Name: Novosphingobium rosa 68
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 14145

Type strain:

Species: Novosphingobium rosa

Strain Designation: 68, R135

Culture col. no.: DSM 7285, CIP 110407, IAM 14222, IFO 15208, NBRC 15208, NCPPB 2661, CCUG 58055, JCM 10276, HAMBI 2068, ATCC 51837, LMG 17328, JCM 31909, TRI 106, CIP 107362, JCM 10194, JCM 21080, KCTC 2821, NCIMB 13413

Strain history: CIP <- 2012, DSMZ <- NCPPB <- A. Kerr: strain 68 <- IPPB: strain TRI106 <- D. Munnecke: strain R135

NCBI tax ID(s): 1219053 (strain), 76978 (species)

SI-ID 13984

LMG 17328, ATCC 51837, IAM 14222, IFO 15208, NCPPB 2661, DSM 7285, NCIMB 13413, JCM 10194, KCTC 2821, HAMBI 2068, CIP 107362, NBRC 15208, JCM 10276, CIP 110407

Special Collections

Other strains from Novosphingobium rosa

Section

Novosphingobium rosa 68 is a Gram-negative bacterium that was isolated from rose.

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 rosa**
	Full Scientific Name (LPSN)	Novosphingobium rosa corrig. (Takeuchi et al. 1995) Takeuchi et al. 2001

	Synonym	Novosphingobium roseae
	Synonym	Sphingomonas rosa

Information on morphological and physiological properties Morphology

[Ref.: #122249]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %94.806

[Ref.: #122249]	Cell shape	rod-shaped

[Ref.: #122249]	Motility	no

Information on culture and growth conditions Culture and growth conditions

[Ref.: #3091]

Culture medium

NUTRIENT AGAR (DSMZ Medium 1)

[Ref.: #3091]

Culture medium growth

[Ref.: #3091]

Culture medium link

Medium recipe at MediaDive

[Ref.: #3091]

Culture medium composition

expand / minimize

[Ref.: #34735]

Culture medium

MEDIUM 328- for nutrient agar

[Ref.: #34735]

Culture medium growth

[Ref.: #34735]

Culture medium composition

expand / minimize

[Ref.: #40124]

Culture medium

MEDIUM 72- for trypto casein soja agar

[Ref.: #40124]

Culture medium growth

[Ref.: #40124]

Culture medium composition

expand / minimize

[Ref.: #122249]

Culture medium

CIP Medium 328

[Ref.: #122249]

Culture medium growth

[Ref.: #122249]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #3091]	growth	28 °C
[Ref.: #34735]	growth	25 °C
[Ref.: #40124]	growth	30 °C
[Ref.: #67770]	growth	28 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69480]

Oxygen tolerance

aerobe Confidence in %90.595

[Ref.: #69481]

Ability of spore formation

no Confidence in %99

[Ref.: #67770]

Observation

quinones: Q-10

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

[Ref.: #3091]	Sample type/isolated from	rose

[Ref.: #61576]	Sample type/isolated from	Hairy root of Rosa sp.

[Ref.: #67770]	Sample type/isolated from	Hairy root of Rosa sp.
[Ref.: #67770]	Host species	Rosa sp.

[Ref.: #122249]	Sample type/isolated from	Rose, Agrobacterium rhizogenes
* marker position based on {}

Isolation sources categories

#Host Body-Site

#Plant

#Flower

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AB680810 (>99% sequence identity) for Novosphingobium rosa subclade from Microbeatlas

Aquatic Samples	747
Soil Samples	755
Animal Samples	326
Plant Samples	507
Total Samples	2335

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

[Ref.: #3091]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #122249]	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.: #67770]	Novosphingobium rosa gene for, partial sequence, strain: IAM 14222	D13945	1369	GenBank ENA	76978 tax ID
[Ref.: #20218]	Novosphingobium rosa 16S ribosomal RNA gene, partial sequence; 16S-23S ribosomal RNA intergenic spacer, complete sequence; and 23S ribosomal RNA gene, partial sequence	GQ907185	661	GenBank ENA	76978 tax ID	*
[Ref.: #20218]	Novosphingobium rosa gene for 16S rRNA, partial sequence, strain: NBRC 15208	AB680810	1414	GenBank ENA	76978 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Novosphingobium rosa NBRC 15208	GCA_001598555	contig	GenBank ENA	1219053 tax ID
[Ref.: #66792]	Novosphingobium rosa NBRC 15208	1219053.3	wgs	PATRIC	1219053 tax ID	*
[Ref.: #66792]	Novosphingobium rosa NBRC 15208	2731957706	draft	JGI IMG/M	1219053 tax ID	*

[Ref.: #67770]

GC-content

64.7 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 rosa NBRC 15208 PATRIC: 1219053.3
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	99	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Novosphingobium rosa NBRC 15208 PATRIC: 1219053.3
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	94.806	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	93.9	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	83.954	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	90.595	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	96.551	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	yes	67.158	no

Availability in culture collections External links

[Ref.: #3091]

Culture collection no.

DSM 7285, CIP 110407, IAM 14222, IFO 15208, NBRC 15208, NCPPB 2661, CCUG 58055, JCM 10276, HAMBI 2068, ATCC 51837, LMG 17328, JCM 31909, TRI 106, CIP 107362, JCM 10194, JCM 21080, KCTC 2821, NCIMB 13413

[Ref.: #83310]	SI-ID 13984	*
[Ref.: #83311]	SI-ID 410761	*

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Novosphingobium lotistagni sp. nov., isolated from a lotus pond.	Ngo HTT, Trinh H, Kim JH, Yang JE, Won KH, Kim JH, Kook M, Yi TH	Int J Syst Evol Microbiol	10.1099/ijsem.0.001418	2016	*
Phylogeny	Novosphingobium aquaticum sp. nov., isolated from the humic-matter-rich bog lake Grosse Fuchskuhle.	Glaeser SP, Bolte K, Busse HJ, Kampfer P, Grossart HP, Glaeser J	Int J Syst Evol Microbiol	10.1099/ijs.0.048280-0	2012	*
Phylogeny	Taxonomic study of bacteria isolated from plants: proposal of Sphingomonas rosa sp. nov., Sphingomonas pruni sp. nov., Sphingomonas asaccharolytica sp. nov., and Sphingomonas mali sp. nov.	Takeuchi M, Sakane T, Yanagi M, Yamasato K, Hamana K, Yokota A	Int J Syst Bacteriol	10.1099/00207713-45-2-334	1995	*

References

#3091

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 7285

#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 )

#20218

Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )

#34735 ; Curators of the CIP;
#40124 ; Curators of the CIP;
#61576 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 58055

#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 )

#83310

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-ID13984.1 )

#83311

#122249 Collection of Institut Pasteur ; Curators of the CIP; CIP 110407
* These data were automatically processed and therefore are not curated

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Novosphingobium rosa NBRC 15208

Novosphingobium rosa NBRC 15208

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