Nocardiopsis sinuspersici (DSM 45278, CCUG 58831, UTMC 00103)

Name: Nocardiopsis sinuspersici (DSM 45278, CCUG 58831, UTMC 00103)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 11240

Type strain

Strain Designation HM 7

Culture col. no. DSM 45278 CCUG 58831 UTMC 00103 HM 7

NCBI tax ID(s) 501010

Special Collections DSMZ CCUG Wink compendium

History DSMZ <- J. Hamedi; HM 7 <- F. Mohammadipanah

Links

Nocardiopsis sinuspersici HM 7 is an aerobe bacterium that builds an aerial mycelium and was isolated from sandy soil.

aerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 401661

DSM 45278,CCUG 58831

@ref 20215

Last LPSN update 2026-05-29 08:27:31

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Streptosporangiales

Family Nocardiopsidaceae

Genus Nocardiopsis

Species Nocardiopsis sinuspersici

Full scientific name Nocardiopsis sinuspersici Hamedi et al. 2010

Synonyms (1)

Nocardiopsis arvandica

BacDive ID	Other strains from **Nocardiopsis sinuspersici** (1)	Type strain
11238	N. sinuspersici HM6, DSM 45277, CCUG 57624, UTMC 00102 (type strain)

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	positive	95.997

Colony morphology

@ref	Colony color	Medium used	Incubation period
69380	Beige (1001), Ochre yellow (1024)	ISP 4
61763			5-7 days
69380	Light ivory (1015)	ISP 3
69380	Light ivory (1015)	ISP 5
69380	Ochre brown (8001)	ISP 7
69380	Sand yellow (1002)	ISP 2
69380	Sand yellow (1002)	ISP 6
69380	Sand yellow (1002)	suter without tyrosine

Multicellular morphology

@ref	Complex name	Complex color	Medium name
69380	Aerial mycelium		ISP 2
69380	Aerial mycelium		ISP 3
69380	Aerial mycelium	Cream (9001)	ISP 4
69380	Aerial mycelium		ISP 5
69380	Aerial mycelium		ISP 6
69380	Aerial mycelium		ISP 7

Pigmentation

@ref	Production	Color	Name
69380			melanin pigment
69380		Chocolate brown (8017)	soluble pigment

Multimedia

@ref:	69380
multimedia content:	DSM_45278_image3.jpeg
multimedia.multimedia content:	DSM_45278_image3.jpeg
caption:	Plates (535, ISP2, ISP3, ISP4, ISP5, ISP7)
intellectual property rights:	Helmholtz-Zentrum für Infektionsforschung GmbH
manual_annotation:	1

@ref:	69380
multimedia content:	DSM_45278_image4.jpeg
multimedia.multimedia content:	DSM_45278_image4.jpeg
caption:	Plates (535, ISP2, ISP3, ISP4, ISP5, ISP7)
intellectual property rights:	Helmholtz-Zentrum für Infektionsforschung GmbH
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
16117	GPHF-MEDIUM (DSMZ Medium 553)	Medium recipe at MediaDive	Name: GPHF-MEDIUM (DSMZ Medium 553) Composition: Agar 20.0 g/l Glucose 10.0 g/l Beef extract 5.0 g/l Yeast extract 5.0 g/l Casein peptone 5.0 g/l CaCl2 x 2 H2O 0.74 g/l Distilled water
16117	STARCH - MINERAL SALT - AGAR (STMS) (DSMZ Medium 252)	Medium recipe at MediaDive	Name: STARCH - MINERAL SALT - AGAR (STMS) (DSMZ Medium 252) Composition: Agar 20.0 g/l Starch 10.0 g/l (NH4)2SO4 2.0 g/l CaCO3 2.0 g/l K2HPO4 1.0 g/l MgSO4 x 7 H2O 1.0 g/l NaCl 1.0 g/l FeSO4 x 7 H2O 0.001 g/l MnCl2 x 4 H2O 0.001 g/l ZnSO4 x 7 H2O 0.001 g/l Distilled water
16117	GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)	Medium recipe at MediaDive	Name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) Composition: Agar 20.0 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

Culture temp

@ref	Growth	Type	Temperature (°C)
16117	positive	growth	28
61763	positive	growth	30-37

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
61763	aerobe
125438	aerobe	91.178
125439	facultative anaerobe	96.173

Halophily

@ref	Salt	Growth	Tested relation	Concentration
69380	NaCl	positive	growth	0-10 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
69380	22599 ChEBI	arabinose	+	growth
69380	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
69380	28757 ChEBI	fructose	+	growth
68379	5291 ChEBI	gelatin	-	hydrolysis	from API Coryne
69380	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
69380	37684 ChEBI	mannose	+	growth
69380	17268 ChEBI	myo-inositol	-	growth
68379	17632 ChEBI	nitrate	-	reduction	from API Coryne
69380	16634 ChEBI	raffinose	+/-	growth
69380	26546 ChEBI	rhamnose	+	growth
68379	17992 ChEBI	sucrose	-	fermentation	from API Coryne
69380	17992 ChEBI	sucrose	-	growth
68379	16199 ChEBI	urea	-	hydrolysis	from API Coryne
69380	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
68382	esterase lipase (C 8)	-		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
68379	pyrazinamidase	-	3.5.1.B15	from API Coryne
68379	pyrrolidonyl arylamidase	-	3.4.19.3	from API Coryne
68382	trypsin	-	3.4.21.4	from API zym
68379	urease	-	3.5.1.5	from API Coryne
68382	valine arylamidase	-		from API zym

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
69380	-	-	-	-	-	-	-	-	-	-	-	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
69380	not determinedn.d.	-	-	-	-	-	-	-	-	-	-	+/-	-	-	-	-	-	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Sandy
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type	Sampling date	Geographic location	Country	Country ISO 3 Code	Continent
16117	sandy soil		Khuzestan Province, Khoramshahr, banks of Arvand River	Iran	IRN	Asia
61763	Sandy soil,seashore	2008	Khozestan,Khoramshahr,Arvand river	Iran	IRN	Asia

Taxonmaps

69479

Global distribution of 16S sequence EU410477 (>99% sequence identity) for Nocardiopsis from Microbeatlas

Aquatic Samples	0
Soil Samples	7
Animal Samples	14
Plant Samples	1
Total Samples	22

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
16117	1	Risk group (German classification) According to TRBA 466
21426	L1	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	Nocardiopsis arvandica strain DSM 45278	contig		501011.3		501011	79.8
66792	ASM1341044v1 assembly for Nocardiopsis sinuspersici DSM 45278	contig	GCA_013410445	501010.5	2856499481	501010	76.24

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
16117	Nocardiopsis arvandica strain HM7 16S ribosomal RNA gene, partial sequence	EU410477	1520		501011

GC content

@ref	GC-content (mol%)	Method
16117	71.5	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: ASM1341044v1 assembly for Nocardiopsis sinuspersici DSM 45278
NCBI: GCA_013410445

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	gram_stain	BacteriaNetⓘ	positive	96.00	no
125439	oxygen_tolerance	BacteriaNetⓘ	facultative anaerobe	96.17	no
125439	motility	BacteriaNetⓘ	no	89.96	no
125439	spore_formation	BacteriaNetⓘ	yes	55.94	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Nocardiopsis arvandica strain DSM 45278
PATRIC: 501011.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	89.31	no
125438	anaerobic	anaerobicⓘ	no	96.39	yes
125438	spore-forming	spore-formingⓘ	yes	86.33	no
125438	aerobic	aerobicⓘ	yes	91.18	no
125438	thermophilic	thermophileⓘ	no	90.27	yes
125438	flagellated	motile2+ⓘ	no	89.50	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Spiractinospora alimapuensis gen. nov., sp. nov., isolated from marine sediment of Valparaíso Bay (Chile) and proposal for reclassification of two species of the genus Nocardiopsis.	Claverias FP, Serna-Cardona N, Cumsille A, Zamora-Leiva L, Riesco R, Couve E, Trujillo ME, Camara B.	Int J Syst Evol Microbiol	10.1099/ijsem.0.005207	2022
Phylogeny	Nocardiopsis sinuspersici sp. nov., isolated from sandy rhizospheric soil.	Hamedi J, Mohammadipanah F, von Jan M, Potter G, Schumann P, Sproer C, Klenk HP, Kroppenstedt RM.	Int J Syst Evol Microbiol	10.1099/ijs.0.018366-0	2010
Phylogeny	Nocardiopsis arvandica sp. nov., isolated from sandy soil.	Hamedi J, Mohammadipanah F, Potter G, Sproer C, Schumann P, Goker M, Klenk HP	Int J Syst Evol Microbiol	10.1099/ijs.0.022756-0	2010

References

#16117	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 45278
#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 )
#21426	Wink, J.: Compendium of Actinobacteria . HZI-Helmholtz-Centre for Infection Research, Braunschweig .
#61763	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 58831
#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) .
#68379	Automatically annotated from API Coryne .
#68382	Automatically annotated from API zym .
#69380	Wink, J.: Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig .
#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 .
#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 )

Content

About us

Nocardiopsis sinuspersici (DSM 45278, CCUG 58831, UTMC 00103)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Multicellular morphology

Pigmentation

Multimedia

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Halophily

Metabolite utilization

Enzymes

API coryne

API zym

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_013410445

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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