Name: Phenylobacterium panacis KCTC 42749
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 140825

Type strain:

Species: Phenylobacterium panacis

Culture col. no.: KCTC 42749, JCM 31045, DCY 109

Strain history: D.-C. Yang and Y.-J. Kim; Ginseng Genet. Resour. Bank, Kyung Hee Univ., South Korea; DCY109.

NCBI tax ID(s): 1757089 (species)

Section

Phenylobacterium panacis KCTC 42749 is an aerobe, Gram-negative, rod-shaped bacterium that forms circular colonies and was isolated from the rhizosphere of mountain rusty ginseng root.

colony-forming
Gram-negative
rod-shaped
aerobe
16S sequence
Bacteria

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 panacis**
	Full Scientific Name (LPSN)	Phenylobacterium panacis Farh et al. 2016

Information on morphological and physiological properties Morphology

[Ref.: #43618]	Gram stain	negative

[Ref.: #43618]	Cell length	0.4-1.3 µm

[Ref.: #43618]	Cell width	0.4-0.5 µm

[Ref.: #43618]	Cell shape	rod-shaped

[Ref.: #43618]	Motility	no

[Ref.: #43618]	Colony size	0.5-1.5 mm
[Ref.: #43618]	Colony color	White
[Ref.: #43618]	Colony shape	circular
[Ref.: #43618]	Incubation period	2 days
[Ref.: #43618]	Cultivation medium used	R2A agar

Information on culture and growth conditions Culture and growth conditions

[Ref.: #43618]

Culture medium

PDA

[Ref.: #43618]

Culture medium growth

[Ref.: #43618]

Culture medium

Reasoner's 2A agar (R2A)

[Ref.: #43618]

Culture medium growth

		Temperature
[Ref.: #43618]	growth	20-30 °C
[Ref.: #43618]	optimum	25 °C
[Ref.: #67770]	growth	30 °C

[Ref.: #43618]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #43618]			optimum	7
[Ref.: #43618]			growth	6-9

Information on physiology and metabolism Physiology and metabolism

[Ref.: #43618]

Oxygen tolerance

aerobe

[Ref.: #43618]	Observation	No growth in the presence of NaCl
[Ref.: #67770]	Observation	quinones: Q-10

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #43618]	3-hydroxybenzoate ChEBI	-	assimilation
[Ref.: #43618]	3-hydroxybutyrate ChEBI	-	assimilation
[Ref.: #43618]	4-hydroxybenzoate ChEBI	-	assimilation
[Ref.: #43618]	4-nitrophenyl beta-D-glucopyranoside ChEBI	+/-	hydrolysis
[Ref.: #43618]	adipate ChEBI	-	assimilation
[Ref.: #43618]	casein	-	hydrolysis
[Ref.: #43618]	D-glucose ChEBI	-	assimilation
[Ref.: #43618]	D-mannitol ChEBI	-	assimilation
[Ref.: #43618]	D-mannose ChEBI	-	assimilation
[Ref.: #43618]	D-ribose ChEBI	-	assimilation
[Ref.: #43618]	D-sorbitol ChEBI	-	assimilation
[Ref.: #43618]	decanoate ChEBI	-	assimilation
[Ref.: #43618]	dna ChEBI	-	hydrolysis
[Ref.: #43618]	esculin ChEBI	+	hydrolysis
[Ref.: #43618]	gelatin ChEBI	-	hydrolysis
[Ref.: #43618]	glucose ChEBI	-	fermentation
[Ref.: #43618]	glycogen ChEBI	-	assimilation
[Ref.: #43618]	itaconate ChEBI	-	assimilation
[Ref.: #43618]	L-alanine ChEBI	-	assimilation
[Ref.: #43618]	L-arabinose ChEBI	-	assimilation
[Ref.: #43618]	L-arginine ChEBI	-	hydrolysis
[Ref.: #43618]	L-fucose ChEBI	-	assimilation
[Ref.: #43618]	L-histidine ChEBI	-	assimilation
[Ref.: #43618]	L-proline ChEBI	+/-	assimilation
[Ref.: #43618]	L-rhamnose ChEBI	+	assimilation
[Ref.: #43618]	L-serine ChEBI	+	assimilation
[Ref.: #43618]	lactate ChEBI	-	assimilation
[Ref.: #43618]	malate ChEBI	-	assimilation
[Ref.: #43618]	maltose ChEBI	-	assimilation
[Ref.: #43618]	melibiose ChEBI	-	assimilation
[Ref.: #43618]	myo-inositol ChEBI	-	assimilation
[Ref.: #43618]	N-acetylglucosamine ChEBI	-	assimilation
[Ref.: #43618]	nitrate ChEBI	-	reduction
[Ref.: #43618]	phenylacetate ChEBI	-	assimilation
[Ref.: #43618]	potassium 2-dehydro-D-gluconate	-	assimilation
[Ref.: #43618]	potassium 5-dehydro-D-gluconate	-	assimilation
[Ref.: #43618]	potassium gluconate ChEBI	-	assimilation
[Ref.: #43618]	propionate ChEBI	-	assimilation
[Ref.: #43618]	salicin ChEBI	+/-	assimilation
[Ref.: #43618]	sodium acetate ChEBI	-	assimilation
[Ref.: #43618]	sodium citrate ChEBI	-	assimilation
[Ref.: #43618]	sodium malonate ChEBI	-	assimilation
[Ref.: #43618]	starch ChEBI	-	hydrolysis
[Ref.: #43618]	suberic acid ChEBI	-	assimilation
[Ref.: #43618]	sucrose ChEBI	-	assimilation
[Ref.: #43618]	tween 20 ChEBI	+	hydrolysis
[Ref.: #43618]	tween 80 ChEBI	+	hydrolysis
[Ref.: #43618]	urea ChEBI	-	hydrolysis
[Ref.: #43618]	valerate ChEBI	-	assimilation
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Antibiotic sensitivity	Concentration		Antibiotic resistance	Concentration
[Ref.: #43618]	carbenicillin ChEBI				yes	100	µg (disc)
[Ref.: #43618]	cefazolin ChEBI				yes	30	µg (disc)
[Ref.: #43618]	ceftazidime ChEBI				yes	30	µg (disc)
[Ref.: #43618]	erythromycin ChEBI				yes	15	µg (disc)
[Ref.: #43618]	lincomycin ChEBI				yes	15	µg (disc)
[Ref.: #43618]	neomycin ChEBI	yes	30	µg (disc)
[Ref.: #43618]	novobiocin ChEBI	yes	30	µg (disc)
[Ref.: #43618]	oleandomycin ChEBI				yes	15	µg (disc)
[Ref.: #43618]	penicillin g ChEBI				yes	10	µg (disc)
[Ref.: #43618]	rifampicin ChEBI				yes	5	µg (disc)
[Ref.: #43618]	tetracycline ChEBI	yes	30	µg (disc)
[Ref.: #43618]	vancomycin ChEBI	yes	30	µg (disc)
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #43618]		indole ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #43618]	acid phosphatase	+	3.1.3.2
[Ref.: #43618]	alkaline phosphatase	+	3.1.3.1
[Ref.: #43618]	alpha-chymotrypsin	+	3.4.21.1
[Ref.: #43618]	alpha-fucosidase	-	3.2.1.51
[Ref.: #43618]	alpha-galactosidase	-	3.2.1.22
[Ref.: #43618]	alpha-glucosidase	-	3.2.1.20
[Ref.: #43618]	alpha-mannosidase	+	3.2.1.24
[Ref.: #43618]	arginine dihydrolase	-	3.5.3.6
[Ref.: #43618]	beta-galactosidase	-	3.2.1.23
[Ref.: #43618]	beta-glucosidase	+	3.2.1.21
[Ref.: #43618]	beta-glucuronidase	-	3.2.1.31
[Ref.: #43618]	cystine arylamidase	+	3.4.11.3
[Ref.: #43618]	esterase (C 4)	+
[Ref.: #43618]	esterase Lipase (C 8)	+
[Ref.: #43618]	leucine arylamidase	+	3.4.11.1
[Ref.: #43618]	lipase (C 14)	-
[Ref.: #43618]	N-acetyl-beta-glucosaminidase	+	3.2.1.52
[Ref.: #43618]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #43618]	trypsin	-	3.4.21.4
[Ref.: #43618]	valine arylamidase	+
	Only first 10 entries are displayed. Click here to see all.

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #43618]

Fatty acid	Percentage
C15:1 iso G	40.6
C15:0 iso	29
C17:0 iso 3OH	14.7
C15:0 iso 3OH	5.9
C16:0 iso 3OH	3
C15:0 anteiso	2.6
C15:1 anteiso A	1.4
C13:0 iso	1.4

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

[Ref.: #43618]	Sample type/isolated from	the rhizosphere of mountain rusty ginseng root
[Ref.: #43618]	Geographic location (country and/or sea, region)	Hwacheon, Gangwon province
[Ref.: #43618]	Country	Republic of Korea
[Ref.: #43618]	Country ISO 3 Code	KOR
[Ref.: #43618]	Continent	Asia
[Ref.: #43618]	Isolation date	2013-04

[Ref.: #67770]	Sample type/isolated from	Rhizosphere of rusty mountain ginseng root located on Hwacheon mountain of Gangwon Province
[Ref.: #67770]	Country	Republic of Korea
[Ref.: #67770]	Country ISO 3 Code	KOR
[Ref.: #67770]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Host	#Plants	#Herbaceous plants (Grass,Crops)
#Host Body-Site	#Plant	#Rhizosphere
#Host Body-Site	#Plant	#Root (Rhizome)

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KT191026 (>99% sequence identity) for Phenylobacterium from Microbeatlas

Aquatic Samples	600
Soil Samples	261
Animal Samples	228
Plant Samples	43
Total Samples	1132

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.: #43618]	16S rRNA gene sequence	KT191026		GenBank

[Ref.: #43618]

GC-content

66.9 mol%

high performance liquid chromatography (HPLC)

Availability in culture collections External links

[Ref.: #43618]

Culture collection no.

KCTC 42749, JCM 31045, DCY 109

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Phenylobacterium terrae sp. nov., isolated from a soil sample of Khyber-Pakhtun-Khwa, Pakistan.	Khan IU, Habib N, Xiao M, Huang X, Khan NU, Im WT, Ahmed I, Zhi XY, Li WJ	Antonie Van Leeuwenhoek	10.1007/s10482-018-1064-2	2018	*
Phylogeny	Phenylobacterium panacis sp. nov., isolated from the rhizosphere of rusty mountain ginseng.	Farh ME, Kim YJ, Singh P, Hoang VA, Yang DC	Int J Syst Evol Microbiol	10.1099/ijsem.0.001109	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 )

#43618

Mohamed El-Agamy Farh, Yeon-Ju Kim, Priyanka Singh, Van-An Hoang, Deok-Chun Yang: Phenylobacterium panacis sp. nov., isolated from the rhizosphere of rusty mountain ginseng. IJSEM 66: 2691 - 2696 2016 ( DOI 10.1099/ijsem.0.001109 , PubMed 27117296 )

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

#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 .

* These data were automatically processed and therefore are not curated

Change proposal

You found an error in BacDive? Please tell us about it!

Note that changes will be reviewed and judged. If your changes are legitimate, changes will occur within the next BacDive update. Only proposed changes supported by the according reference will be reviewed. The BacDive team reserves the right to reject proposed changes.

Search for species Phenylobacterium panacis in external resources:
SILVA
BRENDA
PANGAEA
StrainInfo
GBIF