Streptacidiphilus melanogenes (NBRC 103184, KCTC 19280, DSM 108659)

Name: Streptacidiphilus melanogenes (NBRC 103184, KCTC 19280, DSM 108659)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 134322

Type strain

Strain Designation SB-B34

Culture col. no. NBRC 103184 KCTC 19280 DSM 108659 SB-B34 JCM 16224

NCBI tax ID(s) 411235

Special Collections DSMZ JCM KCTC Literature strains

Links

Streptacidiphilus melanogenes SB-B34 is an aerobe, spore-forming, mesophilic prokaryote that was isolated from soil.

spore-forming Gram-positive aerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 404206

KCTC 19280,NBRC 103184,JCM 16224,DSM 108659

@ref 20215

Last LPSN update 2025-12-16 10:02:01

Domain Bacillati

Phylum Actinomycetota

Class Actinomycetes

Order Kitasatosporales

Family Streptomycetaceae

Genus Streptacidiphilus

Species Streptacidiphilus melanogenes

Full scientific name Streptacidiphilus melanogenes Cho et al. 2008

Morphology

Cell morphology

@ref	Gram stain	Confidence
67771	positive
125438	positive	90.519
125439	positive	99.9
125439		93.8

Pigmentation

32427

Productionno

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
64723	ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84)	Medium recipe at MediaDive	Name: ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84) Composition: Agar 20.0 g/l Rolled oats 20.0 g/l ZnSO4 x 7 H2O 0.001 g/l MnCl2 x 4 H2O 0.001 g/l FeSO4 x 7 H2O 0.001 g/l Distilled water
64723	GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)	Medium recipe at MediaDive	Name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) Composition: Agar 18.0 g/l Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l CaCO3 2.0 g/l Distilled water
64723	ISP2 MEDIUM (DSMZ Medium 987)	Medium recipe at MediaDive	Name: ISP 2 MEDIUM (DSMZ Medium 987) Composition: Agar 20.0 g/l Malt extract 10.0 g/l Dextrose 4.0 g/l Yeast extract 4.0 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
32427	positive	growth	28-35	mesophilic
64723	positive	growth	28	mesophilic
67770	positive	growth	28	mesophilic
67771	positive	growth	30	mesophilic

Culture pH

@ref	Ability	Type	PH	PH range
32427	positive	growth	03-08	acidophile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
67771	aerobe
125438	aerobe	90.697
125439	obligate aerobe	98

Spore formation

@ref	Spore formation	Confidence
32427
125439		94.6

Observation

67770

Observationquinones: MK-9(H₈), MK-9(H₆)

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
32427	29016 ChEBI	arginine	+	carbon source
32427	24265 ChEBI	gluconate	+	carbon source
32427	17754 ChEBI	glycerol	+	carbon source
32427	28053 ChEBI	melibiose	+	carbon source
32427	17268 ChEBI	myo-inositol	+	carbon source
32427	30911 ChEBI	sorbitol	+	carbon source
32427	17992 ChEBI	sucrose	+	carbon source
32427	18222 ChEBI	xylose	+	carbon source

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type	Host species	Geographic location	Country	Country ISO 3 Code	Continent
32427	soil
64723	soil of Pinus thunbergii		Sambong, Tae-an, Chungnam	Republic of Korea	KOR	Asia
67770	Pinus-associated soil	Pinus	Sambong, near the coastal areas of Tae-An, Chungnam	Republic of Korea	KOR	Asia
67771	From `Pinus` soil			Republic of Korea	KOR	Asia

Taxonmaps

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

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
64723	1	Risk group (German classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	ASM78783v1 assembly for Streptacidiphilus melanogenes NBRC 103184	scaffold	GCA_000787835	411235.3	2706794556	411235	21.22

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
64723	Streptacidiphilus melanogenes strain SB-B34 16S ribosomal RNA gene, partial sequence	DQ994689	1428		411235

GC content

@ref	GC-content (mol%)	Method
67770	72	genome sequence analysis

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Streptacidiphilus melanogenes NBRC 103184
NCBI: GCA_000787835

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	yes	94.60	no
125439	motility	BacteriaNetⓘ	no	93.80	no
125439	gram_stain	BacteriaNetⓘ	positive	99.90	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	98.00	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Streptacidiphilus melanogenes NBRC 103184
PATRIC: 411235.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	90.52	yes
125438	anaerobic	anaerobicⓘ	no	94.38	yes
125438	spore-forming	spore-formingⓘ	yes	89.12	yes
125438	aerobic	aerobicⓘ	yes	90.70	yes
125438	thermophilic	thermophileⓘ	no	96.75	yes
125438	flagellated	motile2+ⓘ	no	86.10	no

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 )
#28650	IJSEM 1566 2008 ( DOI 10.1099/ijs.0.65480-0 , PubMed 18599696 )
#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
#64723	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 108659
#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 .
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Streptacidiphilus melanogenes (NBRC 103184, KCTC 19280, DSM 108659)

Name and taxonomic classification

Morphology

Cell morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Observation

Metabolite utilization

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000787835

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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