Name: Ramlibacter monticola G-3-2
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 141113

Type strain:

Species: Ramlibacter monticola

Strain Designation: G-3-2

Culture col. no.: KEMB 9005-573, KACC 19175, JCM 31918

Strain history: J. Kim; Kyonggi Univ., South Korea; G-3-2.

NCBI tax ID(s): 1926872 (species)

Section

Ramlibacter monticola G-3-2 is an aerobe, Gram-negative, rod-shaped bacterium that forms circular colonies and was isolated from forest soil from a low-altitude mountain.

colony-forming
Gram-negative
rod-shaped
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	*Betaproteobacteria*
	Order	*Burkholderiales*
	Family	*Comamonadaceae*
	Genus	*Ramlibacter*
	Species	**Ramlibacter monticola**
	Full Scientific Name (LPSN)	Ramlibacter monticola Chaudhary and Kim 2017

Information on morphological and physiological properties Morphology

[Ref.: #44021]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.998

[Ref.: #44021]	Cell shape	rod-shaped
[Ref.: #44021]	Cell shape	coccus-shaped

[Ref.: #44021]	Motility	no

[Ref.: #44021]	Colony size	0.2-0.5 mm
[Ref.: #44021]	Colony color	light brown
[Ref.: #44021]	Colony shape	circular
[Ref.: #44021]	Incubation period	5 days
[Ref.: #44021]	Cultivation medium used	R2A agar

Information on culture and growth conditions Culture and growth conditions

[Ref.: #44021]

Culture medium

Reasoners 2A agar

[Ref.: #44021]

Culture medium growth

[Ref.: #44021]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #44021]	growth	15-37 °C
[Ref.: #44021]	optimum	20-32 °C
[Ref.: #67770]	growth	30 °C

[Ref.: #67770]

Temperature range

mesophilic

	pH	Kind of pH		pH
[Ref.: #44021]			optimum	6.5-8.0
[Ref.: #44021]			growth	5.5-10.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #44021]

Oxygen tolerance

aerobe

[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.998

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #44021]		NaCl		growth	0.5	%

[Ref.: #44021]	Observation	polyhydroxyalkanoate granules are found in the cytoplasm of the cell
[Ref.: #44021]	Observation	cells grow only on R2A; and do not grow on NA, MA, TSA, LB agar, BHI agar and marine agar
[Ref.: #44021]	Observation	Q-8 is the only respiratory quinone

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #44021]	3-hydroxybenzoate ChEBI	-	assimilation
[Ref.: #44021]	3-hydroxybutyrate ChEBI	-	assimilation
[Ref.: #44021]	4-hydroxybenzoate ChEBI	-	assimilation
[Ref.: #44021]	adipate ChEBI	-	assimilation
[Ref.: #44021]	casein	-	hydrolysis
[Ref.: #44021]	chitin ChEBI	-	hydrolysis
[Ref.: #44021]	D-glucose ChEBI	-	assimilation
[Ref.: #44021]	D-mannitol ChEBI	-	assimilation
[Ref.: #44021]	D-mannose ChEBI	-	assimilation
[Ref.: #44021]	D-ribose ChEBI	-	assimilation
[Ref.: #44021]	D-sorbitol ChEBI	-	assimilation
[Ref.: #44021]	decanoate ChEBI	-	assimilation
[Ref.: #44021]	dna ChEBI	-	hydrolysis
[Ref.: #44021]	esculin ChEBI	+	hydrolysis
[Ref.: #44021]	esculin ferric citrate	+	hydrolysis
[Ref.: #44021]	gelatin ChEBI	-	hydrolysis
[Ref.: #44021]	glucose ChEBI	-	fermentation
[Ref.: #44021]	glycogen ChEBI	-	assimilation
[Ref.: #44021]	itaconate ChEBI	-	assimilation
[Ref.: #44021]	L-alanine ChEBI	-	assimilation
[Ref.: #44021]	L-arabinose ChEBI	-	assimilation
[Ref.: #44021]	L-fucose ChEBI	-	assimilation
[Ref.: #44021]	L-histidine ChEBI	-	assimilation
[Ref.: #44021]	L-proline ChEBI	-	assimilation
[Ref.: #44021]	L-rhamnose ChEBI	-	assimilation
[Ref.: #44021]	L-serine ChEBI	-	assimilation
[Ref.: #44021]	lactate ChEBI	-	assimilation
[Ref.: #44021]	malate ChEBI	-	assimilation
[Ref.: #44021]	maltose ChEBI	-	assimilation
[Ref.: #44021]	melibiose ChEBI	-	assimilation
[Ref.: #44021]	myo-inositol ChEBI	-	assimilation
[Ref.: #44021]	N-acetylglucosamine ChEBI	-	assimilation
[Ref.: #44021]	nitrate ChEBI	-	reduction
[Ref.: #44021]	phenylacetate ChEBI	-	assimilation
[Ref.: #44021]	potassium 2-dehydro-D-gluconate	-	assimilation
[Ref.: #44021]	potassium 5-dehydro-D-gluconate	-	assimilation
[Ref.: #44021]	potassium gluconate ChEBI	-	assimilation
[Ref.: #44021]	propionate ChEBI	-	assimilation
[Ref.: #44021]	salicin ChEBI	-	assimilation
[Ref.: #44021]	sodium acetate ChEBI	-	assimilation
[Ref.: #44021]	sodium citrate ChEBI	-	assimilation
[Ref.: #44021]	sodium malonate ChEBI	-	assimilation
[Ref.: #44021]	starch ChEBI	-	hydrolysis
[Ref.: #44021]	suberic acid ChEBI	-	assimilation
[Ref.: #44021]	sucrose ChEBI	-	assimilation
[Ref.: #44021]	tween 40 ChEBI	-	hydrolysis
[Ref.: #44021]	tween 80 ChEBI	-	hydrolysis
[Ref.: #44021]	tyrosine ChEBI	-	hydrolysis
[Ref.: #44021]	valerate ChEBI	-	assimilation
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Production
[Ref.: #44021]	indole ChEBI	no
[Ref.: #44021]	L-tryptophan ChEBI	no
[Ref.: #44021]	sulfide ChEBI	no
[Ref.: #44021]	urea ChEBI	yes

	Enzyme	Enzyme activity	EC number
[Ref.: #44021]	acid phosphatase	+	3.1.3.2
[Ref.: #44021]	alkaline phosphatase	+	3.1.3.1
[Ref.: #44021]	alpha-chymotrypsin	-	3.4.21.1
[Ref.: #44021]	alpha-fucosidase	-	3.2.1.51
[Ref.: #44021]	alpha-galactosidase	-	3.2.1.22
[Ref.: #44021]	alpha-glucosidase	-	3.2.1.20
[Ref.: #44021]	alpha-mannosidase	-	3.2.1.24
[Ref.: #44021]	beta-galactosidase	-	3.2.1.23
[Ref.: #44021]	beta-glucosidase	-	3.2.1.21
[Ref.: #44021]	beta-glucuronidase	-	3.2.1.31
[Ref.: #44021]	catalase	+	1.11.1.6
[Ref.: #44021]	cystine arylamidase	-	3.4.11.3
[Ref.: #44021]	cytochrome oxidase	-	1.9.3.1
[Ref.: #44021]	esterase (C 4)	-
[Ref.: #44021]	esterase Lipase (C 8)	+
[Ref.: #44021]	leucine arylamidase	+	3.4.11.1
[Ref.: #44021]	lipase (C 14)	-
[Ref.: #44021]	N-acetyl-beta-glucosaminidase	-	3.2.1.52
[Ref.: #44021]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #44021]	trypsin	-	3.4.21.4
[Ref.: #44021]	valine arylamidase	+
	Only first 10 entries are displayed. Click here to see all.

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #44021]

Fatty acid	Percentage
C16:0	28.1
C16:1ω7c and/or C16:1ω6c	22.5
C17:0cyclo	19.2
C18:1ω7c and/or C18:1ω6c	14.2
C10:0 3OH	4.7
C14:0	3.8
C12:0	2.9
C17:0	1.1
C16:0iso	0.9
C15:1ω6c	0.8
C18:0	0.6
C10:0	0.6
C19:0cycloω8c	0.6
C14:1ω5c	0.5

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

[Ref.: #44021]	Sample type/isolated from	forest soil from a low-altitude mountain
[Ref.: #44021]	Geographic location (country and/or sea, region)	Suwon
[Ref.: #44021]	Country	Republic of Korea
[Ref.: #44021]	Country ISO 3 Code	KOR
[Ref.: #44021]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Forest soil of a low-altitude mountain in Suwon
[Ref.: #67770]	Country	Republic of Korea
[Ref.: #67770]	Country ISO 3 Code	KOR
[Ref.: #67770]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Forest
#Environmental	#Terrestrial	#Soil

What are isolation sources categories?

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.: #44021]	16S rRNA gene sequence	KY313410		GenBank

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Ramlibacter monticola KACC 19175	GCA_016722785	scaffold	GenBank	1926872 tax ID	*
[Ref.: #66792]	Ramlibacter monticola strain KACC 19175	1926872.3	wgs	PATRIC	1926872 tax ID	*

[Ref.: #44021]

GC-content

68.9 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: Ramlibacter monticola KACC 19175 NCBI: GCA_016722785.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Ramlibacter monticola KACC 19175 NCBI: GCA_016722785.1
[Ref.: #69480]	flagellated	no	87.538	yes
[Ref.: #69480]	gram-positive	no	98.379	yes
[Ref.: #69480]	anaerobic	no	97.871	yes
[Ref.: #69480]	aerobic	yes	83.017	no
[Ref.: #69480]	halophile	no	96.082	yes
[Ref.: #69480]	spore-forming	no	94.081	no
[Ref.: #69480]	thermophile	no	97.89	yes
[Ref.: #69480]	glucose-util	no	80.411	yes
[Ref.: #69480]	motile	yes	62.208	no
[Ref.: #69480]	glucose-ferment	no	87.772	no

Availability in culture collections External links

[Ref.: #44021]

Culture collection no.

KEMB 9005-573, KACC 19175, JCM 31918

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Ramlibacter monticola sp. nov., isolated from forest soil.	Chaudhary DK, Kim J	Int J Syst Evol Microbiol	10.1099/ijsem.0.002314	2017	*
Phylogeny	Genome mining revealed polyhydroxybutyrate biosynthesis by Ramlibacter agri sp. nov., isolated from agriculture soil in Korea.	Dahal RH, Kim J, Chaudhary DK, Le TTN, Kim DU, Jang H, Kim J	Antonie Van Leeuwenhoek	10.1007/s10482-022-01721-z	2022	*
Phylogeny	Ramlibacter terrae sp. nov. and Ramlibacter montanisoli sp. nov., Isolated from Soil.	Khan SA, Kim HM, Baek JH, Jung HS, Jeon CO	J Microbiol Biotechnol	10.4014/jmb.2105.05023	2021	*

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 )

#44021

Dhiraj Kumar Chaudhary, Jaisoo Kim: Ramlibacter monticola sp. nov., isolated from forest soil. IJSEM 67: 4468 - 4474 2017 ( DOI 10.1099/ijsem.0.002314 , PubMed 28950933 )

#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) .

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

#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 )

* These data were automatically processed and therefore are not curated

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Ramlibacter monticola KACC 19175

Ramlibacter monticola KACC 19175

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