Massilia agilis (KEMB 9005-359, JCM 31605, J9)

Name: Massilia agilis (KEMB 9005-359, JCM 31605, J9)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 140977

Type strain

Strain Designation J9

Culture col. no. KEMB 9005-359 JCM 31605 J9

NCBI tax ID(s) 1811226

Special Collections JCM Literature strains

History J. Kim; Kyonggi Univ., South Korea; J9.

Links

Massilia agilis J9 is an aerobe, Gram-negative, motile bacterium that forms circular colonies and was isolated from forest soil at Kyonggi University, Suwon, Gyeonggi-Do, South Korea.

Gram-negative motile rod-shaped colony-forming aerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 287523

JCM 31605

@ref 20215

Last LPSN update 2026-02-09 11:33:46

Domain Bacteria

Phylum Pseudomonadota

Class Betaproteobacteria

Order Burkholderiales

Family Oxalobacteraceae

Genus Massilia

Species Massilia agilis

Full scientific name Massilia agilis Altankhuu and Kim 2017

Synonyms (1)

Telluria agilis

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Motility	Flagellum arrangement	Confidence
43867	negative	2.4-2.6 µm	0.3-0.5 µm	rod-shaped		peritrichous
125438	negative						99.494

Colony morphology

@ref	Colony size	Colony color	Colony shape	Incubation period	Medium used
43867	0.9-1.2 mm	white	circular	2 days	R2A agar

Culture and growth conditions

Culture medium

@ref	Name	Growth
43867	LB (Luria-Bertani) MEDIUM
43867	Nutrient agar (NA)
43867	Reasoner's 2A agar (R2A)
43867	Brain-Heart infusion agar
43867	Marine agar (MA)
43867	Tryptic soy agar

Culture temp

@ref	Growth	Type	Temperature (°C)
43867	positive	growth	4-45
43867	positive	optimum	28-37
67770	positive	growth	30

Culture pH

@ref	Ability	Type	PH	PH range
43867	positive	optimum	6.0-7.0
43867	positive	growth	4.0-9.0	alkaliphile

Physiology and metabolism

Oxygen tolerance

43867

Oxygen toleranceaerobe

Spore formation

43867

Spore formationno

Halophily

@ref	Salt	Growth	Tested relation	Concentration
43867	NaCl	positive	optimum	0 %(w/v)
43867	NaCl	positive	growth	0-1 %(w/v)

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
43867	37054 ChEBI	3-hydroxybutyrate	+	assimilation
43867	17879 ChEBI	4-hydroxybenzoate	+	assimilation
43867	355715 ChEBI	4-nitrophenyl beta-D-galactopyranoside	+	assimilation
43867	17128 ChEBI	adipate	+	assimilation
43867		casein	-	hydrolysis
43867	17634 ChEBI	D-glucose	-	assimilation
43867	16024 ChEBI	D-mannose	-	assimilation
43867	16991 ChEBI	dna	+	hydrolysis
43867	4853 ChEBI	esculin	+	hydrolysis
43867	5291 ChEBI	gelatin	-	hydrolysis
43867	28087 ChEBI	glycogen	-	assimilation
43867	17203 ChEBI	L-proline	+	assimilation
43867	17115 ChEBI	L-serine	+	assimilation
43867	24996 ChEBI	lactate	+	assimilation
43867	25115 ChEBI	malate	-	assimilation
43867	18401 ChEBI	phenylacetate	-	assimilation
43867	32032 ChEBI	potassium gluconate	-	assimilation
43867	53258 ChEBI	sodium citrate	+	assimilation
43867	28017 ChEBI	starch	-	hydrolysis
43867	9300 ChEBI	suberic acid	-	assimilation
43867	17992 ChEBI	sucrose	-	assimilation
43867	53423 ChEBI	tween 40	+	hydrolysis
43867	53425 ChEBI	tween 60	+	hydrolysis
43867	53426 ChEBI	tween 80	+	hydrolysis
43867	16199 ChEBI	urea	-	hydrolysis
43867	31011 ChEBI	valerate	+	assimilation

Metabolite production

@ref	Chebi-ID	Metabolite	Production
43867	16136 ChEBI	hydrogen sulfide
43867	35581 ChEBI	indole

Metabolite tests

@ref	Chebi-ID	Metabolite	Indole test
43867	35581 ChEBI	indole	-

Enzymes

@ref	Value	Activity	Ec
43867	alpha-chymotrypsin	+	3.4.21.1
43867	alpha-fucosidase	-	3.2.1.51
43867	alpha-glucosidase	+	3.2.1.20
43867	beta-galactosidase	-	3.2.1.23
43867	beta-glucosidase	-	3.2.1.21
43867	catalase	-	1.11.1.6
43867	cystine arylamidase	+	3.4.11.3
43867	cytochrome oxidase	+	1.9.3.1
43867	N-acetyl-beta-glucosaminidase	-	3.2.1.52

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Forest
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Enrichment culture	Enrichment culture duration	Enrichment culture temperature
43867	forest soil at Kyonggi University, Suwon, Gyeonggi-Do, South Korea	Suwon, Gyeonggi-Do	Republic of Korea	KOR	Asia	Soil extract-R2A agar	5 weeks	20
67770	Forest soil at Kyonggi Univ.		Republic of Korea	KOR	Asia

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM2475625v1 assembly for Massilia agilis JCM 31605	contig	GCA_024756255	1811226.3	8047679742	1811226	65.85

16S sequences

@ref	Description	Accession	Database
43867	Massilia agilis strain J9 16S ribosomal RNA gene, partial sequence	KU870756

GC content

@ref	GC-content (mol%)	Method
43867	64.5	high performance liquid chromatography (HPLC)

Genome-based predictions

Predictions

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Massilia agilis JCM 31605
NCBI: GCA_024756255.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	99.49	yes
125438	anaerobic	anaerobicⓘ	no	91.80	yes
125438	aerobic	aerobicⓘ	yes	86.70	yes
125438	spore-forming	spore-formingⓘ	no	82.73	yes
125438	thermophilic	thermophileⓘ	no	98.48	yes
125438	flagellated	motile2+ⓘ	yes	85.72	yes

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Massilia solisilvae sp. nov., Massilia terrae sp. nov. and Massilia agilis sp. nov., isolated from forest soil in South Korea by using a newly developed culture method.	Altankhuu K, Kim J	Int J Syst Evol Microbiol	10.1099/ijsem.0.002076	2017

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 )
#43867	Khulan Altankhuu, Jaisoo Kim: Massilia solisilvae sp. nov., Massilia terrae sp. nov. and Massilia agilis sp. nov., isolated from forest soil in South Korea by using a newly developed culture method. IJSEM 67: 3026 - 3032 2017 ( DOI 10.1099/ijsem.0.002076 , PubMed 28820094 )
#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;
#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 )
#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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Massilia agilis (KEMB 9005-359, JCM 31605, J9)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_024756255

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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