Name: Cellulomonas composti TR7-06
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 2371

Type strain:

Species: Cellulomonas composti

Strain Designation: TR7-06

Culture col. no.: DSM 25222, JCM 14898, KCTC 19030, NBRC 100758

Strain history: <- ST Lee, KAIST

NCBI tax ID(s): 1305857 (strain), 266130 (species)

SI-ID 232296

KCTC 19030, NBRC 100758, JCM 14898, DSM 25222

Section

Cellulomonas composti TR7-06 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from compost from a cattle farm.

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

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Actinomycetota*
	Class	*Actinomycetes*
	Order	*Micrococcales*
	Family	*Cellulomonadaceae*
	Genus	*Cellulomonas*
	Species	**Cellulomonas composti**
	Full Scientific Name (LPSN)	Cellulomonas composti Kang et al. 2007

Information on morphological and physiological properties Morphology

[Ref.: #31943]	Gram stain	positive
[Ref.: #67771]	Gram stain	positive
[Ref.: #69480]	Gram stain	positive Confidence in %99.155

[Ref.: #31943]	Cell shape	rod-shaped

[Ref.: #31943]	Motility	no

[Ref.: #31943]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #17943]

Culture medium

R2A MEDIUM (DSMZ Medium 830)

[Ref.: #17943]

Culture medium growth

[Ref.: #17943]

Culture medium link

Medium recipe at MediaDive

[Ref.: #17943]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #17943]	growth	28 °C
[Ref.: #31943]	optimum	30 °C
[Ref.: #67770]	growth	28 °C
[Ref.: #67771]	growth	30 °C

[Ref.: #17943]	Temperature range	mesophilic
[Ref.: #31943]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic
[Ref.: #67771]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #31943]			optimum	6.8-7.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #31943]	Oxygen tolerance	aerobe
[Ref.: #67771]	Oxygen tolerance	aerobe

[Ref.: #69481]	Ability of spore formation	no Confidence in %98
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.993

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #31943]		NaCl		growth	01-10	%
[Ref.: #31943]		NaCl		optimum	5.5	%

[Ref.: #67770]	Observation	quinones: MK-9(H₄)
[Ref.: #67771]	Observation	quinones: MK-9(H4)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #31943]	esculin ChEBI	+	hydrolysis
[Ref.: #31943]	gelatin ChEBI	+	carbon source
[Ref.: #31943]	glucose ChEBI	+	carbon source
[Ref.: #31943]	maltose ChEBI	+	carbon source
[Ref.: #31943]	nitrate ChEBI	+	reduction
[Ref.: #31943]	sucrose ChEBI	+	carbon source
[Ref.: #31943]	xylose ChEBI	+	carbon source

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	cellulose degradation	100	5 of 5
[Ref.: #66794]	sulfopterin metabolism	100	4 of 4
[Ref.: #66794]	ppGpp biosynthesis	100	4 of 4
[Ref.: #66794]	adipate degradation	100	2 of 2
[Ref.: #66794]	vitamin K metabolism	100	5 of 5
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	formaldehyde oxidation	100	3 of 3
[Ref.: #66794]	palmitate biosynthesis	100	22 of 22
[Ref.: #66794]	threonine metabolism	100	10 of 10
[Ref.: #66794]	cis-vaccenate biosynthesis	100	2 of 2
[Ref.: #66794]	starch degradation	100	10 of 10
[Ref.: #66794]	denitrification	100	2 of 2
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	methylglyoxal degradation	100	5 of 5
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	teichoic acid biosynthesis	100	1 of 1
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	heme metabolism	92.86	13 of 14
[Ref.: #66794]	CO2 fixation in Crenarchaeota	88.89	8 of 9
[Ref.: #66794]	NAD metabolism	88.89	16 of 18
[Ref.: #66794]	molybdenum cofactor biosynthesis	88.89	8 of 9
[Ref.: #66794]	chorismate metabolism	88.89	8 of 9
[Ref.: #66794]	C4 and CAM-carbon fixation	87.5	7 of 8
[Ref.: #66794]	photosynthesis	85.71	12 of 14
[Ref.: #66794]	tetrahydrofolate metabolism	85.71	12 of 14
[Ref.: #66794]	phenylalanine metabolism	84.62	11 of 13
[Ref.: #66794]	glycolate and glyoxylate degradation	83.33	5 of 6
[Ref.: #66794]	metabolism of disaccharids	81.82	9 of 11
[Ref.: #66794]	pentose phosphate pathway	81.82	9 of 11
[Ref.: #66794]	lipoate biosynthesis	80	4 of 5
[Ref.: #66794]	factor 420 biosynthesis	80	4 of 5
[Ref.: #66794]	glycogen metabolism	80	4 of 5
[Ref.: #66794]	peptidoglycan biosynthesis	80	12 of 15
[Ref.: #66794]	flavin biosynthesis	80	12 of 15
[Ref.: #66794]	metabolism of amino sugars and derivatives	80	4 of 5
[Ref.: #66794]	alanine metabolism	79.31	23 of 29
[Ref.: #66794]	valine metabolism	77.78	7 of 9
[Ref.: #66794]	serine metabolism	77.78	7 of 9
[Ref.: #66794]	pyrimidine metabolism	75.56	34 of 45
[Ref.: #66794]	isoleucine metabolism	75	6 of 8
[Ref.: #66794]	gluconeogenesis	75	6 of 8
[Ref.: #66794]	glutamate and glutamine metabolism	75	21 of 28
[Ref.: #66794]	glycogen biosynthesis	75	3 of 4
[Ref.: #66794]	acetate fermentation	75	3 of 4
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
[Ref.: #66794]	cardiolipin biosynthesis	71.43	5 of 7
[Ref.: #66794]	reductive acetyl coenzyme A pathway	71.43	5 of 7
[Ref.: #66794]	glycolysis	70.59	12 of 17
[Ref.: #66794]	Entner Doudoroff pathway	70	7 of 10
[Ref.: #66794]	purine metabolism	69.15	65 of 94
[Ref.: #66794]	L-lactaldehyde degradation	66.67	2 of 3
[Ref.: #66794]	enterobactin biosynthesis	66.67	2 of 3
[Ref.: #66794]	aspartate and asparagine metabolism	66.67	6 of 9
[Ref.: #66794]	octane oxidation	66.67	2 of 3
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	cyanate degradation	66.67	2 of 3
[Ref.: #66794]	d-mannose degradation	66.67	6 of 9
[Ref.: #66794]	citric acid cycle	64.29	9 of 14
[Ref.: #66794]	d-xylose degradation	63.64	7 of 11
[Ref.: #66794]	proline metabolism	63.64	7 of 11
[Ref.: #66794]	ketogluconate metabolism	62.5	5 of 8
[Ref.: #66794]	dTDPLrhamnose biosynthesis	62.5	5 of 8
[Ref.: #66794]	degradation of sugar alcohols	62.5	10 of 16
[Ref.: #66794]	histidine metabolism	62.07	18 of 29
[Ref.: #66794]	methionine metabolism	61.54	16 of 26
[Ref.: #66794]	urea cycle	61.54	8 of 13
[Ref.: #66794]	leucine metabolism	61.54	8 of 13
[Ref.: #66794]	cysteine metabolism	61.11	11 of 18
[Ref.: #66794]	non-pathway related	60.53	23 of 38
[Ref.: #66794]	myo-inositol biosynthesis	60	6 of 10
[Ref.: #66794]	lipid metabolism	58.06	18 of 31
[Ref.: #66794]	ubiquinone biosynthesis	57.14	4 of 7
[Ref.: #66794]	oxidative phosphorylation	56.04	51 of 91
[Ref.: #66794]	tryptophan metabolism	55.26	21 of 38
[Ref.: #66794]	lysine metabolism	52.38	22 of 42
[Ref.: #66794]	coenzyme M biosynthesis	50	5 of 10
[Ref.: #66794]	kanosamine biosynthesis II	50	1 of 2
[Ref.: #66794]	mannosylglycerate biosynthesis	50	1 of 2
[Ref.: #66794]	ethanol fermentation	50	1 of 2
[Ref.: #66794]	degradation of hexoses	50	9 of 18
[Ref.: #66794]	propionate fermentation	50	5 of 10
[Ref.: #66794]	degradation of pentoses	50	14 of 28
[Ref.: #66794]	butanoate fermentation	50	2 of 4
[Ref.: #66794]	arginine metabolism	50	12 of 24
[Ref.: #66794]	phenylmercury acetate degradation	50	1 of 2
[Ref.: #66794]	isoprenoid biosynthesis	46.15	12 of 26
[Ref.: #66794]	phenylpropanoid biosynthesis	46.15	6 of 13
[Ref.: #66794]	phosphatidylethanolamine bioynthesis	46.15	6 of 13
[Ref.: #66794]	sulfate reduction	46.15	6 of 13
[Ref.: #66794]	carotenoid biosynthesis	45.45	10 of 22
[Ref.: #66794]	phenol degradation	45	9 of 20
[Ref.: #66794]	lipid A biosynthesis	44.44	4 of 9
[Ref.: #66794]	nitrate assimilation	44.44	4 of 9
[Ref.: #66794]	glutathione metabolism	42.86	6 of 14
[Ref.: #66794]	propanol degradation	42.86	3 of 7
[Ref.: #66794]	tyrosine metabolism	42.86	6 of 14
[Ref.: #66794]	glycine metabolism	40	4 of 10
[Ref.: #66794]	hydrogen production	40	2 of 5
[Ref.: #66794]	arachidonate biosynthesis	40	2 of 5
[Ref.: #66794]	arachidonic acid metabolism	38.89	7 of 18
[Ref.: #66794]	androgen and estrogen metabolism	37.5	6 of 16
[Ref.: #66794]	sulfoquinovose degradation	33.33	1 of 3
[Ref.: #66794]	acetyl CoA biosynthesis	33.33	1 of 3
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	33.33	4 of 12
[Ref.: #66794]	selenocysteine biosynthesis	33.33	2 of 6
[Ref.: #66794]	pantothenate biosynthesis	33.33	2 of 6
[Ref.: #66794]	3-phenylpropionate degradation	33.33	5 of 15
[Ref.: #66794]	sphingosine metabolism	33.33	2 of 6
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
[Ref.: #66794]	vitamin B1 metabolism	30.77	4 of 13
[Ref.: #66794]	4-hydroxyphenylacetate degradation	30	3 of 10
[Ref.: #66794]	aclacinomycin biosynthesis	28.57	2 of 7
[Ref.: #66794]	mevalonate metabolism	28.57	2 of 7
[Ref.: #66794]	degradation of sugar acids	28	7 of 25
[Ref.: #66794]	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
[Ref.: #66794]	ascorbate metabolism	27.27	6 of 22
[Ref.: #66794]	cyclohexanol degradation	25	1 of 4
[Ref.: #66794]	carnitine metabolism	25	2 of 8
[Ref.: #66794]	lactate fermentation	25	1 of 4
[Ref.: #66794]	CMP-KDO biosynthesis	25	1 of 4
[Ref.: #66794]	toluene degradation	25	1 of 4
[Ref.: #66794]	methanogenesis from CO2	25	3 of 12
[Ref.: #66794]	alginate biosynthesis	25	1 of 4
[Ref.: #66794]	biotin biosynthesis	25	1 of 4
[Ref.: #66794]	allantoin degradation	22.22	2 of 9
		Only first 10 entries are displayed. Click here to see all.

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #17943]	Sample type/isolated from	compost from a cattle farm
[Ref.: #17943]	Geographic location (country and/or sea, region)	near Daejeon
[Ref.: #17943]	Country	Republic of Korea
[Ref.: #17943]	Country ISO 3 Code	KOR
[Ref.: #17943]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Compost from a cattle farm near Daejeon
[Ref.: #67770]	Country	Republic of Korea
[Ref.: #67770]	Country ISO 3 Code	KOR
[Ref.: #67770]	Continent	Asia

[Ref.: #67771]	Sample type/isolated from	Compost from a cattle farm near Daejeon
[Ref.: #67771]	Country	Republic of Korea
[Ref.: #67771]	Country ISO 3 Code	KOR
[Ref.: #67771]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Engineered	#Agriculture	#Livestock (Husbandry)
#Engineered	#Biodegradation	#Composting
#Host	#Mammals	#Bovinae (Cow, Cattle)

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AB166887 (>99% sequence identity) for Cellulomonas composti from Microbeatlas

Aquatic Samples
Soil Samples	6
Animal Samples	1
Plant Samples
Total Samples	7

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #17943]

Biosafety level

Risk group (German classification)
According to TRBA 466

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #17943]	Cellulomonas composti gene for 16S rRNA, partial sequence	AB166887	1453	ENA	266130 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Cellulomonas composti NBRC 100758	GCA_007990245	contig	GenBank	266130 tax ID
[Ref.: #66792]	Cellulomonas composti JCM 14898	GCA_001314045	contig	GenBank	1305857 tax ID	*
[Ref.: #66792]	Cellulomonas composti JCM 14898	1305857.3	wgs	PATRIC	1305857 tax ID	*
[Ref.: #66792]	Cellulomonas composti strain NBRC 100758	266130.4	wgs	PATRIC	266130 tax ID	*
[Ref.: #66792]	Cellulomonas composti JCM 14898	2734481969	draft	JGI IMG/M	1305857 tax ID	*

[Ref.: #17943]	GC-content	73.7 mol%	high performance liquid chromatography (HPLC)
[Ref.: #31943]	GC-content	73.7 mol%

Data predicted using genome information as a basis Genome-based predictions

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Cellulomonas composti JCM 14898 PATRIC: 1305857.3
[Ref.: #69481]	spore-forming	no	98	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Cellulomonas composti JCM 14898 PATRIC: 1305857.3
[Ref.: #69480]	motile	no	85.382	no
[Ref.: #69480]	gram-positive	yes	84.773	no
[Ref.: #69480]	anaerobic	no	88.275	no
[Ref.: #69480]	halophile	no	87.44	yes
[Ref.: #69480]	spore-forming	no	93.08	no
[Ref.: #69480]	thermophile	no	97.205	no
[Ref.: #69480]	glucose-util	yes	89.115	yes
[Ref.: #69480]	aerobic	yes	64.797	yes
[Ref.: #69480]	flagellated	no	95.765	yes
[Ref.: #69480]	glucose-ferment	yes	55.533	no

Availability in culture collections External links

[Ref.: #17943]

Culture collection no.

DSM 25222, JCM 14898, KCTC 19030, NBRC 100758

[Ref.: #71926]

SI-ID 232296

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Cellulomonas citrea sp. nov., isolated from paddy soil.	Lee HJ, Kim SY, Whang KS	Int J Syst Evol Microbiol	10.1099/ijsem.0.004409	2020	*
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 phragmiteti sp. nov., a cellulolytic bacterium isolated from reed (Phragmites australis) periphyton in a shallow soda pond.	Rusznyak A, Toth EM, Schumann P, Sproer C, Makk J, Szabo G, Vladar P, Marialigeti K, Borsodi AK	Int J Syst Evol Microbiol	10.1099/ijs.0.022608-0	2010	*
Phylogeny	Cellulomonas composti sp. nov., a cellulolytic bacterium isolated from cattle farm compost.	Kang MS, Im WT, Jung HM, Kim MK, Goodfellow M, Kim KK, Yang HC, An DS, Lee ST	Int J Syst Evol Microbiol	10.1099/ijs.0.63974-0	2007	*

References

#17943

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 25222

#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 )

#31943

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 #28199 (see below)

#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) .

#66794

Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#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 .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#71926

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID232296.1 )

#28199

IJSEM 1276 2007 ( DOI 10.1099/ijs.0.64692-0 , PubMed 17551043 )

* These data were automatically processed and therefore are not curated

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Cellulomonas composti JCM 14898

Cellulomonas composti JCM 14898

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