Name: Dyadobacter soli MJ20
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 23880

Type strain:

Species: Dyadobacter soli

Strain Designation: MJ20

Culture col. no.: DSM 25329, JCM 16232, KCTC 22481

Strain history: <- MJ Lee, H-Plus Eco, Korea [6658]

NCBI tax ID(s): 659014 (species)

SI-ID 404040

DSM 25329

Section

Dyadobacter soli MJ20 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from farm soil.

Gram-negative
rod-shaped
aerobe
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	*Bacteroidota*
	Class	*Cytophagia*
	Order	*Cytophagales*
	Family	*Spirosomataceae*
	Genus	*Dyadobacter*
	Species	**Dyadobacter soli**
	Full Scientific Name (LPSN)	Dyadobacter soli Lee et al. 2010

Information on morphological and physiological properties Morphology

[Ref.: #29732]	Gram stain	negative
[Ref.: #67771]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.988

[Ref.: #29732]	Cell length	1.9-2.4 µm

[Ref.: #29732]	Cell width	0.6-0.7 µm

[Ref.: #29732]	Cell shape	rod-shaped
[Ref.: #67771]	Cell shape	rod-shaped

[Ref.: #29732]	Motility	no
[Ref.: #67771]	Motility	no
[Ref.: #69480]	Motility	no Confidence in %90.419

[Ref.: #29732]

Pigment production

yes

Multimedia content

[Ref.: #20532]

Intellectual property rights:

Information on culture and growth conditions Culture and growth conditions

[Ref.: #20532]

Culture medium

REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a)

[Ref.: #20532]

Culture medium growth

[Ref.: #20532]

Culture medium link

Medium recipe at MediaDive

[Ref.: #20532]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #20532]	growth	28 °C
[Ref.: #29732]	growth	15-30 °C
[Ref.: #29732]	optimum	25 °C
[Ref.: #67770]	growth	25 °C
[Ref.: #67771]	growth	25 °C

[Ref.: #20532]	Temperature range	mesophilic
[Ref.: #29732]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic
[Ref.: #67771]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #29732]			optimum	6.5-7
[Ref.: #29732]			growth	05-08

Information on physiology and metabolism Physiology and metabolism

[Ref.: #29732]	Oxygen tolerance	aerobe
[Ref.: #67771]	Oxygen tolerance	aerobe

[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.97

[Ref.: #29732]	Observation	aggregates in chains
[Ref.: #67770]	Observation	quinones: MK-7
[Ref.: #67771]	Observation	quinones: MK-7

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #29732]	2-dehydro-D-gluconate ChEBI	+	carbon source
[Ref.: #29732]	arabinose ChEBI	+	carbon source
[Ref.: #29732]	glucose ChEBI	+	carbon source
[Ref.: #29732]	malate ChEBI	+	carbon source
[Ref.: #29732]	maltose ChEBI	+	carbon source
[Ref.: #29732]	mannose ChEBI	+	carbon source
[Ref.: #29732]	melibiose ChEBI	+	carbon source
[Ref.: #29732]	N-acetylglucosamine ChEBI	+	carbon source
[Ref.: #29732]	phenylacetate ChEBI	+	carbon source
[Ref.: #29732]	rhamnose ChEBI	+	carbon source
[Ref.: #29732]	sucrose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #29732]		catalase	+	1.11.1.6
[Ref.: #29732]		cytochrome oxidase	+	1.9.3.1

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

[Ref.: #20532]	Sample type/isolated from	farm soil
[Ref.: #20532]	Geographic location (country and/or sea, region)	near Daejeon
[Ref.: #20532]	Country	Republic of Korea
[Ref.: #20532]	Country ISO 3 Code	KOR
[Ref.: #20532]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Farm soil near Daejeon
[Ref.: #67770]	Country	Republic of Korea
[Ref.: #67770]	Country ISO 3 Code	KOR
[Ref.: #67770]	Continent	Asia

[Ref.: #67771]	Sample type/isolated from	From 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
#Engineered	#Agriculture	#Field
#Engineered	#Food production	#Aquaculture

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence GQ241324 (>99% sequence identity) for Dyadobacter from Microbeatlas

Aquatic Samples	233
Soil Samples	517
Animal Samples	2781
Plant Samples	312
Total Samples	3843

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

[Ref.: #20532]

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.: #20532]	Dyadobacter soli strain MJ20 16S ribosomal RNA gene, partial sequence	GQ241324	1398	ENA	659014 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Dyadobacter soli DSM 25329	GCA_900101885	scaffold	GenBank	659014 tax ID
[Ref.: #66792]	Dyadobacter soli strain DSM 25329	659014.3	wgs	PATRIC	659014 tax ID	*
[Ref.: #66792]	Dyadobacter soli DSM 25329	2619619010	draft	JGI IMG/M	659014 tax ID	*

[Ref.: #20532]	GC-content	48.5 mol%	high performance liquid chromatography (HPLC)
[Ref.: #29732]	GC-content	48.5 mol%

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: Dyadobacter soli DSM 25329 NCBI: GCA_900101885.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Dyadobacter soli strain DSM 25329 PATRIC: 659014.3
[Ref.: #69480]	gram-positive	no	98.02	yes
[Ref.: #69480]	anaerobic	no	99.333	yes
[Ref.: #69480]	halophile	no	95.255	no
[Ref.: #69480]	spore-forming	no	92.101	no
[Ref.: #69480]	glucose-util	yes	87.248	no
[Ref.: #69480]	thermophile	no	99.033	yes
[Ref.: #69480]	flagellated	no	97.229	yes
[Ref.: #69480]	motile	no	91.779	no
[Ref.: #69480]	aerobic	yes	89.524	yes
[Ref.: #69480]	glucose-ferment	no	86.819	no

Availability in culture collections External links

[Ref.: #20532]

Culture collection no.

DSM 25329, JCM 16232, KCTC 22481

[Ref.: #87891]

SI-ID 404040

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Dyadobacter endophyticus sp. nov., an endophytic bacterium isolated from maize root.	Gao JL, Sun P, Wang XM, Qiu TL, Lv FY, Yuan M, Yang MM, Sun JG	Int J Syst Evol Microbiol	10.1099/ijsem.0.001304	2016	*
Phylogeny	Dyadobacter jiangsuensis sp. nov., a methyl red degrading bacterium isolated from a dye-manufacturing factory.	Wang L, Chen L, Ling Q, Li CC, Tao Y, Wang M	Int J Syst Evol Microbiol	10.1099/ijs.0.000069	2015	*
Phylogeny	Dyadobacter soli sp. nov., a starch-degrading bacterium isolated from farm soil.	Lee M, Woo SG, Park J, Yoo SA	Int J Syst Evol Microbiol	10.1099/ijs.0.019653-0	2009	*
Phylogeny	Dyadobacter luticola sp. nov., isolated from a sewage sediment sample.	Song Z, Song Y, Yu Y, Choi L, Wang G, Li M	Int J Syst Evol Microbiol	10.1099/ijsem.0.003178	2018	*

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 )

#20532

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 25329

#29732

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 #26114 (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) .

#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 )

#87891

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-ID404040.1 )

#26114

IJSEM 2577 2010 ( DOI 10.1099/ijs.0.019653-0 , PubMed 20008109 )

* These data were automatically processed and therefore are not curated

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Dyadobacter soli DSM 25329

Dyadobacter soli strain DSM 25329

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