Cellulomonas xylanilytica (DSM 16933, CECT 5729, LMG 21723)

Name: Cellulomonas xylanilytica (DSM 16933, CECT 5729, LMG 21723)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 2368

Type strain

Strain Designation XIL11, CIL11

Culture col. no. DSM 16933 CECT 5729 LMG 21723 XIL11 NBRC 101102 3 more

NCBI tax ID(s) 1305856 233583

Special Collections DSMZ JCM CIP Literature strains

Links

Cellulomonas xylanilytica XIL11 is an aerobe, mesophilic, Gram-positive prokaryote that was isolated from decayed wood of an elm tree.

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

Name and taxonomic classification

SI-ID 89018

LMG 21723,CECT 5729,CIP 108340,NBRC 101102,DSM 16933,JCM 14281

@ref 20215

Last LPSN update 2025-12-16 09:47:18

Domain Bacillati

Phylum Actinomycetota

Class Actinomycetes

Order Micrococcales

Family Cellulomonadaceae

Genus Cellulomonas

Species Cellulomonas xylanilytica

Full scientific name Cellulomonas xylanilytica Rivas et al. 2004

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Confidence
30038	positive	2.4 µm	1.4 µm	rod-shaped
123993	positive			rod-shaped
125438					94
125439	positive				99.7

Colony morphology

Pigmentation

30038

Productionyes

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
6653	XED-AGAR (DSMZ Medium 1026)	Medium recipe at MediaDive	Name: XED-AGAR (DSMZ Medium 1026) Composition: Agar 18.0 g/l Xylan 7.0 g/l Yeast extract 3.0 g/l Distilled water
6653	CORYNEBACTERIUM AGAR (DSMZ Medium 53)	Medium recipe at MediaDive	Name: CORYNEBACTERIUM AGAR (DSMZ Medium 53) Composition: Agar 15.0 g/l Casein peptone 10.0 g/l NaCl 5.0 g/l Glucose 5.0 g/l Yeast extract 5.0 g/l Distilled water
33231	MEDIUM 595 - for Cellulomonas xylanilytica		Distilled water make up to (1000.000 ml);Magnesium sulphate heptahydrate (0.500 g);Agar (20.000 g);Yeast extract (10.000 g);Di Potassium monohydrogenophosphate (1.000 g);Xylan (5.000 g)
123993	CIP Medium 595	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
6653	positive	growth	28	mesophilic
30038	positive	growth	28	mesophilic
30038	positive	optimum	30	mesophilic
33231	positive	growth	30	mesophilic
67770	positive	growth	28	mesophilic
123993	negative	growth	41
123993	negative	growth	37
123993	negative	growth	15
123993	negative	growth	10
123993	positive	growth	25-30	mesophilic
123993	negative	growth	45

Culture pH

@ref	Ability	Type	PH
30038	positive	optimum	7

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
30038	aerobe
123993	facultative anaerobe
125439	obligate aerobe	99.8

Spore formation

30038

Spore formationno

Halophily

@ref	Salt	Growth	Tested relation	Concentration
123993	NaCl	positive	growth	0-4 %
123993	NaCl		growth	6 %
123993	NaCl		growth	8 %
123993	NaCl		growth	10 %

Murein

@ref	Murein short key	Type
6653	A21.05	A4ß L-Orn-D-Glu

Observation

67770

Observationquinones: MK-9(H₄), MK-8(H₄)

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68371	27613 ChEBI	amygdalin	-	builds acid from	from API 50CH acid
30038	22599 ChEBI	arabinose	+	carbon source
68371	18305 ChEBI	arbutin	-	builds acid from	from API 50CH acid
123993	16947 ChEBI	citrate	-	carbon source
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	28847 ChEBI	D-fucose	-	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
30038	4853 ChEBI	esculin	+	hydrolysis
123993	4853 ChEBI	esculin	+	hydrolysis
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
123993	606565 ChEBI	hippurate	+	hydrolysis
68371	15443 ChEBI	inulin	-	builds acid from	from API 50CH acid
68371	30849 ChEBI	L-arabinose	-	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
30038	17716 ChEBI	lactose	+	carbon source
68371	17716 ChEBI	lactose	-	builds acid from	from API 50CH acid
30038	17306 ChEBI	maltose	+	carbon source
68371	17306 ChEBI	maltose	-	builds acid from	from API 50CH acid
30038	37684 ChEBI	mannose	+	carbon source
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
30038	506227 ChEBI	N-acetylglucosamine	+	carbon source
68371	59640 ChEBI	N-acetylglucosamine	-	builds acid from	from API 50CH acid
30038	17632 ChEBI	nitrate	+	reduction
123993	17632 ChEBI	nitrate	+	reduction
123993	17632 ChEBI	nitrate	+	respiration
123993	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
30038	26546 ChEBI	rhamnose	+	carbon source
68371	15963 ChEBI	ribitol	-	builds acid from	from API 50CH acid
68371	17814 ChEBI	salicin	-	builds acid from	from API 50CH acid
68371	27082 ChEBI	trehalose	-	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

Antibiotic resistance

@ref	Metabolite	Is antibiotic	Is sensitive	Is resistant
123993	0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)

Metabolite production

@ref	Chebi-ID	Metabolite	Production
123993	35581 ChEBI	indole

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test	Methylred-test
123993	15688 ChEBI	acetoin	-
123993	17234 ChEBI	glucose		+

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
123993	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
123993	amylase	+
68382	beta-galactosidase	+	3.2.1.23	from API zym
123993	beta-galactosidase	+	3.2.1.23
68382	beta-glucosidase	+	3.2.1.21	from API zym
68382	beta-glucuronidase	+	3.2.1.31	from API zym
123993	caseinase	+	3.4.21.50
30038	catalase	+	1.11.1.6
123993	catalase	+	1.11.1.6
123993	cellulase	-	3.2.1.4
68382	cystine arylamidase	-	3.4.11.3	from API zym
30038	cytochrome oxidase	+	1.9.3.1
123993	DNase	+
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
123993	gamma-glutamyltransferase	+	2.3.2.2
123993	gelatinase	+
123993	lecithinase	-
68382	leucine arylamidase	+	3.4.11.1	from API zym
123993	lipase	-
68382	lipase (C 14)	-		from API zym
123993	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
123993	ornithine decarboxylase	-	4.1.1.17
123993	oxidase	+
123993	phenylalanine ammonia-lyase	-	4.3.1.24
68382	trypsin	-	3.4.21.4	from API zym
123993	tryptophan deaminase	-
123993	tween esterase	-
123993	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
123993	-	+	+	+	-	+	-	-	-	-	+	-	+	+	+	+	+	+	+	-

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
123993	not determinedn.d.	-	-	-	-	-	+/-	-	-	-	+/-	+	+	+	-	-	-	-	-	-	-	-	-	-	-	+/-	-	+/-	-	-	+/-	+/-	-	-	+/-	+	+/-	+/-	-	+/-	-	-	-	-	-	-	-	-	-	-

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
123993	not determinedn.d.	+	+	+	+	+	-	+	+	+	+	+	+	+	+	-	+	+	-	+	-	+	+	-	-	-	+	-	-	-	-	-	+	-	-	+	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	+	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	+	-	-	+	-	-	-	-	-	-	-	+	-	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Plants	#Decomposing plant
#Host	#Plants	#Tree
#Host Body Product	#Plant	#Timber

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Isolation date
6653	decayed wood of an elm tree	Salamanca	Spain	ESP	Europe
67770	Decade wood of an elm tree
123993	Plant, From decayed wood elm tree	Salamanca	Spain	ESP	Europe	2001

Taxonmaps

69479

Global distribution of 16S sequence AY303668 (>99% sequence identity) for Cellulomonas from Microbeatlas

Aquatic Samples	607
Soil Samples	3471
Animal Samples	1257
Plant Samples	570
Total Samples	5905

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
6653	1	Risk group (German classification) According to TRBA 466
123993	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	IMG accession
67770	ASM798980v1 assembly for Cellulomonas xylanilytica NBRC 101102	contig	GCA_007989805	233583.3	233583	73.33
66792	ASM131402v1 assembly for Cellulomonas xylanilytica JCM 14281	contig	GCA_001314025	1305856.3	1305856		2681813035

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
6653	Cellulomonas xylanilytica 16S ribosomal RNA gene, complete sequence	AY303668	1516		233583

GC content

@ref	GC-content (mol%)	Method
6653	73
67770	73	thermal denaturation, midpoint method (Tm)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Cellulomonas xylanilytica JCM 14281
NCBI: GCA_001314025

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	81.50	no
125439	motility	BacteriaNetⓘ	no	75.50	no
125439	gram_stain	BacteriaNetⓘ	positive	99.70	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	99.80	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Cellulomonas xylanilytica JCM 14281
PATRIC: 1305856.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	86.67	yes
125438	anaerobic	anaerobicⓘ	no	86.21	no
125438	spore-forming	spore-formingⓘ	no	82.41	yes
125438	aerobic	aerobicⓘ	yes	58.69	no
125438	thermophilic	thermophileⓘ	no	90.38	yes
125438	flagellated	motile2+ⓘ	no	94.00	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Cellulomonas aurantiaca sp. nov., isolated from a soil sample from a tangerine field.	Kim SK, Kook M, Yan ZF, Trinh H, Zheng SD, Yang JE, Park SY, Yi TH	Antonie Van Leeuwenhoek	10.1007/s10482-019-01288-2	2019
Phylogeny	Cellulomonas rhizosphaerae sp. nov., a novel actinomycete isolated from soil.	Tian Y, Han C, Hu J, Zhao J, Zhang C, Guo X, Wang X, Xiang W	Int J Syst Evol Microbiol	10.1099/ijsem.0.003258	2019
Phylogeny	Cellulomonas terrae sp. nov., a cellulolytic and xylanolytic bacterium isolated from soil.	An DS, Im WT, Yang HC, Kang MS, Kim KK, Jin L, Kim MK, Lee ST	Int J Syst Evol Microbiol	10.1099/ijs.0.63696-0	2005
Phylogeny	Cellulomonas xylanilytica sp. nov., a cellulolytic and xylanolytic bacterium isolated from a decayed elm tree.	Rivas R, Trujillo ME, Mateos PF, Martinez-Molina E, Velazquez E	Int J Syst Evol Microbiol	10.1099/ijs.0.02866-0	2004

References

#6653	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 16933
#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 )
#30038	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 #26399 (see below)
#33231	; 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) .
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#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 .
#123993	Collection of Institut Pasteur ; Curators of the CIP; CIP 108340
#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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Cellulomonas xylanilytica (DSM 16933, CECT 5729, LMG 21723)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Murein

Observation

Metabolite utilization

Antibiotic resistance

Metabolite production

Metabolite tests

Enzymes

API zym

API 50CHac

API biotype100

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_007989805

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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