Cellulosimicrobium funkei (DSM 16025, ATCC BAA-886, CCUG 50705)

Name: Cellulosimicrobium funkei (DSM 16025, ATCC BAA-886, CCUG 50705)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 12581

Type strain

Strain Designation C8821, W6122

Culture col. no. DSM 16025 ATCC BAA-886 CCUG 50705 C8821 W6122 4 more

NCBI tax ID(s) 1349761 264251

Special Collections DSMZ CCUG JCM CIP Wink compendium Literature strains

Links

Cellulosimicrobium funkei C8821 is an aerobe, mesophilic, Gram-positive prokaryote that was isolated from blood, endocarditis patient.

Gram-positive motile rod-shaped aerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 389461

NCTC 13516,ATCC BAA-886,CCUG 50705,DSM 16025,JCM 14302,VTT E-072700,CIP 108915,NBRC 104118

@ref 20215

Last LPSN update 2025-12-16 09:49:53

Domain Bacillati

Phylum Actinomycetota

Class Actinomycetes

Order Micrococcales

Family Promicromonosporaceae

Genus Cellulosimicrobium

Species Cellulosimicrobium funkei

Full scientific name Cellulosimicrobium funkei Brown et al. 2006

Synonyms (1)

Cellulosimicrobium aquatile

BacDive ID	Other strains from **Cellulosimicrobium funkei** (10)	Type strain
135381	C. funkei 896.84, CIP 101288
135494	C. funkei 881.84, CIP 101208
137362	C. funkei 833.84, CIP 101186
139140	C. funkei 843.84, CIP 101185
139141	C. funkei R520, CIP 102520
139165	C. funkei R682, CIP 102521
139167	C. funkei R860, CIP 102522
155770	C. funkei CCUG 59260
159596	C. funkei WB02_D5-03-AE, DSM 105328
164257	C. funkei JCM 32432, KCTC 39527, LMG 28646, MCC 2761

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Motility
31606	positive	1 µm	1 µm	rod-shaped
125439	positive

Colony morphology

@ref	Colony color	Incubation period	Medium used
19738	Zinc yellow (1018)	10-14 days	ISP 2
19738	Zinc yellow (1018)	10-14 days	ISP 3
19738	Zinc yellow (1018)	10-14 days	ISP 4
19738	Zinc yellow (1018)	10-14 days	ISP 5
19738	Beige (1001)	10-14 days	ISP 6
19738	Zinc yellow (1018)	10-14 days	ISP 7

Multicellular morphology

@ref	Forms multicellular complex	Medium name
19738		ISP 2
19738		ISP 3
19738		ISP 4
19738		ISP 5
19738		ISP 6
19738		ISP 7

Pigmentation

31606

Productionyes

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
6147	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
19738	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
19738	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:
19738	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
19738	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
19738	ISP 6		Name: ISP 6 (5318) Composition Peptone 15.0 g/l Proteose peptose 5.0 g/l Ferric ammonium citrate 0.5 g/l Sodium glycerophosphate 1.0 g/l Sodium thiosulfate 0.08 g/l Yeast extract 1.0 g/l Agar 15.0 g/l Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Production of melanoid pigments Organisms: All Actinomycetes
19738	ISP 7		Name: ISP 7 (5322) Composition Glycerol 15.0 g/l L-Tyrosine 0.5 g/l L-Asparagine 1.0 g/l K2HPO4 0.5 g/l NaCl 0.5 g/l FeSO4 x 7 H2O 0.01 g/l Trace element solution 5343 1.0 ml/l Agar 20.0 Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.3 Usage: Production of melanoid pigments Organisms: All Actinomycetes
34976	MEDIUM 72- for trypto casein soja agar		Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
119494	CIP Medium 72	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
6147	positive	growth	28	mesophilic
19738	positive	optimum	28	mesophilic
31606	positive	growth	30-35	mesophilic
31606	negative	growth	25
34976	positive	growth	37	mesophilic
58951	positive	growth	22-42
67770	positive	growth	28	mesophilic

Culture pH

@ref	Ability	Type	PH
31606	positive	optimum	7
31606	positive	growth	7

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance
31606	aerobe
58951	aerobe
125439	aerobe

Spore formation

@ref	Spore formation
31606
125439

Observation

@ref	Observation
31606	aggregates in chains
67770	quinones: MK-9(H₄)

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
31606	22599 ChEBI	arabinose	+	carbon source
31606	17057 ChEBI	cellobiose	+	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
31606	28757 ChEBI	fructose	+	carbon source
31606	28260 ChEBI	galactose	+	carbon source
68379	5291 ChEBI	gelatin	+	hydrolysis	from API Coryne
31606	17234 ChEBI	glucose	+	carbon source
31606	17754 ChEBI	glycerol	+	carbon source
68379	28087 ChEBI	glycogen	+	fermentation	from API Coryne
31606	17716 ChEBI	lactose	+	carbon source
68379	17716 ChEBI	lactose	-	fermentation	from API Coryne
31606	17306 ChEBI	maltose	+	carbon source
68379	17306 ChEBI	maltose	+	fermentation	from API Coryne
31606	37684 ChEBI	mannose	+	carbon source
68379	17632 ChEBI	nitrate	+	reduction	from API Coryne
31606	17814 ChEBI	salicin	+	carbon source
31606	17992 ChEBI	sucrose	+	carbon source
68379	17992 ChEBI	sucrose	+	fermentation	from API Coryne
31606	27082 ChEBI	trehalose	+	carbon source
31606	18222 ChEBI	xylose	+	carbon source

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
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
31606	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
68379	N-acetyl-beta-glucosaminidase	+	3.2.1.52	from API Coryne
68382	N-acetyl-beta-glucosaminidase	+	3.2.1.52	from API zym
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
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
19738	+	+	+	+	-	+	+	+	+	+/-	+	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
19738	not determinedn.d.	+	+	+	-	+	-	-	-	-	+	+	-	+	-	+	+	+	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2
#Infection	#Patient
#Host Body Product	#Fluids

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
6147	blood, endocarditis patient	Colorado	USA	USA	North America
67770	Blood of an endocarditis patient
119494	Human, Blood	Denver, Colorado	United States of America	USA	North America

Taxonmaps

69479

Global distribution of 16S sequence AY501364 (>99% sequence identity) for Cellulosimicrobium from Microbeatlas

Aquatic Samples	417
Soil Samples	1873
Animal Samples	1680
Plant Samples	1505
Total Samples	5475

Interaction and safety

Risk assessment

@ref	Pathogenicity human	Biosafety level	Biosafety level comment
6147	yes, in single cases	1	Risk group (German classification) According to TRBA 466
19738		2	Risk group According to TRBA 466
119494		1	Risk group (French classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	ASM451929v1 assembly for Cellulosimicrobium funkei JCM 14302	contig	GCA_004519295	264251.7	8111459539	264251	74.67
67770	ASM157082v1 assembly for Cellulosimicrobium funkei NBRC 104118	contig	GCA_001570825	1349761.3	2731957606	1349761	54.73

Genome browser: GCA_004519295

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
6147	Cellulosimicrobium funkei strain W6122 16S small subunit ribosomal RNA gene, partial sequence	AY501364	1444		264251

GC content

@ref	GC-content (mol%)
6147	74.5
67770	74.5

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Cellulosimicrobium funkei NBRC 104118
NCBI: GCA_001570825

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	yes	91.70	no
125439	motility	BacteriaNetⓘ	no	84.40	no
125439	gram_stain	BacteriaNetⓘ	positive	100.00	no
125439	oxygen_tolerance	BacteriaNetⓘ	aerobe	99.70	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Cellulosimicrobium funkei NBRC 104118
PATRIC: 1349761.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	87.03	no
125438	anaerobic	anaerobicⓘ	no	91.09	no
125438	spore-forming	spore-formingⓘ	no	53.64	no
125438	aerobic	aerobicⓘ	yes	76.29	yes
125438	thermophilic	thermophileⓘ	no	97.50	yes
125438	flagellated	motile2+ⓘ	no	67.00	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Cellulosimicrobium funkei: first report of infection in a nonimmunocompromised patient and useful phenotypic tests for differentiation from Cellulosimicrobium cellulans and Cellulosimicrobium terreum.	Petkar H, Li A, Bunce N, Duffy K, Malnick H, Shah JJ.	J Clin Microbiol	10.1128/jcm.01103-10	2011
	Enrichment of LDPE-degrading bacterial consortia: Community succession and enhanced degradation efficiency through various pretreatment methods.	Muangchinda C, Pinyakong O.	Sci Rep	10.1038/s41598-024-80306-4	2024
	Occurrence of disinfectant-resistant bacteria in a fresh-cut vegetables processing facility and their role in protecting Salmonella enteritidis.	Xu JG, Meng J, Bao WJ, Kang JM, Chen JY, Han BZ.	RSC Adv	10.1039/d0ra09325d	2021
Genetics	Comparative genomic characterization of Cellulosimicrobium funkei isolate RVMD1 from Ma'an desert rock varnish challenges Cellulosimicrobium systematics.	Alnaimat SM, Abushattal S, Dmour SM.	Front Microbiol	10.3389/fmicb.2024.1445943	2024
	Steroid Metabolism in Thermophilic Actinobacterium Saccharopolyspora hirsuta VKM Ac-666^T.	Lobastova T, Fokina V, Tarlachkov S, Shutov A, Bragin E, Kazantsev A, Donova M.	Microorganisms	10.3390/microorganisms9122554	2021
Genetics	Genome-Based Taxonomic Classification of the Phylum Actinobacteria.	Nouioui I, Carro L, Garcia-Lopez M, Meier-Kolthoff JP, Woyke T, Kyrpides NC, Pukall R, Klenk HP, Goodfellow M, Goker M.	Front Microbiol	10.3389/fmicb.2018.02007	2018
	Intimate relationships among actinomycetes and mycolic acid-containing bacteria.	Kato M, Asamizu S, Onaka H.	Sci Rep	10.1038/s41598-022-11406-2	2022
Genetics	A genomic perspective on the potential of termite-associated Cellulosimicrobium cellulans MP1 as producer of plant biomass-acting enzymes and exopolysaccharides.	Vu NT, Quach TN, Dao XT, Le HT, Le CP, Nguyen LT, Le LT, Ngo CC, Hoang H, Chu HH, Phi QT.	PeerJ	10.7717/peerj.11839	2021
Enzymology	Cellulosimicrobium composti sp. nov., a thermophilic bacterium isolated from compost.	Hu L, Xia M, Gao X, Huo YX, Yang Y.	Int J Syst Evol Microbiol	10.1099/ijsem.0.004905	2021
Phylogeny	Cellulosimicrobium protaetiae sp. nov., isolated from the gut of the larva of Protaetia brevitarsis seulensis.	Le Han H, Nguyen TTH, Li Z, Shin NR, Kim SG	Int J Syst Evol Microbiol	10.1099/ijsem.0.005296	2022
Phylogeny	Cellulosimicrobium aquatile sp. nov., isolated from Panagal reservoir, Nalgonda, India.	Sultanpuram VR, Mothe T, Chintalapati S, Chintalapati VR	Antonie Van Leeuwenhoek	10.1007/s10482-015-0588-y	2015
Phylogeny	Characterization of clinical isolates previously identified as Oerskovia turbata: proposal of Cellulosimicrobium funkei sp. nov. and emended description of the genus Cellulosimicrobium.	Brown JM, Steigerwalt AG, Morey RE, Daneshvar MI, Romero LJ, McNeil MM	Int J Syst Evol Microbiol	10.1099/ijs.0.63882-0	2006

References

#6147	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 16025
#19738	Wink, J.: Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig .
#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 )
#31606	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 #27894 (see below)
#34976	; Curators of the CIP;
#58951	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 50705
#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 .
#119494	Collection of Institut Pasteur ; Curators of the CIP; CIP 108915
#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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Cellulosimicrobium funkei (DSM 16025, ATCC BAA-886, CCUG 50705)

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

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_004519295

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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