Name: Novosphingobium endophyticum DSM 29948
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 132339

Type strain:

Species: Novosphingobium endophyticum

Culture col. no.: DSM 29948, CGMCC 1.15095, KCTC 42486, EGI 600015, JCM 30707

Strain history: W.-J. Li; Yunnan Inst. of Microbiol., Yunnan Univ., China; EGI 60015.

NCBI tax ID(s): 1955250 (species)

SI-ID 405299

DSM 29948

Special Collections

Section

Novosphingobium endophyticum DSM 29948 is a Gram-negative bacterium that was isolated from surface sterilized healthy roots of Chinese liquorice Glycyrrhiza uralensis.

Gram-negative
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	*Pseudomonadota*
	Class	*Alphaproteobacteria*
	Order	*Sphingomonadales*
	Family	*Erythrobacteraceae*
	Genus	*Novosphingobium*
	Species	**Novosphingobium endophyticum**
	Full Scientific Name (LPSN)	Novosphingobium endophyticum Li et al. 2016

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	negative Confidence in %95.762

Information on culture and growth conditions Culture and growth conditions

[Ref.: #24128]

Culture medium

R2A MEDIUM (DSMZ Medium 830)

[Ref.: #24128]

Culture medium growth

[Ref.: #24128]

Culture medium link

Medium recipe at MediaDive

[Ref.: #24128]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #24128]			growth	28 °C
[Ref.: #67770]			growth	30 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69481]

Ability of spore formation

no Confidence in %100

[Ref.: #67770]

Observation

quinones: Q-10

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

[Ref.: #24128]	Sample type/isolated from	surface sterilized healthy roots of Chinese liquorice Glycyrrhiza uralensis
[Ref.: #24128]	Host species	Glycyrrhiza uralensis
[Ref.: #24128]	Geographic location (country and/or sea, region)	Xinjiang province, Yili County
[Ref.: #24128]	Country	China
[Ref.: #24128]	Country ISO 3 Code	CHN
[Ref.: #24128]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Healthy roots of Glycyrrhiza uralensis F. collected from Yili County
[Ref.: #67770]	Host species	Glycyrrhiza uralensis
[Ref.: #67770]	Geographic location (country and/or sea, region)	Xinjiang Province, northwest China
[Ref.: #67770]	Country	China
[Ref.: #67770]	Country ISO 3 Code	CHN
[Ref.: #67770]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Host	#Plants	#Herbaceous plants (Grass,Crops)
#Host Body-Site	#Plant	#Root (Rhizome)
#Host Body-Site	#Plant	#Sterilized plant part

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KP721487 (>99% sequence identity) for Novosphingobium endophyticum from Microbeatlas

Aquatic Samples	522
Soil Samples	317
Animal Samples	80
Plant Samples	60
Total Samples	979

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

[Ref.: #24128]

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.: #24128]	Novosphingobium endophyticum strain EGI 60015 16S ribosomal RNA gene, partial sequence	KP721487	1492	GenBank ENA	1955250 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Novosphingobium endophyticum CGMCC 1.15095	GCA_014640675	contig	GenBank ENA	1955250 tax ID	*
[Ref.: #66792]	Novosphingobium endophyticum strain CGMCC 1.15095	1955250.3	wgs	PATRIC	1955250 tax ID	*

[Ref.: #24128]

GC-content

66.6 mol%

high performance liquid chromatography (HPLC)

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: Novosphingobium endophyticum strain CGMCC 1.15095 PATRIC: 1955250.3
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	100	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Novosphingobium endophyticum strain CGMCC 1.15095 PATRIC: 1955250.3
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	95.762	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	88.543	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	87.08	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	85.84	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	96.058	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	yes	68.346	no

Availability in culture collections External links

[Ref.: #24128]

Culture collection no.

DSM 29948, CGMCC 1.15095, KCTC 42486, EGI 600015, JCM 30707

[Ref.: #90685]

SI-ID 405299

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Novosphingobium endophyticum sp. nov. isolated from roots of Glycyrrhiza uralensis.	Li YQ, Li L, Chen W, Duan YQ, Nimaichand S, Guo JW, Gao R, Li WJ	Arch Microbiol	10.1007/s00203-015-1124-1	2015	*

References

#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 )

#24128

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 29948

#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 )

#90685

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-ID405299.1 )

* These data were automatically processed and therefore are not curated

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Novosphingobium endophyticum strain CGMCC 1.15095

Novosphingobium endophyticum strain CGMCC 1.15095

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