Name: Streptacidiphilus oryzae TH49
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 14879

Type strain:

Species: Streptacidiphilus oryzae

Strain Designation: TH49

Culture col. no.: DSM 45098, CGMCC 4.2012, CIP 109342, JCM 13271, KCTC 19220, BCRC 16837

Strain history: <- JCM <- L. Wang TH49

NCBI tax ID(s): 348818 (species)

SI-ID 297340

CGMCC 4.2012, JCM 13271, CIP 109342, KCTC 19220, BCRC 16837, CCRC 16837, DSM 45098

Special Collections

Section

Streptacidiphilus oryzae TH49 is an aerobe, spore-forming, Gram-positive bacterium that was isolated from rice field soil sample.

Gram-positive
rod-shaped
spore-forming
aerobe
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	*Kitasatosporales*
	Family	*Streptomycetaceae*
	Genus	*Streptacidiphilus*
	Species	**Streptacidiphilus oryzae**
	Full Scientific Name (LPSN)	Streptacidiphilus oryzae Wang et al. 2006

Synonym

Phaeacidiphilus oryzae

Information on morphological and physiological properties Morphology

[Ref.: #31741]	Gram stain	positive
[Ref.: #67771]	Gram stain	positive

[Ref.: #31741]	Cell length	1 µm

[Ref.: #31741]	Cell width	0.7 µm

[Ref.: #31741]	Cell shape	rod-shaped

[Ref.: #31741]	Motility	no

[Ref.: #31741]

Pigment production

yes

Multimedia content

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Caption:

Medium 987 28°C

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Intellectual property rights:

Information on culture and growth conditions Culture and growth conditions

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Culture medium

ISP2 MEDIUM (DSMZ Medium 987)

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Culture medium growth

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Culture medium link

Medium recipe at MediaDive

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Culture medium composition

expand / minimize

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Culture medium

GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)

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Culture medium growth

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Culture medium link

Medium recipe at MediaDive

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Culture medium composition

expand / minimize

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Culture medium

ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84)

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Culture medium growth

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Culture medium link

Medium recipe at MediaDive

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Culture medium composition

expand / minimize

		Temperature
[Ref.: #12340]	growth	28 °C
[Ref.: #31741]	growth	28-37 °C
[Ref.: #31741]	optimum	30 °C
[Ref.: #67770]	growth	28 °C
[Ref.: #67771]	growth	28 °C

	pH	Kind of pH		pH
[Ref.: #31741]			optimum	05-06
[Ref.: #31741]			growth	3-6.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #31741]	Oxygen tolerance	aerobe
[Ref.: #67771]	Oxygen tolerance	aerobe

[Ref.: #31741]

Ability of spore formation

yes

[Ref.: #31741]	Observation	aggregates in chains
[Ref.: #67770]	Observation	quinones: MK-9(H₆), MK-9(H₈)
[Ref.: #67771]	Observation	quinones: MK-9(H6), MK-9(H8)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #31741]	alanine ChEBI	+	carbon source
[Ref.: #31741]	arabinose ChEBI	+	carbon source
[Ref.: #31741]	cellobiose ChEBI	+	carbon source
[Ref.: #31741]	fructose ChEBI	+	carbon source
[Ref.: #31741]	galactose ChEBI	+	carbon source
[Ref.: #31741]	glucose ChEBI	+	carbon source
[Ref.: #31741]	glycogen ChEBI	+	carbon source
[Ref.: #31741]	histidine ChEBI	+	carbon source
[Ref.: #31741]	L-arabitol ChEBI	+	carbon source
[Ref.: #31741]	lactose ChEBI	+	carbon source
[Ref.: #31741]	mannitol ChEBI	+	carbon source
[Ref.: #31741]	mannose ChEBI	+	carbon source
[Ref.: #31741]	nitrate ChEBI	+	reduction
[Ref.: #31741]	phenylalanine ChEBI	+	carbon source
[Ref.: #31741]	pyruvate ChEBI	+	carbon source
[Ref.: #31741]	raffinose ChEBI	+	carbon source
[Ref.: #31741]	rhamnose ChEBI	+	carbon source
[Ref.: #31741]	salicin ChEBI	+	carbon source
[Ref.: #31741]	threonine ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

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

[Ref.: #12340]	Sample type/isolated from	rice field soil sample
[Ref.: #12340]	Geographic location (country and/or sea, region)	Nontaburi Province
[Ref.: #12340]	Country	Thailand
[Ref.: #12340]	Country ISO 3 Code	THA
[Ref.: #12340]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Rice-field soil
[Ref.: #67770]	Geographic location (country and/or sea, region)	Nontaburi Province
[Ref.: #67770]	Country	Thailand
[Ref.: #67770]	Country ISO 3 Code	THA
[Ref.: #67770]	Continent	Asia

[Ref.: #67771]	Sample type/isolated from	From Rice-field soil
[Ref.: #67771]	Geographic location (country and/or sea, region)	Nontaburi Province
[Ref.: #67771]	Country	Thailand
[Ref.: #67771]	Country ISO 3 Code	THA
[Ref.: #67771]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Engineered	#Agriculture	#Field
#Environmental	#Terrestrial	#Soil
#Host	#Plants	#Herbaceous plants (Grass,Crops)

What are isolation sources categories?

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Global distribution of 16S sequence DQ208700 (>99% sequence identity) for Streptacidiphilus oryzae subclade from Microbeatlas

Aquatic Samples	84
Soil Samples	524
Animal Samples	77
Plant Samples	54
Total Samples	739

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

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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.: #12340]	Streptacidiphilus oryzae strain TH49 16S ribosomal RNA gene, partial sequence	DQ208700	1446	GenBank ENA	348818 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Phaeacidiphilus oryzae TH49	GCA_000744815	contig	GenBank ENA	1449353 tax ID
[Ref.: #66792]	Streptacidiphilus oryzae TH49	1449353.3	wgs	PATRIC	1449353 tax ID	*
[Ref.: #66792]	Streptacidiphilus oryzae TH49	2574179794	draft	JGI IMG/M	1449353 tax ID	*

[Ref.: #67770]

GC-content

73.4 mol%

genome sequence analysis

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

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Streptacidiphilus oryzae TH49 PATRIC: 1449353.3
[Ref.: #69480]	gram-positive	gram-positiveⓘ	yes	89.776	yes
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	94.283	yes
[Ref.: #69480]	spore-forming	spore-formingⓘ	yes	86.778	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	87.034	yes
[Ref.: #69480]	thermophilic	thermophileⓘ	no	97	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	82.5	no

Availability in culture collections External links

[Ref.: #12340]

Culture collection no.

DSM 45098, CGMCC 4.2012, CIP 109342, JCM 13271, KCTC 19220, BCRC 16837

[Ref.: #83988]

SI-ID 297340

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Streptacidiphilus oryzae sp. nov., an actinomycete isolated from rice-field soil in Thailand.	Wang L, Huang Y, Liu Z, Goodfellow M, Rodriguez C	Int J Syst Evol Microbiol	10.1099/ijs.0.64165-0	2006	*

References

#12340

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 45098

#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 )

#31741

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 #28016 (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;
#67771 Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;

#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) .

#83988

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-ID297340.1 )

#28016

IJSEM 1257 2006 ( DOI 10.1099/ijs.0.64165-0 , PubMed 16738101 )

* These data were automatically processed and therefore are not curated

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