Streptomyces indicus (DSM 42001, CGMCC 4.5727, MCCC IA03308)

Name: Streptomyces indicus (DSM 42001, CGMCC 4.5727, MCCC IA03308)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 16485

Type strain

Strain Designation IH32-1

Culture col. no. DSM 42001 CGMCC 4.5727 MCCC IA03308 IH32-1 JCM 18323

NCBI tax ID(s) 417292

Special Collections DSMZ JCM Wink compendium

History DSMZ <- J. Xu, Marine Biogenetic Resources, Third Inst. Oceanography, SOA, China; IH32-1 <- J. Xu and Y. Luo JCM <-- CGMCC 4.5727 <-- Y. Luo et al. IH32-1.

Links

Streptomyces indicus IH32-1 is a bacterium that builds an aerial mycelium and was isolated from deep-sea sediment sample.

genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 133209

JCM 18323

@ref 20215

Last LPSN update 2026-05-29 08:28:47

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Kitasatosporales

Family Streptomycetaceae

Genus Streptomyces

Species Streptomyces indicus

Full scientific name Streptomyces indicus Luo et al. 2011

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	positive	99.238
125439		91.252
125438		90
125438	positive	91.061

Colony morphology

@ref	Colony color	Medium used
69319	Beige (1001)	suter with tyrosine
69319	Ivory (1014)	ISP 5
69319	Ivory (1014)	ISP 7
69319	Light ivory (1015)	ISP 3
69319	Light ivory (1015)	suter without tyrosine
69319	Sand yellow (1002)	ISP 4
69319	Sand yellow (1002)	ISP 6

Multicellular morphology

@ref	Complex name	Complex color	Medium name
69319	Aerial mycelium	Pure white (9010)	ISP 2
69319	Aerial mycelium	Pure white (9010)	ISP 3
69319	Aerial mycelium	Pure white (9010)	ISP 4
69319	Aerial mycelium	Signal white (9003)	ISP 5
69319	Aerial mycelium		ISP 6
69319	Aerial mycelium	Light ivory (1015)	ISP 7
69319	Aerial mycelium		suter with tyrosine
69319	Aerial mycelium		suter without tyrosine

Pigmentation

@ref	Production	Color	Name
69319			melanin pigment
69319		Sand yellow (1002), ivory (1014)	soluble pigment

Multimedia

@ref:	69319
multimedia content:	DSM_42001_image3.jpeg
multimedia.multimedia content:	DSM_42001_image3.jpeg
caption:	Plates (65, ISP2, ISP3, ISP4, ISP5, ISP7)
intellectual property rights:	Helmholtz-Zentrum für Infektionsforschung GmbH
manual_annotation:	1

@ref:	69319
multimedia content:	DSM_42001_image4.jpeg
multimedia.multimedia content:	DSM_42001_image4.jpeg
caption:	Plates (65, ISP2, ISP3, ISP4, ISP5, ISP7)
intellectual property rights:	Helmholtz-Zentrum für Infektionsforschung GmbH
manual_annotation:	1

Culture and growth conditions

Culture temp

@ref	Growth	Type	Temperature (°C)
67770	positive	growth	28

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	98.215

Halophily

@ref	Salt	Growth	Tested relation	Concentration
69319	NaCl	positive	growth	0-7.5 %

Observation

67770

Observationquinones: MK-9(H₆), MK-9(H₄), MK-9(H₈)

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
69319	22599 ChEBI	arabinose	+	growth
69319	62968 ChEBI	cellulose	-	growth
68379	17634 ChEBI	D-glucose	+	fermentation	from API Coryne
68379	16899 ChEBI	D-mannitol	-	fermentation	from API Coryne
68379	16988 ChEBI	D-ribose	-	fermentation	from API Coryne
68379	65327 ChEBI	D-xylose	-	fermentation	from API Coryne
68379	4853 ChEBI	esculin	+	hydrolysis	from API Coryne
69319	28757 ChEBI	fructose	+	growth
68379	5291 ChEBI	gelatin	+	hydrolysis	from API Coryne
69319	17234 ChEBI	glucose	-	growth
68379	28087 ChEBI	glycogen	-	fermentation	from API Coryne
68379	17716 ChEBI	lactose	-	fermentation	from API Coryne
68379	17306 ChEBI	maltose	-	fermentation	from API Coryne
69319	37684 ChEBI	mannose	-	growth
69319	17268 ChEBI	myo-inositol	+	growth
68379	17632 ChEBI	nitrate	+	reduction	from API Coryne
69319	16634 ChEBI	raffinose	+/-	growth
69319	26546 ChEBI	rhamnose	+/-	growth
68379	17992 ChEBI	sucrose	-	fermentation	from API Coryne
69319	17992 ChEBI	sucrose	+	growth
68379	16199 ChEBI	urea	+	hydrolysis	from API Coryne
69319	18222 ChEBI	xylose	+	growth

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
68379	alkaline phosphatase	+	3.1.3.1	from API Coryne
68382	alpha-chymotrypsin	-	3.4.21.1	from API zym
68382	alpha-fucosidase	-	3.2.1.51	from API zym
68382	alpha-galactosidase	+	3.2.1.22	from API zym
68382	alpha-glucosidase	+	3.2.1.20	from API zym
68379	alpha-glucosidase	+	3.2.1.20	from API Coryne
68382	alpha-mannosidase	+	3.2.1.24	from API zym
68382	beta-galactosidase	+	3.2.1.23	from API zym
68379	beta-galactosidase	+	3.2.1.23	from API Coryne
68382	beta-glucosidase	+	3.2.1.21	from API zym
68379	beta-glucosidase	+	3.2.1.21	from API Coryne
68382	beta-glucuronidase	-	3.2.1.31	from API zym
68379	beta-glucuronidase	-	3.2.1.31	from API Coryne
68382	cystine arylamidase	-	3.4.11.3	from API zym
68382	esterase (C 4)	+		from API zym
68379	gelatinase	+		from API Coryne
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
68379	N-acetyl-beta-glucosaminidase	+	3.2.1.52	from API Coryne
68382	naphthol-AS-BI-phosphohydrolase	+		from API zym
68379	pyrazinamidase	-	3.5.1.B15	from API Coryne
68379	pyrrolidonyl arylamidase	-	3.4.19.3	from API Coryne
68379	urease	+	3.5.1.5	from API Coryne
68382	valine arylamidase	+		from API zym

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	myo-inositol biosynthesis	100	10 of 10
66794	cardiolipin biosynthesis	100	7 of 7
66794	phenylmercury acetate degradation	100	2 of 2
66794	ribulose monophosphate pathway	100	2 of 2
66794	glycogen metabolism	100	5 of 5
66794	formaldehyde oxidation	100	3 of 3
66794	valine metabolism	100	9 of 9
66794	coenzyme A metabolism	100	4 of 4
66794	denitrification	100	2 of 2
66794	starch degradation	100	10 of 10
66794	metabolism of amino sugars and derivatives	100	5 of 5
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	1,4-dihydroxy-6-naphthoate biosynthesis	100	6 of 6
66794	biotin biosynthesis	100	4 of 4
66794	molybdenum cofactor biosynthesis	100	9 of 9
66794	pentose phosphate pathway	100	11 of 11
66794	phenylacetate degradation (aerobic)	100	5 of 5
66794	adipate degradation	100	2 of 2
66794	glycolate and glyoxylate degradation	100	6 of 6
66794	methylglyoxal degradation	100	5 of 5
66794	cellulose degradation	100	5 of 5
66794	acetate fermentation	100	4 of 4
66794	palmitate biosynthesis	100	22 of 22
66794	suberin monomers biosynthesis	100	2 of 2
66794	taurine degradation	100	1 of 1
66794	folate polyglutamylation	100	1 of 1
66794	aerobactin biosynthesis	100	1 of 1
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	NAD metabolism	100	18 of 18
66794	enterobactin biosynthesis	100	3 of 3
66794	aspartate and asparagine metabolism	100	9 of 9
66794	threonine metabolism	100	10 of 10
66794	ppGpp biosynthesis	100	4 of 4
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	heme metabolism	92.86	13 of 14
66794	photosynthesis	92.86	13 of 14
66794	phenylalanine metabolism	92.31	12 of 13
66794	proline metabolism	90.91	10 of 11
66794	Entner Doudoroff pathway	90	9 of 10
66794	chorismate metabolism	88.89	8 of 9
66794	CO2 fixation in Crenarchaeota	88.89	8 of 9
66794	d-mannose degradation	88.89	8 of 9
66794	4-hydroxymandelate degradation	88.89	8 of 9
66794	allantoin degradation	88.89	8 of 9
66794	serine metabolism	88.89	8 of 9
66794	glycolysis	88.24	15 of 17
66794	C4 and CAM-carbon fixation	87.5	7 of 8
66794	gluconeogenesis	87.5	7 of 8
66794	peptidoglycan biosynthesis	86.67	13 of 15
66794	alanine metabolism	86.21	25 of 29
66794	aclacinomycin biosynthesis	85.71	6 of 7
66794	ubiquinone biosynthesis	85.71	6 of 7
66794	glutamate and glutamine metabolism	85.71	24 of 28
66794	reductive acetyl coenzyme A pathway	85.71	6 of 7
66794	propanol degradation	85.71	6 of 7
66794	citric acid cycle	85.71	12 of 14
66794	vitamin B12 metabolism	85.29	29 of 34
66794	urea cycle	84.62	11 of 13
66794	leucine metabolism	84.62	11 of 13
66794	tryptophan metabolism	84.21	32 of 38
66794	purine metabolism	82.98	78 of 94
66794	pyrimidine metabolism	82.22	37 of 45
66794	metabolism of disaccharids	81.82	9 of 11
66794	gallate degradation	80	4 of 5
66794	ethylmalonyl-CoA pathway	80	4 of 5
66794	flavin biosynthesis	80	12 of 15
66794	glycine betaine biosynthesis	80	4 of 5
66794	propionate fermentation	80	8 of 10
66794	3-chlorocatechol degradation	80	4 of 5
66794	factor 420 biosynthesis	80	4 of 5
66794	arginine metabolism	79.17	19 of 24
66794	glutathione metabolism	78.57	11 of 14
66794	lipid metabolism	77.42	24 of 31
66794	vitamin B1 metabolism	76.92	10 of 13
66794	histidine metabolism	75.86	22 of 29
66794	sulfopterin metabolism	75	3 of 4
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
66794	phenol degradation	75	15 of 20
66794	isoleucine metabolism	75	6 of 8
66794	CMP-KDO biosynthesis	75	3 of 4
66794	dTDPLrhamnose biosynthesis	75	6 of 8
66794	cyclohexanol degradation	75	3 of 4
66794	butanoate fermentation	75	3 of 4
66794	glycogen biosynthesis	75	3 of 4
66794	oxidative phosphorylation	74.73	68 of 91
66794	non-pathway related	73.68	28 of 38
66794	3-phenylpropionate degradation	73.33	11 of 15
66794	methionine metabolism	73.08	19 of 26
66794	degradation of sugar acids	72	18 of 25
66794	tyrosine metabolism	71.43	10 of 14
66794	tetrahydrofolate metabolism	71.43	10 of 14
66794	polyamine pathway	69.57	16 of 23
66794	isoprenoid biosynthesis	69.23	18 of 26
66794	acetoin degradation	66.67	2 of 3
66794	L-lactaldehyde degradation	66.67	2 of 3
66794	acetyl CoA biosynthesis	66.67	2 of 3
66794	IAA biosynthesis	66.67	2 of 3
66794	degradation of aromatic, nitrogen containing compounds	66.67	8 of 12
66794	cyanate degradation	66.67	2 of 3
66794	octane oxidation	66.67	2 of 3
66794	nitrate assimilation	66.67	6 of 9
66794	cysteine metabolism	66.67	12 of 18
66794	methane metabolism	66.67	2 of 3
66794	lysine metabolism	66.67	28 of 42
66794	degradation of pentoses	64.29	18 of 28
66794	d-xylose degradation	63.64	7 of 11
66794	androgen and estrogen metabolism	62.5	10 of 16
66794	ketogluconate metabolism	62.5	5 of 8
66794	degradation of sugar alcohols	62.5	10 of 16
66794	vitamin K metabolism	60	3 of 5
66794	hydrogen production	60	3 of 5
66794	4-hydroxyphenylacetate degradation	60	6 of 10
66794	glycine metabolism	60	6 of 10
66794	arachidonate biosynthesis	60	3 of 5
66794	lipoate biosynthesis	60	3 of 5
66794	carotenoid biosynthesis	59.09	13 of 22
66794	degradation of hexoses	55.56	10 of 18
66794	sulfate reduction	53.85	7 of 13
66794	carnitine metabolism	50	4 of 8
66794	lactate fermentation	50	2 of 4
66794	mannosylglycerate biosynthesis	50	1 of 2
66794	alginate biosynthesis	50	2 of 4
66794	toluene degradation	50	2 of 4
66794	dolichol and dolichyl phosphate biosynthesis	50	1 of 2
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	kanosamine biosynthesis II	50	1 of 2
66794	quinate degradation	50	1 of 2
66794	ethanol fermentation	50	1 of 2
66794	pantothenate biosynthesis	50	3 of 6
66794	vitamin E metabolism	50	2 of 4
66794	bile acid biosynthesis, neutral pathway	47.06	8 of 17
66794	phenylpropanoid biosynthesis	46.15	6 of 13
66794	cholesterol biosynthesis	45.45	5 of 11
66794	lipid A biosynthesis	44.44	4 of 9
66794	daunorubicin biosynthesis	44.44	4 of 9
66794	benzoyl-CoA degradation	42.86	3 of 7
66794	ascorbate metabolism	40.91	9 of 22
66794	coenzyme M biosynthesis	40	4 of 10
66794	D-cycloserine biosynthesis	40	2 of 5
66794	elloramycin biosynthesis	40	2 of 5
66794	vitamin B6 metabolism	36.36	4 of 11
66794	chlorophyll metabolism	33.33	6 of 18
66794	selenocysteine biosynthesis	33.33	2 of 6
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	sulfoquinovose degradation	33.33	1 of 3
66794	arachidonic acid metabolism	33.33	6 of 18
66794	sphingosine metabolism	33.33	2 of 6
66794	phosphatidylethanolamine bioynthesis	30.77	4 of 13
66794	mevalonate metabolism	28.57	2 of 7
66794	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
66794	catecholamine biosynthesis	25	1 of 4

API coryne

@ref	Reduction of nitrateNIT	PYZ	PYRA	PAL	beta GUR	beta GAL	alpha GLU	beta NAG	ESC	URE	GEL	Control fermentationControl	GLU	RIB	XYL	MAN	MAL	LAC	SAC	GLYG	CAT
69319	+	-	-	+	-	+	+	+	+	+	+	not determinedn.d.	+	-	-	-	-	-	-	-	not determinedn.d.

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
69319	not determinedn.d.	+	+	+/-	-	+	+	-	+/-	-	+	+	+	+	-	+	+	+	+	-

Isolation, sampling and environmental information

Isolation source categories

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

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Latitude	Longitude
16602	deep-sea (2434 m) sediment sample	Indian Ocean (25.3206° S, 70.0402° E)	India	IND	Asia	-25.3206	70.0402 -25.3206/70.0402
67770	Deep-sea sediment from the Indian Ocean

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
16602	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
67770	IMG-taxon 2675903130 annotated assembly for Streptomyces indicus CGMCC 4.5727	scaffold	GCA_900100315	417292.4	2675903130	417292	69.49

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
16602	Streptomyces indicus strain IH32-1 16S ribosomal RNA gene, partial sequence	EF157833	1488		417292

GC content

@ref	GC-content (mol%)	Method
16602	71.3	high performance liquid chromatography (HPLC)
67770	71.4	genome sequence analysis
67770	70.3-72.3	high performance liquid chromatography (HPLC)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: IMG-taxon 2675903130 annotated assembly for Streptomyces indicus CGMCC 4.5727
NCBI: GCA_900100315

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	98.22	no
125439	motility	BacteriaNetⓘ	no	91.25	no
125439	gram_stain	BacteriaNetⓘ	positive	99.24	no
125439	spore_formation	BacteriaNetⓘ	yes	79.70	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Streptomyces indicus strain CGMCC 4.5727
PATRIC: 417292.4

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	91.06	no
125438	anaerobic	anaerobicⓘ	no	98.35	no
125438	spore-forming	spore-formingⓘ	yes	87.83	no
125438	aerobic	aerobicⓘ	yes	86.64	no
125438	thermophilic	thermophileⓘ	no	95.50	no
125438	flagellated	motile2+ⓘ	no	90.00	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Enzymology	Widely Distributed Bifunctional Bacterial Cytochrome P450 Enzymes Catalyze both Intramolecular C-C Bond Formation in cyclo-l-Tyr-l-Tyr and Its Coupling with Nucleobases.	Liu J, Harken L, Yang Y, Xie X, Li SM.	Angew Chem Int Ed Engl	10.1002/anie.202200377	2022
Phylogeny	Streptomyces polyasparticus sp. nov. isolated from cotton field soil by a medium applied with polyaspartic acid.	Liu W, Zeng H, Xia Z, Luo X, Zhang L, Wan C	Antonie Van Leeuwenhoek	10.1007/s10482-021-01557-z	2021
Phylogeny	Streptomyces ureilyticus sp. nov. and Streptomyces mesophilus sp. nov., two novel Actinobacteria with antimicrobial activity isolated from lake sediment.	Tokatli A, Idil O, Saygin H, Sahin N	Int J Syst Evol Microbiol	10.1099/ijsem.0.004738	2021
Phylogeny	Streptomyces indicus sp. nov., an actinomycete isolated from deep-sea sediment.	Luo Y, Xiao J, Wang Y, Xu J, Xie S, Xu J	Int J Syst Evol Microbiol	10.1099/ijs.0.029389-0	2010

References

#16602	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 42001
#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 )
#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;
#68379	Automatically annotated from API Coryne .
#68382	Automatically annotated from API zym .
#69319	Wink, J.: Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig .
#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 )
#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 )

Rate our new design

Content

About us

Streptomyces indicus (DSM 42001, CGMCC 4.5727, MCCC IA03308)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Multicellular morphology

Pigmentation

Multimedia

Culture and growth conditions

Culture temp

Physiology and metabolism

Oxygen tolerance

Halophily

Observation

Metabolite utilization

Enzymes

Pathway annotation

API coryne

API zym

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_900100315

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

Help

Social Media