Name: Oceanobacillus polygoni SA9
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 133964

Type strain:

Species: Oceanobacillus polygoni

Strain Designation: SA9

Culture col. no.: JCM 17252, NCIMB 14684, DSM 107338, BCRC 80661

Strain history: I. Yumoto SA9.

NCBI tax ID(s): 1235259 (species)

SI-ID 396698

DSM 107338

Section

Oceanobacillus polygoni SA9 is a facultative anaerobe, spore-forming, mesophilic bacterium that was isolated from indigo fermentation fluid.

Gram-positive
motile
rod-shaped
spore-forming
facultative anaerobe
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	*Bacillota*
	Class	*Bacilli*
	Order	*Caryophanales*
	Family	*Bacillaceae*
	Genus	*Oceanobacillus*
	Species	**Oceanobacillus polygoni**
	Full Scientific Name (LPSN)	Oceanobacillus polygoni Hirota et al. 2013

Information on morphological and physiological properties Morphology

[Ref.: #30965]	Gram stain	positive
[Ref.: #69480]	Gram stain	positive Confidence in %100

[Ref.: #30965]	Cell length	4.2 µm

[Ref.: #30965]	Cell width	0.55 µm

[Ref.: #30965]	Cell shape	rod-shaped

[Ref.: #30965]	Motility	yes
[Ref.: #69480]	Motility	yes Confidence in %95.951

[Ref.: #30965]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #64750]

Culture medium

ALKALINE NUTRIENT AGAR (DSMZ Medium 31)

[Ref.: #64750]

Culture medium growth

[Ref.: #64750]

Culture medium link

Medium recipe at MediaDive

[Ref.: #64750]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #30965]	growth	05-48 °C
[Ref.: #30965]	optimum	35 °C
[Ref.: #64750]	growth	30 °C
[Ref.: #67770]	growth	30 °C

[Ref.: #30965]	Temperature range	mesophilic
[Ref.: #64750]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #30965]			optimum	9
[Ref.: #30965]			growth	07-12

Information on physiology and metabolism Physiology and metabolism

[Ref.: #30965]

Oxygen tolerance

facultative anaerobe

[Ref.: #30965]	Ability of spore formation	yes
[Ref.: #69481]	Ability of spore formation	yes Confidence in %100
[Ref.: #69480]	Ability of spore formation	yes Confidence in %100

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #30965]		NaCl		growth	03-12	%
[Ref.: #30965]		NaCl		optimum	3	%

[Ref.: #30965]	Observation	aggregates in clumps
[Ref.: #67770]	Observation	quinones: MK-7

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #30965]	citrate ChEBI	+	carbon source
[Ref.: #30965]	esculin ChEBI	+	hydrolysis
[Ref.: #30965]	malate ChEBI	+	carbon source

	Enzyme	Enzyme activity	EC number
[Ref.: #30965]	acid phosphatase	+	3.1.3.2
[Ref.: #30965]	alkaline phosphatase	+	3.1.3.1
[Ref.: #30965]	catalase	+	1.11.1.6
[Ref.: #30965]	cytochrome oxidase	+	1.9.3.1
[Ref.: #30965]	urease	+	3.5.1.5

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

[Ref.: #30965]	Sample type/isolated from	indigo fermentation fluid

[Ref.: #64750]	Sample type/isolated from	Indigo fermentation fluid (Polygoum tinctorium Lour.)
[Ref.: #64750]	Geographic location (country and/or sea, region)	Hokkaido, Date City
[Ref.: #64750]	Country	Japan
[Ref.: #64750]	Country ISO 3 Code	JPN
[Ref.: #64750]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Polygonum indigo (Polygonum tinctorium Lour.) fermentation liquor prepared in a laboratory
[Ref.: #67770]	Host species	Polygonum
* marker position based on {}

Isolation sources categories

#Engineered	#Industrial	#Industrial production
#Condition	#Alkaline	-

What are isolation sources categories?

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #64750]

Biosafety level

Risk group (German classification)
According to TRBA 466

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.: #64750]	Oceanobacillus polygoni gene for 16S ribosomal RNA, partial sequence	AB750685	1518	ENA	1235259 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Oceanobacillus polygoni SA9	GCA_008304605	scaffold	GenBank	1235259 tax ID	*
[Ref.: #66792]	Oceanobacillus polygoni DSM 107338	GCA_017874935	contig	GenBank	1235259 tax ID	*
[Ref.: #66792]	Oceanobacillus polygoni strain DSM 107338	1235259.4	wgs	PATRIC	1235259 tax ID	*
[Ref.: #66792]	Oceanobacillus polygoni SA9	2894984523	draft	JGI IMG/M	1235259 tax ID	*
[Ref.: #66792]	Oceanobacillus polygoni DSM 107338	2913595076	draft	JGI IMG/M	1235259 tax ID	*

[Ref.: #64750]	GC-content	40.6 mol%
[Ref.: #67770]	GC-content	39.7-41.5 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: Oceanobacillus polygoni SA9 NCBI: GCA_008304605.1
[Ref.: #69481]	spore-forming	yes	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Oceanobacillus polygoni SA9 NCBI: GCA_008304605.1
[Ref.: #69480]	motile	yes	88.603	no
[Ref.: #69480]	flagellated	yes	88.609	no
[Ref.: #69480]	gram-positive	yes	89.659	no
[Ref.: #69480]	anaerobic	no	98.306	no
[Ref.: #69480]	aerobic	yes	84.29	yes
[Ref.: #69480]	halophile	yes	74.88	no
[Ref.: #69480]	spore-forming	yes	95.902	no
[Ref.: #69480]	glucose-util	yes	89.956	no
[Ref.: #69480]	thermophile	no	99.264	yes
[Ref.: #69480]	glucose-ferment	no	83.591	no

Availability in culture collections External links

[Ref.: #64750]

Culture collection no.

JCM 17252, NCIMB 14684, DSM 107338, BCRC 80661

[Ref.: #91646]

SI-ID 396698

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Oceanobacillus polygoni sp. nov., a facultatively alkaliphile isolated from indigo fermentation fluid.	Hirota K, Hanaoka Y, Nodasaka Y, Yumoto I	Int J Syst Evol Microbiol	10.1099/ijs.0.048595-0	2013	*

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 )

#30965

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 #27295 (see below)

#64750

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 107338

#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;

#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 )

#91646

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID396698.1 )

#27295

IJSEM 3307 2013 ( DOI 10.1099/ijs.0.048595-0 , PubMed 23504965 )

* These data were automatically processed and therefore are not curated

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