Aeromicrobium ginsengisoli (DSM 22238, JCM 14732, KCTC 19207)

Name: Aeromicrobium ginsengisoli (DSM 22238, JCM 14732, KCTC 19207)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 11062

Type strain

Culture col. no. DSM 22238 JCM 14732 KCTC 19207 GBS 39 Gsoil 098

NCBI tax ID(s) 363867

Special Collections DSMZ JCM KCTC Literature strains

History DSMZ <- JCM/RIKEN <- D.-C. Yang; Gsoil 098 JCM <-- D.-C. Yang Gsoil 098. KCTC <- MK Kim, Kyunghee Uni.

Links

Aeromicrobium ginsengisoli DSM 22238 is an aerobe, Gram-positive, coccus-shaped bacterium that was isolated from soil of a ginseng field.

Gram-positive coccus-shaped aerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 291516

DSM 22238,LMG 23605,JCM 14732,KCTC 19207

@ref 20215

Last LPSN update 2026-05-29 08:27:28

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Propionibacteriales

Family Nocardioidaceae

Genus Aeromicrobium

Species Aeromicrobium ginsengisoli

Full scientific name Aeromicrobium ginsengisoli Kim et al. 2008

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Confidence
32044	positive	0.5-1.2 µm	0.3-0.4 µm	coccus-shaped
67771	positive
125438	positive				90.284
125438					90.5

Pigmentation

32044

Productionyes

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
16219	R2A MEDIUM (DSMZ Medium 830)	Medium recipe at MediaDive	Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water
16219	TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)	Medium recipe at MediaDive	Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water
16219	TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)	Medium recipe at MediaDive	Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
16219	positive	growth	28
32044	positive	growth	04-30
32044	positive	optimum	30
67770	positive	growth	28
67771	positive	growth	30

Culture pH

@ref	Ability	Type	PH	PH range
32044	positive	optimum	7
32044	positive	growth	5-8.5	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
32044	aerobe
67771	aerobe
125439	obligate aerobe	99.404

Spore formation

@ref	Spore formation	Confidence
125439		98.081

Halophily

@ref	Salt	Growth	Tested relation	Concentration
32044	NaCl	positive	growth	03-04 %
32044	NaCl	positive	optimum	3 %

Observation

@ref	Observation
32044	aggregates in chains
67770	quinones: MK-9(H₄)

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
32044	37054 ChEBI	3-hydroxybutyrate	+	carbon source
32044	30089 ChEBI	acetate	+	carbon source
32044	16449 ChEBI	alanine	+	carbon source
32044	22599 ChEBI	arabinose	+	carbon source
32044	22653 ChEBI	asparagine	+	carbon source
32044	17057 ChEBI	cellobiose	+	carbon source
32044	16296 ChEBI	D-tryptophan	+	carbon source
32044	16236 ChEBI	ethanol	+	carbon source
32044	28757 ChEBI	fructose	+	carbon source
32044	33984 ChEBI	fucose	+	carbon source
32044	28260 ChEBI	galactose	+	carbon source
32044	24265 ChEBI	gluconate	+	carbon source
32044	17234 ChEBI	glucose	+	carbon source
32044	29987 ChEBI	glutamate	+	carbon source
32044	17754 ChEBI	glycerol	+	carbon source
32044	17716 ChEBI	lactose	+	carbon source
32044	25017 ChEBI	leucine	+	carbon source
32044	25115 ChEBI	malate	+	carbon source
32044	17306 ChEBI	maltose	+	carbon source
32044	37684 ChEBI	mannose	+	carbon source
32044	506227 ChEBI	N-acetylglucosamine	+	carbon source
32044	17632 ChEBI	nitrate	+	reduction
32044	28044 ChEBI	phenylalanine	+	carbon source
32044	26271 ChEBI	proline	+	carbon source
32044	17272 ChEBI	propionate	+	carbon source
32044	15361 ChEBI	pyruvate	+	carbon source
32044	26546 ChEBI	rhamnose	+	carbon source
32044	17822 ChEBI	serine	+	carbon source
32044	30031 ChEBI	succinate	+	carbon source
32044	17992 ChEBI	sucrose	+	carbon source
32044	27082 ChEBI	trehalose	+	carbon source
32044	31011 ChEBI	valerate	+	carbon source
32044	18222 ChEBI	xylose	+	carbon source

Enzymes

@ref	Value	Activity	Ec
32044	cytochrome oxidase	+	1.9.3.1

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Agriculture	#Field
#Environmental	#Terrestrial	#Soil
#Host	#Plants	#Herbaceous plants (Grass,Crops)

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
16219	soil of a ginseng field	Daejeon	Republic of Korea	KOR	Asia
67770	Soil of a ginseng field	Daejeon	Republic of Korea	KOR	Asia
67771	From soil of ginseng field		Republic of Korea	KOR	Asia

Taxonmaps

69479

Global distribution of 16S sequence AB245394 (>99% sequence identity) for Aeromicrobium from Microbeatlas

Aquatic Samples	148
Soil Samples	1209
Animal Samples	459
Plant Samples	230
Total Samples	2046

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
16219	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	ASM413490v2 assembly for Aeromicrobium ginsengisoli JCM 14732	contig	GCA_004134905	363867.3	2866597551	363867	76.97

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
16219	Aeromicrobium ginsengisoli gene for 16S rRNA, partial sequence, strain: Gsoil 098	AB245394	1483		363867

GC content

@ref	GC-content (mol%)	Method
16219	66.8	high performance liquid chromatography (HPLC)
32044	66.8

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM413490v2 assembly for Aeromicrobium ginsengisoli JCM 14732
NCBI: GCA_004134905

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	99.40	no
125439	gram_stain	BacteriaNetⓘ	positive	61.32	no
125439	motility	BacteriaNetⓘ	yes	59.36	no
125439	spore_formation	BacteriaNetⓘ	no	98.08	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Aeromicrobium ginsengisoli strain JCM 14732
PATRIC: 363867.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	90.28	yes
125438	anaerobic	anaerobicⓘ	no	97.23	no
125438	spore-forming	spore-formingⓘ	no	55.91	no
125438	aerobic	aerobicⓘ	yes	89.14	yes
125438	thermophilic	thermophileⓘ	no	95.90	yes
125438	flagellated	motile2+ⓘ	no	90.50	yes

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Diversity of Culturable Bacteria Isolated from Highland Barley Cultivation Soil in Qamdo, Tibet Autonomous Region.	Pan HU, Zhou J, Dawa Z, Dai Y, Zhang Y, Yang H, Wang C, Liu H, Zhou H, Lu X, Tian Y.	Pol J Microbiol	10.33073/pjm-2021-008	2021
	The Influence of Long-Term Storage on the Epiphytic Microbiome of Postharvest Apples and on Penicillium expansum Occurrence and Patulin Accumulation.	Al Riachy R, Strub C, Durand N, Chochois V, Lopez-Lauri F, Fontana A, Schorr-Galindo S.	Toxins (Basel)	10.3390/toxins16020102	2024
Metabolism	Cultivation-independent detection of autotrophic hydrogen-oxidizing bacteria by DNA stable-isotope probing.	Pumphrey GM, Ranchou-Peyruse A, Spain JC.	Appl Environ Microbiol	10.1128/aem.00285-11	2011
	Taxonomic descriptions of Aeromicrobium duanguangcaii sp. nov., Aeromicrobium wangtongii sp. nov. and Aeromicrobium senzhongii sp. nov.	Ye L, Zhang G, Yang J, Yang C, Liu Y, Pu J, Huang Y, Zhang S, Jin D, Lu S, Liu L, Xu J.	Int J Syst Evol Microbiol	10.1099/ijsem.0.006118	2023
Phylogeny	Aeromicrobium chenweiae sp. nov. and Aeromicrobium yanjiei sp. nov., isolated from Tibetan antelope (Pantholops hodgsonii) and plateau pika (Ochotona curzoniae), respectively.	Li J, Lei W, Yang J, Lu S, Jin D, Lai XH, Zhang S, Cheng Y, Mi F, Huang Y, Pu J, Dong K, Tian Z, Wu X, Huang Y, Wang S, Xu J	Int J Syst Evol Microbiol	10.1099/ijsem.0.004331	2020
Phylogeny	Aeromicrobium panacisoli sp. nov. Isolated from Soil of Ginseng Cultivating Field.	Siddiqi MZ, Lee SY, Choi KD, Im WT	Curr Microbiol	10.1007/s00284-017-1426-4	2017
Phylogeny	Aeromicrobium camelliae sp. nov., isolated from Pu'er tea.	Niu L, Xiong M, Tang T, Song L, Hu X, Zhao M, Zhang K	Int J Syst Evol Microbiol	10.1099/ijsem.0.000583	2015
Phylogeny	Aeromicrobium halocynthiae sp. nov., a taurocholic acid-producing bacterium isolated from the marine ascidian Halocynthia roretzi.	Kim SH, Yang HO, Sohn YC, Kwon HC	Int J Syst Evol Microbiol	10.1099/ijs.0.016618-0	2010
Phylogeny	Aeromicrobium ginsengisoli sp. nov., isolated from a ginseng field.	Kim MK, Park MJ, Im WT, Yang DC	Int J Syst Evol Microbiol	10.1099/ijs.0.64871-0	2008

References

#16219	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 22238
#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 )
#28294	IJSEM 2025 2008 ( DOI 10.1099/ijs.0.64871-0 , PubMed 18768598 )
#32044	Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #28294
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#67771	Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;
#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 .
#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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Aeromicrobium ginsengisoli (DSM 22238, JCM 14732, KCTC 19207)

Name and taxonomic classification

Morphology

Cell morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Observation

Metabolite utilization

Enzymes

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_004134905

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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