Name: Streptacidiphilus rugosus AM16
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 134321

Type strain:

Species: Streptacidiphilus rugosus

Strain Designation: AM16

Culture col. no.: NBRC 103186, KCTC 19279, DSM 108660, JCM 16225

Strain history: <- SB Kim, Chungnam Natl. Univ.

NCBI tax ID(s): 981369 (strain), 405783 (species)

SI-ID 398612

DSM 108660

Special Collections

Section

Streptacidiphilus rugosus AM16 is an aerobe, spore-forming, Gram-positive bacterium that was isolated from soil.

Gram-positive
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 rugosus**
	Full Scientific Name (LPSN)	Streptacidiphilus rugosus Cho et al. 2008

Information on morphological and physiological properties Morphology

[Ref.: #67771]	Gram stain	positive

[Ref.: #32427]

Pigment production

Information on culture and growth conditions Culture and growth conditions

[Ref.: #64724]

Culture medium

ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84)

[Ref.: #64724]

Culture medium growth

[Ref.: #64724]

Culture medium link

Medium recipe at MediaDive

[Ref.: #64724]

Culture medium composition

expand / minimize

[Ref.: #64724]

Culture medium

GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)

[Ref.: #64724]

Culture medium growth

[Ref.: #64724]

Culture medium link

Medium recipe at MediaDive

[Ref.: #64724]

Culture medium composition

expand / minimize

[Ref.: #64724]

Culture medium

ISP2 MEDIUM (DSMZ Medium 987)

[Ref.: #64724]

Culture medium growth

[Ref.: #64724]

Culture medium link

Medium recipe at MediaDive

[Ref.: #64724]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #32427]	growth	28-35 °C
[Ref.: #64724]	growth	28 °C
[Ref.: #67770]	growth	28 °C
[Ref.: #67771]	growth	30 °C

	pH	Kind of pH		pH
[Ref.: #32427]			growth	03-08

Information on physiology and metabolism Physiology and metabolism

[Ref.: #67771]

Oxygen tolerance

aerobe

[Ref.: #32427]	Ability of spore formation	yes
[Ref.: #69480]	Ability of spore formation	yes Confidence in %91.234

[Ref.: #67770]

Observation

quinones: MK-9(H₈), MK-9(H₆)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #32427]	arginine ChEBI	+	carbon source
[Ref.: #32427]	gluconate ChEBI	+	carbon source
[Ref.: #32427]	glycerol ChEBI	+	carbon source
[Ref.: #32427]	myo-inositol ChEBI	+	carbon source
[Ref.: #32427]	sorbitol ChEBI	+	carbon source
[Ref.: #32427]	sucrose ChEBI	+	carbon source

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

[Ref.: #32427]	Sample type/isolated from	soil

[Ref.: #64724]	Sample type/isolated from	soil of Pinus thunbergii
[Ref.: #64724]	Geographic location (country and/or sea, region)	Anmyeon, Tae-an, Chungnam
[Ref.: #64724]	Country	Republic of Korea
[Ref.: #64724]	Country ISO 3 Code	KOR
[Ref.: #64724]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Pinus-associated soil
[Ref.: #67770]	Host species	Pinus
[Ref.: #67770]	Geographic location (country and/or sea, region)	Anmyeon, near the coastal areas of Tae-An, Chungnam
[Ref.: #67770]	Country	Republic of Korea
[Ref.: #67770]	Country ISO 3 Code	KOR
[Ref.: #67770]	Continent	Asia

[Ref.: #67771]	Sample type/isolated from	From `Pinus` soil
[Ref.: #67771]	Country	Republic of Korea
[Ref.: #67771]	Country ISO 3 Code	KOR
[Ref.: #67771]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental

#Terrestrial

#Soil

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence DQ904547 (>99% sequence identity) for Streptacidiphilus from Microbeatlas

Aquatic Samples	86
Soil Samples	623
Animal Samples	112
Plant Samples	31
Total Samples	852

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

[Ref.: #64724]

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.: #64724]	Streptacidiphilus rugosus AM-16 16S ribosomal RNA gene, partial sequence	DQ904547	1383	GenBank ENA	981369 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Streptacidiphilus rugosus AM-16	GCA_000744655	contig	GenBank ENA	981369 tax ID

[Ref.: #67770]

GC-content

71.8 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 rugosus AM-16 AM-16 NCBI: GCA_000744655.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	yes	89.547	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	96.778	yes
[Ref.: #69480]	aerobic	aerobicⓘ	yes	86.879	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	yes	91.234	yes
[Ref.: #69480]	thermophilic	thermophileⓘ	no	97.5	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	89.6	no

Availability in culture collections External links

[Ref.: #64724]

Culture collection no.

NBRC 103186, KCTC 19279, DSM 108660, JCM 16225

[Ref.: #91896]

SI-ID 398612

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Streptacidiphilus monticola sp. nov., a novel actinomycete isolated from soil.	Song W, Duan L, Jin L, Zhao J, Jiang S, Sun T, Guo XW, Xiang W, Wang X	Int J Syst Evol Microbiol	10.1099/ijsem.0.002751	2018	*
Phylogeny	Streptacidiphilus anmyonensis sp. nov., Streptacidiphilus rugosus sp. nov. and Streptacidiphilus melanogenes sp. nov., acidophilic actinobacteria isolated from Pinus soils.	Cho SH, Han JH, Ko HY, Kim SB	Int J Syst Evol Microbiol	10.1099/ijs.0.65480-0	2008	*

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 )

#32427

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 #28650 (see below)

#64724

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 108660

#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) .

#91896

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-ID398612.1 )

#28650

IJSEM 1566 2008 ( DOI 10.1099/ijs.0.65480-0 , PubMed 18599696 )

* These data were automatically processed and therefore are not curated

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Streptacidiphilus rugosus AM-16 AM-16

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