Name: Nocardiopsis salina DSM 44839
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 11217

Type strain:

Species: Nocardiopsis salina

Culture col. no.: DSM 44839, CCTCC AA 204009, KCTC 19003, YIM 90010, JCM 13364, CIP 108478

Strain history: CIP <- 2004, KCTC

NCBI tax ID(s): 1246485 (strain), 245836 (species)

SI-ID 133656

KCTC 19003, DSM 44839, CIP 108478, JCM 13364

Special Collections

Section

Nocardiopsis salina DSM 44839 is an aerobe, spore-forming, Gram-positive bacterium that was isolated from hypersaline soil.

Gram-positive
rod-shaped
spore-forming
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	*Streptosporangiales*
	Family	*Nocardiopsidaceae*
	Genus	*Nocardiopsis*
	Species	**Nocardiopsis salina**
	Full Scientific Name (LPSN)	Nocardiopsis salina Li et al. 2004

Information on morphological and physiological properties Morphology

[Ref.: #31248]	Gram stain	positive
[Ref.: #67771]	Gram stain	positive
[Ref.: #122380]	Gram stain	positive
[Ref.: #69480]	Gram stain	positive Confidence in %90.152

[Ref.: #31248]	Cell length	0.8-1.2 µm

[Ref.: #31248]	Cell width	0.4-0.6 µm

[Ref.: #31248]	Cell shape	rod-shaped
[Ref.: #122380]	Cell shape	rod-shaped

[Ref.: #31248]	Motility	no
[Ref.: #122380]	Motility	no
[Ref.: #69480]	Motility	no Confidence in %90

[Ref.: #31248]

Pigment production

Information on culture and growth conditions Culture and growth conditions

[Ref.: #12020]

Culture medium

BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)

[Ref.: #12020]

Culture medium growth

[Ref.: #12020]

Culture medium link

Medium recipe at MediaDive

[Ref.: #12020]

Culture medium composition

expand / minimize

[Ref.: #33986]

Culture medium

Marine agar (MA)

[Ref.: #33986]

Culture medium growth

[Ref.: #33986]

Culture medium composition

expand / minimize

[Ref.: #12020]

Culture medium

GYM STREPTOMYCES MEDIUM 10% NACL (DSMZ Medium 1159)

[Ref.: #12020]

Culture medium growth

[Ref.: #12020]

Culture medium link

Medium recipe at MediaDive

[Ref.: #12020]

Culture medium composition

expand / minimize

[Ref.: #12020]

Culture medium

SEA WATER AGAR (DSMZ Medium 246)

[Ref.: #12020]

Culture medium growth

[Ref.: #12020]

Culture medium link

Medium recipe at MediaDive

[Ref.: #12020]

Culture medium composition

expand / minimize

[Ref.: #122380]

Culture medium

CIP Medium 13

[Ref.: #122380]

Culture medium growth

[Ref.: #122380]

Culture medium link

Medium recipe provided by DSMZ

[Ref.: #122380]

Culture medium

CIP Medium 57

[Ref.: #122380]

Culture medium growth

[Ref.: #122380]

Culture medium link

Medium recipe provided by DSMZ

	Kind of temperature		Temperature
[Ref.: #12020]		growth	28 °C
[Ref.: #31248]		growth	20-40 °C
[Ref.: #31248]		optimum	28 °C
[Ref.: #33986]		growth	30 °C
[Ref.: #67770]		growth	28 °C
[Ref.: #67771]		growth	28 °C
[Ref.: #122380]		growth	25-37 °C
[Ref.: #122380]	no	growth	10 °C
[Ref.: #122380]	no	growth	41 °C
[Ref.: #122380]	no	growth	45 °C

	pH	Kind of pH		pH
[Ref.: #31248]			optimum	7.2
[Ref.: #31248]			growth	6.0-9.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #31248]	Oxygen tolerance	aerobe
[Ref.: #67771]	Oxygen tolerance	aerobe
[Ref.: #69480]	Oxygen tolerance	aerobe Confidence in %90.208

[Ref.: #31248]

Ability of spore formation

yes

	Salt	Tested relation		Salt conc.
[Ref.: #31248]	NaCl		growth	03-20	%
[Ref.: #31248]	NaCl		optimum	10	%
[Ref.: #122380]	NaCl		growth	6-10	%
[Ref.: #122380]	NaCl	no	growth	0	%
[Ref.: #122380]	NaCl	no	growth	2	%
[Ref.: #122380]	NaCl	no	growth	4	%

[Ref.: #31248]	Observation	aggregates in chains
[Ref.: #67770]	Observation	quinones: MK-10(H₆), MK-10(H₈), MK-12
[Ref.: #67771]	Observation	quinones: MK-10(H6), MK-10(H8), MK-12

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #122380]	citrate ChEBI	-	carbon source
[Ref.: #122380]	esculin ChEBI	-	hydrolysis
[Ref.: #31248]	fructose ChEBI	+	carbon source
[Ref.: #122380]	hippurate ChEBI	+	hydrolysis
[Ref.: #31248]	nitrate ChEBI	+	reduction
[Ref.: #122380]	nitrate ChEBI	-	reduction
[Ref.: #122380]	nitrite ChEBI	-	reduction
[Ref.: #31248]	raffinose ChEBI	+	carbon source
[Ref.: #31248]	ribose ChEBI	+	carbon source
[Ref.: #31248]	sucrose ChEBI	+	carbon source

	Metabolite production	Metabolite	Production
[Ref.: #122380]		indole ChEBI	no

	Physiological tests	Metabolite	Voges-Proskauer-test	Methylred-test
[Ref.: #122380]		acetoin ChEBI	-
[Ref.: #122380]		glucose ChEBI		-

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #122380]	alcohol dehydrogenase	-	1.1.1.1
[Ref.: #68382]	alkaline phosphatase	+	3.1.3.1	* from API zym
[Ref.: #68382]	alpha-chymotrypsin	-	3.4.21.1	* from API zym
[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
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #122380]	amylase	-
[Ref.: #122380]	beta-galactosidase	+	3.2.1.23
[Ref.: #68382]	beta-galactosidase	-	3.2.1.23	* from API zym
[Ref.: #68382]	beta-glucosidase	-	3.2.1.21	* from API zym
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym
[Ref.: #122380]	caseinase	+	3.4.21.50
[Ref.: #122380]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #122380]	DNase	-
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #122380]	gamma-glutamyltransferase	-	2.3.2.2
[Ref.: #31248]	gelatinase	+
[Ref.: #122380]	gelatinase	+
[Ref.: #122380]	lecithinase	+
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #122380]	lipase	+
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #122380]	lysine decarboxylase	-	4.1.1.18
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #122380]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #122380]	oxidase	-
[Ref.: #122380]	phenylalanine ammonia-lyase	-	4.3.1.24
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #122380]	tryptophan deaminase	-
[Ref.: #122380]	tween esterase	+
[Ref.: #122380]	urease	-	3.5.1.5
[Ref.: #68382]	valine arylamidase	-		* from API zym
	Only first 10 entries are displayed. Click here to see all.

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.: #122380]	2766	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.: #122380]	11215	-	+	+	+	-	+	-	-	-	-	+	+	-	-	-	+	-	-	-	-

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #12020]	Sample type/isolated from	hypersaline soil
[Ref.: #12020]	Geographic location (country and/or sea, region)	Xin Jiang province
[Ref.: #12020]	Country	China
[Ref.: #12020]	Country ISO 3 Code	CHN
[Ref.: #12020]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Saline soil
[Ref.: #67770]	Country	China
[Ref.: #67770]	Country ISO 3 Code	CHN
[Ref.: #67770]	Continent	Asia

[Ref.: #67771]	Sample type/isolated from	From a hypersaline habitat in Xinjiang Province
[Ref.: #67771]	Country	China
[Ref.: #67771]	Country ISO 3 Code	CHN
[Ref.: #67771]	Continent	Asia

[Ref.: #122380]	Sample type/isolated from	Environment, Soil sample
[Ref.: #122380]	Country	China
[Ref.: #122380]	Country ISO 3 Code	CHN
[Ref.: #122380]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Soil
#Condition	#Saline	-

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AY373031 (>99% sequence identity) for Nocardiopsis salina from Microbeatlas

Aquatic Samples
Soil Samples	10
Animal Samples	31
Plant Samples	2
Total Samples	43

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

[Ref.: #12020]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #122380]	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.: #31248]	Nocardiopsis salina 16S ribosomal RNA gene, partial sequence	AY373031	1449	GenBank ENA	1246485 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Nocardiopsis salina YIM 90010	GCA_000341025	contig	GenBank ENA	1246485 tax ID
[Ref.: #66792]	Nocardiopsis salina YIM 90010	1246485.3	wgs	PATRIC	1246485 tax ID	*
[Ref.: #66792]	Nocardiopsis salina YIM 90010	2551306679	draft	JGI IMG/M	1246485 tax ID	*

[Ref.: #12020]	GC-content	73.1 mol%
[Ref.: #67770]	GC-content	73.1 mol%	thermal denaturation, midpoint method (Tm)
[Ref.: #67770]	GC-content	70.4 mol%	genome sequence analysis

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: Nocardiopsis salina YIM 90010 PATRIC: 1246485.3
[Ref.: #69481]	spore-forming	spore-formingⓘ	yes	74	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Nocardiopsis salina YIM 90010 PATRIC: 1246485.3
[Ref.: #69480]	gram-positive	gram-positiveⓘ	yes	90.152	yes
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	95.453	yes
[Ref.: #69480]	spore-forming	spore-formingⓘ	yes	82.339	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	90.208	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	93.106	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	90	no

Availability in culture collections External links

[Ref.: #12020]

Culture collection no.

DSM 44839, CCTCC AA 204009, KCTC 19003, YIM 90010, JCM 13364, CIP 108478

[Ref.: #80460]

SI-ID 133656

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Nocardiopsis coralli sp. nov. a novel actinobacterium isolated from the coral Galaxea astreata.	Li F, Xie Q, Zhou S, Kong F, Xu Y, Ma Q, Wu W, Huang D, Zhao Y, Huang X	Int J Syst Evol Microbiol	10.1099/ijsem.0.004817	2021	*
Phylogeny	Nocardiopsis nikkonensis sp. nov., isolated from a compost sample.	Yamamura H, Ohkubo SY, Ishida Y, Otoguro M, Tamura T, Hayakawa M	Int J Syst Evol Microbiol	10.1099/ijs.0.016956-0	2010	*
Phylogeny	Nocardiopsis litoralis sp. nov., a halophilic marine actinomycete isolated from a sea anemone.	Chen YG, Wang YX, Zhang YQ, Tang SK, Liu ZX, Xiao HD, Xu LH, Cui XL, Li WJ	Int J Syst Evol Microbiol	10.1099/ijs.0.009704-0	2009	*
Phylogeny	Nocardiopsis salina sp. nov., a novel halophilic actinomycete isolated from saline soil in China.	Li WJ, Park DJ, Tang SK, Wang D, Lee JC, Xu LH, Kim CJ, Jiang CL	Int J Syst Evol Microbiol	10.1099/ijs.0.63127-0	2004	*

References

#12020

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 44839

#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 )

#31248

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 #27571 (see below)

#33986 ; 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) .

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#67771 Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;

#68382

Automatically annotated from API zym .

#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 .

#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 )

#80460

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-ID133656.1 )

#122380 Collection of Institut Pasteur ; Curators of the CIP; CIP 108478

#27571

IJSEM 1805 2004 ( DOI 10.1099/ijs.0.63127-0 , PubMed 15388747 )

* These data were automatically processed and therefore are not curated

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Nocardiopsis salina YIM 90010

Nocardiopsis salina YIM 90010

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