Novosphingobium sp. (DSM 106081, ST904)

Name: Novosphingobium sp. (DSM 106081, ST904)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 158133

Type strain

Strain Designation ST904

Culture col. no. DSM 106081 ST904

NCBI tax ID(s) 1874826

Special Collections DSMZ

Links

ST904 is a mesophilic prokaryote that was isolated from soil.

mesophilic genome sequence

Name and taxonomic classification

SI-ID 407270

DSM 106081

@ref 20215

Last LPSN update 2025-12-16 10:07:57

Domain Pseudomonadati

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Sphingomonadales

Family Erythrobacteraceae

Genus Novosphingobium

Full scientific name Novosphingobium Takeuchi et al. 2001

Synonyms (5)

Flavinovosphingobium
Agrinovosphingobium
Paranovosphingobium
Alterinovosphingobium
Pseudonovosphingobium

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	negative	98.5

Multimedia

@ref:	64712
multimedia content:	DSM_106081.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_106081.jpg
intellectual property rights:	© Leibniz-Institut DSMZ
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
64712	NUTRIENT AGAR (DSMZ Medium 1)		Medium recipe at MediaDive	Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
64712	positive	growth	28	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	95.6

Spore formation

@ref	Spore formation	Confidence
125439		98.4

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
64712	soil	Zwjindrecht	Belgium	BEL	Europe

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM434130v1 assembly for Novosphingobium sp. ST904	contig	GCA_004341305	1684385.4	2788499874	1684385	55.05
66792	ASM129810v1 assembly for Novosphingobium sp. ST904	contig	GCA_001298105	1684385.3	2773857788	1684385	32.78

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Novosphingobium sp. ST904
IMG: 2773857788

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	98.40	no
125439	motility	BacteriaNetⓘ	yes	73.50	no
125439	gram_stain	BacteriaNetⓘ	negative	98.50	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	95.60	no

Literature

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 )
#64712	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 106081
#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) .
#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 )

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