Name: Arthrobacter alpinus S6-3
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 7625

Type strain:

Species: Arthrobacter alpinus

Strain Designation: S6-3

Culture col. no.: DSM 22274, CGMCC 1.8950, JCM 17736

Strain history: CGMCC 1.8950 <-- R. Margesin S6-3.

NCBI tax ID(s): 656366 (species)

SI-ID 370639

DSM 22274, CGMCC 1.8950, JCM 17736

Special Collections

Section

Arthrobacter alpinus S6-3 is an aerobe, Gram-positive, ovoid-shaped bacterium that was isolated from alpine soil, north slope, 2300 m above sea level.

Gram-positive
ovoid-shaped
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	*Micrococcales*
	Family	*Micrococcaceae*
	Genus	*Arthrobacter*
	Species	**Arthrobacter alpinus**
	Full Scientific Name (LPSN)	Arthrobacter alpinus Zhang et al. 2010

Information on morphological and physiological properties Morphology

[Ref.: #29621]	Gram stain	positive
[Ref.: #69480]	Gram stain	positive Confidence in %91.716

[Ref.: #29621]	Cell length	1.3-1.9 µm

[Ref.: #29621]	Cell width	0.8-1 µm

[Ref.: #29621]	Cell shape	ovoid-shaped

[Ref.: #29621]	Motility	no
[Ref.: #69480]	Motility	no Confidence in %94

[Ref.: #29621]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #16249]

Culture medium

R2A MEDIUM (DSMZ Medium 830)

[Ref.: #16249]

Culture medium growth

[Ref.: #16249]

Culture medium link

Medium recipe at MediaDive

[Ref.: #16249]

Culture medium composition

expand / minimize

[Ref.: #16249]

Culture medium

NUTRIENT AGAR (DSMZ Medium 1)

[Ref.: #16249]

Culture medium growth

[Ref.: #16249]

Culture medium link

Medium recipe at MediaDive

[Ref.: #16249]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #16249]	growth	15-25 °C
[Ref.: #29621]	growth	01-25 °C
[Ref.: #29621]	optimum	20-25 °C
[Ref.: #67770]	growth	20 °C

	pH	Kind of pH		pH
[Ref.: #29621]			optimum	7-7.2
[Ref.: #29621]			growth	06-09

Information on physiology and metabolism Physiology and metabolism

[Ref.: #29621]

Oxygen tolerance

aerobe

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #29621]		NaCl		growth	0-5	%
[Ref.: #29621]		NaCl		optimum	0-5	%

[Ref.: #16249]	Murein short key	A11.28
[Ref.: #16249]	Murein types	A3alpha L-Lys-L-Thr-L-Ala₃

[Ref.: #29621]	Observation	aggregates in chains
[Ref.: #67770]	Observation	quinones: MK-9(H₂), MK-8(H₂), MK-10(H₂)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #29621]	arabinose ChEBI	+	carbon source
[Ref.: #29621]	esculin ChEBI	+	hydrolysis
[Ref.: #29621]	glucose ChEBI	+	carbon source
[Ref.: #29621]	lactose ChEBI	+	carbon source
[Ref.: #29621]	maltose ChEBI	+	carbon source
[Ref.: #29621]	mannitol ChEBI	+	carbon source
[Ref.: #29621]	mannose ChEBI	+	carbon source

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #29621]		catalase	+	1.11.1.6

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	biotin biosynthesis	100	4 of 4
[Ref.: #66794]	phenylacetate degradation (aerobic)	100	5 of 5
[Ref.: #66794]	pentose phosphate pathway	100	11 of 11
[Ref.: #66794]	cis-vaccenate biosynthesis	100	2 of 2
[Ref.: #66794]	cardiolipin biosynthesis	100	7 of 7
[Ref.: #66794]	aspartate and asparagine metabolism	100	9 of 9
[Ref.: #66794]	acetate fermentation	100	4 of 4
[Ref.: #66794]	palmitate biosynthesis	100	22 of 22
[Ref.: #66794]	adipate degradation	100	2 of 2
[Ref.: #66794]	ppGpp biosynthesis	100	4 of 4
[Ref.: #66794]	methylglyoxal degradation	100	5 of 5
[Ref.: #66794]	propanol degradation	100	7 of 7
[Ref.: #66794]	formaldehyde oxidation	100	3 of 3
[Ref.: #66794]	ribulose monophosphate pathway	100	2 of 2
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	ceramide biosynthesis	100	1 of 1
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	lipoate biosynthesis	100	5 of 5
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	cyanate degradation	100	3 of 3
[Ref.: #66794]	vitamin K metabolism	100	5 of 5
[Ref.: #66794]	denitrification	100	2 of 2
[Ref.: #66794]	citric acid cycle	92.86	13 of 14
[Ref.: #66794]	proline metabolism	90.91	10 of 11
[Ref.: #66794]	Entner Doudoroff pathway	90	9 of 10
[Ref.: #66794]	threonine metabolism	90	9 of 10
[Ref.: #66794]	valine metabolism	88.89	8 of 9
[Ref.: #66794]	chorismate metabolism	88.89	8 of 9
[Ref.: #66794]	gluconeogenesis	87.5	7 of 8
[Ref.: #66794]	isoleucine metabolism	87.5	7 of 8
[Ref.: #66794]	photosynthesis	85.71	12 of 14
[Ref.: #66794]	glutamate and glutamine metabolism	85.71	24 of 28
[Ref.: #66794]	reductive acetyl coenzyme A pathway	85.71	6 of 7
[Ref.: #66794]	leucine metabolism	84.62	11 of 13
[Ref.: #66794]	purine metabolism	80.85	76 of 94
[Ref.: #66794]	starch degradation	80	8 of 10
[Ref.: #66794]	creatinine degradation	80	4 of 5
[Ref.: #66794]	flavin biosynthesis	80	12 of 15
[Ref.: #66794]	metabolism of amino sugars and derivatives	80	4 of 5
[Ref.: #66794]	ethylmalonyl-CoA pathway	80	4 of 5
[Ref.: #66794]	glycogen metabolism	80	4 of 5
[Ref.: #66794]	gallate degradation	80	4 of 5
[Ref.: #66794]	cellulose degradation	80	4 of 5
[Ref.: #66794]	peptidoglycan biosynthesis	80	12 of 15
[Ref.: #66794]	serine metabolism	77.78	7 of 9
[Ref.: #66794]	molybdenum cofactor biosynthesis	77.78	7 of 9
[Ref.: #66794]	CO2 fixation in Crenarchaeota	77.78	7 of 9
[Ref.: #66794]	pyrimidine metabolism	77.78	35 of 45
[Ref.: #66794]	d-mannose degradation	77.78	7 of 9
[Ref.: #66794]	phenylalanine metabolism	76.92	10 of 13
[Ref.: #66794]	glycolysis	76.47	13 of 17
[Ref.: #66794]	alanine metabolism	75.86	22 of 29
[Ref.: #66794]	glycogen biosynthesis	75	3 of 4
[Ref.: #66794]	butanoate fermentation	75	3 of 4
[Ref.: #66794]	sulfopterin metabolism	75	3 of 4
[Ref.: #66794]	ketogluconate metabolism	75	6 of 8
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
[Ref.: #66794]	C4 and CAM-carbon fixation	75	6 of 8
[Ref.: #66794]	NAD metabolism	72.22	13 of 18
[Ref.: #66794]	heme metabolism	71.43	10 of 14
[Ref.: #66794]	tetrahydrofolate metabolism	71.43	10 of 14
[Ref.: #66794]	myo-inositol biosynthesis	70	7 of 10
[Ref.: #66794]	propionate fermentation	70	7 of 10
[Ref.: #66794]	tryptophan metabolism	68.42	26 of 38
[Ref.: #66794]	lipid metabolism	67.74	21 of 31
[Ref.: #66794]	enterobactin biosynthesis	66.67	2 of 3
[Ref.: #66794]	methane metabolism	66.67	2 of 3
[Ref.: #66794]	octane oxidation	66.67	2 of 3
[Ref.: #66794]	glycolate and glyoxylate degradation	66.67	4 of 6
[Ref.: #66794]	L-lactaldehyde degradation	66.67	2 of 3
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	histidine metabolism	65.52	19 of 29
[Ref.: #66794]	methionine metabolism	65.38	17 of 26
[Ref.: #66794]	oxidative phosphorylation	62.64	57 of 91
[Ref.: #66794]	arginine metabolism	62.5	15 of 24
[Ref.: #66794]	androgen and estrogen metabolism	62.5	10 of 16
[Ref.: #66794]	isoprenoid biosynthesis	61.54	16 of 26
[Ref.: #66794]	vitamin B1 metabolism	61.54	8 of 13
[Ref.: #66794]	degradation of hexoses	61.11	11 of 18
[Ref.: #66794]	4-hydroxyphenylacetate degradation	60	6 of 10
[Ref.: #66794]	degradation of sugar acids	60	15 of 25
[Ref.: #66794]	phenol degradation	60	12 of 20
[Ref.: #66794]	glycine betaine biosynthesis	60	3 of 5
[Ref.: #66794]	3-phenylpropionate degradation	60	9 of 15
[Ref.: #66794]	bile acid biosynthesis, neutral pathway	58.82	10 of 17
[Ref.: #66794]	ubiquinone biosynthesis	57.14	4 of 7
[Ref.: #66794]	lysine metabolism	57.14	24 of 42
[Ref.: #66794]	degradation of sugar alcohols	56.25	9 of 16
[Ref.: #66794]	cysteine metabolism	55.56	10 of 18
[Ref.: #66794]	non-pathway related	55.26	21 of 38
[Ref.: #66794]	metabolism of disaccharids	54.55	6 of 11
[Ref.: #66794]	vitamin B6 metabolism	54.55	6 of 11
[Ref.: #66794]	sulfate reduction	53.85	7 of 13
[Ref.: #66794]	phenylpropanoid biosynthesis	53.85	7 of 13
[Ref.: #66794]	urea cycle	53.85	7 of 13
[Ref.: #66794]	CMP-KDO biosynthesis	50	2 of 4
[Ref.: #66794]	glutathione metabolism	50	7 of 14
[Ref.: #66794]	mannosylglycerate biosynthesis	50	1 of 2
[Ref.: #66794]	cyclohexanol degradation	50	2 of 4
[Ref.: #66794]	degradation of pentoses	50	14 of 28
[Ref.: #66794]	phenylmercury acetate degradation	50	1 of 2
[Ref.: #66794]	pantothenate biosynthesis	50	3 of 6
[Ref.: #66794]	kanosamine biosynthesis II	50	1 of 2
[Ref.: #66794]	ethanol fermentation	50	1 of 2
[Ref.: #66794]	d-xylose degradation	45.45	5 of 11
[Ref.: #66794]	ascorbate metabolism	45.45	10 of 22
[Ref.: #66794]	nitrate assimilation	44.44	4 of 9
[Ref.: #66794]	polyamine pathway	43.48	10 of 23
[Ref.: #66794]	tyrosine metabolism	42.86	6 of 14
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	41.67	5 of 12
[Ref.: #66794]	3-chlorocatechol degradation	40	2 of 5
[Ref.: #66794]	glycine metabolism	40	4 of 10
[Ref.: #66794]	arachidonate biosynthesis	40	2 of 5
[Ref.: #66794]	carnitine metabolism	37.5	3 of 8
[Ref.: #66794]	sphingosine metabolism	33.33	2 of 6
[Ref.: #66794]	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
[Ref.: #66794]	acetyl CoA biosynthesis	33.33	1 of 3
[Ref.: #66794]	selenocysteine biosynthesis	33.33	2 of 6
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	lipid A biosynthesis	33.33	3 of 9
[Ref.: #66794]	aclacinomycin biosynthesis	28.57	2 of 7
[Ref.: #66794]	arachidonic acid metabolism	27.78	5 of 18
[Ref.: #66794]	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
[Ref.: #66794]	lactate fermentation	25	1 of 4
[Ref.: #66794]	dTDPLrhamnose biosynthesis	25	2 of 8
[Ref.: #66794]	toluene degradation	25	1 of 4
[Ref.: #66794]	vitamin E metabolism	25	1 of 4
[Ref.: #66794]	carotenoid biosynthesis	22.73	5 of 22
[Ref.: #66794]	chlorophyll metabolism	22.22	4 of 18
[Ref.: #66794]	allantoin degradation	22.22	2 of 9
		Only first 10 entries are displayed. Click here to see all.

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

[Ref.: #16249]	Sample type/isolated from	alpine soil, north slope, 2300 m above sea level
[Ref.: #16249]	Geographic location (country and/or sea, region)	Hohe Tauern, Grossglockner area, Fuschertörl
[Ref.: #16249]	Country	Austria
[Ref.: #16249]	Country ISO 3 Code	AUT
[Ref.: #16249]	Continent	Europe

[Ref.: #67770]	Sample type/isolated from	Alpine soil in Fuschertörl
[Ref.: #67770]	Geographic location (country and/or sea, region)	Hohe Tauern
[Ref.: #67770]	Country	Austria
[Ref.: #67770]	Country ISO 3 Code	AUT
[Ref.: #67770]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Soil
#Climate	#Cold	#Alpine

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence GQ227413 (>99% sequence identity) for Arthrobacter from Microbeatlas

Aquatic Samples	494
Soil Samples	1504
Animal Samples	1120
Plant Samples	378
Total Samples	3496

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

[Ref.: #16249]

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.: #16249]	Arthrobacter alpinus strain S6-3 16S ribosomal RNA gene, partial sequence	GQ227413	1530	GenBank ENA	656366 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Arthrobacter alpinus DSM 22274	GCA_900105965	contig	GenBank ENA	656366 tax ID
[Ref.: #66792]	Arthrobacter alpinus strain DSM 22274	656366.8	wgs	PATRIC	656366 tax ID	*
[Ref.: #66792]	Arthrobacter alpinus DSM 22274	2634166197	draft	JGI IMG/M	656366 tax ID	*

[Ref.: #16249]	GC-content	61.9 mol%	thermal denaturation, midpoint method (Tm)
[Ref.: #29621]	GC-content	61.9 mol%
[Ref.: #67770]	GC-content	60.6 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: Arthrobacter alpinus strain DSM 22274 PATRIC: 656366.8
[Ref.: #69480]	gram-positive	gram-positiveⓘ	yes	91.716	yes
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	98.921	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	69.809	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	89.427	yes
[Ref.: #69480]	thermophilic	thermophileⓘ	no	98.467	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	94	no

Availability in culture collections External links

[Ref.: #16249]

Culture collection no.

DSM 22274, CGMCC 1.8950, JCM 17736

[Ref.: #77069]

SI-ID 370639

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Genetic diversity of glacier-inhabiting Cryobacterium bacteria in China and description of Cryobacterium zongtaii sp. nov. and Arthrobacter glacialis sp. nov.	Liu Q, Liu HC, Zhou YG, Xin YH	Syst Appl Microbiol	10.1016/j.syapm.2018.10.005	2018	*
Phylogeny	Arthrobacter alpinus sp. nov., a psychrophilic bacterium isolated from alpine soil.	Zhang DC, Schumann P, Liu HC, Xin YH, Zhou YG, Schinner F, Margesin R	Int J Syst Evol Microbiol	10.1099/ijs.0.017178-0	2009	*

References

#16249

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 22274

#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 )

#29621

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 #26011 (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) .

#66794

Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#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) .

#77069

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-ID370639.1 )

#26011

IJSEM 2149 2010 ( DOI 10.1099/ijs.0.017178-0 , PubMed 19880631 )

* These data were automatically processed and therefore are not curated

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Arthrobacter alpinus strain DSM 22274

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