Planococcus glaciei (DSM 24857, CGMCC 1.6846, JCM 15088)

Name: Planococcus glaciei (DSM 24857, CGMCC 1.6846, JCM 15088)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 11974

Type strain

Strain Designation 0423

Culture col. no. DSM 24857 CGMCC 1.6846 JCM 15088 0423

NCBI tax ID(s) 459472

Special Collections DSMZ JCM Literature strains

History <- JCM <- D.-C. Zhang and Y.-G. Zhou, CGMCC and State Key Lab. Microbial Resources, Inst. Microbiol., Chinese Academy of Sciences, Beijing, China D.-C. Zhang and Y.-G. Zhou 0423.

Links

Planococcus glaciei 0423 is an aerobe, psychrophilic, Gram-positive prokaryote that was isolated from frozen soil from a glacier.

Gram-positive motile rod-shaped aerobe psychrophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 407932

JCM 15088,DSM 24857

@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 glaciei

Full scientific name Planococcus glaciei (Zhang et al. 2009) Gupta and Patel 2020

Synonyms (1)

Planomicrobium glaciei

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Motility
28957	positive	rod-shaped

Pigmentation

28957

Productionyes

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
17788	TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)		Medium recipe at MediaDive	Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
17788	positive	growth	20	psychrophilic
28957	positive	growth	04-28
28957	positive	optimum	20.5	psychrophilic
67770	positive	growth	18	psychrophilic

Culture pH

@ref	Ability	Type	PH	PH range
28957	positive	optimum	6.5
28957	positive	growth	5.0-10.0	alkaliphile

Physiology and metabolism

Oxygen tolerance

28957

Oxygen toleranceaerobe

Spore formation

28957

Spore formationno

Halophily

@ref	Salt	Growth	Tested relation	Concentration
28957	NaCl	positive	growth	0-11 %
28957	NaCl	positive	optimum	5.5 %

Observation

67770

Observationquinones: MK-7, MK-8

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
28957	22599 ChEBI	arabinose	+	carbon source
28957	17057 ChEBI	cellobiose	+	carbon source
28957	28757 ChEBI	fructose	+	carbon source
28957	17234 ChEBI	glucose	+	carbon source
28957	17754 ChEBI	glycerol	+	carbon source
28957	29864 ChEBI	mannitol	+	carbon source
28957	37684 ChEBI	mannose	+	carbon source
28957	17632 ChEBI	nitrate	+	reduction
28957	33942 ChEBI	ribose	+	carbon source
28957	17992 ChEBI	sucrose	+	carbon source
28957	27082 ChEBI	trehalose	+	carbon source

Enzymes

@ref	Value	Activity	Ec
28957	alkaline phosphatase	+	3.1.3.1
28957	catalase	+	1.11.1.6

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Glacier
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
17788	frozen soil from a glacier	Xinjiang Uygur Autonomous Region, China No.1 glacier	China	CHN	Asia
67770	China No.1 glacier (Xinjiang Uygur Autonomous Region)		China	CHN	Asia

Taxonmaps

69479

Global distribution of 16S sequence EU036220 (>99% sequence identity) for Planomicrobium glaciei from Microbeatlas

Aquatic Samples	79
Soil Samples	255
Animal Samples	239
Plant Samples	39
Total Samples	612

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
17788	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	IMG-taxon 2617270782 annotated assembly for Planococcus glaciei CGMCC 1.6846	scaffold	GCA_900099655	459472.16	2617270782	459472	61.92

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
17788	Planomicrobium glaciei strain 0423 16S ribosomal RNA gene, partial sequence	EU036220	1465		459472

GC content

@ref	GC-content (mol%)	Method
17788	49	thermal denaturation, midpoint method (Tm)
28957	49

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Planococcus glaciei CGMCC 1.6846
NCBI: GCA_900099655

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	yes	85.30	no
125439	motility	BacteriaNetⓘ	yes	80.30	no
125439	gram_stain	BacteriaNetⓘ	variable	85.80	no
125439	oxygen_tolerance	BacteriaNetⓘ	aerobe	85.70	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Planomicrobium glaciei strain CGMCC 1.6846
PATRIC: 459472.16

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	83.97	yes
125438	anaerobic	anaerobicⓘ	no	97.69	yes
125438	spore-forming	spore-formingⓘ	yes	58.14	no
125438	aerobic	aerobicⓘ	yes	84.21	yes
125438	thermophilic	thermophileⓘ	no	94.93	no
125438	flagellated	motile2+ⓘ	no	67.53	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	The first case of Planococcus glaciei found in blood, a report from the Czech Republic.	Malisova L, Spanelova P, Sedlacek I, Pajer P, Musilek M, Puchalkova B, Jakubu V, Zemlickova H, Safrankova R	Folia Microbiol (Praha)	10.1007/s12223-021-00919-4	2021
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 glaciei sp. nov., a psychrotolerant bacterium isolated from a glacier.	Zhang DC, Liu HC, Xin YH, Yu Y, Zhou PJ, Zhou YG	Int J Syst Evol Microbiol	10.1099/ijs.0.002592-0	2009

References

#17788	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 24857
#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 )
#25394	IJSEM 1387 2009 ( DOI 10.1099/ijs.0.002592-0 , PubMed 19502321 )
#28957	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 #25394
#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 .
#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 glaciei (DSM 24857, CGMCC 1.6846, JCM 15088)

Name and taxonomic classification

Morphology

Cell morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Observation

Metabolite utilization

Enzymes

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_900099655

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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