Citricoccus zhacaiensis (DSM 23847, CGMCC 1.7064, JCM 15136)

Name: Citricoccus zhacaiensis (DSM 23847, CGMCC 1.7064, JCM 15136)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 7634

Type strain

Strain Designation FS24

Culture col. no. DSM 23847 CGMCC 1.7064 JCM 15136 FS24

NCBI tax ID(s) 489142

Special Collections DSMZ JCM Wink compendium Literature strains

History <- JCM <- X.-W. Xu, Second Inst. Oceanography, State Oceanic Admin., Hangzhou, China X.-W. Xu FS24.

Links

Citricoccus zhacaiensis FS24 is an aerobe, Gram-positive, ovoid-shaped bacterium that was isolated from water-sludge mixture of a bioreactor treating saline wastewater from pickled vegetable production.

Gram-positive ovoid-shaped aerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 400675

JCM 15136,DSM 23847

@ref 20215

Last LPSN update 2026-02-09 11:19:31

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Micrococcales

Family Micrococcaceae

Genus Citricoccus

Species Citricoccus zhacaiensis

Full scientific name Citricoccus zhacaiensis Meng et al. 2010

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Confidence
29364	positive	0.6 µm	0.5 µm	ovoid-shaped
125439	positive				94.9
125438	positive				92.332

Colony morphology

@ref	Colony color	Incubation period	Medium used
21374	Zinc yellow (1018)	10-14 days	ISP 2
21374		10-14 days	ISP 3
21374		10-14 days	ISP 4
21374	Zinc yellow (1018)	10-14 days	ISP 5
21374	Lemon yellow (1012)	10-14 days	suter with tyrosine
21374	Zinc yellow (1018)	10-14 days	suter without tyrosine

Multicellular morphology

@ref	Forms multicellular complex	Medium name
21374		ISP 2
21374		ISP 3
21374		ISP 4
21374		ISP 5
21374		ISP 7
21374		Suter with tyrosine
21374		Suter without tyrosine

Pigmentation

29364

Productionyes

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
17401	TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)	Medium recipe at MediaDive	Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water
21374	ISP 2		Name: ISP 2 / Yeast Malt Agar (5265); 5265 Composition Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l Agar 15.0 g/l Preparation: Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.0 Usage: Maintenance and Taxonomy Organisms: All Actinomycetes
21374	ISP 3		Name: ISP 3; 5315 Composition Dog oat flakes 20.0 g/l Trace element solution (5314) 2.5 ml/l Agar 18.0 g/l Preparation: Oat flakes are cooked for 20 minutes, trace element solution and agar are added (in the case of non rolled oat flakes the suspension has to bee filtrated). Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.8 Usage: Maintenance and taxonomy (e.g. SEM As liquid medium for metabolite production) Organisms: All Actinomycetes Trace element solution 5314 Name: Trace element solution 5314; 5314 Composition CaCl2 x H2O 3.0 g/l Fe-III-citrate 1.0 g/l MnSO4 0.2 g/l ZnCl2 0.1 g/l CuSO4 x 5 H2O 0.025 g/l Sodium tetra borate 0.2 g/l CoCl2 x 6 H2O 0.004 g/l Sodium molybdate 0.01 g/l Preparation: Use double destillated water. Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Trace element solution for different media Organisms:
21374	ISP 4		Name: ISP 4; DSM 547 Solution I: Difco soluble starch, 10.0 g. Make a paste of the starch with a small amount of cold distilled water and bring to a volume of 500 ml. Solution II: CaCO3 2.0 g K2HPO4 (anhydrous) 1.0 g MgSO4 x 7 H2O 1.0 g NaCl 1.0 g (NH4)2SO4 2.0 g Distilled water 500.0 ml Trace salt solution (see below) 1.0 ml The pH should be between 7.0 and 7.4. Do not adjust if it is within this range. Mix solutions I and II together. Add 20.0 g agar. Liquify agar by steaming at 100°C for 10 to 20 min. Trace element solution: FeSO4 x 7 H2O 0.1 g MnCl2 x 4 H2O 0.1 g ZnSO4 x 7 H2O 0.1 g Distilled water 100.0 ml
21374	ISP 5		Name: ISP 5 (5323) Composition L-Asparagine 1.0 g/l Glycerol 10.0 g/l K2HPO4 1.0 g/l Salt solution (see preparation) 1.0 ml/l Agar 20.0 g/l Preparation: Salt solution 1.0 g FeSO4 x 7 H2O 1.0 g MnCl2 x 4 H2O 1.0 g ZNSO4 x 7 H2O in 100 ml water Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.2 Usage: Maintenance and taxonomy Organisms: All Actinomycetes
21374	suter with tyrosine		Name: Synthetically suter medium (5337) with and without tyrosine - see Kutzner,H.J., R. M. Kroppensted and F. Korn-Wendisch. (1986) Composition: Glycerol 15.0 g/l Tyrosine 1.0 (optional, see preparation comment) L-arginine 5.0 g/l L-glutamic acid 5.0 g/l L-methionine 0.3 g/l L-isoleucine 0.3 g/l K2HPO4 0.5 g/l MgSO4 x 7 H2O 0.2 g/l Agar 20.0 g/l Trace element solution (5341) 1.0 ml Composition of Trace element solution (5341): CuSO4 x 5 H2O 10.0 g/l CaCl2 x 2 H2O 10.0 g/l FeSO4 x 7 H2O 10.0 g/l ZnSO4 x 7 H2O 10.0 g/l MnSO4 x 7 H2O 40.0 g/l Preparation: Control medium is prepared without tyrosine Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Production of melanoid pigment Organisms: All Actinomycetes
21374	suter without tyrosine		Name: Synthetically suter medium (5337) with and without tyrosine - see Kutzner,H.J., R. M. Kroppensted and F. Korn-Wendisch. (1986) Composition: Glycerol 15.0 g/l Tyrosine 1.0 (optional, see preparation comment) L-arginine 5.0 g/l L-glutamic acid 5.0 g/l L-methionine 0.3 g/l L-isoleucine 0.3 g/l K2HPO4 0.5 g/l MgSO4 x 7 H2O 0.2 g/l Agar 20.0 g/l Trace element solution (5341) 1.0 ml Composition of Trace element solution (5341): CuSO4 x 5 H2O 10.0 g/l CaCl2 x 2 H2O 10.0 g/l FeSO4 x 7 H2O 10.0 g/l ZnSO4 x 7 H2O 10.0 g/l MnSO4 x 7 H2O 40.0 g/l Preparation: Control medium is prepared without tyrosine Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Production of melanoid pigment Organisms: All Actinomycetes

Culture temp

@ref	Growth	Type	Temperature (°C)
17401	positive	growth	28
29364	positive	growth	10-37
29364	positive	optimum	30
67770	positive	growth	28

Culture pH

@ref	Ability	Type	PH	PH range
29364	positive	optimum	7
29364	positive	growth	06-09	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
29364	aerobe
125439	obligate aerobe	96.4

Spore formation

29364

Spore formationno

Halophily

@ref	Salt	Growth	Tested relation	Concentration
21374	NaCl	positive	maximum	10 %
29364	NaCl	positive	growth	0-15 %
29364	NaCl	positive	optimum	1 %

Observation

67770

Observationquinones: MK-9(H₂), MK-7(H₂), MK-8(H₂)

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
29364	30089 ChEBI	acetate	+	carbon source
21374	22599 ChEBI	arabinose	-
21374	62968 ChEBI	cellulose	+/-
29364	16947 ChEBI	citrate	+	carbon source
68379	17634 ChEBI	D-glucose	-	fermentation	from API Coryne
68379	16899 ChEBI	D-mannitol	-	fermentation	from API Coryne
68379	16988 ChEBI	D-ribose	-	fermentation	from API Coryne
68379	65327 ChEBI	D-xylose	-	fermentation	from API Coryne
68379	4853 ChEBI	esculin	-	hydrolysis	from API Coryne
21374	28757 ChEBI	fructose	-
68379	5291 ChEBI	gelatin	-	hydrolysis	from API Coryne
29364	24265 ChEBI	gluconate	+	carbon source
21374	17234 ChEBI	glucose	-
29364	29987 ChEBI	glutamate	+	carbon source
68379	28087 ChEBI	glycogen	-	fermentation	from API Coryne
68379	17716 ChEBI	lactose	-	fermentation	from API Coryne
29364	25115 ChEBI	malate	+	carbon source
29364	15792 ChEBI	malonate	+	carbon source
29364	17306 ChEBI	maltose	+	carbon source
68379	17306 ChEBI	maltose	-	fermentation	from API Coryne
21374	37684 ChEBI	mannose	-
21374	17268 ChEBI	myo-inositol	-
68379	17632 ChEBI	nitrate	-	reduction	from API Coryne
29364	17272 ChEBI	propionate	+	carbon source
29364	15361 ChEBI	pyruvate	+	carbon source
21374	16634 ChEBI	raffinose	-
21374	26546 ChEBI	rhamnose	-
29364	17814 ChEBI	salicin	+	carbon source
29364	17822 ChEBI	serine	+	carbon source
29364	30031 ChEBI	succinate	+	carbon source
21374	17992 ChEBI	sucrose	+
29364	17992 ChEBI	sucrose	+	carbon source
68379	17992 ChEBI	sucrose	-	fermentation	from API Coryne
29364	27082 ChEBI	trehalose	+	carbon source
68379	16199 ChEBI	urea	+	hydrolysis	from API Coryne
21374	18222 ChEBI	xylose	-

Enzymes

@ref	Value	Activity	Ec
29364	acid phosphatase	+	3.1.3.2
68382	acid phosphatase	-	3.1.3.2	from API zym
29364	alkaline phosphatase	+	3.1.3.1
68382	alkaline phosphatase	-	3.1.3.1	from API zym
68379	alkaline phosphatase	-	3.1.3.1	from API Coryne
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
68379	alpha-glucosidase	-	3.2.1.20	from API Coryne
68382	alpha-mannosidase	-	3.2.1.24	from API zym
68382	beta-galactosidase	-	3.2.1.23	from API zym
68379	beta-galactosidase	-	3.2.1.23	from API Coryne
68382	beta-glucosidase	-	3.2.1.21	from API zym
68379	beta-glucosidase	-	3.2.1.21	from API Coryne
68382	beta-glucuronidase	-	3.2.1.31	from API zym
68379	beta-glucuronidase	-	3.2.1.31	from API Coryne
29364	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
68379	gelatinase	-		from API Coryne
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
68379	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API Coryne
68382	naphthol-AS-BI-phosphohydrolase	-		from API zym
68379	pyrazinamidase	+	3.5.1.B15	from API Coryne
68379	pyrrolidonyl arylamidase	-	3.4.19.3	from API Coryne
68382	trypsin	+	3.4.21.4	from API zym
68379	urease	+	3.5.1.5	from API Coryne
68382	valine arylamidase	-		from API zym

API coryne

@ref	Reduction of nitrateNIT	PYZ	PYRA	PAL	beta GUR	beta GAL	alpha GLU	beta NAG	ESC	URE	GEL	Control fermentationControl	GLU	RIB	XYL	MAN	MAL	LAC	SAC	GLYG	CAT
21374	-	+	-	-	-	-	-	-	-	+	-	not determinedn.d.	-	-	-	-	-	-	-	-	not determinedn.d.

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
21374	not determinedn.d.	-	-	-	-	+	-	-	+	-	-	-	-	-	-	-	-	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Bioreactor	-
#Engineered	#Waste	#Industrial wastewater
#Environmental	#Terrestrial	#Mud (Sludge)
#Condition	#Saline	-

Isolation

@ref	Sample type	Country	Country ISO 3 Code	Continent
17401	water-sludge mixture of a bioreactor treating saline wastewater from pickled vegetable production	China	CHN	Asia
67770	Water-sludge mixture of a bioreactor treating saline wastewater from pickled vegetable production

Taxonmaps

69479

Global distribution of 16S sequence EU305672 (>99% sequence identity) for Micrococcus from Microbeatlas

Aquatic Samples	38
Soil Samples	111
Animal Samples	314
Plant Samples	15
Total Samples	478

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
17401	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM1464531v1 assembly for Citricoccus zhacaiensis CGMCC 1.7064	scaffold	GCA_014645315	489142.4	2995130504	489142	68.64
124043	ASM3953073v1 assembly for Citricoccus zhacaiensis JCM 15136	scaffold	GCA_039530735			489142	67.35

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
17401	Citricoccus zhacaiensis strain FS24 16S ribosomal RNA gene, partial sequence	EU305672	1490		489142

GC content

@ref	GC-content (mol%)	Method
17401	66.0	high performance liquid chromatography (HPLC)
29364	66
67770	66	high performance liquid chromatography (HPLC)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Citricoccus zhacaiensis CGMCC 1.7064
NCBI: GCA_014645315

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	78.90	no
125439	motility	BacteriaNetⓘ	no	66.30	no
125439	gram_stain	BacteriaNetⓘ	positive	94.90	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	96.40	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Citricoccus zhacaiensis CGMCC 1.7064
NCBI: GCA_014645315.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	92.33	yes
125438	anaerobic	anaerobicⓘ	no	97.40	no
125438	aerobic	aerobicⓘ	yes	83.39	no
125438	spore-forming	spore-formingⓘ	no	71.35	no
125438	thermophilic	thermophileⓘ	no	97.00	yes
125438	flagellated	motile2+ⓘ	no	88.50	yes

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Citricoccus zhacaiensis sp. nov., isolated from a bioreactor for saline wastewater treatment.	Meng FX, Yang XC, Yu PS, Pan JM, Wang CS, Xu XW, Wu M	Int J Syst Evol Microbiol	10.1099/ijs.0.011635-0	2009

References

#17401	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 23847
#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 )
#21374	Wink, J.: Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig .
#25775	IJSEM 495 2010 ( DOI 10.1099/ijs.0.011635-0 , PubMed 19654363 )
#29364	Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #25775
#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;
#68379	Automatically annotated from API Coryne .
#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 .
#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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Citricoccus zhacaiensis (DSM 23847, CGMCC 1.7064, JCM 15136)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Multicellular morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Observation

Metabolite utilization

Enzymes

API coryne

API zym

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_014645315

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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