Confluentibacter citreus (KCTC 52638, MCCC 1H00183, XJNY)

Name: Confluentibacter citreus (KCTC 52638, MCCC 1H00183, XJNY)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 140749

Type strain

Strain Designation XJNY

Culture col. no. KCTC 52638 MCCC 1H00183 XJNY

NCBI tax ID(s) 2007307

Special Collections KCTC Literature strains

History KCTC <- Zongjun Du, Shandong Univ.

Links

Confluentibacter citreus XJNY is an aerobe, Gram-negative, rod-shaped bacterium that forms circular colonies and was isolated from From soil collected form the Great Wall Station.

Gram-negative rod-shaped colony-forming aerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 288180

KCTC 52638

@ref 20215

Last LPSN update 2026-05-29 08:39:47

Domain Bacteria

Phylum Bacteroidota

Class Flavobacteriia

Order Flavobacteriales

Family Flavobacteriaceae

Genus Confluentibacter

Species Confluentibacter citreus

Full scientific name Confluentibacter citreus Han et al. 2017

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Confidence
43527	negative	0.9-1.9 µm	0.3-0.4 µm	rod-shaped
67771				rod-shaped
67771	negative
125439	negative				99.037

Colony morphology

@ref	Colony size	Colony color	Colony shape	Incubation period	Medium used
43527	0.5-1.5 mm	Yellow	circular	4 days	Modified MA plate

Culture and growth conditions

Culture medium

@ref	Name	Growth
43527	Modified MA plate

Culture temp

@ref	Growth	Type	Temperature (°C)
43527	positive	growth	4-37
43527	positive	optimum	33
67771	positive	growth	25

Culture pH

@ref	Ability	Type	PH	PH range
43527	positive	optimum	7.5
43527	positive	growth	6.5-8.5	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
43527	aerobe
67771	aerobe
125439	obligate aerobe	95.668

Spore formation

@ref	Spore formation	Confidence
125439		99.252

Halophily

@ref	Halophily level	Salt	Growth	Tested relation	Concentration
43527		NaCl	positive	growth	0-4 %(w/v)
43527	non-halophilic	NaCl	positive	optimum	0 %(w/v)

Observation

67771

Observationquinones: MK-6

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
43527	16763 ChEBI	2-oxobutanoate	+	oxidation
43527		4-nitrophenyl beta-D-galactopyranoside hydrolysate	-	assimilation
43527	58143 ChEBI	5-dehydro-D-gluconate	+	builds acid from
43527	2509 ChEBI	agar	-	hydrolysis
43527	36219 ChEBI	alpha-lactose	+	oxidation
43527	27613 ChEBI	amygdalin	-	assimilation
43527	22599 ChEBI	arabinose	-	assimilation
43527	85146 ChEBI	carboxymethylcellulose	-	hydrolysis
43527	17057 ChEBI	cellobiose	+	oxidation
43527	16947 ChEBI	citrate	-	assimilation
43527	15824 ChEBI	D-fructose	+	oxidation
43527	78697 ChEBI	D-fructose 6-phosphate	+	oxidation
43527	14314 ChEBI	D-glucose 6-phosphate	+	oxidation
43527	16024 ChEBI	D-mannose	+	oxidation
43527	16443 ChEBI	D-tagatose	+	builds acid from
43527	65327 ChEBI	D-xylose	+	builds acid from
43527	4853 ChEBI	esculin	+	builds acid from
43527	28066 ChEBI	gentiobiose	+	oxidation
43527	17234 ChEBI	glucose	-	assimilation
43527	30849 ChEBI	L-arabinose	+	builds acid from
43527	29985 ChEBI	L-glutamate	+	oxidation
43527	17306 ChEBI	maltose	+	oxidation
43527	29864 ChEBI	mannitol	-	assimilation
43527	28053 ChEBI	melibiose	-	assimilation
43527	51850 ChEBI	methyl pyruvate	+	oxidation
43527	17268 ChEBI	myo-inositol	-	assimilation
43527	17632 ChEBI	nitrate	-	reduction
43527	17309 ChEBI	pectin	+	oxidation
43527	16634 ChEBI	raffinose	+	oxidation
43527	26546 ChEBI	rhamnose	-	assimilation
43527	30911 ChEBI	sorbitol	-	assimilation
43527	17164 ChEBI	stachyose	+	oxidation
43527	28017 ChEBI	starch	-	hydrolysis
43527	28017 ChEBI	starch	+	builds acid from
43527	17992 ChEBI	sucrose	+	assimilation
43527	17992 ChEBI	sucrose	+	oxidation
43527	53424 ChEBI	tween 20	-	hydrolysis
43527	53423 ChEBI	tween 40	+	hydrolysis
43527	53423 ChEBI	tween 40	+	oxidation
43527	53425 ChEBI	tween 60	-	hydrolysis
43527	53426 ChEBI	tween 80	-	hydrolysis

Antibiotic resistance

@ref	ChEBI	Metabolite	Sensitivity conc.	Resistance conc.
43527	31168	acetylspiramycin	30 µg (disc)
43527	28971	ampicillin		10 µg
43527	204928	cefotaxime		30 µg
43527	29007	ceftriaxone	30 µg (disc)
43527	17698	chloramphenicol	30 µg (disc)
43527	48923	erythromycin	15 µg (disc)
43527	17833	gentamicin		10 µg
43527	6104	kanamycin		30 µg
43527	6472	lincomycin	2 µg (disc)
43527	7507	neomycin		30 µg
43527	100246	norfloxacin		10 µg
43527	7731	ofloxacin		5 µg
43527	18208	penicillin g		10 µg
43527	28077	rifampicin	5 µg (disc)
43527	17076	streptomycin		10 µg
43527	27902	tetracycline		30 µg
43527	28864	tobramycin		10 µg
43527	28001	vancomycin	30 µg (disc)

Metabolite production

@ref	Chebi-ID	Metabolite
43527	15688 ChEBI	acetoin
43527	16136 ChEBI	hydrogen sulfide
43527	35581 ChEBI	indole

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test
43527	15688 ChEBI	acetoin	+

Enzymes

@ref	Value	Activity	Ec
43527	alkaline phosphatase	+	3.1.3.1
43527	arginine dihydrolase	-	3.5.3.6
43527	beta-galactosidase	+	3.2.1.23
43527	catalase	+	1.11.1.6
43527	cytochrome oxidase	-	1.9.3.1
43527	esterase Lipase (C 8)	+
43527	gelatinase	-
43527	leucine arylamidase	+	3.4.11.1
43527	lysine decarboxylase	-	4.1.1.18
43527	naphthol-AS-BI-phosphohydrolase	+
43527	ornithine decarboxylase	-	4.1.1.17
43527	tryptophan deaminase	-	4.1.99.1
43527	urease	-	3.5.1.5
43527	valine arylamidase	+

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Lake (large)
#Environmental	#Aquatic	#Sediment

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Latitude	Longitude
67771	From soil collected form the Great Wall Station	Antartica(81Â°12â€²39.55â€³E; 44Â°30â€²30.41â€³N)	Antarctica	ATA	Australia and Oceania
43527	Lake sediment sample collected from Sayram Lake	Xinjiang Province	China	CHN	Asia	44.508	81.211 44.508/81.211

Taxonmaps

69479

Global distribution of 16S sequence KY457225 (>99% sequence identity) for Confluentibacter from Microbeatlas

Aquatic Samples	173
Soil Samples	82
Animal Samples	124
Plant Samples	47
Total Samples	426

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67771	ASM280705v1 assembly for Confluentibacter citreus XJNY	contig	GCA_002807055	2007307.3	2788500167	2007307	69.68

16S sequences

@ref	Description	Accession	Database
43527	Confluentibacter citreus strain XJNY 16S ribosomal RNA gene, partial sequence	KY457225

GC content

@ref	GC-content (mol%)	Method
43527	34.5	high performance liquid chromatography (HPLC)
67771	34.5

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM280705v1 assembly for Confluentibacter citreus XJNY
NCBI: GCA_002807055

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	95.67	no
125439	gram_stain	BacteriaNetⓘ	negative	99.04	no
125439	spore_formation	BacteriaNetⓘ	no	99.25	no
125439	motility	BacteriaNetⓘ	no	76.97	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Con fl uentibacter sediminis sp. nov., isolated from the junction between the ocean and a freshwater lake and emended description of the genus Confluentibacter.	Wei Y, Wang K, Pei J, Zhang Y, Fang J	Int J Syst Evol Microbiol	10.1099/ijsem.0.003665	2019
Phylogeny	Confluentibacter citreus sp. nov., isolated from lake sediment, and emended description of the genus Confluentibacter.	Han JR, Zhang H, Zheng WS, Chen GJ, Du ZJ	Int J Syst Evol Microbiol	10.1099/ijsem.0.002239	2017

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 )
#43527	Ji-Ru Han, Hui Zhang, Wei-Shuang Zheng, Guan-Jun Chen, Zong-Jun Du: Confluentibacter citreus sp. nov., isolated from lake sediment, and emended description of the genus Confluentibacter. IJSEM 67: 4008 - 4012 2017 ( DOI 10.1099/ijsem.0.002239 , PubMed 28893362 )
#67771	Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;
#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 .
#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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Confluentibacter citreus (KCTC 52638, MCCC 1H00183, XJNY)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Observation

Metabolite utilization

Antibiotic resistance

Metabolite production

Metabolite tests

Enzymes

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_002807055

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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