Ponticoccus litoralis (DSM 18986, KCCM 90028, CL-GR66)

Name: Ponticoccus litoralis (DSM 18986, KCCM 90028, CL-GR66)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 13846

Type strain

Strain Designation CL-GR66

Culture col. no. DSM 18986 KCCM 90028 CL-GR66

NCBI tax ID(s) 1122969 422297

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Ponticoccus litoralis CL-GR66 is an aerobe, mesophilic, Gram-negative prokaryote that was isolated from coastal seawater.

Gram-negative ovoid-shaped aerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 354321

DSM 18986,CECT 7786

@ref 20215

Last LPSN update 2025-12-16 09:50:12

Domain Pseudomonadati

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Rhodobacterales

Family Roseobacteraceae

Genus Ponticoccus

Species Ponticoccus litoralis

Full scientific name Ponticoccus litoralis Hwang and Cho 2008

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Motility	Confidence
32516	negative	1 µm	0.65 µm	ovoid-shaped
125439	negative					96.6

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
7817	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)	Range
7817	positive	growth	28	mesophilic
32516	positive	growth	10-37
32516	positive	optimum	30	mesophilic

Culture pH

@ref	Ability	Type	PH
32516	positive	optimum	7
32516	positive	growth	06-08

Physiology and metabolism

Oxygen tolerance

32516

Oxygen toleranceaerobe

Spore formation

@ref	Spore formation	Confidence
125439		95.5

Halophily

@ref	Salt	Growth	Tested relation	Concentration
32516	NaCl	positive	growth	01-15 %
32516	NaCl	positive	optimum	4 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
32516	30089 ChEBI	acetate	+	carbon source
32516	16449 ChEBI	alanine	+	carbon source
32516	22599 ChEBI	arabinose	+	carbon source
32516	29016 ChEBI	arginine	+	carbon source
32516	17234 ChEBI	glucose	+	carbon source
32516	29864 ChEBI	mannitol	+	carbon source
32516	17268 ChEBI	myo-inositol	+	carbon source
32516	17632 ChEBI	nitrate	+	reduction
32516	26271 ChEBI	proline	+	carbon source
32516	33942 ChEBI	ribose	+	carbon source
32516	17992 ChEBI	sucrose	+	carbon source

Enzymes

@ref	Value	Activity	Ec
32516	acid phosphatase	+	3.1.3.2
32516	alkaline phosphatase	+	3.1.3.1
32516	catalase	+	1.11.1.6
32516	cytochrome oxidase	+	1.9.3.1
32516	gelatinase	+

Isolation, sampling and environmental information

Isolation source categories

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

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
7817	coastal seawater	Busan	Republic of Korea	KOR	Asia

Taxonmaps

69479

Global distribution of 16S sequence EF211829 (>99% sequence identity) for Ponticoccus litoralis from Microbeatlas

Aquatic Samples	63
Soil Samples	4
Animal Samples	54
Plant Samples
Total Samples	121

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
7817	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	IMG accession	NCBI tax ID	Score	INSDC accession
66792	Ponticoccus litoralis DSM 18986	complete	2574179734	1122969	94.38
124043	ASM3976998v1 assembly for Ponticoccus litoralis KCCM 90028	contig		422297	43.09	GCA_039769985

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
7817	Ponticoccus litoralis strain CL-GR66 16S ribosomal RNA gene, partial sequence	EF211829	1357		422297

GC content

7817

GC-content (mol%)67.9

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Ponticoccus litoralis DSM 18986
IMG: 2574179734

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	95.50	no
125439	motility	BacteriaNetⓘ	yes	77.40	no
125439	gram_stain	BacteriaNetⓘ	negative	96.60	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	77.10	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Vitamin B₁₂ is not shared by all marine prototrophic bacteria with their environment.	Sultana S, Bruns S, Wilkes H, Simon M, Wienhausen G.	ISME J	10.1038/s41396-023-01391-3	2023
Phylogeny	Mameliella sediminis sp. nov., a novel polyhydroxyalkanoate-accumulating bacterium.	Zheng WS, Zhai SQ, Zhang MJ, Huang Y	Int J Syst Evol Microbiol	10.1099/ijsem.0.005274	2022
Phylogeny	Ponticoccus alexandrii sp. nov., a novel bacterium isolated from the marine toxigenic dinoflagellate Alexandrium minutum.	Yang Q, Zhang X, Li L, Zhang R, Feng L, Mu J	Antonie Van Leeuwenhoek	10.1007/s10482-017-0996-2	2017
Phylogeny	Ponticoccus marisrubri sp. nov., a moderately halophilic marine bacterium of the family Rhodobacteraceae.	Zhang G, Haroon MF, Zhang R, Dong X, Liu D, Xiong Q, Xun W, Dong X, Stingl U	Int J Syst Evol Microbiol	10.1099/ijsem.0.002280	2017
Phylogeny	Alkalimicrobium pacificum gen. nov., sp. nov., a marine bacterium in the family Rhodobacteraceae.	Zhang G, Yang Y, Wang S, Sun Z, Jiao K	Int J Syst Evol Microbiol	10.1099/ijs.0.000282	2015
Phylogeny	Ponticoccus lacteus sp. nov. of the family Rhodobacteraceae, isolated from surface seawater.	Yang Y, Sun J, Tang K, Lin D, Li C, Lin Y	Int J Syst Evol Microbiol	10.1099/ijs.0.000086	2015
Phylogeny	Litorisediminicola beolgyonensis gen. nov., sp. nov., isolated from a coastal sediment.	Yoon JH, Lee SY, Jung YT, Lee JS, Lee KC	Int J Syst Evol Microbiol	10.1099/ijs.0.043588-0	2012
Phylogeny	Ponticoccus litoralis gen. nov., sp. nov., a marine bacterium in the family Rhodobacteraceae.	Hwang CY, Cho BC	Int J Syst Evol Microbiol	10.1099/ijs.0.65612-0	2008

References

#7817	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 18986
#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 )
#32516	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 #28736 (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) .
#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 .
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#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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Ponticoccus litoralis (DSM 18986, KCCM 90028, CL-GR66)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

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_039769985

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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