Sphingobium fuliginis (DSM 29313, JCM 30309, KK22)

Name: Sphingobium fuliginis (DSM 29313, JCM 30309, KK22)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 130669

Type strain

Strain Designation KK22

Culture col. no. DSM 29313 JCM 30309 KK22

NCBI tax ID(s) 336203

Special Collections DSMZ JCM

History DSMZ <- R. Kanaly, Yokohama City Univ., Japan; KK22 <- R. Kanaly and M. Kunihiro JCM <-- R. A. Kanaly; Yokohama City Univ., Japan; KK22.

Links

Sphingobium fuliginis KK22 is a bacterium that was isolated from cattle pasture soil.

genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 400022

JCM 30309,DSM 29313

@ref 20215

Last LPSN update 2026-05-29 08:37:26

Domain Bacteria

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Sphingomonadales

Family Sphingomonadaceae

Genus Sphingobium

Species Sphingobium fuliginis

Full scientific name Sphingobium fuliginis Prakash and Lal 2006

Synonyms (1)

Sphingobium barthaii

BacDive ID	Other strains from **Sphingobium fuliginis** (2)	Type strain
14186	S. fuliginis TKP, DSM 18781, CCM 7327, MTCC 7295, CIP ... (type strain)
14215	S. fuliginis DSM 16637, ATCC 27551, CIP 104270

Morphology

Cell morphology

@ref	Gram stain	Confidence
125438	negative	95.802

Multimedia

@ref:	21781
multimedia content:	DSM_29313.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_29313.jpg
intellectual property rights:	© Leibniz-Institut DSMZ
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
21781	TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)		Medium recipe at MediaDive	Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water
21781	MINERAL MEDIUM WITH VITAMINS (DSMZ Medium 462)		Medium recipe at MediaDive	Name: MINERAL MEDIUM (BRUNNER) WITH VITAMINS (DSMZ Medium 462) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Casein peptone 15.0 g/l Peptone 5.0 g/l NaCl 5.0 g/l Soy peptone 5.0 g/l Meat extract 3.0 g/l Na2HPO4 2.44 g/l KH2PO4 1.52 g/l (NH4)2SO4 0.5 g/l MgSO4 x 7 H2O 0.2 g/l CaCl2 x 2 H2O 0.05 g/l EDTA 0.005 g/l FeSO4 x 7 H2O 0.002 g/l H3BO3 0.0003 g/l CoCl2 x 6 H2O 0.0002 g/l Pyridoxamine 0.000125 g/l ZnSO4 x 7 H2O 0.0001 g/l Nicotinic acid 5e-05 g/l Vitamin B12 5e-05 g/l Na2MoO4 x 2 H2O 3e-05 g/l MnCl2 x 4 H2O 3e-05 g/l p-Aminobenzoate 2.5e-05 g/l Thiamine-HCl x 2 H2O 2.5e-05 g/l NiCl2 x 6 H2O 2e-05 g/l Calcium pantothenate 1.25e-05 g/l CuCl2 x 2 H2O 1e-05 g/l Biotin 5e-06 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
21781	positive	growth	28
67770	positive	growth	30

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	95.979

Spore formation

@ref	Spore formation	Confidence
125439		96.193

Observation

67770

Observationquinones: Q-10

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Grassland
#Host	#Mammals	#Bovinae (Cow, Cattle)

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
21781	cattle pasture soil	Texas,Gulf region	USA	USA	North America
67770	Diesel-fuel-degrading bacterial consortium originally recovered from cattle pasture soil in the Gulf region of TX		USA	USA	North America

Taxonmaps

69479

Global distribution of 16S sequence HQ830159 (>99% sequence identity) for Sphingobium from Microbeatlas

Aquatic Samples	361
Soil Samples	347
Animal Samples	121
Plant Samples	88
Total Samples	917

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
21781	1	Risk group (German classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM1507480v1 assembly for Sphingobium fuliginis KK22	complete	GCA_015074805			336203	90.41
67770	ASM47417v2 assembly for Sphingobium fuliginis KK22	contig	GCA_000474175	1054037.9	2571042868	336203	16.95

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
21781	Sphingobium fuliginis strain KK22 16S ribosomal RNA gene, partial sequence	HQ830159	1481		1054037

GC content

@ref	GC-content (mol%)	Method
21781	64.7	sequence analysis
67770	64.7

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM47417v2 assembly for Sphingobium fuliginis KK22
NCBI: GCA_000474175

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	95.98	no
125439	motility	BacteriaNetⓘ	yes	45.78	no
125439	gram_stain	BacteriaNetⓘ	negative	79.29	no
125439	spore_formation	BacteriaNetⓘ	no	96.19	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Sphingobium fuliginis KK22
NCBI: GCA_015074805.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	95.80	no
125438	anaerobic	anaerobicⓘ	no	95.61	no
125438	aerobic	aerobicⓘ	yes	89.02	no
125438	spore-forming	spore-formingⓘ	no	88.33	no
125438	thermophilic	thermophileⓘ	no	96.47	yes
125438	flagellated	motile2+ⓘ	yes	72.23	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Sphingobium barthaii sp. nov., a high molecular weight polycyclic aromatic hydrocarbon-degrading bacterium isolated from cattle pasture soil.	Maeda AH, Kunihiro M, Ozeki Y, Nogi Y, Kanaly RA	Int J Syst Evol Microbiol	10.1099/ijs.0.000356	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 )
#21781	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 29313
#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 .
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )
#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 )

Content

About us

Sphingobium fuliginis (DSM 29313, JCM 30309, KK22)

Name and taxonomic classification

Morphology

Cell morphology

Multimedia

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Observation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_015074805

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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