 5		Name: ISP 5 (5323) Composition L-Asparagine 1.0 g/l Glycerol 10.0 g/l K2HPO4 1.0 g/l Salt solution (see preparation) 1.0 ml/l Agar 20.0 g/l Preparation: Salt solution 1.0 g FeSO4 x 7 H2O 1.0 g MnCl2 x 4 H2O 1.0 g ZNSO4 x 7 H2O in 100 ml water Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.2 Usage: Maintenance and taxonomy Organisms: All Actinomycetes
19715	ISP 6		Name: ISP 6 (5318) Composition Peptone 15.0 g/l Proteose peptose 5.0 g/l Ferric ammonium citrate 0.5 g/l Sodium glycerophosphate 1.0 g/l Sodium thiosulfate 0.08 g/l Yeast extract 1.0 g/l Agar 15.0 g/l Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Production of melanoid pigments Organisms: All Actinomycetes
19715	ISP 7		Name: ISP 7 (5322) Composition Glycerol 15.0 g/l L-Tyrosine 0.5 g/l L-Asparagine 1.0 g/l K2HPO4 0.5 g/l NaCl 0.5 g/l FeSO4 x 7 H2O 0.01 g/l Trace element solution 5343 1.0 ml/l Agar 20.0 Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.3 Usage: Production of melanoid pigments Organisms: All Actinomycetes

Culture temp

@ref	Growth	Type	Temperature (°C)
12271	positive	growth	37
19715	positive	optimum	28
28938	positive	growth	28-37
28938	positive	optimum	32.5
67770	positive	growth	37

Culture pH

@ref	Ability	Type	PH
28938	positive	optimum	7

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	98.588

Spore formation

@ref	Spore formation	Confidence
125439		93.848

Observation

67770

Observationquinones: MK-10(H₄), MK-10(H₆), MK-11(H₄), MK-11(H₆)

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
28938	22599 ChEBI	arabinose	+	carbon source
28938	17057 ChEBI	cellobiose	+	carbon source
28938	16947 ChEBI	citrate	+	carbon source
28938	23652 ChEBI	dextrin	+	carbon source
28938	4853 ChEBI	esculin	+	hydrolysis
28938	28757 ChEBI	fructose	+	carbon source
28938	28260 ChEBI	galactose	+	carbon source
28938	5291 ChEBI	gelatin	+	carbon source
28938	17234 ChEBI	glucose	+	carbon source
28938	17716 ChEBI	lactose	+	carbon source
28938	29864 ChEBI	mannitol	+	carbon source
28938	37684 ChEBI	mannose	+	carbon source
28938	28053 ChEBI	melibiose	+	carbon source
28938	17632 ChEBI	nitrate	+	reduction
28938	17272 ChEBI	propionate	+	carbon source
28938	16634 ChEBI	raffinose	+	carbon source
28938	26546 ChEBI	rhamnose	+	carbon source
28938	15963 ChEBI	ribitol	+	carbon source
28938	33942 ChEBI	ribose	+	carbon source
28938	30911 ChEBI	sorbitol	+	carbon source
28938	17992 ChEBI	sucrose	+	carbon source
28938	53424 ChEBI	tween 20	+	carbon source
28938	53425 ChEBI	tween 60	+	carbon source
28938	53426 ChEBI	tween 80	+	carbon source
28938	16199 ChEBI	urea	+	carbon source
28938	18222 ChEBI	xylose	+	carbon source

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
68382	alkaline phosphatase	+	3.1.3.1	from API zym
68382	alpha-chymotrypsin	-	3.4.21.1	from API zym
68382	alpha-galactosidase	-	3.2.1.22	from API zym
68382	alpha-glucosidase	+	3.2.1.20	from API zym
68382	alpha-mannosidase	+	3.2.1.24	from API zym
68382	beta-galactosidase	+	3.2.1.23	from API zym
68382	beta-glucosidase	+	3.2.1.21	from API zym
68382	beta-glucuronidase	-	3.2.1.31	from API zym
28938	catalase	+	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
28938	gelatinase	+
68382	leucine arylamidase	+	3.4.11.1	from API zym
68382	lipase (C 14)	+		from API zym
68382	N-acetyl-beta-glucosaminidase	+	3.2.1.52	from API zym
68382	naphthol-AS-BI-phosphohydrolase	+		from API zym
68382	trypsin	+	3.4.21.4	from API zym
68382	valine arylamidase	+		from API zym

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	cellulose degradation	100	5 of 5
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	threonine metabolism	100	10 of 10
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	phenylacetate degradation (aerobic)	100	5 of 5
66794	cardiolipin biosynthesis	100	7 of 7
66794	coenzyme A metabolism	100	4 of 4
66794	palmitate biosynthesis	100	22 of 22
66794	methylglyoxal degradation	100	5 of 5
66794	formaldehyde oxidation	100	3 of 3
66794	glycine betaine biosynthesis	100	5 of 5
66794	ethanol fermentation	100	2 of 2
66794	ppGpp biosynthesis	100	4 of 4
66794	adipate degradation	100	2 of 2
66794	C4 and CAM-carbon fixation	100	8 of 8
66794	gluconeogenesis	100	8 of 8
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	enterobactin biosynthesis	100	3 of 3
66794	folate polyglutamylation	100	1 of 1
66794	acetate fermentation	100	4 of 4
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	1,4-dihydroxy-6-naphthoate biosynthesis	100	6 of 6
66794	ribulose monophosphate pathway	100	2 of 2
66794	suberin monomers biosynthesis	100	2 of 2
66794	pentose phosphate pathway	100	11 of 11
66794	NAD metabolism	94.44	17 of 18
66794	phenylalanine metabolism	92.31	12 of 13
66794	leucine metabolism	92.31	12 of 13
66794	Entner Doudoroff pathway	90	9 of 10
66794	serine metabolism	88.89	8 of 9
66794	molybdenum cofactor biosynthesis	88.89	8 of 9
66794	aspartate and asparagine metabolism	88.89	8 of 9
66794	chorismate metabolism	88.89	8 of 9
66794	isoleucine metabolism	87.5	7 of 8
66794	peptidoglycan biosynthesis	86.67	13 of 15
66794	flavin biosynthesis	86.67	13 of 15
66794	heme metabolism	85.71	12 of 14
66794	reductive acetyl coenzyme A pathway	85.71	6 of 7
66794	ubiquinone biosynthesis	85.71	6 of 7
66794	photosynthesis	85.71	12 of 14
66794	glycolate and glyoxylate degradation	83.33	5 of 6
66794	3-chlorocatechol degradation	80	4 of 5
66794	propionate fermentation	80	8 of 10
66794	histidine metabolism	79.31	23 of 29
66794	glutamate and glutamine metabolism	78.57	22 of 28
66794	tetrahydrofolate metabolism	78.57	11 of 14
66794	d-mannose degradation	77.78	7 of 9
66794	CO2 fixation in Crenarchaeota	77.78	7 of 9
66794	valine metabolism	77.78	7 of 9
66794	purine metabolism	76.6	72 of 94
66794	glycolysis	76.47	13 of 17
66794	alanine metabolism	75.86	22 of 29
66794	sulfopterin metabolism	75	3 of 4
66794	glycogen biosynthesis	75	3 of 4
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
66794	tyrosine metabolism	71.43	10 of 14
66794	citric acid cycle	71.43	10 of 14
66794	lysine metabolism	71.43	30 of 42
66794	tryptophan metabolism	71.05	27 of 38
66794	lipid metabolism	70.97	22 of 31
66794	myo-inositol biosynthesis	70	7 of 10
66794	vitamin B1 metabolism	69.23	9 of 13
66794	urea cycle	69.23	9 of 13
66794	L-lactaldehyde degradation	66.67	2 of 3
66794	pyrimidine metabolism	66.67	30 of 45
66794	cyanate degradation	66.67	2 of 3
66794	acetyl CoA biosynthesis	66.67	2 of 3
66794	selenocysteine biosynthesis	66.67	4 of 6
66794	octane oxidation	66.67	2 of 3
66794	acetoin degradation	66.67	2 of 3
66794	IAA biosynthesis	66.67	2 of 3
66794	glutathione metabolism	64.29	9 of 14
66794	oxidative phosphorylation	62.64	57 of 91
66794	arginine metabolism	62.5	15 of 24
66794	ketogluconate metabolism	62.5	5 of 8
66794	phosphatidylethanolamine bioynthesis	61.54	8 of 13
66794	isoprenoid biosynthesis	61.54	16 of 26
66794	methionine metabolism	61.54	16 of 26
66794	non-pathway related	60.53	23 of 38
66794	arachidonate biosynthesis	60	3 of 5
66794	coenzyme M biosynthesis	60	6 of 10
66794	glycogen metabolism	60	3 of 5
66794	metabolism of amino sugars and derivatives	60	3 of 5
66794	vitamin K metabolism	60	3 of 5
66794	gallate degradation	60	3 of 5
66794	starch degradation	60	6 of 10
66794	factor 420 biosynthesis	60	3 of 5
66794	degradation of aromatic, nitrogen containing compounds	58.33	7 of 12
66794	degradation of sugar alcohols	56.25	9 of 16
66794	cysteine metabolism	55.56	10 of 18
66794	metabolism of disaccharids	54.55	6 of 11
66794	proline metabolism	54.55	6 of 11
66794	butanoate fermentation	50	2 of 4
66794	phenol degradation	50	10 of 20
66794	pantothenate biosynthesis	50	3 of 6
66794	CMP-KDO biosynthesis	50	2 of 4
66794	mannosylglycerate biosynthesis	50	1 of 2
66794	lactate fermentation	50	2 of 4
66794	quinate degradation	50	1 of 2
66794	cyclohexanol degradation	50	2 of 4
66794	catecholamine biosynthesis	50	2 of 4
66794	vitamin E metabolism	50	2 of 4
66794	phenylmercury acetate degradation	50	1 of 2
66794	degradation of sugar acids	48	12 of 25
66794	bile acid biosynthesis, neutral pathway	47.06	8 of 17
66794	lipid A biosynthesis	44.44	4 of 9
66794	arachidonic acid metabolism	44.44	8 of 18
66794	4-hydroxymandelate degradation	44.44	4 of 9
66794	aclacinomycin biosynthesis	42.86	3 of 7
66794	propanol degradation	42.86	3 of 7
66794	glycine metabolism	40	4 of 10
66794	ethylmalonyl-CoA pathway	40	2 of 5
66794	lipoate biosynthesis	40	2 of 5
66794	3-phenylpropionate degradation	40	6 of 15
66794	degradation of pentoses	39.29	11 of 28
66794	polyamine pathway	39.13	9 of 23
66794	degradation of hexoses	38.89	7 of 18
66794	phenylpropanoid biosynthesis	38.46	5 of 13
66794	androgen and estrogen metabolism	37.5	6 of 16
66794	cholesterol biosynthesis	36.36	4 of 11
66794	ascorbate metabolism	36.36	8 of 22
66794	d-xylose degradation	36.36	4 of 11
66794	vitamin B6 metabolism	36.36	4 of 11
66794	sphingosine metabolism	33.33	2 of 6
66794	nitrate assimilation	33.33	3 of 9
66794	allantoin degradation	33.33	3 of 9
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	sulfate reduction	30.77	4 of 13
66794	benzoyl-CoA degradation	28.57	2 of 7
66794	vitamin B12 metabolism	26.47	9 of 34
66794	alginate biosynthesis	25	1 of 4
66794	dTDPLrhamnose biosynthesis	25	2 of 8
66794	toluene degradation	25	1 of 4
66794	biotin biosynthesis	25	1 of 4
66794	carnitine metabolism	25	2 of 8
66794	carotenoid biosynthesis	22.73	5 of 22
66794	daunorubicin biosynthesis	22.22	2 of 9

API zym

@ref	Control	Alkaline phosphatase	Esterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	Lipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	Trypsin	alpha- Chymotrypsin	Acid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	alpha- Galactosidase	beta- Galactosidase	beta- Glucuronidase	alpha- Glucosidase	beta- Glucosidase	N-acetyl-beta- glucosaminidase	alpha- Mannosidase	alpha- Fucosidase
19715	not determinedn.d.	+	+	+	+	+	+	-	+	-	+	+	-	+	-	+	+	+	+	not determinedn.d.

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
12271	soil	Xishuang Banna tropical rainforest, Yunnan province	China	CHN	Asia
67770	Soil from the Xishuang Banna tropical rainforest	Yunnan Province	China	CHN	Asia

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
12271	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM799422v1 assembly for Stackebrandtia albiflava DSM 45044	scaffold	GCA_007994225	406432.3	2596583683	406432	70.77
124043	ASM3954268v1 assembly for Stackebrandtia albiflava JCM 18122	scaffold	GCA_039542685			406432	64.82

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
12271	Stackebrandtia albiflava strain YIM 45751 16S ribosomal RNA gene, partial sequence	DQ985165	1515		406432

GC content

@ref	GC-content (mol%)	Method
12271	69.4	high performance liquid chromatography (HPLC)
28938	69.4

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM799422v1 assembly for Stackebrandtia albiflava DSM 45044
NCBI: GCA_007994225

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	98.59	no
125439	gram_stain	BacteriaNetⓘ	positive	99.57	no
125439	motility	BacteriaNetⓘ	no	97.48	no
125439	spore_formation	BacteriaNetⓘ	yes	93.85	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Stackebrandtia soli sp. nov., a novel actinobacterium isolated from a soil sample.	Liu MJ, Jin CZ, Park DJ, Asem MD, Xiao M, Salam N, Li WJ, Kim CJ	Int J Syst Evol Microbiol	10.1099/ijsem.0.002654	2018
Phylogeny	Stackebrandtia endophytica sp. nov., an actinobacterium isolated from Tripterygium wilfordii.	Xiong ZJ, Miao CP, Zheng YK, Liu K, Li WJ, Liu WH, Xu LH, Zhao LX	Int J Syst Evol Microbiol	10.1099/ijs.0.000166	2015
Phylogeny	Stackebrandtia albiflava sp. nov. and emended description of the genus Stackebrandtia.	Wang YX, Zhi XY, Zhang YQ, Cui XL, Xu LH, Li WJ	Int J Syst Evol Microbiol	10.1099/ijs.0.002147-0	2009

References

#12271	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 45044
#19715	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 )
#25377	IJSEM 574 2009 ( DOI 10.1099/ijs.0.002147-0 , PubMed 19244444 )
#28938	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 #25377
#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;
#68382	Automatically annotated from API zym .
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

Content

About us

Stackebrandtia albiflava (DSM 45044, CCTCC AA 206003, YIM 45751)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Multicellular morphology

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Observation

Metabolite utilization

Enzymes

Pathway annotation

API zym

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_007994225

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

Help

Social Media