Arenimonas terrae (KACC 19896, JCM 33216, R29)

Name: Arenimonas terrae (KACC 19896, JCM 33216, R29)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 164486

Type strain

Strain Designation R29

Culture col. no. KACC 19896 JCM 33216 R29

NCBI tax ID(s) 2546226

Special Collections JCM Literature strains

Links

Arenimonas terrae R29 is an obligate aerobe, mesophilic, Gram-negative prokaryote that forms circular colonies and was isolated from Orchard soil in Hwasun.

Gram-negative rod-shaped colony-forming obligate aerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 133560

JCM 33216

@ref 20215

Last LPSN update 2025-12-16 10:09:28

Domain Pseudomonadati

Phylum Pseudomonadota

Class Gammaproteobacteria

Order Lysobacterales

Family Lysobacteraceae

Genus Arenimonas

Species Arenimonas terrae

Full scientific name Arenimonas terrae Han et al. 2020

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Confidence
125439	negative				95.1
125438	negative				97.994
69518	negative	0.8-1.6 µm	0.3-0.4 µm	rod-shaped

Colony morphology

@ref	Colony color	Colony shape	Incubation period	Medium used
69518	yellowish	circular	3 days	R2A MEDIUM (DSMZ Medium 830)

Culture and growth conditions

Culture medium

@ref	Name	Growth
69518	R2A MEDIUM (DSMZ Medium 830)
69518	LB (Luria-Bertani) MEDIUM
69518	Marine agar (MA)

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
67770	positive	growth	30	mesophilic
69518	positive	growth	15.0-40.0
69518	positive	optimum	30	mesophilic

Culture pH

@ref	Ability	Type	PH
69518	positive	growth	7.0-9.0

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
69518	obligate aerobe
125439	obligate aerobe	99.7

Spore formation

@ref	Spore formation	Confidence
125439		93.7
125438		91.783

Halophily

@ref	Salt	Growth	Tested relation	Concentration
69518	NaCl		growth	0.5 %(w/v)

Observation

67770

Observationquinones: Q-8

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
69518	17128 ChEBI	adipate	-	assimilation
69518		casein	+	hydrolysis
69518	17634 ChEBI	D-glucose	-	assimilation
69518	16899 ChEBI	D-mannitol	-	assimilation
69518	16024 ChEBI	D-mannose	-	assimilation
69518	18262 ChEBI	dodecanoate	-	assimilation
69518	4853 ChEBI	esculin	-	hydrolysis
69518	5291 ChEBI	gelatin	+	hydrolysis
69518	17234 ChEBI	glucose	-	fermentation
69518	30849 ChEBI	L-arabinose	-	assimilation
69518	25115 ChEBI	malate	-	assimilation
69518	17306 ChEBI	maltose	-	assimilation
69518	506227 ChEBI	N-acetylglucosamine	-	assimilation
69518	17632 ChEBI	nitrate	-	reduction
69518	18401 ChEBI	phenylacetate	-	assimilation
69518	32032 ChEBI	potassium gluconate	-	assimilation
69518	53258 ChEBI	sodium citrate	-	assimilation
69518	28017 ChEBI	starch	-	hydrolysis
69518	53424 ChEBI	tween 20	-	hydrolysis
69518	53426 ChEBI	tween 80	-	hydrolysis
69518	18186 ChEBI	tyrosine	+	hydrolysis

Metabolite production

@ref	Chebi-ID	Metabolite	Production
69518	35581 ChEBI	indole

Enzymes

@ref	Value	Activity	Ec
69518	acid phosphatase	+	3.1.3.2
69518	alkaline phosphatase	+	3.1.3.1
69518	alpha-chymotrypsin	+	3.4.21.1
69518	alpha-fucosidase	-	3.2.1.51
69518	alpha-galactosidase	+	3.2.1.22
69518	alpha-glucosidase	-	3.2.1.20
69518	alpha-mannosidase	-	3.2.1.24
69518	arginine dihydrolase	+	3.5.3.6
69518	beta-galactosidase	-	3.2.1.23
69518	beta-glucosidase	-	3.2.1.21
69518	beta-glucuronidase	-	3.2.1.31
69518	catalase	+	1.11.1.6
69518	cystine arylamidase	+	3.4.11.3
69518	cytochrome oxidase	+	1.9.3.1
69518	esterase (C 4)	+
69518	esterase Lipase (C 8)	+
69518	leucine arylamidase	+	3.4.11.1
69518	lipase (C 14)	+
69518	N-acetyl-beta-glucosaminidase	-	3.2.1.52
69518	naphthol-AS-BI-phosphohydrolase	+
69518	trypsin	+	3.4.21.4
69518	urease	+	3.5.1.5
69518	valine arylamidase	-

Fatty acid profile

Metadata FA analysis

@ref

69518

Fatty acid	Percentage
iso-C15:0	37.7
iso-C16:0	20
C18:1 w7c / C18:1 w6c	9.3
iso-C11:0 3-OH	5
iso-C14:0	4.9
C16:0	4.5
iso-C17:0	2.6
C16:1 w7c / C16:1 w6c	2.6
iso-C11:0	2.2
iso-C15:0F	1.8
iso-C15:1 H / C13:0 3OH	1.8
C18:0	1.3
anteiso-C15:0	1.2

Isolation, sampling and environmental information

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Latitude	Longitude	Enrichment culture	Enrichment culture duration	Enrichment culture temperature	Isolation procedure
67770	Orchard soil in Hwasun		Republic of Korea	KOR	Asia
69518	orchard soil sample	Hwasun	Republic of Korea	KOR	Asia	34.999	126.962 34.999/126.962	R2A	3 days	30	serial dilution using phospate buffered saline(137 mM NaCl, 2.7 mM KCl, 10 mM Na2HPO4, 2 mM KH2PO4, pH 7.2)

Taxonmaps

69479

Global distribution of 16S sequence MK397782 (>99% sequence identity) for Arenimonas from Microbeatlas

Aquatic Samples	235
Soil Samples	900
Animal Samples	133
Plant Samples	48
Total Samples	1316

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	ASM626511v1 assembly for Arenimonas terrae R29	scaffold	GCA_006265115	2546226.3	2893029610	2546226	77.31

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
67770	Arenimonas terrae 16S ribosomal RNA gene, partial sequence	MK397782	1462		2546226

GC content

@ref	GC-content (mol%)	Method
67770	64.9	genome sequence analysis
69518	69.8	genome sequence analysis

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Arenimonas terrae R29
NCBI: GCA_006265115

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	93.70	no
125439	motility	BacteriaNetⓘ	yes	78.80	no
125439	gram_stain	BacteriaNetⓘ	negative	95.10	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	99.70	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Arenimonas terrae R29
NCBI: GCA_006265115.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	97.99	no
125438	anaerobic	anaerobicⓘ	no	91.75	no
125438	aerobic	aerobicⓘ	yes	82.46	yes
125438	spore-forming	spore-formingⓘ	no	91.78	no
125438	thermophilic	thermophileⓘ	no	93.21	yes
125438	flagellated	motile2+ⓘ	no	54.87	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Arenimonas terrae sp. nov., isolated from orchard soil.	Han DM, Chun BH, Kim HM, Khan SA, Jeon CO	Int J Syst Evol Microbiol	10.1099/ijsem.0.003785	2020

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 )
#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 .
#69518	Dong Min Han, Byung Hee Chun, Hyung Min Kim, Shehzad Abid Khan, Che Ok Jeon: Arenimonas terrae sp. nov., isolated from orchard soil. IJSEM 70: 2020 ( DOI 10.1099/ijsem.0.003785 )
#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 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Arenimonas terrae (KACC 19896, JCM 33216, R29)

Name and taxonomic classification