Name: Pontibacter virosus W14
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 133007

Type strain:

Species: Pontibacter virosus

Strain Designation: W14

Culture col. no.: DSM 100231, KCTC 42941, MCC 2932

Strain history: <- R. Lal, Univ. Delhi, Dept. Zoology, India; W14 <- P. Kohli

NCBI tax ID(s): 1765052 (species)

Section

Pontibacter virosus W14 is an aerobe, heterotroph, mesophilic bacterium that forms circular colonies and has a red pigmentation.

colony-forming
Gram-negative
motile
pigmented
rod-shaped
aerobe
heterotroph
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	*Hymenobacteraceae*
	Genus	*Pontibacter*
	Species	**Pontibacter virosus**
	Full Scientific Name (LPSN)	Pontibacter virosus Kohli et al. 2016

Information on morphological and physiological properties Morphology

[Ref.: #24987]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.997

[Ref.: #24987]	Cell length	1.0-1.6 µm

[Ref.: #24987]	Cell width	0.4-0.6 µm

[Ref.: #24987]	Cell shape	rod-shaped

[Ref.: #24987]	Motility	yes

[Ref.: #24987]	Colony color	red
[Ref.: #24987]	Colony shape	circular
[Ref.: #24987]	Incubation period	2 days
[Ref.: #24987]	Cultivation medium used	LB (lysogeny broth) agar

[Ref.: #24987]	Pigment production	yes
[Ref.: #24987]	Pigmentation color	red

Information on culture and growth conditions Culture and growth conditions

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Culture medium

LB (lysogeny broth) agar

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Culture medium growth

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Culture medium

NA (Nutrient Agar)

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Culture medium growth

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Culture medium

Marine agar (MA)

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Culture medium growth

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Culture medium

TSA (Trypticase soy agar)

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Culture medium growth

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Culture medium

yeast agar

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Culture medium growth

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Culture medium

brain heart infusion agar

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Culture medium growth

	Temperatures	Kind of temperature		Temperature
[Ref.: #24987]			optimum	28 °C
[Ref.: #24987]			growth	20.0-40.0 °C

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Temperature range

mesophilic

	pH	Kind of pH		pH
[Ref.: #24987]			optimum	7
[Ref.: #24987]			growth	6.0-8.0

Information on physiology and metabolism Physiology and metabolism

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Oxygen tolerance

aerobe

[Ref.: #24987]

Nutrition type

heterotroph

[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.974

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #24987]		NaCl		optimum	1	%
[Ref.: #24987]		NaCl		growth	0.0-5.0	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #24987]	casein	+	hydrolysis
[Ref.: #24987]	citrate ChEBI	-	hydrolysis
[Ref.: #24987]	D-arabinose ChEBI	+	carbon source
[Ref.: #24987]	D-arabinose ChEBI	+	builds acid from
[Ref.: #24987]	D-fructose ChEBI	+	carbon source
[Ref.: #24987]	D-galactose ChEBI	+	carbon source
[Ref.: #24987]	D-glucose ChEBI	+	carbon source
[Ref.: #24987]	D-glucose ChEBI	+	builds acid from
[Ref.: #24987]	D-mannitol ChEBI	+	carbon source
[Ref.: #24987]	D-mannitol ChEBI	+	builds acid from
[Ref.: #24987]	D-mannose ChEBI	+	carbon source
[Ref.: #24987]	D-mannose ChEBI	+	builds acid from
[Ref.: #24987]	esculin ChEBI	+	hydrolysis
[Ref.: #24987]	fructose ChEBI	+	builds acid from
[Ref.: #24987]	gelatin ChEBI	+	hydrolysis
[Ref.: #24987]	hypoxanthine ChEBI	+	hydrolysis
[Ref.: #24987]	lactose ChEBI	+	carbon source
[Ref.: #24987]	maltose ChEBI	+	carbon source
[Ref.: #24987]	maltose ChEBI	+	builds acid from
[Ref.: #24987]	myo-inositol ChEBI	-	carbon source
[Ref.: #24987]	rhamnose ChEBI	-	carbon source
[Ref.: #24987]	ribose ChEBI	-	carbon source
[Ref.: #24987]	sorbitol ChEBI	-	carbon source
[Ref.: #24987]	sorbitol ChEBI	+	builds acid from
[Ref.: #24987]	starch ChEBI	+	hydrolysis
[Ref.: #24987]	sucrose ChEBI	+	carbon source
[Ref.: #24987]	sucrose ChEBI	+	builds acid from
[Ref.: #24987]	tween 20 ChEBI	+	hydrolysis
[Ref.: #24987]	tween 80 ChEBI	+	hydrolysis
[Ref.: #24987]	xanthine ChEBI	+	hydrolysis
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Antibiotic sensitivity	Antibiotic resistance
[Ref.: #24987]	amikacin ChEBI		yes
[Ref.: #24987]	ampicillin ChEBI		yes
[Ref.: #24987]	chloramphenicol ChEBI	yes
[Ref.: #24987]	ciprofloxacin ChEBI	yes
[Ref.: #24987]	gentamicin ChEBI		yes
[Ref.: #24987]	kanamycin ChEBI		yes
[Ref.: #24987]	nalidixic acid ChEBI	yes
[Ref.: #24987]	oxytetracycline ChEBI	yes
[Ref.: #24987]	penicillin ChEBI		yes
[Ref.: #24987]	polymyxin b ChEBI	yes
[Ref.: #24987]	rifampicin ChEBI	yes
[Ref.: #24987]	tetracycline ChEBI	yes
[Ref.: #24987]	vancomycin ChEBI	yes
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #24987]		hydrogen sulfide ChEBI	no
[Ref.: #24987]		indole ChEBI	no

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #24987]		catalase	+	1.11.1.6
[Ref.: #24987]		cytochrome oxidase	+	1.9.3.1

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

[Ref.: #24795]	Sample type/isolated from	hexachlorocyclohexane-contaminated dumpsite soil
[Ref.: #24795]	Geographic location (country and/or sea, region)	Uttar Pradesh, Lucknow, Ummari Village
[Ref.: #24795]	Country	India
[Ref.: #24795]	Country ISO 3 Code	IND
[Ref.: #24795]	Continent	Asia

[Ref.: #24987]	Enrichment culture	LB (lysogeny broth) agar
[Ref.: #24987]	Enrichment culture duration	2 days
[Ref.: #24987]	Enrichment culture temperature	28 ̊C
* marker position based on {}

Isolation sources categories

#Engineered	#Built environment	-
#Engineered	#Contamination	-
#Environmental	#Terrestrial	#Soil

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KT719408 (>99% sequence identity) for Pontibacter virosus subclade from Microbeatlas

Aquatic Samples	1
Soil Samples
Animal Samples
Plant Samples
Total Samples	1

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.: #24795]	Pontibacter virosus strain W14 16S ribosomal RNA gene, partial sequence	KT719408	1430	ENA	1765052 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Pontibacter virosus DSM 100231	GCA_003096355	scaffold	GenBank	1765052 tax ID	*
[Ref.: #66792]	Pontibacter virosus strain DSM 100231	1765052.3	wgs	PATRIC	1765052 tax ID	*
[Ref.: #66792]	Pontibacter virosus DSM 100231	2756170242	draft	JGI IMG/M	1765052 tax ID	*

[Ref.: #24987]	GC-content	51.3 mol%	Thermal denaturation, fluorometry
[Ref.: #24795]	GC-content	51.3 mol%	fluorimetric

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: Pontibacter virosus DSM 100231 NCBI: GCA_003096355.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Pontibacter virosus DSM 100231 NCBI: GCA_003096355.1
[Ref.: #69480]	flagellated	no	95.745	no
[Ref.: #69480]	gram-positive	no	98.4	yes
[Ref.: #69480]	anaerobic	no	99.097	yes
[Ref.: #69480]	halophile	no	84.182	no
[Ref.: #69480]	spore-forming	no	94.012	no
[Ref.: #69480]	glucose-util	yes	87.015	no
[Ref.: #69480]	aerobic	yes	89.806	no
[Ref.: #69480]	thermophile	no	97.105	no
[Ref.: #69480]	motile	no	88.803	yes
[Ref.: #69480]	glucose-ferment	no	85.91	no

Availability in culture collections External links

[Ref.: #24795]

Culture collection no.

DSM 100231, KCTC 42941, MCC 2932

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Pontibacter virosus sp. nov., isolated from a hexachlorocyclohexane-contaminated dumpsite.	Kohli P, Nayyar N, Sharma A, Singh AK, Lal R	Int J Syst Evol Microbiol	10.1099/ijsem.0.001363	2016	*

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 )

#24795

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 100231

#24987

P. N. Kohli, Namita,Sharma, Anukriti,Singh, Amit Kumar,Lal, Rup: Pontibacter virosus sp. nov., isolated from a hexachlorocyclohexane-contaminated dumpsite. IJSEM 66: 4395 - 4400 2016 ( DOI 10.1099/ijsem.0.001363 , PubMed 27488455 )

#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 .

#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 )

* These data were automatically processed and therefore are not curated

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Pontibacter virosus DSM 100231

Pontibacter virosus DSM 100231

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