Name: Nocardiopsis valliformis DSM 45023
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 11235

Type strain:

Species: Nocardiopsis valliformis

Culture col. no.: DSM 45023, CGMCC 4.2135, HBUM 20028, JCM 16800

Strain history: CGMCC 4.2135 <-- R. Yang et al. HBUM 20028.

NCBI tax ID(s): 1246448 (strain), 239974 (species)

SI-ID 297493

DSM 45023, CGMCC 4.2135, JCM 16800

Section

Nocardiopsis valliformis DSM 45023 is an aerobe, spore-forming, mesophilic bacterium that was isolated from soil of saline.

Gram-positive
spore-forming
aerobe
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 valliformis**
	Full Scientific Name (LPSN)	Nocardiopsis valliformis Yang et al. 2008

Information on morphological and physiological properties Morphology

[Ref.: #32184]	Gram stain	positive
[Ref.: #69480]	Gram stain	positive Confidence in %100

[Ref.: #32184]	Motility	no

[Ref.: #32184]

Pigment production

yes

Multimedia content

[Ref.: #12253]

Caption:

Medium 65 28°C pH 9.5

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Intellectual property rights:

Information on culture and growth conditions Culture and growth conditions

[Ref.: #12253]

Culture medium

GYP GLUCOSE-YEAST-PEPTONE MEDIUM (DSMZ Medium 852)

[Ref.: #12253]

Culture medium growth

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Culture medium link

Medium recipe at MediaDive

[Ref.: #12253]

Culture medium composition

expand / minimize

[Ref.: #12253]

Culture medium

BOGORIELLA MEDIUM (DSMZ Medium 785)

[Ref.: #12253]

Culture medium growth

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Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #12253]	growth	28 °C
[Ref.: #32184]	optimum	28 °C
[Ref.: #67770]	growth	28 °C

[Ref.: #12253]	Temperature range	mesophilic
[Ref.: #32184]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #32184]			optimum	9.5-13
[Ref.: #32184]			growth	08-14

Information on physiology and metabolism Physiology and metabolism

[Ref.: #32184]

Oxygen tolerance

aerobe

[Ref.: #32184]	Ability of spore formation	yes
[Ref.: #69481]	Ability of spore formation	yes Confidence in %100
[Ref.: #69480]	Ability of spore formation	yes Confidence in %99.191

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #32184]		NaCl		growth	0-5	%

[Ref.: #67770]

Observation

quinones: MK-10(H₂), MK-10(H₄), MK-10(H₆)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #32184]	arabinose ChEBI	+	carbon source
[Ref.: #32184]	glycerol ChEBI	+	carbon source
[Ref.: #32184]	lactose ChEBI	+	carbon source
[Ref.: #32184]	nitrate ChEBI	+	reduction
[Ref.: #32184]	xylose ChEBI	+	carbon source

	Enzymes	Enzyme	Enzyme activity
[Ref.: #32184]		gelatinase	+

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

[Ref.: #12253]	Sample type/isolated from	soil of saline
[Ref.: #12253]	Geographic location (country and/or sea, region)	Buerjin of Xinjiang Province
[Ref.: #12253]	Country	China
[Ref.: #12253]	Country ISO 3 Code	CHN
[Ref.: #12253]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Soil from an alkali lake
[Ref.: #67770]	Geographic location (country and/or sea, region)	Xinjiang
[Ref.: #67770]	Country	China
[Ref.: #67770]	Country ISO 3 Code	CHN
[Ref.: #67770]	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 AY336503 (>99% sequence identity) for Nocardiopsis from Microbeatlas

Aquatic Samples	1
Soil Samples	2
Animal Samples	23
Plant Samples
Total Samples	26

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

[Ref.: #12253]

Biosafety level

Risk group (German classification)
According to TRBA 466

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.: #12253]	Nocardiopsis valliformis strain HBUM 20028 16S ribosomal RNA gene, partial sequence	AY336503	1434	ENA	239974 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Nocardiopsis valliformis DSM 45023	GCA_000340985	contig	GenBank	1246448 tax ID
[Ref.: #66792]	Nocardiopsis valliformis DSM 45023	1246448.3	wgs	PATRIC	1246448 tax ID	*
[Ref.: #66792]	Nocardiopsis valliformis DSM 45023	2554235029	draft	JGI IMG/M	1246448 tax ID	*

[Ref.: #12253]	GC-content	70.6 mol%	high performance liquid chromatography (HPLC)
[Ref.: #32184]	GC-content	70.6 mol%
[Ref.: #67770]	GC-content	69.6 mol%	genome sequence analysis

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 valliformis DSM 45023 PATRIC: 1246448.3
[Ref.: #69481]	spore-forming	yes	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Nocardiopsis valliformis DSM 45023 PATRIC: 1246448.3
[Ref.: #69480]	motile	no	93.242	yes
[Ref.: #69480]	gram-positive	yes	93.516	no
[Ref.: #69480]	anaerobic	no	99.318	yes
[Ref.: #69480]	aerobic	yes	94.72	yes
[Ref.: #69480]	halophile	yes	56.391	no
[Ref.: #69480]	spore-forming	yes	91.634	yes
[Ref.: #69480]	glucose-util	yes	88.491	no
[Ref.: #69480]	flagellated	no	97.77	yes
[Ref.: #69480]	thermophile	no	98.27	yes
[Ref.: #69480]	glucose-ferment	no	92.467	no

Availability in culture collections External links

[Ref.: #12253]

Culture collection no.

DSM 45023, CGMCC 4.2135, HBUM 20028, JCM 16800

[Ref.: #80470]

SI-ID 297493

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Nocardiopsis valliformis sp. nov., an alkaliphilic actinomycete isolated from alkali lake soil in China.	Yang R, Zhang LP, Guo LG, Shi N, Lu Z, Zhang X	Int J Syst Evol Microbiol	10.1099/ijs.0.65090-0	2008	*

References

#12253

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 45023

#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 )

#32184

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 #28426 (see below)

#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;

#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 )

#80470

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-ID297493.1 )

#28426

IJSEM 1542 2008 ( DOI 10.1099/ijs.0.65090-0 , PubMed 18599691 )

* These data were automatically processed and therefore are not curated

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