Name: Pelagicoccus albus YM14-201
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 134247

Type strain:

Species: Pelagicoccus albus

Strain Designation: YM14-201

Culture col. no.: MBIC 08272, IAM 15421, KCTC 13124, JCM 23202, NBRC 104203

Strain history: <- JW Yoon, IAM, Tokyo Univ. <- MBIC, YM14-201

NCBI tax ID(s): 415222 (species)

SI-ID 309485

IAM 15421, KCTC 13124, JCM 23202

Section

Pelagicoccus albus YM14-201 is a facultative anaerobe, spore-forming, Gram-negative bacterium that was isolated from seawater.

coccus-shaped
Gram-negative
spore-forming
facultative anaerobe
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	*Verrucomicrobiota*
	Class	*Opitutia*
	Order	*Puniceicoccales*
	Family	*Puniceicoccaceae*
	Genus	*Pelagicoccus*
	Species	**Pelagicoccus albus**
	Full Scientific Name (LPSN)	Pelagicoccus albus Yoon et al. 2007

Information on morphological and physiological properties Morphology

[Ref.: #32104]	Gram stain	negative
[Ref.: #67771]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.998

[Ref.: #32104]	Cell length	1 µm

[Ref.: #32104]	Cell width	1 µm

[Ref.: #32104]	Cell shape	coccus-shaped
[Ref.: #67771]	Cell shape	coccus-shaped

[Ref.: #32104]	Motility	no
[Ref.: #67771]	Motility	no

[Ref.: #32104]

Pigment production

Information on culture and growth conditions Culture and growth conditions

		Temperature
[Ref.: #32104]	growth	15-37 °C
[Ref.: #32104]	optimum	26 °C
[Ref.: #67770]	growth	25 °C
[Ref.: #67771]	growth	25-27 °C

[Ref.: #32104]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic
[Ref.: #67771]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #32104]			optimum	7.75
[Ref.: #32104]			growth	6.5-9.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #32104]	Oxygen tolerance	facultative anaerobe
[Ref.: #67771]	Oxygen tolerance	aerobe

[Ref.: #32104]	Ability of spore formation	yes
[Ref.: #67771]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.996

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #32104]		NaCl		growth	0-7	%
[Ref.: #32104]		NaCl		optimum	3.5	%

[Ref.: #67770]	Observation	quinones: MK-7
[Ref.: #67771]	Observation	quinones: MK-7

	Metabolite utilization	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #32104]		5-dehydro-D-gluconate ChEBI	+	carbon source
[Ref.: #32104]		esculin ChEBI	+	hydrolysis

	Enzyme	Enzyme activity	EC number
[Ref.: #32104]	acid phosphatase	+	3.1.3.2
[Ref.: #32104]	alkaline phosphatase	+	3.1.3.1
[Ref.: #32104]	alpha-galactosidase	+	3.2.1.22
[Ref.: #32104]	catalase	+	1.11.1.6
[Ref.: #32104]	cytochrome oxidase	+	1.9.3.1

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

[Ref.: #32104]	Sample type/isolated from	seawater

[Ref.: #67770]	Sample type/isolated from	Seawater
[Ref.: #67770]	Country	Palau
[Ref.: #67770]	Country ISO 3 Code	PLW
[Ref.: #67770]	Continent	Australia and Oceania

[Ref.: #67771]	Sample type/isolated from	From an artificial polyurethane foam (PUF) block in the sea, 5?m depth
[Ref.: #67771]	Country	Palau
[Ref.: #67771]	Country ISO 3 Code	PLW
[Ref.: #67771]	Continent	Australia and Oceania
[Ref.: #67771]	Geographic location	7.3346°/134.4970°
* marker position based on {}

Isolation sources categories

#Environmental

#Aquatic

#Marine

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AB286016 (>99% sequence identity) for Pelagicoccus albus subclade from Microbeatlas

Aquatic Samples	3175
Soil Samples	25
Animal Samples	22
Plant Samples	6
Total Samples	3228

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.: #32104]	Pelagicoccus albus gene for 16S rRNA, partial sequence	AB286016	1499	GenBank	415222 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Pelagicoccus albus JCM23202	GCA_014230145	contig	GenBank	415222 tax ID
[Ref.: #66792]	Pelagicoccus albus strain JCM23202	415222.3	wgs	PATRIC	415222 tax ID	*

[Ref.: #32104]	GC-content	57.2 mol%
[Ref.: #67771]	GC-content	57.3 mol%
[Ref.: #67770]	GC-content	57.2 mol%	high performance liquid chromatography (HPLC)

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: Pelagicoccus albus strain JCM23202 PATRIC: 415222.3
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Pelagicoccus albus strain JCM23202 PATRIC: 415222.3
[Ref.: #69480]	gram-positive	no	97.816	yes
[Ref.: #69480]	anaerobic	no	94.051	no
[Ref.: #69480]	halophile	no	50	no
[Ref.: #69480]	spore-forming	no	95.148	no
[Ref.: #69480]	glucose-util	yes	87.475	no
[Ref.: #69480]	aerobic	yes	71.162	no
[Ref.: #69480]	flagellated	no	85.754	yes
[Ref.: #69480]	motile	yes	74.615	yes
[Ref.: #69480]	thermophile	no	91.394	no
[Ref.: #69480]	glucose-ferment	no	79.096	no

Availability in culture collections External links

[Ref.: #32104]

Culture collection no.

MBIC 08272, IAM 15421, KCTC 13124, JCM 23202, NBRC 104203

[Ref.: #91839]

SI-ID 309485

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Pelagicoccus croceus sp. nov., a novel marine member of the family Puniceicoccaceae within the phylum 'Verrucomicrobia' isolated from seagrass.	Yoon J, Oku N, Matsuda S, Kasai H, Yokota A	Int J Syst Evol Microbiol	10.1099/ijs.0.65286-0	2007	*
Phylogeny	Pelagicoccus mobilis gen. nov., sp. nov., Pelagicoccus albus sp. nov. and Pelagicoccus litoralis sp. nov., three novel members of subdivision 4 within the phylum 'Verrucomicrobia', isolated from seawater by in situ cultivation.	Yoon J, Yasumoto-Hirose M, Matsuo Y, Nozawa M, Matsuda S, Kasai H, Yokota A	Int J Syst Evol Microbiol	10.1099/ijs.0.64970-0	2007	*

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 )

#32104

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 #28349 (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) .

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#67771 Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;

#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 )

#91839

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-ID309485.1 )

#28349

IJSEM 1377 2007 ( DOI 10.1099/ijs.0.64970-0 , PubMed 17625161 )

* These data were automatically processed and therefore are not curated

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Pelagicoccus albus strain JCM23202

Pelagicoccus albus strain JCM23202

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