Name: Brachybacterium squillarum M-6-3
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 133630

Type strain:

Species: Brachybacterium squillarum

Strain Designation: M-6-3

Culture col. no.: KACC 14221, JCM 16464

Strain history: J.-W. Bae M-6-3.

NCBI tax ID(s): 1074488 (strain), 661979 (species)

Section

Brachybacterium squillarum M-6-3 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from food product.

coccus-shaped
Gram-positive
aerobe
mesophilic
16S sequence
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	*Actinomycetota*
	Class	*Actinomycetes*
	Order	*Micrococcales*
	Family	*Dermabacteraceae*
	Genus	*Brachybacterium*
	Species	**Brachybacterium squillarum**
	Full Scientific Name (LPSN)	Brachybacterium squillarum Park et al. 2011

Information on morphological and physiological properties Morphology

[Ref.: #29850]	Gram stain	positive

[Ref.: #29850]	Cell shape	coccus-shaped

[Ref.: #29850]	Motility	no

[Ref.: #29850]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

		Temperature
[Ref.: #29850]	growth	25-37 °C
[Ref.: #29850]	optimum	31 °C
[Ref.: #67770]	growth	28 °C

[Ref.: #29850]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #29850]			optimum	7
[Ref.: #29850]			growth	06-09

Information on physiology and metabolism Physiology and metabolism

[Ref.: #29850]

Oxygen tolerance

aerobe

[Ref.: #29850]

Ability of spore formation

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #29850]		NaCl		growth	0-10	%
[Ref.: #29850]		NaCl		optimum	5	%

[Ref.: #29850]	Observation	aggregates in clumps
[Ref.: #67770]	Observation	quinones: MK-7

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #29850]	dextrin ChEBI	+	carbon source
[Ref.: #29850]	fucose ChEBI	+	carbon source
[Ref.: #29850]	galactose ChEBI	+	carbon source
[Ref.: #29850]	gelatin ChEBI	+	carbon source
[Ref.: #29850]	gluconate ChEBI	+	carbon source
[Ref.: #29850]	glucose ChEBI	+	carbon source
[Ref.: #29850]	glycogen ChEBI	+	carbon source
[Ref.: #29850]	inosine ChEBI	+	carbon source
[Ref.: #29850]	L-arabitol ChEBI	+	carbon source
[Ref.: #29850]	maltose ChEBI	+	carbon source
[Ref.: #29850]	mannitol ChEBI	+	carbon source
[Ref.: #29850]	mannose ChEBI	+	carbon source
[Ref.: #29850]	melibiose ChEBI	+	carbon source
[Ref.: #29850]	pyruvate ChEBI	+	carbon source
[Ref.: #29850]	raffinose ChEBI	+	carbon source
[Ref.: #29850]	rhamnose ChEBI	+	carbon source
[Ref.: #29850]	sorbitol ChEBI	+	carbon source
[Ref.: #29850]	sucrose ChEBI	+	carbon source
[Ref.: #29850]	tween 60 ChEBI	+	carbon source
[Ref.: #29850]	uridine ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Enzymes	Enzyme	Enzyme activity
[Ref.: #29850]		gelatinase	+

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

[Ref.: #29850]	Sample type/isolated from	food product

[Ref.: #67770]	Sample type/isolated from	Salt-fermented food made of tiny shrimp
[Ref.: #67770]	Country	Republic of Korea
[Ref.: #67770]	Country ISO 3 Code	KOR
[Ref.: #67770]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Engineered

#Food production

#Food

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence GQ339911 (>99% sequence identity) for Brachybacterium squillarum from Microbeatlas

Aquatic Samples	413
Soil Samples	115
Animal Samples	1599
Plant Samples	64
Total Samples	2191

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

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #29850]	Brachybacterium squillarum strain M-6-3 16S ribosomal RNA gene, partial sequence	GQ339911	1444	GenBank	1074488 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Brachybacterium squillarum M-6-3	GCA_000225825	contig	GenBank	1074488 tax ID
[Ref.: #66792]	Brachybacterium squillarum M-6-3	1074488.3	wgs	PATRIC	1074488 tax ID	*
[Ref.: #66792]	Brachybacterium squillarum M-6-3	2548876527	draft	JGI IMG/M	1074488 tax ID	*

[Ref.: #29850]	GC-content	71.5 mol%
[Ref.: #67770]	GC-content	72.8 mol%	genome sequence analysis
[Ref.: #67770]	GC-content	71.5 mol%	thermal denaturation, midpoint method (Tm)

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Brachybacterium squillarum M-6-3 PATRIC: 1074488.3
[Ref.: #69480]	motile	no	90.911	no
[Ref.: #69480]	flagellated	no	97.043	yes
[Ref.: #69480]	gram-positive	yes	91.447	no
[Ref.: #69480]	anaerobic	no	99.482	yes
[Ref.: #69480]	aerobic	yes	86.67	yes
[Ref.: #69480]	halophile	no	65.094	no
[Ref.: #69480]	spore-forming	no	92.037	no
[Ref.: #69480]	thermophile	no	99.265	no
[Ref.: #69480]	glucose-util	yes	89.536	yes
[Ref.: #69480]	glucose-ferment	no	61.236	no

Availability in culture collections External links

[Ref.: #29850]

Culture collection no.

KACC 14221, JCM 16464

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Brachybacterium subflavum sp. nov., a novel actinobacterium isolated from the foregut of grass carp.	Ming H, Cheng LJ, Yi BF, Xia TT, Niu MM, Zhao ZY, Liu BB, Nie GX, Cui CX	Int J Syst Evol Microbiol	10.1099/ijsem.0.004839	2021	*
Phylogeny	Brachybacterium hainanense sp. nov., isolated from noni (Morinda citrifolia L.) branch.	Liu Y, Zhai L, Yao S, Cao Y, Cao Y, Zhang X, Su J, Ge Y, Zhao R, Cheng C	Int J Syst Evol Microbiol	10.1099/ijsem.0.000559	2015	*
Phylogeny	Brachybacterium squillarum sp. nov., isolated from salt-fermented seafood.	Park SK, Kim MS, Jung MJ, Nam YD, Park EJ, Roh SW, Bae JW	Int J Syst Evol Microbiol	10.1099/ijs.0.022517-0	2010	*
Pathogenicity	First case of a bloodstream infection caused by the genus Brachybacterium.	Tamai K, Akashi Y, Yoshimoto Y, Yaguchi Y, Takeuchi Y, Shiigai M, Igarashi J, Hirose Y, Suzuki H, Ohkusu K	J Infect Chemother	10.1016/j.jiac.2018.06.005	2018	*
Genetics	Genome sequence of Brachybacterium squillarum M-6-3(T), isolated from salt-fermented seafood.	Park SK, Roh SW, Whon TW, Bae JW	J Bacteriol	10.1128/JB.06183-11	2011	*

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 )

#29850

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 #26224 (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;

#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 .

#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) .

#26224

IJSEM 1118 2011 ( DOI 10.1099/ijs.0.022517-0 , PubMed 20543157 )

* These data were automatically processed and therefore are not curated

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