Name: Streptacidiphilus melanogenes SB-B34
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 134322

Type strain:

Species: Streptacidiphilus melanogenes

Strain Designation: SB-B34

Culture col. no.: NBRC 103184, KCTC 19280, DSM 108659, JCM 16224

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

NCBI tax ID(s): 411235 (species)

SI-ID 404206

DSM 108659

Special Collections

Section

Streptacidiphilus melanogenes SB-B34 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 melanogenes**
	Full Scientific Name (LPSN)	Streptacidiphilus melanogenes Cho et al. 2008

Information on morphological and physiological properties Morphology

[Ref.: #67771]	Gram stain	positive
[Ref.: #69480]	Gram stain	positive Confidence in %90.519

[Ref.: #32427]

Pigment production

Information on culture and growth conditions Culture and growth conditions

[Ref.: #64723]

Culture medium

ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84)

[Ref.: #64723]

Culture medium growth

[Ref.: #64723]

Culture medium link

Medium recipe at MediaDive

[Ref.: #64723]

Culture medium composition

expand / minimize

[Ref.: #64723]

Culture medium

GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)

[Ref.: #64723]

Culture medium growth

[Ref.: #64723]

Culture medium link

Medium recipe at MediaDive

[Ref.: #64723]

Culture medium composition

expand / minimize

[Ref.: #64723]

Culture medium

ISP2 MEDIUM (DSMZ Medium 987)

[Ref.: #64723]

Culture medium growth

[Ref.: #64723]

Culture medium link

Medium recipe at MediaDive

[Ref.: #64723]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #32427]	growth	28-35 °C
[Ref.: #64723]	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.: #69480]	Oxygen tolerance	aerobe Confidence in %90.697

[Ref.: #32427]	Ability of spore formation	yes
[Ref.: #69481]	Ability of spore formation	yes Confidence in %100

[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]	melibiose ChEBI	+	carbon source
[Ref.: #32427]	myo-inositol ChEBI	+	carbon source
[Ref.: #32427]	sorbitol ChEBI	+	carbon source
[Ref.: #32427]	sucrose ChEBI	+	carbon source
[Ref.: #32427]	xylose 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.: #64723]	Sample type/isolated from	soil of Pinus thunbergii
[Ref.: #64723]	Geographic location (country and/or sea, region)	Sambong, Tae-an, Chungnam
[Ref.: #64723]	Country	Republic of Korea
[Ref.: #64723]	Country ISO 3 Code	KOR
[Ref.: #64723]	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)	Sambong, 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 DQ994689 (>99% sequence identity) for Streptacidiphilus from Microbeatlas

Aquatic Samples	17
Soil Samples	433
Animal Samples	19
Plant Samples	17
Total Samples	486

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

[Ref.: #64723]

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.: #64723]	Streptacidiphilus melanogenes strain SB-B34 16S ribosomal RNA gene, partial sequence	DQ994689	1428	GenBank ENA	411235 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Streptacidiphilus melanogenes NBRC 103184	GCA_000787835	scaffold	GenBank ENA	411235 tax ID
[Ref.: #66792]	Streptacidiphilus melanogenes NBRC 103184	411235.3	wgs	PATRIC	411235 tax ID	*
[Ref.: #66792]	Streptacidiphilus melanogenes NBRC 103184	2706794556	draft	JGI IMG/M	411235 tax ID	*

[Ref.: #67770]

GC-content

72 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 GenomeNet Sporulation v. 1 based on: Streptacidiphilus melanogenes NBRC 103184 NCBI: GCA_000787835.1
[Ref.: #69481]	spore-forming	spore-formingⓘ	yes	100	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Streptacidiphilus melanogenes NBRC 103184 PATRIC: 411235.3
[Ref.: #69480]	gram-positive	gram-positiveⓘ	yes	90.519	yes
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	94.376	yes
[Ref.: #69480]	spore-forming	spore-formingⓘ	yes	89.124	yes
[Ref.: #69480]	aerobic	aerobicⓘ	yes	90.697	yes
[Ref.: #69480]	thermophilic	thermophileⓘ	no	96.75	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	86.1	no

Availability in culture collections External links

[Ref.: #64723]

Culture collection no.

NBRC 103184, KCTC 19280, DSM 108659, JCM 16224

[Ref.: #91897]

SI-ID 404206

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Streptacidiphilus fuscans sp. nov., a novel actinobacterium isolated from the root of pumpkin (Cucurbita moschata).	Yu B, Han C, Zhao J, Zhang Y, Shan Q, Wu Y, Ju H, Xiang W, Wang X	Int J Syst Evol Microbiol	10.1099/ijsem.0.004824	2021	*
Phylogeny	Streptacidiphilus pinicola sp. nov., isolated from pine grove soil.	Roh SG, Kim MK, Park S, Yun BR, Park J, Kim MJ, Kim YS, Kim SB	Int J Syst Evol Microbiol	10.1099/ijsem.0.002957	2018	*
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)

#64723

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 108659

#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) .

#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 )

#91897

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-ID404206.1 )

#28650

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

* These data were automatically processed and therefore are not curated

Change proposal

You found an error in BacDive? Please tell us about it!

Note that changes will be reviewed and judged. If your changes are legitimate, changes will occur within the next BacDive update. Only proposed changes supported by the according reference will be reviewed. The BacDive team reserves the right to reject proposed changes.

Search for species Streptacidiphilus melanogenes in external resources:
SILVA
BRENDA
PANGAEA
GBIF

Streptacidiphilus melanogenes NBRC 103184

Streptacidiphilus melanogenes NBRC 103184

Change proposal

Change proposal