Massilia putida (DSM 27523, KCTC 42761, 6NM-7)

Name: Massilia putida (DSM 27523, KCTC 42761, 6NM-7)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 141141

Type strain

Strain Designation 6NM-7

Culture col. no. DSM 27523 KCTC 42761 6NM-7

NCBI tax ID(s) 1141883

Special Collections DSMZ KCTC Literature strains

Links

Massilia putida 6NM-7 is an aerobe, non-halophilic, Gram-negative bacterium that forms circular colonies and was isolated from wolfram mine tailing sample.

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

Name and taxonomic classification

SI-ID 24536

KCTC 42761

@ref 20215

Last LPSN update 2026-05-29 08:39:53

Domain Bacteria

Phylum Pseudomonadota

Class Betaproteobacteria

Order Burkholderiales

Family Oxalobacteraceae

Genus Massilia

Species Massilia putida

Full scientific name Massilia putida Feng et al. 2016

Synonyms (1)

Telluria putida

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Motility	Flagellum arrangement	Confidence
44058	negative	2.0-2.5 µm	0.8-1.2 µm	rod-shaped		polar
125438	negative						98.25

Colony morphology

@ref	Colony size	Colony color	Colony shape	Incubation period	Medium used
44058	2-3 mm	grey-white	circular	3 days	R2A agar

Culture and growth conditions

Culture medium

@ref	Name	Growth
44058	PYE agar
44058	Reasoner's 2A agar (R2A)
44058	Nutrient agar (NA)
44058	Trypticase Soy Agar (TSA)

Culture temp

@ref	Growth	Type	Temperature (°C)
44058	positive	growth	25-37
44058	positive	optimum	30

Culture pH

@ref	Ability	Type	PH
44058	positive	optimum	7
44058	positive	growth	6.0-8.0

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
44058	aerobe
125438	aerobe	90.214

Spore formation

@ref	Type of spore	Spore formation
44058	spore

Halophily

@ref	Halophily level	Salt	Growth	Tested relation	Concentration
44058	non-halophilic	NaCl	positive	growth	0-0.5 %(w/v)
44058		NaCl	positive	optimum	0 %(w/v)

Tolerance

@ref	Compound	Concentration
44058	Cadmium	1.0 mM
44058	Zinc	0.5 mM
44058	Lead	1.5 mM

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
44058	30916 ChEBI	2-oxoglutarate	+	assimilation
44058	18101 ChEBI	4-hydroxyphenylacetic acid	-	assimilation
44058	30089 ChEBI	acetate	-	assimilation
44058	17128 ChEBI	adipate	-	assimilation
44058	73706 ChEBI	bromosuccinate	+	assimilation
44058	12936 ChEBI	D-galactose	+	assimilation
44058	8391 ChEBI	D-gluconate	+	assimilation
44058	15748 ChEBI	D-glucuronate	+	assimilation
44058	16899 ChEBI	D-mannitol	-	assimilation
44058	16024 ChEBI	D-mannose	+	assimilation
44058	16523 ChEBI	D-serine	-	assimilation
44058	17924 ChEBI	D-sorbitol	-	assimilation
44058	27689 ChEBI	decanoate	-	assimilation
44058	4853 ChEBI	esculin	-	hydrolysis
44058	15740 ChEBI	formate	-	assimilation
44058	16865 ChEBI	gamma-aminobutyric acid	-	assimilation
44058	5291 ChEBI	gelatin	+	hydrolysis
44058	17234 ChEBI	glucose	-	builds acid from
44058	17234 ChEBI	glucose	+	assimilation
44058	32323 ChEBI	glucuronamide	+	assimilation
44058	70744 ChEBI	glycine-proline	+	assimilation
44058	17596 ChEBI	inosine	-	assimilation
44058	30849 ChEBI	L-arabinose	+	assimilation
44058	16467 ChEBI	L-arginine	-	assimilation
44058	15971 ChEBI	L-histidine	-	assimilation
44058	18183 ChEBI	L-pyroglutamic acid	-	assimilation
44058	17115 ChEBI	L-serine	-	assimilation
44058	17716 ChEBI	lactose	-	assimilation
44058	25115 ChEBI	malate	-	assimilation
44058	25115 ChEBI	malate	+	assimilation
44058	17306 ChEBI	maltose	+	assimilation
44058	51850 ChEBI	methyl pyruvate	+	assimilation
44058	17632 ChEBI	nitrate	-	reduction
44058	17309 ChEBI	pectin	-	assimilation
44058	18401 ChEBI	phenylacetate	-	assimilation
44058	32032 ChEBI	potassium gluconate	+	assimilation
44058	17272 ChEBI	propionate	-	assimilation
44058	16634 ChEBI	raffinose	-	assimilation
44058	17814 ChEBI	salicin	-	assimilation
44058	53258 ChEBI	sodium citrate	-	assimilation
44058	17164 ChEBI	stachyose	-	assimilation
44058	28017 ChEBI	starch	+	hydrolysis
44058	17992 ChEBI	sucrose	+	assimilation
44058	27082 ChEBI	trehalose	+	assimilation
44058	53423 ChEBI	tween 40	+	hydrolysis
44058	53426 ChEBI	tween 80	-	hydrolysis

Metabolite production

@ref	Chebi-ID	Metabolite	Production
44058	4608 ChEBI	dimethyl disulfide
44058	35581 ChEBI	indole

Enzymes

@ref	Value	Activity	Ec
44058	arginine dihydrolase	-	3.5.3.6
44058	beta-galactosidase	-	3.2.1.23
44058	catalase	+	1.11.1.6
44058	cytochrome oxidase	-	1.9.3.1
44058	urease	-	3.5.1.5

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Contamination	#Heavy metal
#Engineered	#Other	#Mine
#Environmental	#Terrestrial	#Geologic

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Latitude	Longitude	Enrichment culture	Enrichment culture duration	Enrichment culture temperature
44058	wolfram mine tailing sample	Dayu County, Jiangxi Province	China	CHN	Asia	25.4603	114.335 25.4603/114.335	R2A agar	7 days	30

Taxonmaps

69479

Global distribution of 16S sequence JQ608336 (>99% sequence identity) for Massilia putida from Microbeatlas

Aquatic Samples	28
Soil Samples	53
Animal Samples	14
Plant Samples	43
Total Samples	138

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	IMG accession	NCBI tax ID	Score
66792	ASM194182v1 assembly for Massilia putida 6NM-7	complete	GCA_001941825	2721755699	1141883	87.55

16S sequences

@ref	Description	Accession	Database
44058	Massilia putida strain 6NM-7 16S ribosomal RNA gene, partial sequence	JQ608336

GC content

@ref	GC-content (mol%)	Method
44058	66.8	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 putida 6NM-7
NCBI: GCA_001941825.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	98.25	no
125438	anaerobic	anaerobicⓘ	no	95.48	no
125438	aerobic	aerobicⓘ	yes	90.21	yes
125438	spore-forming	spore-formingⓘ	no	83.41	yes
125438	thermophilic	thermophileⓘ	no	97.44	no
125438	flagellated	motile2+ⓘ	yes	85.20	yes

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Massilia putida sp. nov., a dimethyl disulfide-producing bacterium isolated from wolfram mine tailing.	Feng GD, Yang SZ, Li HP, Zhu HH	Int J Syst Evol Microbiol	10.1099/ijsem.0.000670	2015
Phylogeny	Massilia cellulosiltytica sp. nov., a novel cellulose-degrading bacterium isolated from rhizosphere soil of rice (Oryza sativa L.) and its whole genome analysis.	Du C, Li C, Cao P, Li T, Du D, Wang X, Zhao J, Xiang W	Antonie Van Leeuwenhoek	10.1007/s10482-021-01618-3	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 )
#44058	Guang-Da Feng, Song-Zhen Yang, Hua-Ping Li and Hong-Hui Zhu: Massilia putida sp. nov., a dimethyl disulfide-producing bacterium isolated from wolfram mine tailing. IJSEM 66: 50 - 55 2016 ( DOI 10.1099/ijsem.0.000670 , PubMed 26449383 )
#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) .
#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 )
#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 putida (DSM 27523, KCTC 42761, 6NM-7)

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

Tolerance

Metabolite utilization

Metabolite production

Enzymes

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_001941825

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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