Amycolatopsis albispora (WP1, KCTC 39642, MCCC 1A10745)

Name: Amycolatopsis albispora (WP1, KCTC 39642, MCCC 1A10745)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 133131

Type strain

Strain Designation WP1

Culture col. no. WP1 KCTC 39642 MCCC 1A10745

NCBI tax ID(s) 1804986

Special Collections KCTC Literature strains

History KCTC <- Gaiyun Zhang

Links

Amycolatopsis albispora WP1 is an aerobe, spore-forming, Gram-positive bacterium that was isolated from deep-sea sediment.

spore-forming Gram-positive aerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 26739

KCTC 39642

@ref 20215

Last LPSN update 2026-05-29 08:38:01

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Pseudonocardiales

Family Pseudonocardiaceae

Genus Amycolatopsis

Species Amycolatopsis albispora

Full scientific name Amycolatopsis albispora Zhang et al. 2016

Morphology

Cell morphology

@ref	Gram stain	Motility
24893	positive

Culture and growth conditions

Culture medium

@ref	Name	Growth
24893	MZ2 medium

Culture temp

@ref	Growth	Type	Temperature (°C)
24893	positive	growth	4.0-45.0
24893	positive	optimum	30.0-35.0
67771	positive	growth	30-35

Culture pH

@ref	Ability	Type	PH	PH range
24893	positive	optimum	8.0-9.0
24893	positive	growth	5.0-11.0	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance
24893	aerobe
67771	aerobe

Spore formation

@ref	Spore description	Type of spore	Spore formation
24893	white spores	spore

Halophily

@ref	Salt	Growth	Tested relation	Concentration
24893	NaCl	positive	growth	0.0-8.0 %(w/v)
24893	NaCl		optimum	0.0-3.0 %(w/v)

Murein

@ref	Murein short key	Type
24893	A31	A1gamma m-Dpm-direct

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
24893	27613 ChEBI	amygdalin	-	builds acid from
24893		casein	+	hydrolysis
24893	62968 ChEBI	cellulose	+	hydrolysis
24893	17108 ChEBI	D-arabinose	-	builds acid from
24893	17234 ChEBI	glucose	-	fermentation
24893	17234 ChEBI	glucose	-	builds acid from
24893	29864 ChEBI	mannitol	-	builds acid from
24893	28053 ChEBI	melibiose	-	builds acid from
24893	17268 ChEBI	myo-inositol	-	builds acid from
24893	17632 ChEBI	nitrate	+	reduction
24893	26546 ChEBI	rhamnose	-	builds acid from
24893	30911 ChEBI	sorbitol	-	builds acid from
24893	28017 ChEBI	starch	+	hydrolysis
24893	17992 ChEBI	sucrose	-	builds acid from
24893	27897 ChEBI	tryptophan	-	energy source

Metabolite production

@ref	Chebi-ID	Metabolite
24893	15688 ChEBI	acetoin
24893	16136 ChEBI	hydrogen sulfide
24893	35581 ChEBI	indole
24893	89634 ChEBI	melanin

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test	Methylred-test	Indole test
24893	15688 ChEBI	acetoin	+
24893	17234 ChEBI	glucose		-
24893	35581 ChEBI	indole			-

Enzymes

@ref	Value	Activity	Ec
24893	acid phosphatase	+	3.1.3.2
24893	alkaline phosphatase	+	3.1.3.1
24893	alpha-chymotrypsin	-	3.4.21.1
24893	alpha-fucosidase	-	3.2.1.51
24893	alpha-galactosidase	-	3.2.1.22
24893	alpha-glucosidase	+	3.2.1.20
24893	alpha-mannosidase	-	3.2.1.24
24893	arginine dihydrolase	+	3.5.3.6
24893	beta-galactosidase	+	3.2.1.23
24893	beta-glucosidase	+	3.2.1.21
24893	beta-glucuronidase	-	3.2.1.31
24893	catalase	+	1.11.1.6
24893	cystine arylamidase	+	3.4.11.3
24893	cytochrome oxidase	-	1.9.3.1
24893	esterase (C 4)	+
24893	esterase lipase (C 8)	+
24893	gelatinase	+
24893	leucine arylamidase	+	3.4.11.1
24893	lipase (C 14)	-
24893	lysine decarboxylase	-	4.1.1.18
24893	N-acetyl-beta-glucosaminidase	+	3.2.1.52
24893	naphthol-AS-BI-phosphohydrolase	+
24893	ornithine decarboxylase	-	4.1.1.17
24893	trypsin	-	3.4.21.4
24893	tryptophan deaminase	-	4.1.99.1
24893	urease	+	3.5.1.5
24893	valine arylamidase	+

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	4-hydroxymandelate degradation	100	9 of 9
66794	palmitate biosynthesis	100	22 of 22
66794	L-lactaldehyde degradation	100	3 of 3
66794	glycolate and glyoxylate degradation	100	6 of 6
66794	propanol degradation	100	7 of 7
66794	molybdenum cofactor biosynthesis	100	9 of 9
66794	vitamin K metabolism	100	5 of 5
66794	glycine betaine biosynthesis	100	5 of 5
66794	adipate degradation	100	2 of 2
66794	formaldehyde oxidation	100	3 of 3
66794	gallate degradation	100	5 of 5
66794	coenzyme A metabolism	100	4 of 4
66794	biotin biosynthesis	100	4 of 4
66794	phenylacetate degradation (aerobic)	100	5 of 5
66794	kanosamine biosynthesis II	100	2 of 2
66794	threonine metabolism	100	10 of 10
66794	acetate fermentation	100	4 of 4
66794	dTDPLrhamnose biosynthesis	100	8 of 8
66794	ppGpp biosynthesis	100	4 of 4
66794	Entner Doudoroff pathway	100	10 of 10
66794	ethanol fermentation	100	2 of 2
66794	methylglyoxal degradation	100	5 of 5
66794	butanoate fermentation	100	4 of 4
66794	valine metabolism	100	9 of 9
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	enterobactin biosynthesis	100	3 of 3
66794	glycogen metabolism	100	5 of 5
66794	sulfopterin metabolism	100	4 of 4
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	folate polyglutamylation	100	1 of 1
66794	aerobactin biosynthesis	100	1 of 1
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	lactate fermentation	100	4 of 4
66794	suberin monomers biosynthesis	100	2 of 2
66794	taurine degradation	100	1 of 1
66794	cellulose degradation	100	5 of 5
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	flavin biosynthesis	93.33	14 of 15
66794	tetrahydrofolate metabolism	92.86	13 of 14
66794	citric acid cycle	92.86	13 of 14
66794	phenylalanine metabolism	92.31	12 of 13
66794	leucine metabolism	92.31	12 of 13
66794	pentose phosphate pathway	90.91	10 of 11
66794	proline metabolism	90.91	10 of 11
66794	starch degradation	90	9 of 10
66794	propionate fermentation	90	9 of 10
66794	degradation of pentoses	89.29	25 of 28
66794	glutamate and glutamine metabolism	89.29	25 of 28
66794	aspartate and asparagine metabolism	88.89	8 of 9
66794	CO2 fixation in Crenarchaeota	88.89	8 of 9
66794	serine metabolism	88.89	8 of 9
66794	NAD metabolism	88.89	16 of 18
66794	allantoin degradation	88.89	8 of 9
66794	chorismate metabolism	88.89	8 of 9
66794	purine metabolism	88.3	83 of 94
66794	isoleucine metabolism	87.5	7 of 8
66794	ketogluconate metabolism	87.5	7 of 8
66794	peptidoglycan biosynthesis	86.67	13 of 15
66794	alanine metabolism	86.21	25 of 29
66794	heme metabolism	85.71	12 of 14
66794	glutathione metabolism	85.71	12 of 14
66794	reductive acetyl coenzyme A pathway	85.71	6 of 7
66794	aclacinomycin biosynthesis	85.71	6 of 7
66794	vitamin B12 metabolism	85.29	29 of 34
66794	vitamin B1 metabolism	84.62	11 of 13
66794	urea cycle	84.62	11 of 13
66794	methionine metabolism	84.62	22 of 26
66794	pyrimidine metabolism	84.44	38 of 45
66794	degradation of sugar acids	84	21 of 25
66794	glycolysis	82.35	14 of 17
66794	3-chlorocatechol degradation	80	4 of 5
66794	phenol degradation	80	16 of 20
66794	factor 420 biosynthesis	80	4 of 5
66794	myo-inositol biosynthesis	80	8 of 10
66794	ethylmalonyl-CoA pathway	80	4 of 5
66794	4-hydroxyphenylacetate degradation	80	8 of 10
66794	histidine metabolism	79.31	23 of 29
66794	arginine metabolism	79.17	19 of 24
66794	photosynthesis	78.57	11 of 14
66794	d-mannose degradation	77.78	7 of 9
66794	degradation of hexoses	77.78	14 of 18
66794	sulfate reduction	76.92	10 of 13
66794	tryptophan metabolism	76.32	29 of 38
66794	glycogen biosynthesis	75	3 of 4
66794	cyclohexanol degradation	75	3 of 4
66794	degradation of aromatic, nitrogen containing compounds	75	9 of 12
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
66794	toluene degradation	75	3 of 4
66794	gluconeogenesis	75	6 of 8
66794	lipid metabolism	74.19	23 of 31
66794	polyamine pathway	73.91	17 of 23
66794	oxidative phosphorylation	73.63	67 of 91
66794	d-xylose degradation	72.73	8 of 11
66794	vitamin B6 metabolism	72.73	8 of 11
66794	cysteine metabolism	72.22	13 of 18
66794	tyrosine metabolism	71.43	10 of 14
66794	ubiquinone biosynthesis	71.43	5 of 7
66794	cardiolipin biosynthesis	71.43	5 of 7
66794	non-pathway related	71.05	27 of 38
66794	androgen and estrogen metabolism	68.75	11 of 16
66794	degradation of sugar alcohols	68.75	11 of 16
66794	octane oxidation	66.67	2 of 3
66794	cyanate degradation	66.67	2 of 3
66794	3-phenylpropionate degradation	66.67	10 of 15
66794	acetyl CoA biosynthesis	66.67	2 of 3
66794	acetoin degradation	66.67	2 of 3
66794	IAA biosynthesis	66.67	2 of 3
66794	metabolism of disaccharids	63.64	7 of 11
66794	C4 and CAM-carbon fixation	62.5	5 of 8
66794	phosphatidylethanolamine bioynthesis	61.54	8 of 13
66794	coenzyme M biosynthesis	60	6 of 10
66794	hydrogen production	60	3 of 5
66794	lipoate biosynthesis	60	3 of 5
66794	metabolism of amino sugars and derivatives	60	3 of 5
66794	arachidonate biosynthesis	60	3 of 5
66794	creatinine degradation	60	3 of 5
66794	lysine metabolism	59.52	25 of 42
66794	carotenoid biosynthesis	59.09	13 of 22
66794	bile acid biosynthesis, neutral pathway	58.82	10 of 17
66794	isoprenoid biosynthesis	57.69	15 of 26
66794	daunorubicin biosynthesis	55.56	5 of 9
66794	nitrate assimilation	55.56	5 of 9
66794	ascorbate metabolism	54.55	12 of 22
66794	phenylpropanoid biosynthesis	53.85	7 of 13
66794	carnitine metabolism	50	4 of 8
66794	mannosylglycerate biosynthesis	50	1 of 2
66794	sphingosine metabolism	50	3 of 6
66794	ribulose monophosphate pathway	50	1 of 2
66794	chlorophyll metabolism	50	9 of 18
66794	CMP-KDO biosynthesis	50	2 of 4
66794	resorcinol degradation	50	1 of 2
66794	phenylmercury acetate degradation	50	1 of 2
66794	quinate degradation	50	1 of 2
66794	pantothenate biosynthesis	50	3 of 6
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	glycine metabolism	50	5 of 10
66794	lipid A biosynthesis	44.44	4 of 9
66794	benzoyl-CoA degradation	42.86	3 of 7
66794	elloramycin biosynthesis	40	2 of 5
66794	bacilysin biosynthesis	40	2 of 5
66794	D-cycloserine biosynthesis	40	2 of 5
66794	arachidonic acid metabolism	38.89	7 of 18
66794	methane metabolism	33.33	1 of 3
66794	sulfoquinovose degradation	33.33	1 of 3
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	selenocysteine biosynthesis	33.33	2 of 6
66794	1,4-dihydroxy-6-naphthoate biosynthesis	33.33	2 of 6
66794	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
66794	vitamin E metabolism	25	1 of 4
66794	catecholamine biosynthesis	25	1 of 4

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Marine
#Environmental	#Aquatic	#Sediment

Isolation

@ref	Sample type	Geographic location	Latitude	Longitude	Enrichment culture	Enrichment culture composition	Enrichment culture duration	Enrichment culture temperature	Country	Country ISO 3 Code	Continent
24893	deep-sea sediment	Indian Ocean at site TVG1 (-2945 m)	-27	63 -27/63	modified Zobell 2216E agar	MZ2; 1.0 g yeast extract, 5.0 g tryptone, 34 g NaCl, 15 g agar and 1 l distilled water, pH 7.4–7.6	21 days	28
67771	Marine sediment of Indian Ocean								China	CHN	Asia

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM331287v1 assembly for Amycolatopsis albispora WP1	complete	GCA_003312875	1804986.3	2856864784	1804986	97.62

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
24893	Amycolatopsis albispora strain WP1 16S ribosomal RNA gene, partial sequence	KT751086	1481		1804986

GC content

@ref	GC-content (mol%)	Method
24893	72.2	high performance liquid chromatography (HPLC)

Genome-based predictions

Predictions

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Amycolatopsis albispora WP1
NCBI: GCA_003312875.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	89.56	no
125438	anaerobic	anaerobicⓘ	no	98.87	yes
125438	aerobic	aerobicⓘ	yes	88.60	yes
125438	spore-forming	spore-formingⓘ	yes	78.39	no
125438	thermophilic	thermophileⓘ	no	96.99	no
125438	flagellated	motile2+ⓘ	no	88.50	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	MariClus: Your One-Stop Platform for Information on Marine Natural Products, Their Gene Clusters and Producing Organisms.	Hermans C, De Mol ML, Mispelaere M, De Rop AS, Rombaut J, Nusayr T, Creamer R, De Maeseneire SL, Soetaert WK, Hulpiau P.	Mar Drugs	10.3390/md21080449	2023
Genetics	Genome assembly, comparative genomics, and identification of genes/pathways underlying plant growth-promoting traits of an actinobacterial strain, Amycolatopsis sp. (BCA-696).	Gandham P, Vadla N, Saji A, Srinivas V, Ruperao P, Selvanayagam S, Saxena RK, Rathore A, Gopalakrishnan S, Thakur V.	Sci Rep	10.1038/s41598-024-66835-y	2024
	Albisporachelin, a New Hydroxamate Type Siderophore from the Deep Ocean Sediment-Derived Actinomycete Amycolatopsisalbispora WP1^T.	Wu Q, Deering RW, Zhang G, Wang B, Li X, Sun J, Chen J, Zhang H, Rowley DC, Wang H.	Mar Drugs	10.3390/md16060199	2018
	Suertides A-C: selective antibacterial cyclic hexapeptides from Amycolatopsis sp. MST-135876v3.	Lacey HJ, Chen R, Vuong D, Fisher MF, Lacey E, Rutledge PJ, Piggott AM.	J Antibiot (Tokyo)	10.1038/s41429-022-00544-4	2022
Phylogeny	Amycolatopsis albispora sp. nov., isolated from deep-sea sediment.	Zhang G, Wang L, Li J, Zhou Y	Int J Syst Evol Microbiol	10.1099/ijsem.0.001277	2016

References

#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 )
#24893	G. W. Zhang, Lina,Li, Jinglong,Zhou, Yuan: Amycolatopsis albispora sp. nov., isolated from deep-sea sediment. IJSEM 66: 3860 - 3864 2016 ( DOI 10.1099/ijsem.0.001277 , PubMed 27380629 )
#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 )
#67771	Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )
#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 )

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Amycolatopsis albispora (WP1, KCTC 39642, MCCC 1A10745)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Murein

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

Pathway annotation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_003312875

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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