Arcticibacter svalbardensis (KCTC 32015, CIP 110422, MN12-7)

Name: Arcticibacter svalbardensis (KCTC 32015, CIP 110422, MN12-7)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 140651

Type strain

Strain Designation MN12-7

Culture col. no. KCTC 32015 CIP 110422 MN12-7

NCBI tax ID(s) 1288027

Special Collections KCTC CIP Literature strains

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Arcticibacter svalbardensis MN12-7 is an aerobe, mesophilic, Gram-negative prokaryote that forms circular colonies and was isolated from surface soil from Ny-Alesund, Svaldbard.

Gram-negative rod-shaped colony-forming aerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 388294

CIP 110422,KCTC 32015,CCUG 62540

@ref 20215

Last LPSN update 2025-12-16 10:03:39

Domain Pseudomonadati

Phylum Bacteroidota

Class Sphingobacteriia

Order Sphingobacteriales

Family Sphingobacteriaceae

Genus Arcticibacter

Species Arcticibacter svalbardensis

Full scientific name Arcticibacter svalbardensis Prasad et al. 2013

BacDive ID	Other strains from **Arcticibacter svalbardensis** (1)	Type strain
133893	A. svalbardensis

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Confidence
27122	negative	3.9 µm	1.75 µm	rod-shaped
125438	negative				96.709
125439	negative				99
123394	negative			rod-shaped

Colony morphology

@ref	Colony size	Colony color	Colony shape	Medium used
27122	1 mm	light salmon pink	circular	nutrient agar (Difco)

Pigmentation

27122

Productionyes

Culture and growth conditions

Culture medium

@ref	Name	Composition	Medium link
37320	MEDIUM 566- Reasoner's 2A agar for Flavobacterium micromati	Distilled water make up to (1000.000 ml);R2A agar (18.200 g)
27122	nutrient agar (Difco)
123394	CIP Medium 735		Medium recipe at CIP
123394	CIP Medium 328		Medium recipe at CIP
123394	CIP Medium 566		Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
27122	positive	optimum	18	psychrophilic
27122	positive	growth	4-25
37320	positive	growth	25	mesophilic

Culture pH

@ref	Ability	Type	PH
27122	positive	optimum	7
27122	positive	growth	7-8

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
27122	aerobe
125439	obligate aerobe	93.1

Spore formation

@ref	Spore formation	Confidence
125439		98.2

Halophily

@ref	Salt	Growth	Tested relation	Concentration
27122	NaCl	positive	growth	0-2 M
27122	NaCl	positive	optimum	0.5-1 M

Observation

27122

Observationaggregates in clumps

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
27122	22599 ChEBI	arabinose	-	assimilation
27122		casein	-	hydrolysis
27122	17057 ChEBI	cellobiose	+	assimilation
27122	62968 ChEBI	cellulose	+	hydrolysis
27122	17029 ChEBI	chitin	-	hydrolysis
27122	16947 ChEBI	citrate	-	builds acid from
27122	16737 ChEBI	creatinine	-	builds acid from
27122	15824 ChEBI	D-fructose	-	builds acid from
27122	16899 ChEBI	D-mannitol	-	builds acid from
27122	16024 ChEBI	D-mannose	-	builds acid from
27122	65327 ChEBI	D-xylose	-	builds acid from
27122	16991 ChEBI	dna	-	hydrolysis
27122	17113 ChEBI	erythritol	-	builds acid from
27122	4853 ChEBI	esculin	+	hydrolysis
27122	28757 ChEBI	fructose	-	assimilation
27122	16813 ChEBI	galactitol	-	assimilation
27122	28260 ChEBI	galactose	+	assimilation
27122	5291 ChEBI	gelatin	-	hydrolysis
27122	5417 ChEBI	glucosamine	-	assimilation
27122	17234 ChEBI	glucose	+	fermentation
27122	17234 ChEBI	glucose	+	assimilation
27122	17754 ChEBI	glycerol	-	assimilation
27122	28087 ChEBI	glycogen	-	builds acid from
27122	28304 ChEBI	heparin	-	hydrolysis
27122	15443 ChEBI	inulin	-	assimilation
27122	30849 ChEBI	L-arabinose	-	builds acid from
27122	17716 ChEBI	lactose	-	assimilation
27122	17306 ChEBI	maltose	+	assimilation
27122	29864 ChEBI	mannitol	-	assimilation
27122	37684 ChEBI	mannose	+	assimilation
27122	6731 ChEBI	melezitose	-	assimilation
27122	28053 ChEBI	melibiose	+	assimilation
27122	320061 ChEBI	methyl alpha-D-glucopyranoside	-	builds acid from
27122	320061 ChEBI	methyl alpha-D-glucopyranoside	-	assimilation
27122	43943 ChEBI	methyl alpha-D-mannoside	-	builds acid from
27122	43943 ChEBI	methyl alpha-D-mannoside	-	assimilation
27122	17268 ChEBI	myo-inositol	-	builds acid from
27122	17268 ChEBI	myo-inositol	-	assimilation
27122	17632 ChEBI	nitrate	-	reduction
27122		O-nitrophenyl-beta-D-galactopyranosid	-	assimilation
27122	18257 ChEBI	ornithine	-	builds acid from
27122	17309 ChEBI	pectin	-	hydrolysis
27122	15361 ChEBI	pyruvate	-	builds acid from
27122	16634 ChEBI	raffinose	-	builds acid from
27122	16634 ChEBI	raffinose	-	assimilation
27122	26546 ChEBI	rhamnose	-	builds acid from
27122	15963 ChEBI	ribitol	-	builds acid from
27122	15963 ChEBI	ribitol	-	assimilation
27122	33942 ChEBI	ribose	-	assimilation
27122	17814 ChEBI	salicin	-	assimilation
27122	84997 ChEBI	sodium gluconate	-	builds acid from
27122	84997 ChEBI	sodium gluconate	-	assimilation
27122	30911 ChEBI	sorbitol	-	assimilation
27122	27922 ChEBI	sorbose	-	builds acid from
27122	27922 ChEBI	sorbose	-	assimilation
27122	28017 ChEBI	starch	-	hydrolysis
27122	28017 ChEBI	starch	-	builds acid from
27122	17992 ChEBI	sucrose	-	assimilation
27122	27082 ChEBI	trehalose	+	assimilation
27122	53426 ChEBI	tween 80	-	hydrolysis
27122	17151 ChEBI	xylitol	-	assimilation
27122	18222 ChEBI	xylose	-	assimilation

Antibiotic resistance

@ref	ChEBI	Metabolite	Resistance conc.	Sensitivity conc.
27122	2637	amikacin	30 µg (disc)
27122	28971	ampicillin		10 µg (disc)
27122	474053	cefazolin	30 µg (disc)
27122	3493	cefoperazone		75 µg (disc)
27122	204928	cefotaxime		30 µg (disc)
27122	3515	cefuroxime		30 µg (disc)
27122	17698	chloramphenicol		30 µg (disc)
27122	100241	ciprofloxacin		5 µg (disc)
27122	37943	colistin		10 µg (disc)
27122	48923	erythromycin		15 µg (disc)
27122	6104	kanamycin	30 µg (disc)
27122	6472	lincomycin		2 µg (disc)
27122	116278	lomefloxacin		30 µg (disc)
27122	100147	nalidixic acid	30 µg (disc)
27122	71415	nitrofurantoin		300 µg (disc)
27122	18208	penicillin g		10 µg (disc)
27122	48844	roxithromycin		30 µg (disc)
27122	17076	streptomycin	10 µg (disc)
27122	27902	tetracycline		30 µg (disc)
27122	28864	tobramycin	10 µg (disc)
27122	28001	vancomycin		30 µg (disc)

Metabolite production

@ref	Chebi-ID	Metabolite	Production
27122	15688 ChEBI	acetoin
27122	16136 ChEBI	hydrogen sulfide

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test	Methylred-test
27122	15688 ChEBI	acetoin	-
27122	17234 ChEBI	glucose		+

Enzymes

@ref	Value	Activity	Ec
27122	arginine dihydrolase	-	3.5.3.6
27122	beta-galactosidase	-	3.2.1.23
27122	catalase	+	1.11.1.6
27122	cytochrome oxidase	+	1.9.3.1
27122	lysine decarboxylase	-	4.1.1.18
27122	ornithine decarboxylase	-	4.1.1.17
27122	tryptophan deaminase	-	4.1.99.1
27122	urease	-	3.5.1.5

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Climate	#Cold	#Subarctic
#Environmental	#Terrestrial	#Sediment

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Isolation date
27122	surface soil from Ny-Alesund, Svaldbard	Svalbard	Norway	NOR	Europe
123394	Environment, Soil surface associated with dried vegetation	Ny Alesund, Spitzberg	Norway	NOR	Europe	2010

Taxonmaps

69479

Global distribution of 16S sequence JQ396621 (>99% sequence identity) for Arcticibacter svalbardensis from Microbeatlas

Aquatic Samples	9
Soil Samples	12
Animal Samples	13
Plant Samples	2
Total Samples	36

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
123394	1	Risk group (French classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ArSv1 assembly for Arcticibacter svalbardensis MN12-7	contig	GCA_000403135	1150600.3	2541047992	1150600	49.09

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
27122	Arcticibacter svalbardensis MN12-7 16S ribosomal RNA gene, partial sequence	JQ396621	1499		1150600

GC content

@ref	GC-content (mol%)	Method
27122	38	thermal denaturation, midpoint method (Tm)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Arcticibacter svalbardensis MN12-7
NCBI: GCA_000403135

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	98.20	no
125439	motility	BacteriaNetⓘ	no	70.00	no
125439	gram_stain	BacteriaNetⓘ	negative	99.00	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	93.10	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Arcticibacter svalbardensis MN12-7
PATRIC: 1150600.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	96.71	no
125438	anaerobic	anaerobicⓘ	no	95.79	yes
125438	spore-forming	spore-formingⓘ	no	89.33	no
125438	aerobic	aerobicⓘ	yes	61.38	no
125438	thermophilic	thermophileⓘ	no	97.63	yes
125438	flagellated	motile2+ⓘ	no	83.00	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Draft Genome Sequence of Arcticibacter svalbardensis Strain MN12-7T, a Member of the Family Sphingobacteriaceae Isolated from an Arctic Soil Sample.	Shivaji S, Ara S, Prasad S, Manasa BP, Begum Z, Singh A, Kumar Pinnaka A	Genome Announc	10.1128/genomeA.00484-13	2013
Phylogeny	Arcticibacter svalbardensis gen. nov., sp. nov., of the family Sphingobacteriaceae in the phylum Bacteroidetes, isolated from Arctic soil.	Prasad S, Manasa BP, Buddhi S, Pratibha MS, Begum Z, Bandi S, Tirunagari P, Shivaji S	Int J Syst Evol Microbiol	10.1099/ijs.0.044420-0	2012

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 )
#27122	IJSEM 1627 2013 ( DOI 10.1099/ijs.0.044420-0 , PubMed 22904219 )
#37320	; Curators of the CIP;
#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) .
#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 .
#123394	Collection of Institut Pasteur ; Curators of the CIP; CIP 110422
#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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Arcticibacter svalbardensis (KCTC 32015, CIP 110422, MN12-7)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Observation

Metabolite utilization

Antibiotic resistance

Metabolite production

Metabolite tests

Enzymes

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000403135

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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