Name: Phenylobacterium aquaticum W2-3-4
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 140629

Type strain:

Species: Phenylobacterium aquaticum

Strain Designation: W2-3-4

Culture col. no.: LMG 28593, KACC 18306

NCBI tax ID(s): 1763816 (species)

Section

Phenylobacterium aquaticum W2-3-4 is an obligate aerobe, mesophilic, Gram-negative bacterium that forms circular colonies and was isolated from reservoir of a water purifier.

colony-forming
Gram-negative
rod-shaped
mesophilic
obligate aerobe
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	*Alphaproteobacteria*
	Order	*Caulobacterales*
	Family	*Caulobacteraceae*
	Genus	*Phenylobacterium*
	Species	**Phenylobacterium aquaticum**
	Full Scientific Name (LPSN)	Phenylobacterium aquaticum Jo et al. 2016

Information on morphological and physiological properties Morphology

[Ref.: #43157]	Gram stain	negative

[Ref.: #43157]	Cell length	2.5-4.0 µm

[Ref.: #43157]	Cell width	0.4-0.6 µm

[Ref.: #43157]	Cell shape	rod-shaped

[Ref.: #43157]	Motility	no

[Ref.: #43157]	Colony size	1-2 mm
[Ref.: #43157]	Colony color	light brown
[Ref.: #43157]	Colony shape	circular
[Ref.: #43157]	Incubation period	3 days
[Ref.: #43157]	Cultivation medium used	NA

Information on culture and growth conditions Culture and growth conditions

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Culture medium

Nutrient agar (NA)

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Culture medium growth

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Culture medium

Reasoner's 2A agar (R2A)

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Culture medium growth

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Culture medium

Trypticase Soy Agar (TSA)

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Culture medium growth

	Temperatures	Kind of temperature		Temperature
[Ref.: #43157]			optimum	25-30 °C
[Ref.: #43157]			growth	18-40 °C

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Temperature range

mesophilic

	pH	Kind of pH		pH
[Ref.: #43157]			optimum	7
[Ref.: #43157]			growth	6.0-8.0

Information on physiology and metabolism Physiology and metabolism

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Oxygen tolerance

obligate aerobe

[Ref.: #43157]	Type of spore	spore
[Ref.: #43157]	Ability of spore formation	no

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #43157]		NaCl		growth	0-0.5	%(w/v)
[Ref.: #43157]		NaCl		optimum	0	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #43157]	2-oxogluconate	-	assimilation
[Ref.: #43157]	3-hydroxybenzoate ChEBI	-	assimilation
[Ref.: #43157]	3-hydroxybutyrate ChEBI	-	assimilation
[Ref.: #43157]	5-dehydro-D-gluconate ChEBI	-	assimilation
[Ref.: #43157]	acetate ChEBI	-	assimilation
[Ref.: #43157]	adipate ChEBI	-	assimilation
[Ref.: #43157]	antipyrine ChEBI	-	carbon source
[Ref.: #43157]	casein	-	hydrolysis
[Ref.: #43157]	chloridazon ChEBI	-	carbon source
[Ref.: #43157]	citrate ChEBI	-	assimilation
[Ref.: #43157]	D-glucose ChEBI	-	assimilation
[Ref.: #43157]	D-mannitol ChEBI	-	assimilation
[Ref.: #43157]	D-mannose ChEBI	-	assimilation
[Ref.: #43157]	D-ribose ChEBI	-	assimilation
[Ref.: #43157]	D-sorbitol ChEBI	-	assimilation
[Ref.: #43157]	decanoate ChEBI	-	assimilation
[Ref.: #43157]	dna ChEBI	-	hydrolysis
[Ref.: #43157]	esculin ChEBI	+	hydrolysis
[Ref.: #43157]	gelatin ChEBI	-	hydrolysis
[Ref.: #43157]	gluconate ChEBI	-	assimilation
[Ref.: #43157]	glycogen ChEBI	-	assimilation
[Ref.: #43157]	itaconate ChEBI	-	assimilation
[Ref.: #43157]	L-alanine ChEBI	-	assimilation
[Ref.: #43157]	L-arabinose ChEBI	-	assimilation
[Ref.: #43157]	L-fucose ChEBI	-	assimilation
[Ref.: #43157]	L-histidine ChEBI	-	assimilation
[Ref.: #43157]	L-proline ChEBI	-	assimilation
[Ref.: #43157]	L-rhamnose ChEBI	-	assimilation
[Ref.: #43157]	L-serine ChEBI	-	assimilation
[Ref.: #43157]	lactate ChEBI	-	assimilation
[Ref.: #43157]	malate ChEBI	-	assimilation
[Ref.: #43157]	malonate ChEBI	-	assimilation
[Ref.: #43157]	maltose ChEBI	-	assimilation
[Ref.: #43157]	melibiose ChEBI	-	assimilation
[Ref.: #43157]	myo-inositol ChEBI	-	assimilation
[Ref.: #43157]	N-acetylglucosamine ChEBI	-	assimilation
[Ref.: #43157]	nitrate ChEBI	+	reduction
[Ref.: #43157]	phenylacetate ChEBI	-	assimilation
[Ref.: #43157]	phenylalanine ChEBI	+	carbon source
[Ref.: #43157]	propionate ChEBI	-	assimilation
[Ref.: #43157]	salicin ChEBI	-	assimilation
[Ref.: #43157]	skimmed milk	-	hydrolysis
[Ref.: #43157]	starch ChEBI	-	hydrolysis
[Ref.: #43157]	suberic acid ChEBI	-	assimilation
[Ref.: #43157]	sucrose ChEBI	-	assimilation
[Ref.: #43157]	valerate ChEBI	-	assimilation
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #43157]		indole ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #43157]	acid phosphatase	+/-	3.1.3.2
[Ref.: #43157]	alkaline phosphatase	+	3.1.3.1
[Ref.: #43157]	alpha-chymotrypsin	+	3.4.21.1
[Ref.: #43157]	alpha-fucosidase	-	3.2.1.51
[Ref.: #43157]	alpha-galactosidase	-	3.2.1.22
[Ref.: #43157]	alpha-glucosidase	+	3.2.1.20
[Ref.: #43157]	alpha-mannosidase	-	3.2.1.24
[Ref.: #43157]	arginine dihydrolase	+	3.5.3.6
[Ref.: #43157]	beta-galactosidase	+	3.2.1.23
[Ref.: #43157]	beta-glucosidase	+	3.2.1.21
[Ref.: #43157]	beta-glucuronidase	+	3.2.1.31
[Ref.: #43157]	catalase	-	1.11.1.6
[Ref.: #43157]	cystine arylamidase	-	3.4.11.3
[Ref.: #43157]	cytochrome oxidase	+	1.9.3.1
[Ref.: #43157]	esterase (C 4)	+
[Ref.: #43157]	esterase Lipase (C 8)	+
[Ref.: #43157]	leucine arylamidase	+	3.4.11.1
[Ref.: #43157]	lipase (C 14)	-
[Ref.: #43157]	N-acetyl-beta-glucosaminidase	+	3.2.1.52
[Ref.: #43157]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #43157]	trypsin	+	3.4.21.4
[Ref.: #43157]	urease	+	3.5.1.5
[Ref.: #43157]	valine arylamidase	+
	Only first 10 entries are displayed. Click here to see all.

Fatty acid profile

Metadata FA analysis

Reference

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Fatty acid	Percentage
C18:1ω7c / C18:1ω6c	33.4
C16:0	27.3
11-methyl C18:1ω7c	14.4
C16:1ω7c / C16:1ω6c	7.9
C12:1 3OH	2.1
C12:0 3OH	0.9

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

[Ref.: #43157]	Sample type/isolated from	reservoir of a water purifier
[Ref.: #43157]	Geographic location (country and/or sea, region)	Daejeon city, South Korea
[Ref.: #43157]	Country	Republic of Korea
[Ref.: #43157]	Country ISO 3 Code	KOR
[Ref.: #43157]	Continent	Asia
[Ref.: #43157]	Geographic location	36.0000°/127.0000°
* marker position based on {}

Isolation sources categories

#Engineered

#Built environment

#Water reservoir (Aquarium/pool)

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KT309087 (>99% sequence identity) for Phenylobacterium aquaticum subclade from Microbeatlas

Aquatic Samples	231
Soil Samples	197
Animal Samples	86
Plant Samples	66
Total Samples	580

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.: #43157]	16S rRNA gene sequences	KT309087	1404	ENA	1763816 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Phenylobacterium aquaticum KACC 18306	GCA_022695515	contig	GenBank	1763816 tax ID	*

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GC-content

68.7 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 Diaspora project based on: Phenylobacterium aquaticum KACC 18306 NCBI: GCA_022695515.1
[Ref.: #69480]	flagellated	no	90.258	yes
[Ref.: #69480]	gram-positive	no	98.296	no
[Ref.: #69480]	anaerobic	no	99.077	yes
[Ref.: #69480]	aerobic	yes	89.51	yes
[Ref.: #69480]	halophile	no	96.256	no
[Ref.: #69480]	spore-forming	no	94.855	yes
[Ref.: #69480]	motile	yes	85.078	no
[Ref.: #69480]	glucose-ferment	no	92.849	no
[Ref.: #69480]	thermophile	no	98.134	yes
[Ref.: #69480]	glucose-util	yes	85.577	no

Availability in culture collections External links

[Ref.: #43157]

Culture collection no.

LMG 28593, KACC 18306

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Phenylobacterium glaciei sp. nov., isolated from Vestrebroggerbreen, a valley glacier in Svalbard, Arctic.	Thomas FA, Sinha RK, Hatha AAM, Krishnan KP	Int J Syst Evol Microbiol	10.1099/ijsem.0.005375	2022	*
Phylogeny	Phenylobacterium deserti sp. nov., isolated from desert soil.	Khan IU, Hussain F, Habib N, Wadaan MAM, Ahmed I, Im WT, Hozzein WN, Zhi XY, Li WJ	Int J Syst Evol Microbiol	10.1099/ijsem.0.002366	2017	*
Phylogeny	Phenylobacterium aquaticum sp. nov., isolated from the reservoir of a water purifier.	Jo JH, Choi GM, Lee SY, Im WT	Int J Syst Evol Microbiol	10.1099/ijsem.0.001223	2016	*

References

#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 )

#43157

Jung Hun Jo, Gyu-Min Choi, Soon-Youl Lee and Wan-Taek Im: Phenylobacterium aquaticum sp. nov., isolated from the reservoir of a water purifier. IJSEM 66: 3519 - 3523 2016 ( DOI 10.1099/ijsem.0.001223 , PubMed 27267215 )

#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) .

#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) .

* These data were automatically processed and therefore are not curated

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Phenylobacterium aquaticum KACC 18306

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