Phycicoccus jejuensis (NRRL B-24460, NBRC 106161, KCCM 42315)

Name: Phycicoccus jejuensis (NRRL B-24460, NBRC 106161, KCCM 42315)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 161611

Type strain

Strain Designation KSW2-15

Culture col. no. NRRL B-24460 NBRC 106161 KCCM 42315 JCM 15616 KSW2-15 1 more

NCBI tax ID(s) 367299

Special Collections JCM

Links

Phycicoccus jejuensis KSW2-15 is a mesophilic prokaryote that was isolated from Dried seaweed on Gwakji beach.

mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 295945

DSM 118746,NRRL B-24460,JCM 15616

@ref 20215

Last LPSN update 2025-12-16 10:08:47

Domain Bacillati

Phylum Actinomycetota

Class Actinomycetes

Order Micrococcales

Family Intrasporangiaceae

Genus Phycicoccus

Species Phycicoccus jejuensis

Full scientific name Phycicoccus jejuensis Lee 2006

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	positive	98.5
125438	positive	91.197

Multimedia

@ref:	125986
multimedia content:	DSM_118746.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_118746.jpg
caption:	Medium 987 28°C
intellectual property rights:	Leibniz-Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH
manual_annotation:	1

@ref:	125986
multimedia content:	DSM_118746-1.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_118746-1.jpg
caption:	Medium 535 28°C
intellectual property rights:	Leibniz-Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
125986	TCG MEDIUM (DSMZ Medium 1009)	Medium recipe at MediaDive	Name: TCG MEDIUM (DSMZ Medium 1009) Composition: Casitone 5.0 g/l Glucose 4.0 g/l Tryptone 3.0 g/l Sea water
125986	GYM + SEAWATER (DSMZ Medium 871)	Medium recipe at MediaDive	Name: GYM + SEAWATER (DSMZ Medium 871) Composition: Sea Salt 32.0 g/l Agar 15.0 g/l Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l CaCO3 2.0 g/l Distilled water
125986	ISP2 MEDIUM (DSMZ Medium 987)	Medium recipe at MediaDive	Name: ISP2 MEDIUM (DSMZ Medium 987) Composition: Agar 20.0 g/l Malt extract 10.0 g/l Dextrose 4.0 g/l Yeast extract 4.0 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
67770	positive	growth	28	mesophilic
125986	positive	growth	28

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	99.4

Observation

67770

Observationquinones: MK-8(H₄)

Isolation, sampling and environmental information

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
67770	Dried seaweed on Gwakji beach	Jeju Island	Republic of Korea	KOR	Asia
125986	a dried seaweed	Cost of Jeju	Republic of Korea	KOR	Asia

Taxonmaps

69479

Global distribution of 16S sequence AB530140 (>99% sequence identity) for Phycicoccus jejuensis subclade from Microbeatlas

Aquatic Samples	63
Soil Samples	62
Animal Samples	218
Plant Samples	10
Total Samples	353

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
125986	1	Risk group (German classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	ASM72092v1 assembly for Phycicoccus jejuensis NRRL B-24460	contig	GCA_000720925	367299.4	2751185733	367299	57.94

Genome browser: GCA_000720925

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
67770	Phycicoccus jejuensis gene for 16S rRNA, partial sequence	AB530140	1481		367299
67770	Phycicoccus jejuensis strain KSW2-15 16S ribosomal RNA gene, partial sequence	DQ345443	1413		367299

GC content

@ref	GC-content (mol%)	Method
67770	74	high performance liquid chromatography (HPLC)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Phycicoccus jejuensis NRRL B-24460
NCBI: GCA_000720925

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	62.90	no
125439	motility	BacteriaNetⓘ	no	72.10	no
125439	gram_stain	BacteriaNetⓘ	positive	98.50	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	99.40	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Phycicoccus jejuensis NRRL B-24460
NCBI: GCA_000720925.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	91.20	no
125438	anaerobic	anaerobicⓘ	no	97.81	no
125438	aerobic	aerobicⓘ	yes	87.66	no
125438	spore-forming	spore-formingⓘ	no	66.08	no
125438	thermophilic	thermophileⓘ	no	97.00	yes
125438	flagellated	motile2+ⓘ	no	71.50	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Phycicoccus jejuensis gen. nov., sp. nov., an actinomycete isolated from seaweed.	Lee SD	Int J Syst Evol Microbiol	10.1099/ijs.0.64271-0	2006
Phylogeny	Phycicoccus endophyticus sp. nov., an endophytic actinobacterium isolated from Bruguiera gymnorhiza.	Liu SW, Xu M, Tuo L, Li XJ, Hu L, Chen L, Li RF, Sun CH	Int J Syst Evol Microbiol	10.1099/ijsem.0.000842	2015

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 )
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#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 .
#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 .
#125986	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 118746
#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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Phycicoccus jejuensis (NRRL B-24460, NBRC 106161, KCCM 42315)

Name and taxonomic classification

Morphology

Cell morphology

Multimedia

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Observation

Isolation, sampling and environmental information

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000720925

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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