Name: Zhongshania aliphaticivorans SM-2
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 158174

Type strain:

Species: Zhongshania aliphaticivorans

Strain Designation: SM-2

Culture col. no.: DSM 107354, JCM 30138, KACC 18120

Strain history: C. O. Jeon; Chung-Ang Univ., South Korea; SM-2.

NCBI tax ID(s): 1470434 (species)

SI-ID 403472

DSM 107354

Special Collections

DSMZ
JCM

Section

Zhongshania aliphaticivorans SM-2 is a Gram-negative bacterium that was isolated from tidal flat.

Gram-negative
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	*Pseudomonadota*
	Class	*Gammaproteobacteria*
	Order	*Cellvibrionales*
	Family	*Spongiibacteraceae*
	Genus	*Zhongshania*
	Species	**Zhongshania aliphaticivorans**
	Full Scientific Name (LPSN)	Zhongshania aliphaticivorans Lo et al. 2014

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	negative Confidence in %93

Information on culture and growth conditions Culture and growth conditions

[Ref.: #64767]

Culture medium

BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)

[Ref.: #64767]

Culture medium growth

[Ref.: #64767]

Culture medium link

Medium recipe at MediaDive

[Ref.: #64767]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #64767]			growth	28 °C
[Ref.: #67770]			growth	25 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69481]

Ability of spore formation

no Confidence in %100

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68369]	adipate ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	arginine ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #68369]	D-glucose ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	D-glucose ChEBI	-	fermentation	* from API 20NE
[Ref.: #68369]	D-mannitol ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	D-mannose ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	decanoate ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	esculin ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #68369]	gelatin ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #68369]	gluconate ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	L-arabinose ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	malate ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	maltose ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	N-acetylglucosamine ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	nitrate ChEBI	+	reduction	* from API 20NE
[Ref.: #68369]	tryptophan ChEBI	-	energy source	* from API 20NE
[Ref.: #68369]	urea ChEBI	-	hydrolysis	* from API 20NE
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #68369]		indole ChEBI	no	* from API 20NE

	Physiological tests	Metabolite	Indole test
[Ref.: #68369]		indole ChEBI	-	* from API 20NE

	Enzyme	Enzyme activity	EC number
[Ref.: #68369]	arginine dihydrolase	-	3.5.3.6	* from API 20NE
[Ref.: #68369]	beta-glucosidase	-	3.2.1.21	* from API 20NE
[Ref.: #68369]	cytochrome oxidase	+	1.9.3.1	* from API 20NE
[Ref.: #68369]	gelatinase	-		* from API 20NE
[Ref.: #68369]	urease	-	3.5.1.5	* from API 20NE

API® 20NE:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Reduction of nitratesNO3	Indole productionTRP	Fermentation of D-glucoseGLU_ Ferm	Arginine dihydrolaseADH (Arg)	Urease/urea hydrolysisURE	Esculin hydrolysis/beta-GlucosidaseESC	Gelatinase/gelatin hydrolysisGEL	beta-GalactosidasePNPG	Assimilation of D-glucoseGLU_ Assim	Assimilation of L-arabinoseARA	Assimilation of D-mannoseMNE	Assimilation of D-mannitolMAN	Assimilation of N-acetyl-glucosamineNAG	Assimilation of maltoseMAL	Assimilation of gluconateGNT	Assimilation of capric acidCAP	Assimilation adipic acidADI	Assimilation of malic acidMLT	Assimilation of citric acidCIT	Assimilation of phenyl-acetic acidPAC	Cytochrome oxidaseOX
[Ref.: #64767]	24727	+	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	+

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

[Ref.: #64767]	Sample type/isolated from	tidal flat
[Ref.: #64767]	Geographic location (country and/or sea, region)	Danjin Bay
[Ref.: #64767]	Country	Republic of Korea
[Ref.: #64767]	Country ISO 3 Code	KOR
[Ref.: #64767]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Sea-tidal flat of Danjin bay in South Korea
* marker position based on {}

Isolation sources categories

#Environmental

#Terrestrial

#Tidal flat

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KF982857 (>99% sequence identity) for Zhongshania from Microbeatlas

Aquatic Samples	3986
Soil Samples	107
Animal Samples	283
Plant Samples	21
Total Samples	4397

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

[Ref.: #64767]

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.: #64767]	Zhongshania aliphaticivorans strain SM-2 16S ribosomal RNA gene, partial sequence	KF982857	1403	GenBank ENA	1470434 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Zhongshania aliphaticivorans SM-2	GCA_001586255	complete	GenBank ENA	1470434 tax ID	*

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: Zhongshania aliphaticivorans SM-2 NCBI: GCA_001586255.1
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	100	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Zhongshania aliphaticivorans SM-2 NCBI: GCA_001586255.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	93	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	93.624	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	81.256	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	83.799	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	95.052	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	yes	64.032	no

Availability in culture collections External links

[Ref.: #64767]

Culture collection no.

DSM 107354, JCM 30138, KACC 18120

[Ref.: #111005]

SI-ID 403472

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Zhongshania marina sp. nov., isolated from deep-sea water.	On YG, Oh JS, Roh DH	Int J Syst Evol Microbiol	10.1099/ijsem.0.003195	2018	*
Genetics	Complete genome of Zhongshania aliphaticivorans SM-2(T), an aliphatic hydrocarbon-degrading bacterium isolated from tidal flat sediment.	Jia B, Jeong HI, Kim KH, Jeon CO	J Biotechnol	10.1016/j.jbiotec.2016.03.039	2016	*
Phylogeny	Zhongshania aliphaticivorans sp. nov., an aliphatic hydrocarbon-degrading bacterium isolated from marine sediment, and transfer of Spongiibacter borealis Jang et al. 2011 to the genus Zhongshania as Zhongshania borealis comb. nov.	Lo N, Kang HJ, Jeon CO	Int J Syst Evol Microbiol	10.1099/ijs.0.068593-0	2014	*
Phylogeny	Zhongshania aquimaris sp. nov., isolated from seawater.	Weerawongwiwat V, Kim JH, Lee JS, Yoon JH, Sukhoom A, Kim W	Arch Microbiol	10.1007/s00203-022-03184-2	2022	*

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 )

#64767

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 107354

#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;

#68369

Automatically annotated from API 20NE .

#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 )

#111005

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-ID403472.1 )

* These data were automatically processed and therefore are not curated

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