Sphingobium fuliginis (DSM 18781, CCM 7327, MTCC 7295)

Name: Sphingobium fuliginis (DSM 18781, CCM 7327, MTCC 7295)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 14186

Type strain

Strain Designation TKP

Culture col. no. DSM 18781 CCM 7327 MTCC 7295 TKP CIP 109370

NCBI tax ID(s) 336203

Special Collections DSMZ CIP

Links

Sphingobium fuliginis TKP is an obligate aerobe, mesophilic, Gram-negative prokaryote that was isolated from fly ash dumping site.

Gram-negative motile rod-shaped obligate aerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 297312

MTCC 7295,CCM 7327,DSM 18781,CIP 109370

@ref 20215

Last LPSN update 2025-12-16 09:50:17

Domain Pseudomonadati

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
130669	S. fuliginis KK22, DSM 29313, JCM 30309 (type strain)
14215	S. fuliginis DSM 16637, ATCC 27551, CIP 104270

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Confidence
119482	negative	rod-shaped
125439	negative		97.4
125438	negative		96.302

Culture and growth conditions

Culture medium

@ref	Name	Growth	Composition	Medium link
40132	MEDIUM 72- for trypto casein soja agar		Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
119482	CIP Medium 72			Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
40132	positive	growth	30	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
119482	obligate aerobe
125439	obligate aerobe	97

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68371	27613 ChEBI	amygdalin	-	builds acid from	from API 50CH acid
68371	18305 ChEBI	arbutin	-	builds acid from	from API 50CH acid
68371	17108 ChEBI	D-arabinose	-	builds acid from	from API 50CH acid
68371	18333 ChEBI	D-arabitol	-	builds acid from	from API 50CH acid
68371	15824 ChEBI	D-fructose	-	builds acid from	from API 50CH acid
68371	17634 ChEBI	D-glucose	-	builds acid from	from API 50CH acid
68371	62318 ChEBI	D-lyxose	-	builds acid from	from API 50CH acid
68371	16899 ChEBI	D-mannitol	-	builds acid from	from API 50CH acid
68371	16024 ChEBI	D-mannose	-	builds acid from	from API 50CH acid
68371	16988 ChEBI	D-ribose	-	builds acid from	from API 50CH acid
68371	17924 ChEBI	D-sorbitol	-	builds acid from	from API 50CH acid
68371	16443 ChEBI	D-tagatose	-	builds acid from	from API 50CH acid
68371	17113 ChEBI	erythritol	-	builds acid from	from API 50CH acid
68371	16813 ChEBI	galactitol	-	builds acid from	from API 50CH acid
68371	24265 ChEBI	gluconate	-	builds acid from	from API 50CH acid
68371	17754 ChEBI	glycerol	-	builds acid from	from API 50CH acid
68371	28087 ChEBI	glycogen	-	builds acid from	from API 50CH acid
68371	15443 ChEBI	inulin	-	builds acid from	from API 50CH acid
68371	18403 ChEBI	L-arabitol	-	builds acid from	from API 50CH acid
68371	18287 ChEBI	L-fucose	-	builds acid from	from API 50CH acid
68371	62345 ChEBI	L-rhamnose	-	builds acid from	from API 50CH acid
68371	17266 ChEBI	L-sorbose	-	builds acid from	from API 50CH acid
68371	65328 ChEBI	L-xylose	-	builds acid from	from API 50CH acid
68371	17716 ChEBI	lactose	-	builds acid from	from API 50CH acid
68371	6731 ChEBI	melezitose	-	builds acid from	from API 50CH acid
68371	28053 ChEBI	melibiose	-	builds acid from	from API 50CH acid
68371	320061 ChEBI	methyl alpha-D-glucopyranoside	-	builds acid from	from API 50CH acid
68371	43943 ChEBI	methyl alpha-D-mannoside	-	builds acid from	from API 50CH acid
68371	74863 ChEBI	methyl beta-D-xylopyranoside	-	builds acid from	from API 50CH acid
68371	17268 ChEBI	myo-inositol	-	builds acid from	from API 50CH acid
68371	59640 ChEBI	N-acetylglucosamine	-	builds acid from	from API 50CH acid
119482	17632 ChEBI	nitrate	-	reduction
119482	16301 ChEBI	nitrite	-	reduction
68371		Potassium 2-ketogluconate	-	builds acid from	from API 50CH acid
68371		Potassium 5-ketogluconate	-	builds acid from	from API 50CH acid
68371	16634 ChEBI	raffinose	-	builds acid from	from API 50CH acid
68371	15963 ChEBI	ribitol	-	builds acid from	from API 50CH acid
68371	17814 ChEBI	salicin	-	builds acid from	from API 50CH acid
68371	28017 ChEBI	starch	-	builds acid from	from API 50CH acid
68371	17992 ChEBI	sucrose	-	builds acid from	from API 50CH acid
68371	32528 ChEBI	turanose	-	builds acid from	from API 50CH acid
68371	17151 ChEBI	xylitol	-	builds acid from	from API 50CH acid

Metabolite production

@ref	Chebi-ID	Metabolite	Production
119482	35581 ChEBI	indole

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
68382	alkaline phosphatase	+	3.1.3.1	from API zym
68382	alpha-chymotrypsin	+	3.4.21.1	from API zym
68382	alpha-fucosidase	-	3.2.1.51	from API zym
68382	alpha-galactosidase	-	3.2.1.22	from API zym
68382	alpha-glucosidase	+	3.2.1.20	from API zym
68382	alpha-mannosidase	-	3.2.1.24	from API zym
68382	beta-galactosidase	-	3.2.1.23	from API zym
68382	beta-glucosidase	+	3.2.1.21	from API zym
68382	beta-glucuronidase	-	3.2.1.31	from API zym
119482	catalase	+	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
68382	esterase (C 4)	-		from API zym
68382	esterase lipase (C 8)	-		from API zym
68382	leucine arylamidase	+	3.4.11.1	from API zym
68382	lipase (C 14)	-		from API zym
68382	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API zym
68382	naphthol-AS-BI-phosphohydrolase	+		from API zym
119482	oxidase	+
68382	trypsin	+	3.4.21.4	from API zym
119482	urease	+	3.5.1.5
68382	valine arylamidase	+		from API zym

API zym

@ref	Control	Alkaline phosphatase	Esterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	Lipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	Trypsin	alpha- Chymotrypsin	Acid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	alpha- Galactosidase	beta- Galactosidase	beta- Glucuronidase	alpha- Glucosidase	beta- Glucosidase	N-acetyl-beta- glucosaminidase	alpha- Mannosidase	alpha- Fucosidase
119482	-	+	-	-	-	+	+	-	+	+	+	+	-	-	-	+	+	-	-	-

API 50CHac

@ref	ControlQ	GLY	ERY	DARA	LARA	RIB	DXYL	LXYL	ADO	MDX	GAL	GLU	FRU	MNE	SBE	RHA	DUL	INO	MAN	SOR	MDM	MDG	NAG	AMY	ARB	ESC	SAL	CEL	MAL	LAC	MEL	SAC	TRE	INU	MLZ	RAF	AMD	GLYG	XLT	GEN	TUR	LYX	TAG	DFUC	LFUC	DARL	LARL	GNT	2KG	5KG
119482	not determinedn.d.	-	-	-	+/-	-	+/-	-	-	-	+/-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+/-	-	+/-	+/-	-	-	-	+/-	-	-	-	-	-	-	+/-	-	-	-	+/-	-	-	-	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Waste	#Dust (Ash)

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
7693	fly ash dumping site	Panki, Kanpur	India	IND	Asia
119482	Fly ash dumping site		India	IND	Asia

Taxonmaps

69479

Global distribution of 16S sequence DQ092757 (>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
7693	1	Risk group (German classification) According to TRBA 466
119482	1	Risk group (French classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	NCBI tax ID	Score
66792	ASM415284v1 assembly for Sphingobium fuliginis DSM 18781	contig	GCA_004152845	336203.8	336203	71.24
124043	ASM4264752v1 assembly for Sphingobium fuliginis CCM 7327	contig	GCA_042647525		336203	70.65
66792	ASM1463604v1 assembly for Sphingobium fuliginis CCM 7327	scaffold	GCA_014636045	336203.9	336203	69.85

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Sphingobium fuliginis strain TKP 16S ribosomal RNA gene, partial sequence	DQ092757	1482	336203
124043	Sphingobium fuliginis strain CCM 7327 16S ribosomal RNA gene, partial sequence.	MT760043	1311	336203
124043	Sphingobium fuliginis strain CCM 7327 16S ribosomal RNA gene, partial sequence.	MT758008	1312	336203

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Sphingobium fuliginis CCM 7327
NCBI: GCA_014636045

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	89.90	no
125439	motility	BacteriaNetⓘ	yes	61.30	no
125439	gram_stain	BacteriaNetⓘ	negative	97.40	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	97.00	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Sphingobium fuliginis CCM 7327
NCBI: GCA_014636045.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	96.30	no
125438	anaerobic	anaerobicⓘ	no	96.61	no
125438	aerobic	aerobicⓘ	yes	89.37	yes
125438	spore-forming	spore-formingⓘ	no	88.17	no
125438	thermophilic	thermophileⓘ	no	95.68	no
125438	flagellated	motile2+ⓘ	yes	70.36	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Genome Organization and Adaptive Potential of Archetypal Organophosphate Degrading Sphingobium fuliginis ATCC 27551.	Azam S, Parthasarathy S, Singh C, Kumar S, Siddavattam D.	Genome Biol Evol	10.1093/gbe/evz189	2019
	PahT regulates carbon fluxes in Novosphingobium sp. HR1a and influences its survival in soil and rhizospheres.	Segura A, Udaondo Z, Molina L.	Environ Microbiol	10.1111/1462-2920.15509	2021
Phylogeny	Sphingobium ummariense sp. nov., a hexachlorocyclohexane (HCH)-degrading bacterium, isolated from HCH-contaminated soil.	Singh A, Lal R	Int J Syst Evol Microbiol	10.1099/ijs.0.65712-0	2009
Phylogeny	Description of Sphingobium fuliginis sp. nov., a phenanthrene-degrading bacterium from a fly ash dumping site, and reclassification of Sphingomonas cloacae as Sphingobium cloacae comb. nov.	Prakash O, Lal R	Int J Syst Evol Microbiol	10.1099/ijs.0.64080-0	2006

References

#7693	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 18781
#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 )
#40132	; Curators of the CIP;
#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) .
#68371	Automatically annotated from API 50CH acid .
#68382	Automatically annotated from API zym .
#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 .
#119482	Collection of Institut Pasteur ; Curators of the CIP; CIP 109370
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#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 )

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Sphingobium fuliginis (DSM 18781, CCM 7327, MTCC 7295)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Metabolite utilization

Metabolite production

Enzymes

API zym

API 50CHac

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_004152845

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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