Agromyces terreus (DSM 22016, JCM 14581, KCTC 19216)

Name: Agromyces terreus (DSM 22016, JCM 14581, KCTC 19216)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 7280

Type strain

Strain Designation DS-10

Culture col. no. DSM 22016 JCM 14581 KCTC 19216 DS-10

NCBI tax ID(s) 424795

Special Collections DSMZ JCM KCTC Literature strains

Links

Agromyces terreus DS-10 is an aerobe, mesophilic, Gram-positive prokaryote that was isolated from soil.

Gram-positive rod-shaped aerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 407133

KCTC 19216,JCM 14581,DSM 22016

@ref 20215

Last LPSN update 2025-12-16 09:48:32

Domain Bacillati

Phylum Actinomycetota

Class Actinomycetes

Order Micrococcales

Family Microbacteriaceae

Genus Agromyces

Species Agromyces terreus

Full scientific name Agromyces terreus Yoon et al. 2008

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape
32172	positive	2.85 µm	0.35 µm	rod-shaped
67771	positive
125439	positive

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
16104	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

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
16104	positive	growth	25	mesophilic
32172	positive	growth	10-35
32172	positive	optimum	25	mesophilic
67770	positive	growth	25	mesophilic
67771	positive	growth	25	mesophilic

Culture pH

@ref	Ability	Type	PH
32172	positive	optimum	7.5
32172	positive	growth	05-10

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance
32172	aerobe
67771	aerobe
125439	obligate aerobe

Spore formation

@ref	Spore formation	Confidence
125439		91.3

Halophily

@ref	Salt	Growth	Tested relation	Concentration
32172	NaCl	positive	growth	0-6 %
32172	NaCl	positive	optimum	0.75 %

Observation

67770

Observationquinones: MK-11, MK-12, MK-10

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
32172	22599 ChEBI	arabinose	+	carbon source
32172	17057 ChEBI	cellobiose	+	carbon source
32172	28757 ChEBI	fructose	+	carbon source
32172	33984 ChEBI	fucose	+	carbon source
32172	28260 ChEBI	galactose	+	carbon source
32172	17234 ChEBI	glucose	+	carbon source
32172	17754 ChEBI	glycerol	+	carbon source
32172	28087 ChEBI	glycogen	+	carbon source
32172	17306 ChEBI	maltose	+	carbon source
32172	37684 ChEBI	mannose	+	carbon source
32172	506227 ChEBI	N-acetylglucosamine	+	carbon source
32172	18401 ChEBI	phenylacetate	+	carbon source
32172	16634 ChEBI	raffinose	+	carbon source
32172	26546 ChEBI	rhamnose	+	carbon source
32172	17814 ChEBI	salicin	+	carbon source
32172	17992 ChEBI	sucrose	+	carbon source
32172	27082 ChEBI	trehalose	+	carbon source
32172	18222 ChEBI	xylose	+	carbon source

Enzymes

@ref	Value	Activity	Ec
32172	cytochrome oxidase	+	1.9.3.1
32172	gelatinase	+

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
16104	soil	Dokdo	Republic of Korea	KOR	Asia
67770	Soil
67771	From soil	Dokdo	Republic of Korea	KOR	Asia

Taxonmaps

69479

Global distribution of 16S sequence EF363711 (>99% sequence identity) for Agromyces from Microbeatlas

Aquatic Samples	38
Soil Samples	271
Animal Samples	92
Plant Samples	12
Total Samples	413

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
16104	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
66792	ASM2417206v1 assembly for Agromyces terreus DSM 22016	contig	GCA_024172065	424795.5	2844602033	424795	73.55
66792	ASM974946v1 assembly for Agromyces terreus JCM 14581	contig	GCA_009749465	424795.3		424795	63.11
124043	ASM3952996v1 assembly for Agromyces terreus JCM 14581	scaffold	GCA_039529965			424795	35.33

Genome browser: GCA_024172065

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
16104	Agromyces terreus strain DS-10 16S ribosomal RNA gene, partial sequence	EF363711	1449		424795

GC content

@ref	GC-content (mol%)	Method
16104	71.1	high performance liquid chromatography (HPLC)
32172	71.1

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Agromyces terreus JCM 14581
NCBI: GCA_009749465

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	91.30	no
125439	motility	BacteriaNetⓘ	no	67.60	no
125439	gram_stain	BacteriaNetⓘ	positive	99.20	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	98.10	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Agromyces laixinhei sp. nov. isolated from bat feces in China.	Cheng Y, Bai Y, Huang Y, Yang J, Lu S, Jin D, Pu J, Zheng H, Li J, Huang Y, Wang S, Xu J	J Microbiol	10.1007/s12275-021-0546-5	2021
Phylogeny	Agromyces terreus sp. nov., isolated from soil.	Yoon JH, Schumann P, Kang SJ, Park S, Oh TK	Int J Syst Evol Microbiol	10.1099/ijs.0.65072-0	2008

References

#16104	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 22016
#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 )
#32172	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 #28414 (see below)
#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;
#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 .
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#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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Agromyces terreus (DSM 22016, JCM 14581, KCTC 19216)

Name and taxonomic classification

Morphology

Cell morphology

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_024172065

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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