Name: Pontibacter arcticus 2b14
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 166253

Type strain:

Species: Pontibacter arcticus

Strain Designation: 2b14

Culture col. no.: KCTC 62596, MCCC 1H00304

NCBI tax ID(s): 2080288 (species)

Section

Pontibacter arcticus 2b14 is an aerobe, Gram-negative, motile bacterium that forms circular colonies and was isolated from rhizosphere soil of Saxifraga oppositifolia.

colony-forming
Gram-negative
motile
rod-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	*Bacteroidota*
	Class	*Cytophagia*
	Order	*Cytophagales*
	Family	*Hymenobacteraceae*
	Genus	*Pontibacter*
	Species	**Pontibacter arcticus**
	Full Scientific Name (LPSN)	Pontibacter arcticus Liu et al. 2019

Information on morphological and physiological properties Morphology

[Ref.: #68226]	Gram stain	negative

[Ref.: #68226]	Cell length	1.3-2.1 µm

[Ref.: #68226]	Cell width	0.6-1 µm

[Ref.: #68226]	Cell shape	rod-shaped

[Ref.: #68226]	Motility	yes

[Ref.: #68226]	Flagellum arrangement	gliding

[Ref.: #68226]	Colony size	2-3 mm
[Ref.: #68226]	Colony color	red
[Ref.: #68226]	Colony shape	circular
[Ref.: #68226]	Incubation period	3 days
[Ref.: #68226]	Cultivation medium used	Reasoner's 2A agar (R2A)

[Ref.: #68226]	Pigment production	yes
[Ref.: #68226]	Pigment name	Carotenoid pigment
[Ref.: #68226]	Pigment production	no
[Ref.: #68226]	Pigment name	Flexirubin type pigments

Information on culture and growth conditions Culture and growth conditions

	Temperatures	Kind of temperature		Temperature
[Ref.: #68226]			growth	4-37 °C
[Ref.: #68226]			optimum	28 °C

[Ref.: #68226]

Temperature range

mesophilic

	pH	Kind of pH		pH
[Ref.: #68226]			optimum	7-7.5
[Ref.: #68226]			growth	6.5-8.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #68226]

Oxygen tolerance

aerobe

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #68226]		NaCl		growth	0-2.5	%(w/v)
[Ref.: #68226]		NaCl		optimum	0	%(w/v)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68226]	acetic acid ChEBI	+	oxidation
[Ref.: #68226]	acetoacetate ChEBI	+	oxidation
[Ref.: #68226]	agar ChEBI	-	hydrolysis
[Ref.: #68226]	alginate ChEBI	+	hydrolysis
[Ref.: #68226]	alpha-D-glucose ChEBI	+	oxidation
[Ref.: #68226]	casein	+	hydrolysis
[Ref.: #68226]	cellulose ChEBI	-	hydrolysis
[Ref.: #68226]	citrate ChEBI	+	assimilation
[Ref.: #68226]	D-fucose ChEBI	+	oxidation
[Ref.: #68226]	D-glucose ChEBI	+	builds acid from
[Ref.: #68226]	D-mannitol ChEBI	+	builds acid from
[Ref.: #68226]	D-mannose ChEBI	+/-	builds acid from
[Ref.: #68226]	D-mannose ChEBI	+	oxidation
[Ref.: #68226]	dextrin ChEBI	+	oxidation
[Ref.: #68226]	esculin ChEBI	+	builds acid from
[Ref.: #68226]	gelatin ChEBI	+	hydrolysis
[Ref.: #68226]	glycerol ChEBI	+	builds acid from
[Ref.: #68226]	glycyl-L-proline ChEBI	+	oxidation
[Ref.: #68226]	L-alanine ChEBI	+	oxidation
[Ref.: #68226]	L-aspartate ChEBI	+	oxidation
[Ref.: #68226]	L-glutamate ChEBI	+	oxidation
[Ref.: #68226]	L-malate ChEBI	+	oxidation
[Ref.: #68226]	maltose ChEBI	+	builds acid from
[Ref.: #68226]	maltose ChEBI	+	oxidation
[Ref.: #68226]	potassium 5-dehydro-D-gluconate	+	builds acid from
[Ref.: #68226]	starch ChEBI	+	hydrolysis
[Ref.: #68226]	sucrose ChEBI	+	builds acid from
[Ref.: #68226]	trehalose ChEBI	+	builds acid from
[Ref.: #68226]	turanose ChEBI	+	builds acid from
[Ref.: #68226]	tween 20 ChEBI	+	hydrolysis
[Ref.: #68226]	tween 40 ChEBI	+	hydrolysis
[Ref.: #68226]	tween 60 ChEBI	+	hydrolysis
[Ref.: #68226]	tween 80 ChEBI	-	hydrolysis
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Production
[Ref.: #68226]	acetoin ChEBI	no
[Ref.: #68226]	hydrogen sulfide ChEBI	no
[Ref.: #68226]	indole ChEBI	no

	Physiological tests	Metabolite	Voges-Proskauer-test
[Ref.: #68226]		acetoin ChEBI	-

	Enzyme	Enzyme activity	EC number
[Ref.: #68226]	acid phosphatase	+	3.1.3.2
[Ref.: #68226]	alkaline phosphatase	+	3.1.3.1
[Ref.: #68226]	alpha-chymotrypsin	-	3.4.21.1
[Ref.: #68226]	alpha-galactosidase	-	3.2.1.22
[Ref.: #68226]	alpha-glucosidase	+	3.2.1.20
[Ref.: #68226]	alpha-mannosidase	-	3.2.1.24
[Ref.: #68226]	arginine dihydrolase	+	3.5.3.6
[Ref.: #68226]	beta-D-fucosidase	-	3.2.1.38
[Ref.: #68226]	beta-galactosidase	-	3.2.1.23
[Ref.: #68226]	beta-glucosidase	-	3.2.1.21
[Ref.: #68226]	beta-glucuronidase	-	3.2.1.31
[Ref.: #68226]	catalase	+	1.11.1.6
[Ref.: #68226]	cystine arylamidase	+	3.4.11.3
[Ref.: #68226]	cytochrome oxidase	-	1.9.3.1
[Ref.: #68226]	esterase (C 4)	+/-
[Ref.: #68226]	esterase Lipase (C 8)	+
[Ref.: #68226]	leucine arylamidase	+	3.4.11.1
[Ref.: #68226]	lipase (C 14)	-
[Ref.: #68226]	lysine decarboxylase	-	4.1.1.18
[Ref.: #68226]	N-acetyl-beta-glucosaminidase	-	3.2.1.52
[Ref.: #68226]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #68226]	nitrate reductase	-	1.7.99.4
[Ref.: #68226]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #68226]	trypsin	+	3.4.21.4
[Ref.: #68226]	tryptophan deaminase	-	4.1.99.1
[Ref.: #68226]	urease	-	3.5.1.5
[Ref.: #68226]	valine arylamidase	+
	Only first 10 entries are displayed. Click here to see all.

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #68226]

Fatty acid	Percentage
C17:1 anteiso B/iso-C17:1 I	22.2
C15:0 iso	21.1
C17:0 iso 3OH	14.1
C17:0 iso	7.3
C16:1 w5c	6.4
C16:0 iso	4.3
C15:0 iso 3OH	3.7
C16:0	3.6
C16:1 w7c/C16:1 w6c	3.1
C17:1 w6c	2.2
C16:1 iso H	1.8
C16:0 3OH	1.7
C17:0	1.2
C18:1 iso H	1.1
C16:0 iso 3OH	1.1

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

[Ref.: #68226]	Sample type/isolated from	rhizosphere soil of Saxifraga oppositifolia
[Ref.: #68226]	Geographic location (country and/or sea, region)	Chinese Arctic Yellow River Station at Ny-Alesund, Svalbard
[Ref.: #68226]	Country	Norway
[Ref.: #68226]	Country ISO 3 Code	NOR
[Ref.: #68226]	Continent	Europe
[Ref.: #68226]	Geographic location	78.8981°/12.0686°
[Ref.: #68226]	Enrichment culture	R2A agar
[Ref.: #68226]	Enrichment culture duration	7 days
[Ref.: #68226]	Enrichment culture temperature	20 ̊C
* marker position based on {}

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.: #68226]	Pontibacter sp. 2b14 16S ribosomal RNA gene, partial sequence	MG729207	1522	ENA	2080288 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #68226]	Pontibacter arcticus 2b14	GCA_003284895	contig	GenBank	2080288 tax ID

[Ref.: #68226]

GC-content

45.5 mol%

genome sequence analysis

Data predicted using genome information as a basis Genome-based predictions

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Pontibacter arcticus 2b14 NCBI: GCA_003284895.1
[Ref.: #69480]	motile	no	90.408	no
[Ref.: #69480]	flagellated	no	97.632	no
[Ref.: #69480]	gram-positive	no	98.166	yes
[Ref.: #69480]	anaerobic	no	98.92	no
[Ref.: #69480]	aerobic	yes	87.348	yes
[Ref.: #69480]	halophile	no	85.873	no
[Ref.: #69480]	spore-forming	no	95.303	no
[Ref.: #69480]	glucose-util	yes	80.505	no
[Ref.: #69480]	thermophile	no	97.294	no
[Ref.: #69480]	glucose-ferment	no	91.695	no

Availability in culture collections External links

[Ref.: #68226]

Culture collection no.

KCTC 62596, MCCC 1H00304

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Pontibacter arcticus sp. nov., isolated from rhizosphere soil of Saxifraga oppositifolia.	Liu ZW, Zhang J, Yu Y, Li HR, Du ZJ	Int J Syst Evol Microbiol	10.1099/ijsem.0.003668	2019	*

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 )

#68226

Zhen-Wei Liu, Jing Zhang, Yong Yu, Hui-Rong Li and Zong-Jun Du: Pontibacter arcticus sp. nov., isolated from rhizosphere soil of Saxifraga oppositifolia. IJSEM 69: 3609 - 3615 2019 ( DOI 10.1099/ijsem.0.003668 )

#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) .

* These data were automatically processed and therefore are not curated

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