Name: Massilia buxea A9
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 158678

Type strain:

Species: Massilia buxea

Strain Designation: A9

Culture col. no.: DSM 103547, CGMCC 1.15931, KCTC 52429

NCBI tax ID(s): 1949069 (species)

Section

Massilia buxea A9 is an aerobe, Gram-negative, motile bacterium that forms circular colonies and was isolated from the surface of rock collected from the shore.

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

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Pseudomonadota*
	Class	*Betaproteobacteria*
	Order	*Burkholderiales*
	Family	*Oxalobacteraceae*
	Genus	*Massilia*
	Species	**Massilia buxea**
	Full Scientific Name (LPSN)	Massilia buxea Sun et al. 2017

Synonym

Pseudoduganella buxea

Information on morphological and physiological properties Morphology

[Ref.: #65410]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.999

[Ref.: #65410]	Cell length	1.3-2.1 µm

[Ref.: #65410]	Cell width	0.6-0.9 µm

[Ref.: #65410]	Cell shape	rod-shaped

[Ref.: #65410]	Motility	yes
[Ref.: #69480]	Motility	yes Confidence in %94.565

[Ref.: #65410]	Colony size	2-4 mm
[Ref.: #65410]	Colony color	pale yellow
[Ref.: #65410]	Colony shape	circular
[Ref.: #65410]	Incubation period	3 days
[Ref.: #65410]	Cultivation medium used	R2A agar

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Pigment production

Information on culture and growth conditions Culture and growth conditions

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Culture medium

Reasoner's 2A agar (R2A)

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Culture medium growth

	Temperatures	Kind of temperature		Temperature
[Ref.: #65410]			growth	10-37 °C
[Ref.: #65410]			optimum	28-30 °C

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Temperature range

mesophilic

	pH	Kind of pH		pH
[Ref.: #65410]			optimum	7
[Ref.: #65410]			growth	6-9

Information on physiology and metabolism Physiology and metabolism

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Oxygen tolerance

aerobe

[Ref.: #65410]	Ability of spore formation	no
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.996
[Ref.: #69481]	Ability of spore formation	no Confidence in %100

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #65410]		NaCl		growth	0-1	%(w/v)
[Ref.: #65410]		NaCl		optimum	0	%(w/v)

[Ref.: #65410]	Observation	colonies are circular to irregular, crimped, convex, opaque, not smooth
[Ref.: #65410]	Observation	growth occurs on ISP2 agar, nutrient agar and trypticase soy agar
[Ref.: #65410]	Observation	predominant ubiquinone is Q-8
[Ref.: #65410]	Observation	major polar lipids are diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol and aminophospholipid

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #65410]	1-o-methyl alpha-galactopyranoside	+	assimilation
[Ref.: #65410]	acetate ChEBI	+	assimilation
[Ref.: #65410]	adipate ChEBI	-	assimilation
[Ref.: #65410]	alpha-D-glucose ChEBI	+	assimilation
[Ref.: #65410]	bromosuccinate ChEBI	+	assimilation
[Ref.: #65410]	casein	+	assimilation
[Ref.: #65410]	cellobiose ChEBI	+	assimilation
[Ref.: #65410]	D-fructose ChEBI	+	assimilation
[Ref.: #65410]	D-fructose 6-phosphate ChEBI	+	assimilation
[Ref.: #65410]	D-galactonic acid lactone ChEBI	+	assimilation
[Ref.: #65410]	D-galactose ChEBI	+	assimilation
[Ref.: #65410]	D-galacturonic acid ChEBI	+	assimilation
[Ref.: #65410]	D-gluconate ChEBI	+	assimilation
[Ref.: #65410]	D-glucose ChEBI	+	assimilation
[Ref.: #65410]	D-glucose ChEBI	+	fermentation
[Ref.: #65410]	D-glucose 6-phosphate ChEBI	+	assimilation
[Ref.: #65410]	D-glucuronate ChEBI	+	assimilation
[Ref.: #65410]	D-mannitol ChEBI	-	assimilation
[Ref.: #65410]	D-mannose ChEBI	+	assimilation
[Ref.: #65410]	decanoate ChEBI	-	assimilation
[Ref.: #65410]	dextrin ChEBI	+	assimilation
[Ref.: #65410]	esculin ferric citrate	+	assimilation
[Ref.: #65410]	gelatin ChEBI	+	assimilation
[Ref.: #65410]	gentiobiose ChEBI	+	assimilation
[Ref.: #65410]	glucuronamide ChEBI	+	assimilation
[Ref.: #65410]	glycerol ChEBI	+	assimilation
[Ref.: #65410]	glycine-proline ChEBI	+	assimilation
[Ref.: #65410]	inosine ChEBI	+	assimilation
[Ref.: #65410]	L-alanine ChEBI	+	assimilation
[Ref.: #65410]	L-arabinose ChEBI	+	assimilation
[Ref.: #65410]	L-arginine ChEBI	+	assimilation
[Ref.: #65410]	L-aspartate ChEBI	+	assimilation
[Ref.: #65410]	L-fucose ChEBI	+	assimilation
[Ref.: #65410]	L-glutamate ChEBI	+	assimilation
[Ref.: #65410]	L-histidine ChEBI	+	assimilation
[Ref.: #65410]	L-pyroglutamic acid ChEBI	+	assimilation
[Ref.: #65410]	L-rhamnose ChEBI	+	assimilation
[Ref.: #65410]	L-serine ChEBI	+	assimilation
[Ref.: #65410]	malate ChEBI	+	assimilation
[Ref.: #65410]	maltose ChEBI	+	assimilation
[Ref.: #65410]	melibiose ChEBI	+	assimilation
[Ref.: #65410]	methyl D-glucoside ChEBI	+	assimilation
[Ref.: #65410]	methyl pyruvate ChEBI	+	assimilation
[Ref.: #65410]	N-acetylgalactosamine ChEBI	+	assimilation
[Ref.: #65410]	N-acetylglucosamine ChEBI	-	assimilation
[Ref.: #65410]	N-acetylglucosamine ChEBI	+	assimilation
[Ref.: #65410]	n-acetylneuraminate ChEBI	+	assimilation
[Ref.: #65410]	nitrate ChEBI	+	reduction
[Ref.: #65410]	pectin ChEBI	+	assimilation
[Ref.: #65410]	phenylacetate ChEBI	-	assimilation
[Ref.: #65410]	potassium gluconate ChEBI	-	assimilation
[Ref.: #65410]	salicin ChEBI	+	assimilation
[Ref.: #65410]	sodium citrate ChEBI	-	assimilation
[Ref.: #65410]	starch ChEBI	+	assimilation
[Ref.: #65410]	sucrose ChEBI	+	assimilation
[Ref.: #65410]	trehalose ChEBI	+	assimilation
[Ref.: #65410]	turanose ChEBI	-	assimilation
[Ref.: #65410]	tween 20 ChEBI	+	assimilation
[Ref.: #65410]	tween 40 ChEBI	+	assimilation
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Antibiotic sensitivity	Antibiotic resistance
[Ref.: #65410]	aztreonam ChEBI	yes
[Ref.: #65410]	d-serine ChEBI	yes
[Ref.: #65410]	fusidate ChEBI	yes
[Ref.: #65410]	guanidinium chloride ChEBI	yes
[Ref.: #65410]	lithium chloride ChEBI	yes
[Ref.: #65410]	minocycline ChEBI	yes
[Ref.: #65410]	nalidixic acid ChEBI	yes
[Ref.: #65410]	niaproof ChEBI	yes
[Ref.: #65410]	potassium tellurite ChEBI	yes
[Ref.: #65410]	rifamycin sv ChEBI	yes
[Ref.: #65410]	salinomycin ChEBI		yes
[Ref.: #65410]	sodium bromate ChEBI	yes
[Ref.: #65410]	sodium butyrate ChEBI	yes
[Ref.: #65410]	tetrazolium blue ChEBI		yes
[Ref.: #65410]	tetrazolium violet ChEBI	yes
[Ref.: #65410]	troleandomycin ChEBI	yes
[Ref.: #65410]	vancomycin ChEBI	yes
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #65410]		indole ChEBI	no
[Ref.: #65410]		sulfide ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #65410]	acid phosphatase	+	3.1.3.2
[Ref.: #65410]	alkaline phosphatase	+	3.1.3.1
[Ref.: #65410]	alpha-chymotrypsin	-	3.4.21.1
[Ref.: #65410]	alpha-fucosidase	-	3.2.1.51
[Ref.: #65410]	alpha-galactosidase	+	3.2.1.22
[Ref.: #65410]	alpha-glucosidase	+	3.2.1.20
[Ref.: #65410]	alpha-mannosidase	-	3.2.1.24
[Ref.: #65410]	arginine dihydrolase	-	3.5.3.6
[Ref.: #65410]	beta-galactosidase	+	3.2.1.23
[Ref.: #65410]	beta-glucosidase	-	3.2.1.21
[Ref.: #65410]	beta-glucuronidase	-	3.2.1.31
[Ref.: #65410]	catalase	+	1.11.1.6
[Ref.: #65410]	cystine arylamidase	+	3.4.11.3
[Ref.: #65410]	cytochrome oxidase	+	1.9.3.1
[Ref.: #65410]	esterase (C 4)	+
[Ref.: #65410]	esterase Lipase (C 8)	+
[Ref.: #65410]	leucine arylamidase	+	3.4.11.1
[Ref.: #65410]	lipase (C 14)	-
[Ref.: #65410]	N-acetyl-beta-glucosaminidase	-	3.2.1.52
[Ref.: #65410]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #65410]	trypsin	-	3.4.21.4
[Ref.: #65410]	urease	+	3.5.1.5
[Ref.: #65410]	valine arylamidase	+
	Only first 10 entries are displayed. Click here to see all.

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #65410]

Fatty acid	Percentage
C16:1ω7c and/or iso-C 15:0 2-OH	51.4
C16:0	28.4
C18:1ω7c	7.8
C10:0 3OH	4.7
C12:0	3.6
C14:0 2OH	1.6
C12:0 2OH	1.3
C14:0	0.9

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #65410]	Sample type/isolated from	the surface of rock collected from the shore
[Ref.: #65410]	Geographic location (country and/or sea, region)	Nvshan Lake in Mingguang city, Anhui province
[Ref.: #65410]	Country	China
[Ref.: #65410]	Country ISO 3 Code	CHN
[Ref.: #65410]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Coast
#Environmental	#Terrestrial	#Geologic

What are isolation sources categories?

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Pseudoduganella buxea CGMCC 1.15931	GCA_014644155	scaffold	GenBank	1949069 tax ID	*
[Ref.: #66792]	Pseudoduganella buxea KCTC 52429	GCA_009720835	scaffold	GenBank	1949069 tax ID	*
[Ref.: #66792]	Massilia buxea strain CGMCC 1.15931	1949069.4	wgs	PATRIC	1949069 tax ID	*
[Ref.: #66792]	Massilia buxea strain KCTC 52429	1949069.3	wgs	PATRIC	1949069 tax ID	*
[Ref.: #66792]	Massilia buxea KCTC 52429	2920891533	draft	JGI IMG/M	1949069 tax ID	*

[Ref.: #65410]

GC-content

69.9 mol%

high performance liquid chromatography (HPLC)

Data predicted using genome information as a basis Genome-based predictions

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Massilia buxea CGMCC 1.15931 NCBI: GCA_014644155.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Massilia buxea CGMCC 1.15931 NCBI: GCA_014644155.1
[Ref.: #69480]	flagellated	yes	81.896	no
[Ref.: #69480]	gram-positive	no	98.683	yes
[Ref.: #69480]	anaerobic	no	98.863	yes
[Ref.: #69480]	aerobic	yes	92.472	no
[Ref.: #69480]	halophile	no	93.978	yes
[Ref.: #69480]	spore-forming	no	93.783	yes
[Ref.: #69480]	glucose-util	yes	88.903	yes
[Ref.: #69480]	thermophile	no	99.333	yes
[Ref.: #69480]	motile	yes	90.782	yes
[Ref.: #69480]	glucose-ferment	no	86.922	yes

Availability in culture collections External links

[Ref.: #65410]

Culture collection no.

DSM 103547, CGMCC 1.15931, KCTC 52429

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Massilia aquatica sp. nov., Isolated from a Subtropical Stream in China.	Lu HB, Deng TC, Xu MY	Curr Microbiol	10.1007/s00284-020-02104-1	2020	*
Phylogeny	Massilia buxea sp. nov., isolated from a rock surface.	Sun LN, Yang ED, Cui DX, Ni YW, Wang YB, Sun DD, Wang WY	Int J Syst Evol Microbiol	10.1099/ijsem.0.002301	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 )

#65410

Le-Ni Sun, En-Dong Yang, Dan-Xi Cui, Ye-Wen Ni, Yu-Bo Wang, Dong-Dong Sun, Wei-Yun Wang: Massilia buxea sp. nov., isolated from a rock surface. IJSEM 67: 4390 - 4396 2017 ( DOI 10.1099/ijsem.0.002301 , PubMed 28933315 )

#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) .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

* These data were automatically processed and therefore are not curated

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Massilia buxea CGMCC 1.15931

Massilia buxea CGMCC 1.15931

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