Name: Pinisolibacter ravus E9
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 158823

Type strain:

Species: Pinisolibacter ravus

Strain Designation: E9

Culture col. no.: KEMB 9005-534, KACC 19120, NBRC 112686

NCBI tax ID(s): 2172023 (species)

Section

Pinisolibacter ravus E9 is a facultative anaerobe, Gram-negative, rod-shaped bacterium that forms circular colonies and was isolated from pine forest soil.

colony-forming
Gram-negative
rod-shaped
facultative anaerobe
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	*Hyphomicrobiales*
	Family	*Ancalomicrobiaceae*
	Genus	*Pinisolibacter*
	Species	**Pinisolibacter ravus**
	Full Scientific Name (LPSN)	Pinisolibacter ravus Dahal et al. 2018

Information on morphological and physiological properties Morphology

[Ref.: #65587]	Gram stain	negative

[Ref.: #65587]	Cell length	2.4-3.6 µm

[Ref.: #65587]	Cell width	0.9-1.8 µm

[Ref.: #65587]	Cell shape	rod-shaped

[Ref.: #65587]	Motility	no

[Ref.: #65587]	Colony size	1-2 mm
[Ref.: #65587]	Colony color	straw
[Ref.: #65587]	Colony shape	circular
[Ref.: #65587]	Incubation period	4 days
[Ref.: #65587]	Cultivation medium used	R2A

[Ref.: #65587]	Pigment production	no
[Ref.: #65587]	Pigment name	flexirubin type
[Ref.: #65587]	Pigment production	no
[Ref.: #65587]	Pigment name	carotenoid type

Information on culture and growth conditions Culture and growth conditions

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Culture medium

veal infusion

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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

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Culture medium

Nutrient agar (NA)

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Culture medium growth

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Culture medium

Marine agar (MA)

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Culture medium growth

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Culture medium

LBA

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Culture medium growth

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Culture medium

BHI

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Culture medium growth

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Culture medium

PDA

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Culture medium growth

	Temperatures	Kind of temperature		Temperature
[Ref.: #65587]			growth	15-45 °C
[Ref.: #65587]			optimum	28-32 °C

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Temperature range

mesophilic

	pH	Kind of pH		pH
[Ref.: #65587]			optimum	6.5-8.5
[Ref.: #65587]			growth	5.0-10.0

Information on physiology and metabolism Physiology and metabolism

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Oxygen tolerance

facultative anaerobe

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Ability of spore formation

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Halophily / tolerance level

non-halophilic

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #65587]		NaCl		growth	0-0.2	%
[Ref.: #65587]		NaCl		optimum	0	%

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Observation

prosthecae

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #65587]	2-dehydro-D-gluconate ChEBI	-	assimilation
[Ref.: #65587]	3-hydroxybenzoate ChEBI	-	assimilation
[Ref.: #65587]	3-hydroxybutyrate ChEBI	+	assimilation
[Ref.: #65587]	4-hydroxybenzoate ChEBI	-	assimilation
[Ref.: #65587]	5-dehydro-D-gluconate ChEBI	-	assimilation
[Ref.: #65587]	adipate ChEBI	-	assimilation
[Ref.: #65587]	carboxymethylcellulose ChEBI	-	hydrolysis
[Ref.: #65587]	casein	-	hydrolysis
[Ref.: #65587]	chitin ChEBI	-	hydrolysis
[Ref.: #65587]	D-glucose ChEBI	+	assimilation
[Ref.: #65587]	D-mannitol ChEBI	-	assimilation
[Ref.: #65587]	D-mannose ChEBI	-	assimilation
[Ref.: #65587]	D-ribose ChEBI	-	assimilation
[Ref.: #65587]	D-sorbitol ChEBI	-	assimilation
[Ref.: #65587]	decanoate ChEBI	-	assimilation
[Ref.: #65587]	dna ChEBI	-	hydrolysis
[Ref.: #65587]	esculin ferric citrate	+	hydrolysis
[Ref.: #65587]	gelatin ChEBI	-	hydrolysis
[Ref.: #65587]	glucose ChEBI	+	fermentation
[Ref.: #65587]	glycogen ChEBI	-	assimilation
[Ref.: #65587]	hypoxanthine ChEBI	-	hydrolysis
[Ref.: #65587]	L-alanine ChEBI	-	assimilation
[Ref.: #65587]	L-arabinose ChEBI	-	assimilation
[Ref.: #65587]	L-arabinose ChEBI	+	assimilation
[Ref.: #65587]	L-fucose ChEBI	-	assimilation
[Ref.: #65587]	L-proline ChEBI	+	assimilation
[Ref.: #65587]	L-rhamnose ChEBI	-	assimilation
[Ref.: #65587]	lactate ChEBI	-	assimilation
[Ref.: #65587]	malate ChEBI	-	assimilation
[Ref.: #65587]	maltose ChEBI	-	assimilation
[Ref.: #65587]	melibiose ChEBI	-	assimilation
[Ref.: #65587]	myo-inositol ChEBI	-	assimilation
[Ref.: #65587]	N-acetylglucosamine ChEBI	-	assimilation
[Ref.: #65587]	nitrate ChEBI	-	reduction
[Ref.: #65587]	salicin ChEBI	-	assimilation
[Ref.: #65587]	sodium acetate ChEBI	-	assimilation
[Ref.: #65587]	sodium citrate ChEBI	-	assimilation
[Ref.: #65587]	starch ChEBI	-	hydrolysis
[Ref.: #65587]	sucrose ChEBI	+	assimilation
[Ref.: #65587]	tryptophan ChEBI	-	energy source
[Ref.: #65587]	tween 40 ChEBI	-	hydrolysis
[Ref.: #65587]	tween 60 ChEBI	-	hydrolysis
[Ref.: #65587]	tween 80 ChEBI	-	hydrolysis
[Ref.: #65587]	tyrosine ChEBI	-	hydrolysis
[Ref.: #65587]	valerate ChEBI	+	assimilation
[Ref.: #65587]	xanthine ChEBI	-	hydrolysis
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Production
[Ref.: #65587]	acetoin ChEBI	no
[Ref.: #65587]	hydrogen sulfide ChEBI	no
[Ref.: #65587]	indole ChEBI	no

	Physiological tests	Metabolite	Voges-Proskauer-test	Indole test
[Ref.: #65587]		acetoin ChEBI	-
[Ref.: #65587]		indole ChEBI		-

	Enzyme	Enzyme activity	EC number
[Ref.: #65587]	acid phosphatase	+	3.1.3.2
[Ref.: #65587]	alkaline phosphatase	+	3.1.3.1
[Ref.: #65587]	alpha-chymotrypsin	-	3.4.21.1
[Ref.: #65587]	alpha-fucosidase	-	3.2.1.51
[Ref.: #65587]	alpha-galactosidase	-	3.2.1.22
[Ref.: #65587]	alpha-glucosidase	+	3.2.1.20
[Ref.: #65587]	alpha-mannosidase	-	3.2.1.24
[Ref.: #65587]	beta-galactosidase	-	3.2.1.23
[Ref.: #65587]	beta-glucosidase	+	3.2.1.21
[Ref.: #65587]	beta-glucuronidase	-	3.2.1.31
[Ref.: #65587]	catalase	-	1.11.1.6
[Ref.: #65587]	cystine arylamidase	+/-	3.4.11.3
[Ref.: #65587]	cytochrome oxidase	+	1.9.3.1
[Ref.: #65587]	esterase (C 4)	+/-
[Ref.: #65587]	esterase Lipase (C 8)	+
[Ref.: #65587]	leucine arylamidase	+	3.4.11.1
[Ref.: #65587]	lipase (C 14)	-
[Ref.: #65587]	N-acetyl-beta-glucosaminidase	-	3.2.1.52
[Ref.: #65587]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #65587]	trypsin	+	3.4.21.4
[Ref.: #65587]	tryptophan deaminase	-	4.1.99.1
[Ref.: #65587]	urease	+	3.5.1.5
[Ref.: #65587]	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	52.3
C16:1ω7c / C16:1ω6c	25.4
C16:0	11.5
C12:0 aldehyde / unknown 10.928	5.5
C18:0	2
C18:0 3OH	1
C20:1ω7c	0.9
C14:0	0.7
C19:1ω6c / C19:0 cyclo	0.4
C20:0	0.3

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

[Ref.: #65587]	Sample type/isolated from	pine forest soil
[Ref.: #65587]	Geographic location (country and/or sea, region)	Kyonggi University, Suwon, Gyeonggi-Do
[Ref.: #65587]	Country	Republic of Korea
[Ref.: #65587]	Country ISO 3 Code	KOR
[Ref.: #65587]	Continent	Asia
[Ref.: #65587]	Enrichment culture	R2A
[Ref.: #65587]	Enrichment culture duration	14 days
[Ref.: #65587]	Enrichment culture temperature	28 ̊C
[Ref.: #65587]	Isolation/enrichment procedure	six-transwell plates with 3 ml R2A broth and 3 g sample of sieved soil. 1 ml of a soil suspension (1g of soil in 9 ml R2A broth) was added.
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Forest
#Environmental	#Terrestrial	#Soil
#Host	#Plants	#Tree

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KY087994 (>99% sequence identity) for Pinisolibacter ravus subclade from Microbeatlas

Aquatic Samples	4656
Soil Samples	839
Animal Samples	875
Plant Samples	963
Total Samples	7333

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.: #65587]	16S rRNA gene sequence	KY087994		GenBank

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GC-content

68.4 mol%

high performance liquid chromatography (HPLC)

Availability in culture collections External links

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Culture collection no.

KEMB 9005-534, KACC 19120, NBRC 112686

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Pinisolibacter ravus gen. nov., sp. nov., isolated from pine forest soil and allocation of the genera Ancalomicrobium and Pinisolibacter to the family Ancalomicrobiaceae fam. nov., and emendation of the genus Ancalomicrobium Staley 1968.	Dahal RH, Chaudhary DK, Kim J	Int J Syst Evol Microbiol	10.1099/ijsem.0.002772	2018	*

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 )

#65587

Ram Hari Dahal, Dhiraj Kumar Chaudhary and Jaisoo Kim: Pinisolibacter ravus gen. nov., sp. nov., isolated from pine forest soil and allocation of the genera Ancalomicrobium and Pinisolibacter to the family Ancalomicrobiaceae fam. nov., and emendation of the genus Ancalomicrobium Staley 1968. IJSEM 68: 1955 - 1962 2018 ( DOI 10.1099/ijsem.0.002772 , PubMed 29683414 )

#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

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