Name: Chromobacterium piscinae DSM 23278
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 10454

Type strain:

Species: Chromobacterium piscinae

Culture col. no.: DSM 23278, CCM 3329, LMG 3947, CCUG 30097

Strain history: <- P. Kämpfer, Univ. Giessen, Germany <- LMG <- H. Lo

NCBI tax ID(s): 686831 (species)

SI-ID 1727

LMG 3947, CCM 3329, CCUG 30097, DSM 23278

Special Collections

Section

When using BacDive for research please cite our paper

Chromobacterium piscinae DSM 23278 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from pond water.

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	09-12-2024 (DD-MM-YYYY)
	Domain	*Bacteria*
	Phylum	*Pseudomonadota*
	Class	*Betaproteobacteria*
	Order	*Neisseriales*
	Family	*Chromobacteriaceae*
	Genus	*Chromobacterium*
	Species	**Chromobacterium piscinae**
	Full Scientific Name (LPSN)	Chromobacterium piscinae Kämpfer et al. 2009

Information on morphological and physiological properties Morphology

[Ref.: #29223]	Gram stain	negative
[Ref.: #125439]	Gram stain	negative Confidence in %99.5
[Ref.: #125438]	Gram stain	negative Confidence in %99

[Ref.: #29223]	Cell length	1.75 µm

[Ref.: #29223]	Cell width	0.4 µm

[Ref.: #29223]	Cell shape	rod-shaped

[Ref.: #29223]	Motility	yes
[Ref.: #125439]	Motility	yes Confidence in %91.1

[Ref.: #29223]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #16774]

Culture medium

TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)

[Ref.: #16774]

Culture medium growth

[Ref.: #16774]

Culture medium link

Medium recipe at MediaDive

[Ref.: #16774]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #16774]	growth	28 °C
[Ref.: #29223]	optimum	32 °C
[Ref.: #49900]	growth	30 °C

	pH	Kind of pH		pH
[Ref.: #29223]			optimum	6
[Ref.: #29223]			growth	5-9.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #29223]

Oxygen tolerance

aerobe

[Ref.: #125439]

Ability of spore formation

no Confidence in %99.5

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #29223]		NaCl		growth	0-3.5	%
[Ref.: #29223]		NaCl		optimum	0.05	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68374]	arginine ChEBI	+	hydrolysis	* from API ID32E
[Ref.: #29223]	aspartate ChEBI	+	carbon source
[Ref.: #68374]	cellobiose ChEBI	-	builds acid from	* from API ID32E
[Ref.: #68374]	D-arabitol ChEBI	-	builds acid from	* from API ID32E
[Ref.: #68374]	D-galacturonic acid ChEBI	-	builds acid from	* from API ID32E
[Ref.: #68374]	D-glucose ChEBI	-	builds acid from	* from API ID32E
[Ref.: #68374]	D-mannitol ChEBI	-	builds acid from	* from API ID32E
[Ref.: #68374]	L-arabinose ChEBI	-	builds acid from	* from API ID32E
[Ref.: #68374]	L-arabitol ChEBI	-	builds acid from	* from API ID32E
[Ref.: #68374]	L-rhamnose ChEBI	-	builds acid from	* from API ID32E
[Ref.: #68374]	lysine ChEBI	-	degradation	* from API ID32E
[Ref.: #68374]	malonate ChEBI	-	assimilation	* from API ID32E
[Ref.: #68374]	maltose ChEBI	-	builds acid from	* from API ID32E
[Ref.: #29223]	mannose ChEBI	+	carbon source
[Ref.: #68374]	myo-inositol ChEBI	-	builds acid from	* from API ID32E
[Ref.: #29223]	nitrate ChEBI	+	reduction
[Ref.: #68374]	ornithine ChEBI	-	degradation	* from API ID32E
[Ref.: #68374]	palatinose ChEBI	-	builds acid from	* from API ID32E
[Ref.: #68374]	Potassium 5-ketogluconate ChEBI	-	builds acid from	* from API ID32E
[Ref.: #29223]	proline ChEBI	+	carbon source
[Ref.: #68374]	ribitol ChEBI	-	builds acid from	* from API ID32E
[Ref.: #68374]	sorbitol ChEBI	-	builds acid from	* from API ID32E
[Ref.: #68374]	sucrose ChEBI	-	builds acid from	* from API ID32E
[Ref.: #68374]	trehalose ChEBI	-	builds acid from	* from API ID32E
[Ref.: #68374]	tryptophan ChEBI	+	energy source	* from API ID32E
[Ref.: #68374]	urea ChEBI	-	hydrolysis	* from API ID32E
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #68374]		indole ChEBI	yes	* from API ID32E

	Physiological tests	Metabolite	Indole test
[Ref.: #68374]		indole ChEBI	+	* from API ID32E

	Enzyme	Enzyme activity	EC number
[Ref.: #68374]	alpha-galactosidase	-	3.2.1.22	* from API ID32E
[Ref.: #68374]	alpha-glucosidase	-	3.2.1.20	* from API ID32E
[Ref.: #68374]	alpha-maltosidase	-		* from API ID32E
[Ref.: #68374]	arginine dihydrolase	+	3.5.3.6	* from API ID32E
[Ref.: #68374]	beta-galactosidase	-	3.2.1.23	* from API ID32E
[Ref.: #68374]	beta-glucosidase	-	3.2.1.21	* from API ID32E
[Ref.: #68374]	beta-glucuronidase	-	3.2.1.31	* from API ID32E
[Ref.: #29223]	cytochrome oxidase	+	1.9.3.1
[Ref.: #68374]	L-aspartate arylamidase	+	3.4.11.21	* from API ID32E
[Ref.: #68374]	lipase	+		* from API ID32E
[Ref.: #68374]	lysine decarboxylase	-	4.1.1.18	* from API ID32E
[Ref.: #68374]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API ID32E
[Ref.: #68374]	ornithine decarboxylase	-	4.1.1.17	* from API ID32E
[Ref.: #68374]	urease	-	3.5.1.5	* from API ID32E
	Only first 10 entries are displayed. Click here to see all.

API® ID32E:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Ornithine decarboxylaseODC	Arginine dihydrolaseADH (Arg)	Lysine decarboxylaseLDC (Lys)	Urease/urea hydrolysisURE	Acid from L-arabitolLARL	Acid from D-galacturonic acidGAT	Acid from 5-Ketogluconate5KG	LipaseLIP	Phenol red (Acidification)RP	beta-Glucosidasebeta GLU	Acid from D-mannitolMAN	Acid from maltoseMAL	Acid from D-adonitolADO	Acid from palatinosePLE	beta-Glucuronidasebeta GUR	MalonateMNT	Indole productionIND	N-Acetyl-beta-Glucosaminidasebeta NAG	beta-Galactosidasebeta GAL	Acid from D-glucoseGLU	Acid from sucroseSAC	Acid from L-arabinoseLARA	Acid from D-arabitolDARL	alpha-Glucosidasealpha GLU	alpha-Galactosidasealpha GAL	Acid from trehaloseTRE	Acid from L-rhamnoseRHA	Acid from inositolINO	Acid from cellobioseCEL	Acid from sorbitolSOR	alpha-MaltosidasealphaMAL	L-aspartic acid arylamidaseAspA
[Ref.: #49900]	1146	-	+	-	-	-	-	-	+	+	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+

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

[Ref.: #16774]	Sample type/isolated from	pond water
[Ref.: #16774]	Geographic location (country and/or sea, region)	Sungai Buloh
[Ref.: #16774]	Country	Malaysia
[Ref.: #16774]	Country ISO 3 Code	MYS
[Ref.: #16774]	Continent	Asia

[Ref.: #49900]	Sample type/isolated from	Pond water
[Ref.: #49900]	Geographic location (country and/or sea, region)	Sungei Buloh
[Ref.: #49900]	Country	Malaysia
[Ref.: #49900]	Country ISO 3 Code	MYS
[Ref.: #49900]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental

#Aquatic

#Pond (small)

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AJ871127 (>99% sequence identity) for Chromobacterium from Microbeatlas

Aquatic Samples	355
Soil Samples	259
Animal Samples	129
Plant Samples	386
Total Samples	1129

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

[Ref.: #16774]

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.: #16774]	Chromobacterium piscinae partial 16S rRNA gene, type strain LMG 3947T	AJ871127	1440	GenBank ENA	686831 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Chromobacterium piscinae DSM 23278	GCA_021129175	scaffold	GenBank ENA	686831 tax ID	*

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

	Model	Trait	Prediction	Confidence in %	In training data
	Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Chromobacterium piscinae DSM 23278 NCBI: GCA_021129175.1
[Ref.: #125438]	gram-positive	gram-positiveⓘ	no	99	no
[Ref.: #125438]	anaerobic	anaerobicⓘ	no	95.119	yes
[Ref.: #125438]	aerobic	aerobicⓘ	yes	67.973	yes
[Ref.: #125438]	spore-forming	spore-formingⓘ	no	84.869	no
[Ref.: #125438]	thermophile	thermophilicⓘ	no	96.842	yes
[Ref.: #125438]	motile2+	flagellatedⓘ	yes	74.131	no

	Model	Trait	Prediction	Confidence in %
	Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Chromobacterium piscinae DSM 23278 NCBI: GCA_021129175
[Ref.: #125439]	BacteriaNet	spore_formationⓘ	no	99.5
[Ref.: #125439]	BacteriaNet	motilityⓘ	yes	91.1
[Ref.: #125439]	BacteriaNet	gram_stainⓘ	negative	99.5
[Ref.: #125439]	BacteriaNet	oxygen_toleranceⓘ	obligate anaerobe	76.8

Availability in culture collections External links

[Ref.: #16774]

Culture collection no.

DSM 23278, CCM 3329, LMG 3947, CCUG 30097

[Ref.: #79731]

SI-ID 1727

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Chromobacterium piscinae sp. nov. and Chromobacterium pseudoviolaceum sp. nov., from environmental samples.	Kampfer P, Busse HJ, Scholz HC	Int J Syst Evol Microbiol	10.1099/ijs.0.008888-0	2009	*

References

#16774

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 23278

#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 )

#29223

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 #25644 (see below)

#49900 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 30097

#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) .

#68374

Automatically annotated from API ID32E .

#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 .

#79731

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-ID1727.1 )

#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 .

#25644

IJSEM 2486 2009 ( DOI 10.1099/ijs.0.008888-0 , PubMed 19622653 )

* These data were automatically processed and therefore are not curated

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