Name: Campylobacter pinnipediorum CCUG 69570
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 140488

Type strain:

Species: Campylobacter pinnipediorum

Culture col. no.: CCUG 69570, LMG 29472, RM 17260, DSM 112337

Strain history: <- CCUG; CCUG 69570 <- W. C. Miller, University of California, Davis; RM17260

NCBI tax ID(s): 1965231 (species), 1660067 (subspecies)

SI-ID 400007

DSM 112337, CCUG 69570

Special Collections

Section

When using BacDive for research please cite our paper

Campylobacter pinnipediorum CCUG 69570 is a microaerotolerant, Gram-negative, rod-shaped bacterium that forms circular colonies and was isolated from Abscess of California sea lion Juvenile.

colony-forming
Gram-negative
rod-shaped
microaerotolerant
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	09-12-2024 (DD-MM-YYYY)
	Domain	*Bacteria*
	Phylum	*Pseudomonadota*
	Class	*Epsilonproteobacteria*
	Order	*Campylobacterales*
	Family	*Campylobacteraceae*
	Genus	*Campylobacter*
	Species	**Campylobacter pinnipediorum**
	Full Scientific Name (LPSN)	Campylobacter pinnipediorum Gilbert et al. 2017

Information on morphological and physiological properties Morphology

[Ref.: #43235]	Gram stain	negative
[Ref.: #125439]	Gram stain	negative Confidence in %99.4
[Ref.: #125438]	Gram stain	negative Confidence in %97.788

[Ref.: #43235]	Cell shape	rod-shaped

[Ref.: #43235]	Type of hemolysis	alpha
[Ref.: #43235]	Hemolysis ability	1
[Ref.: #43235]	Colony size	0.5-1 mm
[Ref.: #43235]	Colony color	transparent to beige or white
[Ref.: #43235]	Colony shape	circular
[Ref.: #43235]	Incubation period	3 days
[Ref.: #43235]	Cultivation medium used	Columbia agar with 5 % sheep blood (microaerobic)

Information on culture and growth conditions Culture and growth conditions

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Culture medium

Columbia agar with 5 % sheep blood (microaerobic)

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Culture medium growth

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Culture medium

Skirrow agar

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Culture medium growth

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Culture medium

COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)

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Culture medium growth

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Culture medium link

Medium recipe at MediaDive

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Culture medium composition

expand / minimize

[Ref.: #43235]

Culture medium

charcoal cefoperazone deoxycholate agar

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Culture medium growth

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Culture medium

Mueller - Hinton agar

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Culture medium growth

	Kind of temperature		Temperature
[Ref.: #43235]	negative	growth	42 °C
[Ref.: #43235]	negative	growth	22 °C
[Ref.: #43235]		growth	25 °C
[Ref.: #43235]		growth	37 °C
[Ref.: #63624]		growth	37 °C
[Ref.: #67674]		growth	37 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #43235]	Oxygen tolerance	microaerotolerant
[Ref.: #63624]	Oxygen tolerance	microaerophile

[Ref.: #125439]	Ability of spore formation	no Confidence in %99.2
[Ref.: #125438]	Ability of spore formation	no Confidence in %94.434

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #43235]	hippurate ChEBI	-	hydrolysis
[Ref.: #43235]	indoxyl acetate	-	hydrolysis
[Ref.: #43235]	nitrate ChEBI	+	reduction
[Ref.: #43235]	urea ChEBI	+	hydrolysis

	Antibiotica	Metabolite	Antibiotic sensitivity	Concentration
[Ref.: #43235]		cefalotin ChEBI	yes	30	µg (disc)
[Ref.: #43235]		nalidixic acid ChEBI	yes	30	µg (disc)

	Metabolite production	Metabolite	Production
[Ref.: #43235]		hydrogen sulfide ChEBI	yes

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #43235]		catalase	+/-	1.11.1.6
[Ref.: #43235]		cytochrome oxidase	+	1.9.3.1

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

[Ref.: #43235]	Sample type/isolated from	Abscess of California sea lion (Z. californianus) Juvenile
[Ref.: #43235]	Geographic location (country and/or sea, region)	San Diego, California
[Ref.: #43235]	Country	USA
[Ref.: #43235]	Country ISO 3 Code	USA
[Ref.: #43235]	Continent	North America

[Ref.: #63624]	Sample type/isolated from	Abscess,californian sea lion
[Ref.: #63624]	Sampling date	2013-07-02
[Ref.: #63624]	Geographic location (country and/or sea, region)	San Diego,California
[Ref.: #63624]	Country	USA
[Ref.: #63624]	Country ISO 3 Code	USA
[Ref.: #63624]	Continent	North America

[Ref.: #67674]	Sample type/isolated from	abscess; californian sea lion
[Ref.: #67674]	Geographic location (country and/or sea, region)	San Diego, California
[Ref.: #67674]	Country	USA
[Ref.: #67674]	Country ISO 3 Code	USA
[Ref.: #67674]	Continent	North America
[Ref.: #67674]	Geographic location	32.7000°/-117.1670°
* marker position based on {}

Isolation sources categories

#Host	#Mammals	#Aquatic mammal
#Host Body-Site	#Other	#Abscess

What are isolation sources categories?

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Campylobacter pinnipediorum subsp. pinnipediorum RM17260	GCA_002021925	complete	GenBank ENA	1660067 tax ID	*
[Ref.: #66792]	Campylobacter pinnipediorum subsp. pinnipediorum strain RM17260	1660067.5	complete	PATRIC	1660067 tax ID	*
[Ref.: #66792]	Campylobacter pinnipediorum pinnipediorum RM17260	2791355309	complete	JGI IMG/M	1660067 tax ID	*

[Ref.: #43235]

GC-content

30.4-31 mol%

genome sequence analysis

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

	Model	Trait	Prediction	Confidence in %	In training data
	Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Campylobacter pinnipediorum subsp. pinnipediorum RM17260 NCBI: GCA_002021925.1
[Ref.: #125438]	gram-positive	gram-positiveⓘ	no	97.788	yes
[Ref.: #125438]	anaerobic	anaerobicⓘ	no	70.158	no
[Ref.: #125438]	aerobic	aerobicⓘ	no	84.388	yes
[Ref.: #125438]	spore-forming	spore-formingⓘ	no	94.434	no
[Ref.: #125438]	thermophile	thermophilicⓘ	no	89.755	yes
[Ref.: #125438]	motile2+	flagellatedⓘ	yes	62.736	no

	Model	Trait	Prediction	Confidence in %
	Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Campylobacter pinnipediorum subsp. pinnipediorum strain RM17260 PATRIC: 1660067.5
[Ref.: #125439]	BacteriaNet	spore_formationⓘ	no	99.2
[Ref.: #125439]	BacteriaNet	motilityⓘ	no	65.7
[Ref.: #125439]	BacteriaNet	gram_stainⓘ	negative	99.4
[Ref.: #125439]	BacteriaNet	oxygen_toleranceⓘ	obligate anaerobe	77.7

Availability in culture collections External links

[Ref.: #67674]

Culture collection no.

CCUG 69570, LMG 29472, RM 17260, DSM 112337

[Ref.: #96730]

SI-ID 400007

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Campylobacter pinnipediorum sp. nov., isolated from pinnipeds, comprising Campylobacter pinnipediorum subsp. pinnipediorum subsp. nov. and Campylobacter pinnipediorum subsp. caledonicus subsp. nov.	Gilbert MJ, Miller WG, Leger JS, Chapman MH, Timmerman AJ, Duim B, Foster G, Wagenaar JA	Int J Syst Evol Microbiol	10.1099/ijsem.0.001894	2017	*

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 )

#43235

Maarten J. Gilbert, William G. Miller, Judy St. Leger, Mary H. Chapman, Arjen J. Timmerman, Birgitta Duim, Geoffrey Foster, Jaap A. Wagenaar: Campylobacter pinnipediorum sp. nov., isolated from pinnipeds, comprising Campylobacter pinnipediorum subsp. Pinnipediorum subsp. nov. and Campylobacter pinnipediorum subsp. caledonicus subsp. nov.. IJSEM 67: 1961 - 1968 2017 ( DOI 10.1099/ijsem.0.001894 , PubMed 28629508 )

#63624 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 69570

#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) .

#67674

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 112337

#96730

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-ID400007.1 )

#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 .

* These data were automatically processed and therefore are not curated

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Campylobacter pinnipediorum subsp. pinnipediorum RM17260

Campylobacter pinnipediorum subsp. pinnipediorum strain RM17260

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