Name: Nocardiopsis xinjiangensis CIP 107980
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 135078

Type strain:

Species: Nocardiopsis xinjiangensis

Culture col. no.: CIP 107980, DSM 44589, CCTCC AA 99004, CCRC 16285, YIM 90004, JCM 12328, BCRC 16285, NBRC 104162, NRRL B-24158

Strain history: CIP <- 2003, W.J. Li, Yunnan Univ., Kunming, China: strain YIM 90004 <- DSMZ <- CCTCC <- CCRC

NCBI tax ID(s): 1246474 (strain), 124285 (species)

SI-ID 100827

CCRC 16285, DSM 44589, KCTC 9968, BCRC 16285, JCM 12328, CIP 107980, NRRL B-24158

Other strains from Nocardiopsis xinjiangensis

N. xinjiangensis AH19, DSM 45463
N. xinjiangensis AH24, DSM 45470
N. xinjiangensis AH38, DSM 45466
N. xinjiangensis AH46, DSM 45467
N. xinjiangensis AH12, DSM 45469

Section

Nocardiopsis xinjiangensis CIP 107980 is a spore-forming, mesophilic, Gram-positive bacterium of the family Nocardiopsidaceae.

Gram-positive
spore-forming
mesophilic
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 xinjiangensis**
	Full Scientific Name (LPSN)	Nocardiopsis xinjiangensis Li et al. 2003

Information on morphological and physiological properties Morphology

[Ref.: #33856]	Gram stain	positive
[Ref.: #69480]	Gram stain	positive Confidence in %100

[Ref.: #33856]	Cell shape	rod-shaped

[Ref.: #33856]	Motility	no

Information on culture and growth conditions Culture and growth conditions

[Ref.: #11904]

Culture medium

GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)

[Ref.: #11904]

Culture medium growth

[Ref.: #11904]

Culture medium link

Medium recipe at MediaDive

[Ref.: #11904]

Culture medium composition

expand / minimize

[Ref.: #33856]

Culture medium

Marine agar (MA)

[Ref.: #33856]

Culture medium growth

[Ref.: #33856]

Culture medium composition

expand / minimize

[Ref.: #11904]

Culture medium

GYM STREPTOMYCES MEDIUM 10% NACL (DSMZ Medium 1159)

[Ref.: #11904]

Culture medium growth

[Ref.: #11904]

Culture medium link

Medium recipe at MediaDive

[Ref.: #11904]

Culture medium composition

expand / minimize

[Ref.: #11904]

Culture medium

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

[Ref.: #11904]

Culture medium growth

[Ref.: #11904]

Culture medium link

Medium recipe at MediaDive

[Ref.: #11904]

Culture medium composition

expand / minimize

[Ref.: #33856]

Culture medium

CIP Medium 72

[Ref.: #33856]

Culture medium growth

[Ref.: #33856]

Culture medium link

Medium recipe provided by DSMZ

[Ref.: #33856]

Culture medium

CIP Medium 13

[Ref.: #33856]

Culture medium growth

[Ref.: #33856]

Culture medium link

Medium recipe provided by DSMZ

[Ref.: #33856]

Culture medium

CIP Medium 57

[Ref.: #33856]

Culture medium growth

[Ref.: #33856]

Culture medium link

Medium recipe provided by DSMZ

	Kind of temperature		Temperature
[Ref.: #11904]		growth	28 °C
[Ref.: #33856]		growth	30 °C
[Ref.: #33856]		growth	25-37 °C
[Ref.: #33856]	no	growth	10 °C
[Ref.: #33856]	no	growth	15 °C
[Ref.: #33856]	no	growth	41 °C
[Ref.: #33856]	no	growth	45 °C
[Ref.: #67770]		growth	28 °C

[Ref.: #11904]	Temperature range	mesophilic
[Ref.: #33856]	Temperature range	mesophilic
[Ref.: #33856]	Temperature range	psychrophilic
[Ref.: #33856]	Temperature range	thermophilic
[Ref.: #67770]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69480]

Ability of spore formation

yes Confidence in %95.008

	Salt	Tested relation		Salt conc.
[Ref.: #33856]	NaCl		growth	0	%
[Ref.: #33856]	NaCl	no	growth	2	%
[Ref.: #33856]	NaCl	no	growth	4	%
[Ref.: #33856]	NaCl	no	growth	6	%
[Ref.: #33856]	NaCl	no	growth	8	%
[Ref.: #33856]	NaCl	no	growth	10	%

[Ref.: #67770]

Observation

quinones: MK-10(H₂), MK-10(H₄)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #33856]	citrate ChEBI	-	carbon source
[Ref.: #33856]	esculin ChEBI	-	hydrolysis
[Ref.: #33856]	hippurate ChEBI	+	hydrolysis
[Ref.: #33856]	nitrate ChEBI	-	reduction
[Ref.: #33856]	nitrate ChEBI	-	respiration
[Ref.: #33856]	nitrite ChEBI	-	reduction

	Metabolite production	Metabolite	Production
[Ref.: #33856]		indole ChEBI	no

	Physiological tests	Metabolite	Voges-Proskauer-test	Methylred-test
[Ref.: #33856]		acetoin ChEBI	-
[Ref.: #33856]		glucose ChEBI		-

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	-	3.1.3.2	* from API zym
[Ref.: #33856]	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.: #33856]	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.: #33856]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	-		* from API zym
[Ref.: #33856]	gamma-glutamyltransferase	-	2.3.2.2
[Ref.: #33856]	gelatinase	-
[Ref.: #68382]	leucine arylamidase	-	3.4.11.1	* from API zym
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #33856]	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.: #33856]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #33856]	oxidase	-
[Ref.: #33856]	phenylalanine ammonia-lyase	-	4.3.1.24
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #33856]	tryptophan deaminase	-
[Ref.: #33856]	urease	+	3.5.1.5
[Ref.: #68382]	valine arylamidase	-		* from API zym
	Only first 10 entries are displayed. Click here to see all.

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.: #33856]	10792	-	+	+	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-

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

[Ref.: #11904]	Sample type/isolated from	soil sample, Ju county saline
[Ref.: #11904]	Geographic location (country and/or sea, region)	Xinjiang Province
[Ref.: #11904]	Country	China
[Ref.: #11904]	Country ISO 3 Code	CHN
[Ref.: #11904]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Saline soil
[Ref.: #67770]	Geographic location (country and/or sea, region)	Xinjiang Province
[Ref.: #67770]	Country	China
[Ref.: #67770]	Country ISO 3 Code	CHN
[Ref.: #67770]	Continent	Asia

[Ref.: #33856]	Sample type/isolated from	Environment, Soil, hypersaline
[Ref.: #33856]	Geographic location (country and/or sea, region)	Xinjiang
[Ref.: #33856]	Country	China
[Ref.: #33856]	Country ISO 3 Code	CHN
[Ref.: #33856]	Continent	Asia
[Ref.: #33856]	Isolation date	1998

[Ref.: #33856]	Geographic location (country and/or sea, region)	Xinjiang Prov.
[Ref.: #33856]	Country	China
[Ref.: #33856]	Country ISO 3 Code	CHN
[Ref.: #33856]	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 AF251709 (>99% sequence identity) for Nocardiopsis xinjiangensis from Microbeatlas

Aquatic Samples	2
Soil Samples	20
Animal Samples	100
Plant Samples	3
Total Samples	125

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

[Ref.: #11904]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #33856]	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.: #11904]	Brachystreptospora xinjiangensis 16S ribosomal RNA gene, partial sequence	AF251709	1525	ENA	124285 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Nocardiopsis xinjiangensis YIM 90004	GCA_000341145	contig	GenBank	1246474 tax ID
[Ref.: #66792]	Nocardiopsis xinjiangensis YIM 90004	1246474.3	wgs	PATRIC	1246474 tax ID	*
[Ref.: #66792]	Nocardiopsis xinjiangensis YIM 90004	2551306681	draft	JGI IMG/M	1246474 tax ID	*

[Ref.: #11904]	GC-content	74.3 mol%
[Ref.: #67770]	GC-content	69.8 mol%	genome sequence analysis
[Ref.: #67770]	GC-content	69.7 mol%	genome sequence analysis
[Ref.: #67770]	GC-content	74.3 mol%	thermal denaturation, midpoint method (Tm)

Data predicted using genome information as a basis Genome-based predictions

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Nocardiopsis xinjiangensis YIM 90004 PATRIC: 1246474.3
[Ref.: #69481]	spore-forming	yes	84	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Nocardiopsis xinjiangensis YIM 90004 PATRIC: 1246474.3
[Ref.: #69480]	motile	no	93.075	no
[Ref.: #69480]	gram-positive	yes	91.232	no
[Ref.: #69480]	anaerobic	no	99.536	no
[Ref.: #69480]	aerobic	yes	93.8	no
[Ref.: #69480]	halophile	yes	83.671	no
[Ref.: #69480]	spore-forming	yes	91.673	no
[Ref.: #69480]	glucose-util	yes	89.954	no
[Ref.: #69480]	flagellated	no	97.907	no
[Ref.: #69480]	thermophile	no	94.917	no
[Ref.: #69480]	glucose-ferment	no	91	no

Availability in culture collections External links

[Ref.: #11904]

Culture collection no.

CIP 107980, DSM 44589, CCTCC AA 99004, CCRC 16285, YIM 90004, JCM 12328, BCRC 16285, NBRC 104162, NRRL B-24158

[Ref.: #92503]

SI-ID 100827

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 xinjiangensis sp. nov., a halophilic actinomycete isolated from a saline soil sample in China.	Li MG, Li WJ, Xu P, Cui XL, Xu LH, Jiang CL	Int J Syst Evol Microbiol	10.1099/ijs.0.02055-0	2003	*

References

#11904

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 44589

#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 )

#33856 Collection of Institut Pasteur ; Curators of the CIP; CIP 107980

#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;

#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 )

#92503

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-ID100827.1 )

* These data were automatically processed and therefore are not curated

Change proposal

You found an error in BacDive? Please tell us about it!

Note that changes will be reviewed and judged. If your changes are legitimate, changes will occur within the next BacDive update. Only proposed changes supported by the according reference will be reviewed. The BacDive team reserves the right to reject proposed changes.

Search for species Nocardiopsis xinjiangensis in external resources:
SILVA
BRENDA
PANGAEA
StrainInfo
GBIF

Nocardiopsis xinjiangensis YIM 90004

Nocardiopsis xinjiangensis YIM 90004

Change proposal

Change proposal