Name: Comamonas composti YY287
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 2937

Type strain:

Species: Comamonas composti

Strain Designation: YY287

Culture col. no.: DSM 21721, BCRC 17659, LMG 24008

Strain history: <- LMG <- W.-M. Chen, Dep. of Seafood Science, Nat. Kaohsiung Marine University Taiwan

NCBI tax ID(s): 1121349 (strain), 408558 (species)

SI-ID 294564

LMG 24008, BCRC 17659, CCRC 17659, DSM 21721

Section

Comamonas composti YY287 is an aerobe, mesophilic, Gram-negative bacterium that forms irregular colonies and was isolated from food waste compost.

colony-forming
Gram-negative
motile
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	*Pseudomonadota*
	Class	*Betaproteobacteria*
	Order	*Burkholderiales*
	Family	*Comamonadaceae*
	Genus	*Comamonas*
	Species	**Comamonas composti**
	Full Scientific Name (LPSN)	Comamonas composti Young et al. 2008

Information on morphological and physiological properties Morphology

[Ref.: #23082]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.999

[Ref.: #23082]	Cell length	1.0-2.0 µm

[Ref.: #23082]	Cell width	0.5 µm

[Ref.: #23082]	Cell shape	rod-shaped

[Ref.: #23082]	Motility	yes
[Ref.: #69480]	Motility	yes Confidence in %97.63

[Ref.: #23082]	Colony size	3.0 mm
[Ref.: #23082]	Colony color	semi-transparent
[Ref.: #23082]	Colony shape	irregular
[Ref.: #23082]	Incubation period	2 days
[Ref.: #23082]	Cultivation medium used	nutrient agar

Information on culture and growth conditions Culture and growth conditions

[Ref.: #15895]

Culture medium

REACTIVATION WITH LIQUID MEDIUM (DSMZ Medium 535b)

[Ref.: #15895]

Culture medium growth

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Culture medium link

Medium recipe at MediaDive

[Ref.: #15895]

Culture medium composition

expand / minimize

[Ref.: #23082]

Culture medium

Nutrient agar (NA)

[Ref.: #23082]

Culture medium growth

		Temperature
[Ref.: #15895]	growth	28 °C
[Ref.: #23082]	growth	15.0-35.0 °C
[Ref.: #23082]	optimum	25.0-35.0 °C

[Ref.: #15895]	Temperature range	mesophilic
[Ref.: #23082]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #23082]			optimum	6.0-8.0
[Ref.: #23082]			growth	6.0-9.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #23082]

Oxygen tolerance

aerobe

[Ref.: #23082]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.982

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #23082]		NaCl		optimum	0.0-1.0	%
[Ref.: #23082]		NaCl		growth	0.0-3.0	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #23082]	(-)-quinic acid ChEBI	-	oxidation
[Ref.: #23082]	2,3-butanediol ChEBI	-	oxidation
[Ref.: #23082]	2-hydroxybutyrate ChEBI	+	oxidation
[Ref.: #23082]	2-oxobutanoate ChEBI	+	oxidation
[Ref.: #23082]	2-oxoglutarate ChEBI	+	oxidation
[Ref.: #23082]	2-oxopentanoate ChEBI	+	oxidation
[Ref.: #23082]	3-hydroxybutyrate ChEBI	+	oxidation
[Ref.: #23082]	4-hydroxy-L-proline ChEBI	+	oxidation
[Ref.: #23082]	4-hydroxybutyrate ChEBI	+	oxidation
[Ref.: #23082]	4-hydroxyphenylacetic acid ChEBI	-	oxidation
[Ref.: #23082]	5-oxoproline ChEBI	+	oxidation
[Ref.: #23082]	acetate ChEBI	+	oxidation
[Ref.: #23082]	adipate ChEBI	+	growth
[Ref.: #23082]	alpha-cyclodextrin ChEBI	-	oxidation
[Ref.: #23082]	alpha-D-glucose ChEBI	-	oxidation
[Ref.: #23082]	alpha-lactose ChEBI	-	oxidation
[Ref.: #23082]	arabinose ChEBI	-	growth
[Ref.: #23082]	bromosuccinate ChEBI	+	oxidation
[Ref.: #23082]	cellobiose ChEBI	-	oxidation
[Ref.: #23082]	cis-aconitate ChEBI	+	oxidation
[Ref.: #23082]	citrate ChEBI	-	growth
[Ref.: #23082]	citrate ChEBI	+	oxidation
[Ref.: #23082]	D-alanine ChEBI	-	oxidation
[Ref.: #23082]	D-arabitol ChEBI	-	oxidation
[Ref.: #23082]	D-fructose ChEBI	-	oxidation
[Ref.: #23082]	D-galactonic acid lactone ChEBI	-	oxidation
[Ref.: #23082]	D-galactose ChEBI	-	oxidation
[Ref.: #23082]	D-galacturonic acid ChEBI	-	oxidation
[Ref.: #23082]	D-glucarate ChEBI	-	oxidation
[Ref.: #23082]	D-gluconate ChEBI	-	oxidation
[Ref.: #23082]	D-glucosaminic acid ChEBI	-	oxidation
[Ref.: #23082]	D-glucose 6-phosphate ChEBI	-	oxidation
[Ref.: #23082]	D-glucuronate ChEBI	-	oxidation
[Ref.: #23082]	D-mannitol ChEBI	-	oxidation
[Ref.: #23082]	D-mannose ChEBI	-	oxidation
[Ref.: #23082]	D-psicose ChEBI	-	oxidation
[Ref.: #23082]	D-serine ChEBI	-	oxidation
[Ref.: #23082]	D-sorbitol ChEBI	-	oxidation
[Ref.: #23082]	decanoate ChEBI	-	growth
[Ref.: #23082]	dextrin ChEBI	-	oxidation
[Ref.: #23082]	DL-carnitine ChEBI	-	oxidation
[Ref.: #23082]	erythritol ChEBI	+	oxidation
[Ref.: #23082]	esculin ChEBI	-	hydrolysis
[Ref.: #23082]	ethanolamine ChEBI	-	oxidation
[Ref.: #23082]	formate ChEBI	+	oxidation
[Ref.: #23082]	gamma-aminobutyric acid ChEBI	-	oxidation
[Ref.: #23082]	gelatin ChEBI	-	hydrolysis
[Ref.: #23082]	gentiobiose ChEBI	-	oxidation
[Ref.: #23082]	gluconate ChEBI	+	growth
[Ref.: #23082]	glucose ChEBI	-	fermentation
[Ref.: #23082]	glucose ChEBI	-	growth
[Ref.: #23082]	glucose 1-phosphate ChEBI	-	oxidation
[Ref.: #23082]	glucuronamide ChEBI	-	oxidation
[Ref.: #23082]	glycerol ChEBI	-	oxidation
[Ref.: #23082]	glycerol 1-phosphate ChEBI	-	oxidation
[Ref.: #23082]	glycogen ChEBI	+	oxidation
[Ref.: #23082]	glycyl L-aspartic acid ChEBI	-	oxidation
[Ref.: #23082]	inosine ChEBI	-	oxidation
[Ref.: #23082]	itaconate ChEBI	+	oxidation
[Ref.: #23082]	L-alaninamide ChEBI	-	oxidation
[Ref.: #23082]	L-alanine ChEBI	-	oxidation
[Ref.: #23082]	L-alanylglycine ChEBI	-	oxidation
[Ref.: #23082]	L-arabinose ChEBI	-	oxidation
[Ref.: #23082]	L-asparagine ChEBI	+	oxidation
[Ref.: #23082]	L-fucose ChEBI	-	oxidation
[Ref.: #23082]	L-glutamate ChEBI	-	oxidation
[Ref.: #23082]	L-histidine ChEBI	-	oxidation
[Ref.: #23082]	L-leucine ChEBI	+	oxidation
[Ref.: #23082]	L-ornithine ChEBI	-	oxidation
[Ref.: #23082]	L-phenylalanine ChEBI	-	oxidation
[Ref.: #23082]	L-proline ChEBI	-	oxidation
[Ref.: #23082]	L-pyroglutamic acid ChEBI	+	oxidation
[Ref.: #23082]	L-rhamnose ChEBI	-	oxidation
[Ref.: #23082]	L-serine ChEBI	-	oxidation
[Ref.: #23082]	L-threonine ChEBI	-	oxidation
[Ref.: #23082]	lactate ChEBI	+	oxidation
[Ref.: #23082]	lactulose ChEBI	-	oxidation
[Ref.: #23082]	malate ChEBI	+	growth
[Ref.: #23082]	malonate ChEBI	-	oxidation
[Ref.: #23082]	maltose ChEBI	-	growth
[Ref.: #23082]	maltose ChEBI	-	oxidation
[Ref.: #23082]	mannose ChEBI	-	growth
[Ref.: #23082]	melibiose ChEBI	-	oxidation
[Ref.: #23082]	methyl beta-D-glucopyranoside ChEBI	-	oxidation
[Ref.: #23082]	methyl pyruvate ChEBI	+	oxidation
[Ref.: #23082]	monomethyl succinate ChEBI	+	oxidation
[Ref.: #23082]	myo-inositol ChEBI	-	oxidation
[Ref.: #23082]	N-acetylgalactosamine ChEBI	-	oxidation
[Ref.: #23082]	N-acetylglucosamine ChEBI	-	growth
[Ref.: #23082]	N-acetylglucosamine ChEBI	-	oxidation
[Ref.: #23082]	nitrate ChEBI	+	reduction
[Ref.: #23082]	phenylacetate ChEBI	-	growth
[Ref.: #23082]	phenylethylamine ChEBI	-	oxidation
[Ref.: #23082]	propionate ChEBI	+	oxidation
[Ref.: #23082]	putrescine ChEBI	-	oxidation
[Ref.: #23082]	raffinose ChEBI	-	oxidation
[Ref.: #23082]	ribitol ChEBI	-	oxidation
[Ref.: #23082]	sebacic acid ChEBI	+	oxidation
[Ref.: #23082]	succinamate ChEBI	+	oxidation
[Ref.: #23082]	succinate ChEBI	+	oxidation
[Ref.: #23082]	sucrose ChEBI	-	oxidation
[Ref.: #23082]	thymidine ChEBI	-	oxidation
[Ref.: #23082]	trehalose ChEBI	-	oxidation
[Ref.: #23082]	turanose ChEBI	-	oxidation
[Ref.: #23082]	tween 40 ChEBI	+	oxidation
[Ref.: #23082]	tween 80 ChEBI	+	oxidation
[Ref.: #23082]	uridine ChEBI	-	oxidation
[Ref.: #23082]	urocanic acid ChEBI	+	oxidation
[Ref.: #23082]	xylitol ChEBI	-	oxidation
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Antibiotic sensitivity	Antibiotic resistance
[Ref.: #23082]	ampicillin ChEBI	yes
[Ref.: #23082]	chloramphenicol ChEBI	yes
[Ref.: #23082]	co-trimoxazole ChEBI	yes
[Ref.: #23082]	gentamicin ChEBI		yes
[Ref.: #23082]	kanamycin ChEBI	yes
[Ref.: #23082]	nalidixic acid ChEBI	yes
[Ref.: #23082]	novobiocin ChEBI	yes
[Ref.: #23082]	penicillin g ChEBI	yes
[Ref.: #23082]	rifampicin ChEBI	yes
[Ref.: #23082]	streptomycin ChEBI		yes
[Ref.: #23082]	tetracycline ChEBI	yes
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #23082]		indole ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #23082]	acid phosphatase	+	3.1.3.2
[Ref.: #23082]	alkaline phosphatase	+	3.1.3.1
[Ref.: #23082]	alpha-chymotrypsin	-	3.4.21.1
[Ref.: #23082]	alpha-fucosidase	-	3.2.1.51
[Ref.: #23082]	alpha-galactosidase	-	3.2.1.22
[Ref.: #23082]	alpha-glucosidase	-	3.2.1.20
[Ref.: #23082]	alpha-mannosidase	-	3.2.1.24
[Ref.: #23082]	arginine dihydrolase	-	3.5.3.6
[Ref.: #23082]	beta-galactosidase	-	3.2.1.23
[Ref.: #23082]	beta-glucosidase	-	3.2.1.21
[Ref.: #23082]	beta-glucuronidase	-	3.2.1.31
[Ref.: #23082]	catalase	+	1.11.1.6
[Ref.: #23082]	cystine arylamidase	-	3.4.11.3
[Ref.: #23082]	cytochrome oxidase	+	1.9.3.1
[Ref.: #23082]	esterase (C 4)	+
[Ref.: #23082]	esterase lipase (C 8)	+
[Ref.: #23082]	leucine arylamidase	+	3.4.11.1
[Ref.: #23082]	lipase (C 14)	+
[Ref.: #23082]	N-acetyl-beta-glucosaminidase	-	3.2.1.52
[Ref.: #23082]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #23082]	trypsin	-	3.4.21.4
[Ref.: #23082]	urease	-	3.5.1.5
[Ref.: #23082]	valine arylamidase	+
	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.: #15895]	Sample type/isolated from	food waste compost
[Ref.: #15895]	Geographic location (country and/or sea, region)	Taiwan
[Ref.: #15895]	Country	China
[Ref.: #15895]	Country ISO 3 Code	CHN
[Ref.: #15895]	Continent	Asia

[Ref.: #23082]	Geographic location (country and/or sea, region)	Kinmen County
[Ref.: #23082]	Enrichment culture	nutrient agar (BD Difco)
[Ref.: #23082]	Enrichment culture duration	3 days
[Ref.: #23082]	Enrichment culture temperature	32.0 ̊C
* marker position based on {}

Isolation sources categories

#Engineered	#Biodegradation	#Composting
#Engineered	#Food production	#Food
#Engineered	#Waste	#Domestic waste

What are isolation sources categories?

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

[Ref.: #15895]

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.: #15895]	Comamonas composti strain YY287 16S ribosomal RNA gene, partial sequence	EF015884	1472	ENA	408558 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Comamonas composti DSM 21721	GCA_000429845	scaffold	GenBank	1121349 tax ID	*
[Ref.: #66792]	Comamonas composti DSM 21721	1121349.4	wgs	PATRIC	1121349 tax ID	*
[Ref.: #66792]	Comamonas composti DSM 21721	2524614759	draft	JGI IMG/M	1121349 tax ID	*

[Ref.: #23082]

GC-content

62.8 mol%

high performance liquid chromatography (HPLC)

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: Comamonas composti DSM 21721 DSM 21721 NCBI: GCA_000429845.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Comamonas composti DSM 21721 DSM 21721 NCBI: GCA_000429845.1
[Ref.: #69480]	motile	yes	88.371	yes
[Ref.: #69480]	flagellated	yes	68.951	no
[Ref.: #69480]	gram-positive	no	98.26	yes
[Ref.: #69480]	anaerobic	no	98.535	yes
[Ref.: #69480]	aerobic	yes	93.779	yes
[Ref.: #69480]	halophile	no	95.279	no
[Ref.: #69480]	spore-forming	no	95.285	no
[Ref.: #69480]	thermophile	no	96.82	yes
[Ref.: #69480]	glucose-util	no	74.507	yes
[Ref.: #69480]	glucose-ferment	no	88.956	no

Availability in culture collections External links

[Ref.: #15895]

Culture collection no.

DSM 21721, BCRC 17659, LMG 24008

[Ref.: #72459]

SI-ID 294564

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Description of Comamonas serinivorans sp. nov., isolated from wheat straw compost.	Zhu D, Xie C, Huang Y, Sun J, Zhang W	Int J Syst Evol Microbiol	10.1099/ijs.0.066688-0	2014	*
Phylogeny	Comamonas faecalis sp. nov., isolated from domestic pig feces.	Kim D, Lee SS	Curr Microbiol	10.1007/s00284-014-0561-4	2014	*
Phylogeny	Characterization of Comamonas thiooxidans sp. nov., and comparison of thiosulfate oxidation with Comamonas testosteroni and Comamonas composti.	Narayan KD, Pandey SK, Das SK	Curr Microbiol	10.1007/s00284-010-9602-9	2010	*
Phylogeny	Comamonas composti sp. nov., isolated from food waste compost.	Young CC, Chou JH, Arun AB, Yen WS, Sheu SY, Shen FT, Lai WA, Rekha PD, Chen WM	Int J Syst Evol Microbiol	10.1099/ijs.0.65277-0	2008	*

References

#15895

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 21721

#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 )

#23082

Chiu-Chung Young,Jui-Hsing Chou,A. B. Arun,Wen-Shao Yen,Shih-Yi Sheu,Fo-Ting Shen,Wai-An Lai,P. D. Rekha,Wen-Ming Chen: Comamonas composti sp. nov., isolated from food waste compost. IJSEM 58: 251 - 256 2008 ( DOI 10.1099/ijs.0.65277-0 , PubMed 18175717 )

#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) .

#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 )

#72459

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-ID294564.1 )

* These data were automatically processed and therefore are not curated

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Comamonas composti DSM 21721 DSM 21721

Comamonas composti DSM 21721 DSM 21721

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