Planococcus chinensis (DSM 17276, AS 1.3454, DX3-12)

Name: Planococcus chinensis (DSM 17276, AS 1.3454, DX3-12)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 11973

Type strain

Strain Designation DX3-12

Culture col. no. DSM 17276 AS 1.3454 DX3-12 JCM 12466 CGMCC 1.3454

NCBI tax ID(s) 272917

Special Collections DSMZ JCM

History <- JCM <- Y.-G.Zhou, DX3-12 Y. Zhou DX312.

Links

Planococcus chinensis DX3-12 is a bacterium that was isolated from coastal sediment.

genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 138017

AS 1.3454,JCM 12466,DSM 17276,CGMCC 1.3454

@ref 20215

Last LPSN update 2026-02-09 11:20:43

Domain Bacteria

Phylum Bacillota

Class Bacilli

Order Caryophanales

Family Caryophanaceae

Genus Planococcus

Species Planococcus chinensis

Full scientific name Planococcus chinensis (Dai et al. 2005) Gupta and Patel 2020

Synonyms (1)

Planomicrobium chinense

Morphology

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
6868	BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)		Medium recipe at MediaDive	Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
6868	positive	growth	28
67770	positive	growth	30

Physiology and metabolism

Observation

67770

Observationquinones: MK-8

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Sediment
#Environmental	#Terrestrial	#Coast

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
6868	coastal sediment	Eastern China Sea	China	CHN	Asia
67770	Coastal sediment of the East China Sea

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
6868	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	IMG accession	NCBI tax ID	Score	BV-BRC accession	INSDC accession
66792	Planomicrobium chinense DSM 17276	complete	2901061160	272917	94.78
66792	Planomicrobium chinense strain DSM 17276	contig		272917	73.3	272917.3
124043	ASM4268154v1 assembly for Planococcus chinensis CGMCC 1.3454	contig		272917	52.02		GCA_042681545

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
6868	Planomicrobium chinense partial 16S rRNA gene, type strain DX3-12T	AJ697862	1510		272917

GC content

@ref	GC-content (mol%)	Method
6868	34.8
67770	34.8	thermal denaturation, midpoint method (Tm)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Planomicrobium chinense DSM 17276
IMG: 2901061160

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	yes	86.60	no
125439	motility	BacteriaNetⓘ	yes	79.50	no
125439	gram_stain	BacteriaNetⓘ	variable	84.40	no
125439	oxygen_tolerance	BacteriaNetⓘ	facultative anaerobe	69.70	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Planomicrobium chinense strain DSM 17276
PATRIC: 272917.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	78.11	no
125438	anaerobic	anaerobicⓘ	no	97.07	no
125438	spore-forming	spore-formingⓘ	yes	55.94	no
125438	aerobic	aerobicⓘ	yes	81.44	no
125438	thermophilic	thermophileⓘ	no	94.63	no
125438	flagellated	motile2+ⓘ	yes	55.43	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Robust Demarcation of the Family Caryophanaceae (Planococcaceae) and Its Different Genera Including Three Novel Genera Based on Phylogenomics and Highly Specific Molecular Signatures.	Gupta RS, Patel S.	Front Microbiol	10.3389/fmicb.2019.02821	2019
Phylogeny	Planomicrobium soli sp. nov., isolated from soil.	Luo X, Zhang J, Li D, Xin Y, Xin D, Fan L	Int J Syst Evol Microbiol	10.1099/ijs.0.055426-0	2014
Phylogeny	Planomicrobium chinense sp. nov., isolated from coastal sediment, and transfer of Planococcus psychrophilus and Planococcus alkanoclasticus to Planomicrobium as Planomicrobium psychrophilum comb. nov. and Planomicrobium alkanoclasticum comb. nov.	Dai X, Wang YN, Wang BJ, Liu SJ, Zhou YG	Int J Syst Evol Microbiol	10.1099/ijs.0.63340-0	2005

References

#6868	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 17276
#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 )
#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;
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#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 .
#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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Planococcus chinensis (DSM 17276, AS 1.3454, DX3-12)

Name and taxonomic classification

Morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Observation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_042681545

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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