Roseibium marinum (DSM 17023, KCTC 12288, mano 18)

Name: Roseibium marinum (DSM 17023, KCTC 12288, mano 18)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 13835

Type strain

Strain Designation mano 18

Culture col. no. DSM 17023 KCTC 12288 mano 18

NCBI tax ID(s) 281252

Special Collections DSMZ KCTC Literature strains

History <- J. R. Park, KRIBB; mano 18 <- B.-C. Kim <- BC Kim, KRIBB

Links

Roseibium marinum mano 18 is an aerobe, mesophilic, Gram-negative prokaryote that was isolated from seawater.

Gram-negative motile rod-shaped aerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 232802

KCTC 12288,DSM 17023

@ref 20215

Last LPSN update 2026-02-09 11:21:15

Domain Bacteria

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Hyphomicrobiales

Family Stappiaceae

Genus Roseibium

Species Roseibium marinum

Full scientific name Roseibium marinum (Kim et al. 2006) Hördt et al. 2020

Synonyms (2)

Stappia marina
Labrenzia marina

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Confidence
31521	negative	1.3-2 µm	0.6-0.8 µm	rod-shaped
67771	negative
125438	negative				98.5
125439	negative				99.1

Pigmentation

31521

Productionyes

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
6689	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
6689	positive	growth	25	mesophilic
31521	positive	growth	26-30	mesophilic
31521	positive	optimum	26-30	mesophilic
67771	positive	growth	25	mesophilic

Culture pH

@ref	Ability	Type	PH
31521	positive	optimum	7
31521	positive	growth	7

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
31521	aerobe
67771	aerobe
125439	obligate aerobe	94.9

Spore formation

@ref	Spore formation	Confidence
31521
125438		92.837
125439		97.6

Halophily

@ref	Salt	Growth	Tested relation	Concentration
31521	NaCl	positive	growth	03-06 %
31521	NaCl	positive	optimum	03-06 %

Observation

31521

Observationaggregates in chains

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
31521	4853 ChEBI	esculin	+	hydrolysis
31521	17234 ChEBI	glucose	+	carbon source
31521	17632 ChEBI	nitrate	+	reduction

Enzymes

@ref	Value	Activity	Ec
31521	catalase	+	1.11.1.6
31521	cytochrome oxidase	+	1.9.3.1
31521	urease	+	3.5.1.5

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Marine

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
6689	seawater	West sea	Republic of Korea	KOR	Asia
67771	From seawater	West Sea	Republic of Korea	KOR	Asia

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
6689	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
66792	ASM290616v1 assembly for Roseibium marinum DSM 17023	contig	GCA_002906165	281252.8	2731639218	281252	72.13

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
6689	Stappia marina strain mano18 16S ribosomal RNA gene, partial sequence	AY628423	1355		281252

GC content

31521

GC-content (mol%)59.7

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Roseibium marinum DSM 17023
NCBI: GCA_002906165

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	97.60	no
125439	motility	BacteriaNetⓘ	yes	60.80	no
125439	gram_stain	BacteriaNetⓘ	negative	99.10	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	94.90	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Labrenzia marina strain DSM 17023
PATRIC: 281252.8

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	98.50	yes
125438	anaerobic	anaerobicⓘ	no	91.63	yes
125438	spore-forming	spore-formingⓘ	no	92.84	yes
125438	aerobic	aerobicⓘ	yes	80.28	no
125438	thermophilic	thermophileⓘ	no	98.45	yes
125438	flagellated	motile2+ⓘ	yes	71.81	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Analysis of 1,000+ Type-Strain Genomes Substantially Improves Taxonomic Classification of Alphaproteobacteria.	Hordt A, Lopez MG, Meier-Kolthoff JP, Schleuning M, Weinhold LM, Tindall BJ, Gronow S, Kyrpides NC, Woyke T, Goker M.	Front Microbiol	10.3389/fmicb.2020.00468	2020
Phylogeny	Stappia marina sp. nov., a marine bacterium isolated from the Yellow Sea.	Kim BC, Park JR, Bae JW, Rhee SK, Kim KH, Oh JW, Park YH	Int J Syst Evol Microbiol	10.1099/ijs.0.63735-0	2006

References

#6689	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 17023
#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 )
#27815	IJSEM 75 2006 ( DOI 10.1099/ijs.0.63735-0 , PubMed 16403869 )
#31521	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 #27815
#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) .
#67771	Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;
#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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Roseibium marinum (DSM 17023, KCTC 12288, mano 18)

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

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_002906165

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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