"Candidatus Chryseobacterium massiliense" (CIP 107752, CCUG 51329, 90B)

BacDive ID 135739

Type strain

Strain Designation 90B

Culture col. no. CIP 107752 CCUG 51329 90B

NCBI tax ID(s) 204089

Special Collections CCUG CIP

History 2002, G. Greub, Lab. Raoult, Marseille, France: strain 90B CIP <- 2002, G. Greub, Lab. Raoult, Marseille, France: strain 90B

"Candidatus Chryseobacterium massiliense" 90B is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from Human nose.

Gram-negative rod-shaped aerobe genome sequence Bacteria

Name and taxonomic classification

Culture Collection Numbers

CIP 107752 CCUG 51329 90B

@ref 20215

Last LPSN update 2026-02-09 11:32:30

Domain Bacteria

Phylum Bacteroidota

Class Flavobacteriia

Order Flavobacteriales

Family Weeksellaceae

Genus Chryseobacterium

Species "Candidatus Chryseobacterium massiliense"

Full scientific name Candidatus Chryseobacterium massiliense corrig. Greub et al. 2004

Synonyms (1)

"Candidatus Chryseobacterium massiliae"

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Confidence
125439	negative		99.9
125438	negative		99
34944	negative	rod-shaped

Colony morphology

34944

Hemolysis ability1

Pigmentation

@ref	Production	Name
34944		flexirubin type pigments

Culture and growth conditions

Culture medium

@ref	Name	Composition	Medium link
34944	MEDIUM 23 - for Afipia and Legionella	Distilled water make up to (1000.000 ml);Legionella agar (37.000 g);Legionella - enrichment mixture (10.000 ml)
34944	CIP Medium 72		Medium recipe at CIP
34944	CIP Medium 23		Medium recipe at CIP
34944	CIP Medium 45		Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
34944	positive	growth	30
34944	positive	growth	15-41
34944	negative	growth	5
34944	negative	growth	45
59153	positive	growth	22-37

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
59153	aerobe
34944	obligate aerobe
125439	obligate aerobe	95.7

Spore formation

@ref	Spore formation	Confidence
125439		98.3
125438		90.985

Halophily

@ref	Salt	Growth	Tested relation	Concentration
34944	NaCl	positive	growth	0-2 %
34944	NaCl		growth	4 %
34944	NaCl		growth	6 %
34944	NaCl		growth	8 %
34944	NaCl		growth	10 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68369	17128 ChEBI	adipate	-	assimilation	from API 20NE
68369	29016 ChEBI	arginine	-	hydrolysis	from API 20NE
34944	16947 ChEBI	citrate	-	carbon source
68369	17634 ChEBI	D-glucose	+	assimilation	from API 20NE
68369	17634 ChEBI	D-glucose	-	fermentation	from API 20NE
68369	16899 ChEBI	D-mannitol	-	assimilation	from API 20NE
68369	16024 ChEBI	D-mannose	-	assimilation	from API 20NE
68369	27689 ChEBI	decanoate	-	assimilation	from API 20NE
34944	4853 ChEBI	esculin	+	hydrolysis
68369	4853 ChEBI	esculin	+	hydrolysis	from API 20NE
68369	5291 ChEBI	gelatin	+	hydrolysis	from API 20NE
68369	24265 ChEBI	gluconate	-	assimilation	from API 20NE
34944	606565 ChEBI	hippurate	+	hydrolysis
68369	30849 ChEBI	L-arabinose	-	assimilation	from API 20NE
68369	25115 ChEBI	malate	-	assimilation	from API 20NE
34944	15792 ChEBI	malonate	-	assimilation
68369	17306 ChEBI	maltose	+	assimilation	from API 20NE
68369	59640 ChEBI	N-acetylglucosamine	-	assimilation	from API 20NE
34944	17632 ChEBI	nitrate	-	builds gas from
34944	17632 ChEBI	nitrate	-	reduction
34944	17632 ChEBI	nitrate	-	respiration
68369	17632 ChEBI	nitrate	-	reduction	from API 20NE
34944	16301 ChEBI	nitrite	-	builds gas from
34944	16301 ChEBI	nitrite	-	reduction
34944	35020 ChEBI	tributyrin	+	hydrolysis
68369	27897 ChEBI	tryptophan	-	energy source	from API 20NE
68369	16199 ChEBI	urea	-	hydrolysis	from API 20NE

Antibiotic resistance

@ref	Metabolite	Is sensitive	Is resistant
34944	0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)

Metabolite production

@ref	Chebi-ID	Metabolite	Production
68369	35581 ChEBI	indole		from API 20NE
34944	35581 ChEBI	indole

Metabolite tests

@ref	Chebi-ID	Metabolite	Indole test	Voges-proskauer-test	Methylred-test
34944	15688 ChEBI	acetoin		-
34944	17234 ChEBI	glucose			-
68369	35581 ChEBI	indole	-			from API 20NE

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
34944	alcohol dehydrogenase	-	1.1.1.1
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
34944	amylase	+
68369	arginine dihydrolase	-	3.5.3.6	from API 20NE
68382	beta-galactosidase	-	3.2.1.23	from API zym
34944	beta-galactosidase	-	3.2.1.23
68382	beta-glucosidase	-	3.2.1.21	from API zym
68369	beta-glucosidase	+	3.2.1.21	from API 20NE
68382	beta-glucuronidase	-	3.2.1.31	from API zym
34944	caseinase	+	3.4.21.50
34944	catalase	+	1.11.1.6
68369	cytochrome oxidase	+	1.9.3.1	from API 20NE
34944	DNase	-
68382	esterase lipase (C 8)	+		from API zym
34944	gamma-glutamyltransferase	+	2.3.2.2
34944	gelatinase	+
68369	gelatinase	+		from API 20NE
34944	lecithinase	+
68382	leucine arylamidase	+	3.4.11.1	from API zym
34944	lipase	+
68382	lipase (C 14)	-		from API zym
34944	lysine decarboxylase	-	4.1.1.18
68382	N-acetyl-beta-glucosaminidase	+	3.2.1.52	from API zym
68382	naphthol-AS-BI-phosphohydrolase	+		from API zym
34944	ornithine decarboxylase	-	4.1.1.17
34944	oxidase	+
34944	phenylalanine ammonia-lyase	-	4.3.1.24
34944	protease	+
34944	tryptophan deaminase	-
34944	tween esterase	+
34944	urease	-	3.5.1.5
68369	urease	-	3.5.1.5	from API 20NE
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
59153	-	+	-	+	-	+	+	-	-	-	+	+	-	-	-	+	-	+	-	-
34944	-	+	+	+	-	+	+	+	+	-	+	+	-	-	-	+	-	+	-	-

API 20NE

@ref	Reduction of nitratesNO3	TRP	GLU_ Ferm	ADH (Arg)	URE	ESC	GEL	PNPG	GLU_ Assim	ARA	MNE	MAN	NAG	MAL	GNT	CAP	ADI	MLT	CIT	PAC	OX
59153	-	-	-	-	-	+	+	-	+	-	-	-	-	+	-	-	-	-	-	-	+

API biotype100

@ref	ControlQ	D-glucose as carbon sourceGLU	D-fructose as carbon sourceFRU	D-galactose as carbon sourceGAL	D-trehalose as carbon sourceTRE	D-mannose as carbon sourceMNE	L-sorbose as carbon sourceSBE	D-melibiose as carbon sourceMEL	sucrose as carbon sourceSAC	D-raffinose as carbon sourceRAF	maltotriose as carbon sourceMTE	maltose as carbon sourceMAL	lactose as carbon sourceLAC	lactulose as carbon sourceLTE	1-O-methyl-beta-galactopyranoside as carbon sourceMbGa	1-O-methyl-alpha-galactopyranoside as carbon sourceMaGa	D-cellobiose as carbon sourceCEL	gentiobiose as carbon sourceGEN	1-O-methyl-beta-D-glucopyranoside as carbon sourceMbGu	esculin as carbon sourceESC	D-ribose as carbon sourceRIB	L-arabinose as carbon sourceARA	D-xylose as carbon sourceXYL	palatinose as carbon sourcePLE	L-rhamnose as carbon sourceRHA	L-fucose as carbon sourceFUC	D-melezitose as carbon sourceMLZ	D-arabitol as carbon sourceDARL	L-arabitol as carbon sourceLARL	xylitol as carbon sourceXLT	dulcitol as carbon sourceDUL	D-tagatose as carbon sourceTAG	glycerol as carbon sourceGLY	myo-inositol as carbon sourceINO	D-mannitol as carbon sourceMAN	maltitol as carbon sourceMTL	D-turanose as carbon sourceTUR	D-sorbitol as carbon sourceSOR	adonitol as carbon sourceADO	hydroxyquinoline-beta-glucuronide as carbon sourceHBG	D-lyxose as carbon sourceLYX	i-erythritol as carbon sourceERY	1-O-methyl-alpha-D-glucoside as carbon sourceMDG	3-O-methyl-D-glucose as carbon source3MDG	D-saccharate as carbon sourceSAT	mucate as carbon sourceMUC	L-tartrate as carbon sourceLTAT	D-tartrate as carbon sourceDTAT	meso-tartrate as carbon sourceMTAT	D-malate as carbon sourceDMLT	L-malate as carbon sourceLMLT	cis-aconitate as carbon sourceCATE	trans-aconitate as carbon sourceTATE	tricarballylate as carbon sourceTTE	citrate as carbon sourceCIT	D-glucuronate as carbon sourceGRT	D-galacturonate as carbon sourceGAT	2-ketogluconate as carbon source2KG	5-ketogluconate as carbon source5KG	tryptophan as carbon sourceTRY	N-acetyl-D-glucosamine as carbon sourceNAG	D-gluconate as carbon sourceGNT	phenylacetate as carbon sourcePAC	protocatechuate as carbon sourcePAT	4-hydroxybenzoate as carbon sourcepOBE	quinate as carbon sourceQAT	gentisate as carbon sourceGTE	3-hydroxybenzoate as carbon sourcemOBE	benzoate as carbon sourceBAT	3-phenylpropionate as carbon sourcePPAT	m-coumarate as carbon sourceCMT	trigonelline as carbon sourceTGE	betaine as carbon sourceBET	putrescine as carbon sourcePCE	4-aminobutyrate as carbon sourceABT	histamine as carbon sourceHIN	DL-lactate as carbon sourceLAT	caprate as carbon sourceCAP	caprylate as carbon sourceCYT	L-histidine as carbon sourceHIS	succinate as carbon sourceSUC	fumarate as carbon sourceFUM	glutarate as carbon sourceGRE	DL-glycerate as carbon sourceGYT	5-aminovalerate as carbon sourceAVT	ethanolamine as carbon sourceETN	tryptamine as carbon sourceTTN	D-glucosamine as carbon sourceGLN	itaconate as carbon sourceITA	3-hydroxybutyrate as carbon source3OBU	L-aspartate as carbon sourceAPT	L-glutamate as carbon sourceGTT	L-proline as carbon sourcePRO	D-alanine as carbon sourceDALA	L-alanine as carbon sourceLALA	L-serine as carbon sourceSER	malonate as carbon sourceMNT	propionate as carbon sourcePROP	L-tyrosine as carbon sourceTYR	2-ketoglutarate as carbon source2KT
34944	not determinedn.d.	-	-	-	+	+	-	-	+	-	+	+	-	-	-	-	-	+	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	+	-	-	-	+	-	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Human	-
#Host Body-Site	#Organ	#Nose

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
59153	Human nose	Marseille ?	France	FRA	Europe
34944	Human, Nose

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
34944	1	Risk group (French classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM338553v1 assembly for Candidatus Chryseobacterium massiliense CCUG 51329	contig	GCA_003385535	204089.13	2905979941	204089	56.4

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Candidatus Chryseobacterium massiliae CCUG 51329
NCBI: GCA_003385535

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	98.30	no
125439	motility	BacteriaNetⓘ	no	79.80	no
125439	gram_stain	BacteriaNetⓘ	negative	99.90	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	95.70	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Candidatus Chryseobacterium massiliae strain CCUG 51329
PATRIC: 204089.13

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	99.00	no
125438	anaerobic	anaerobicⓘ	no	97.31	no
125438	spore-forming	spore-formingⓘ	no	90.99	no
125438	aerobic	aerobicⓘ	yes	88.86	yes
125438	thermophilic	thermophileⓘ	no	96.64	no
125438	flagellated	motile2+ⓘ	no	88.50	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 )
#34944	Collection of Institut Pasteur ; Curators of the CIP; CIP 107752
#59153	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 51329
#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) .
#68369	Automatically annotated from API 20NE .
#68382	Automatically annotated from API zym .
#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 .

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