Pseudidiomarina donghaiensis (CGMCC 1.7284, JCM 15533, 908033)

Name: Pseudidiomarina donghaiensis (CGMCC 1.7284, JCM 15533, 908033)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 133467

Type strain

Strain Designation 908033

Culture col. no. CGMCC 1.7284 JCM 15533 908033

NCBI tax ID(s) 519452

Special Collections JCM Literature strains

Links

Pseudidiomarina donghaiensis 908033 is an aerobe, Gram-negative, motile prokaryote that was isolated from seawater.

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

Name and taxonomic classification

SI-ID 362832

CGMCC 1.7284,JCM 15533

@ref 20215

Last LPSN update 2025-12-16 10:01:47

Domain Pseudomonadati

Phylum Pseudomonadota

Class Gammaproteobacteria

Order Alteromonadales

Family Idiomarinaceae

Genus Pseudidiomarina

Species Pseudidiomarina donghaiensis

Full scientific name Pseudidiomarina donghaiensis Wu et al. 2009

Synonyms (1)

Idiomarina donghaiensis

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Confidence
29079	negative	1.2 µm	0.5 µm	rod-shaped
125438	negative				98.994
125439	negative				98.8

Pigmentation

29079

Productionno

Culture and growth conditions

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
29079	positive	growth	15-45
29079	positive	optimum	37	mesophilic
67770	positive	growth	30	mesophilic

Culture pH

@ref	Ability	Type	PH	PH range
29079	positive	optimum	8.5
29079	positive	growth	6.5-10.0	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
29079	aerobe
125439	obligate aerobe	95.9

Spore formation

@ref	Spore formation	Confidence
29079
125438		92.438
125439		98.9

Halophily

@ref	Salt	Growth	Tested relation	Concentration
29079	NaCl	positive	growth	0.5-10 %
29079	NaCl	positive	optimum	3 %

Observation

67770

Observationquinones: Q-8

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
29079	53424 ChEBI	tween 20	+	carbon source
29079	53426 ChEBI	tween 80	+	carbon source

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Marine

Isolation

@ref	Sample type	Country	Country ISO 3 Code	Continent
29079	seawater
67770	Coastal seawater sample collected from the East China Sea	China	CHN	Asia

Taxonmaps

69479

Global distribution of 16S sequence EU600204 (>99% sequence identity) for Pseudidiomarina from Microbeatlas

Aquatic Samples	1081
Soil Samples	92
Animal Samples	154
Plant Samples	52
Total Samples	1379

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	IMG-taxon 2619618818 annotated assembly for Pseudidiomarina donghaiensis CGMCC 1.7284	contig	GCA_900116895	519452.3	2619618818	519452	75.04
67770	ASM398740v1 assembly for Pseudidiomarina donghaiensis 908033	contig	GCA_003987405	519452.5		519452	74.83

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
29079	Pseudidiomarina donghaiensis strain 908033 16S ribosomal RNA gene, partial sequence	EU600204	1507		519452

GC content

@ref	GC-content (mol%)	Method
29079	45.5
67770	48.07	genome sequence analysis
67770	45.5	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: Pseudidiomarina donghaiensis CGMCC 1.7284
NCBI: GCA_900116895

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	98.90	no
125439	motility	BacteriaNetⓘ	yes	72.90	no
125439	gram_stain	BacteriaNetⓘ	negative	98.80	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	95.90	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Idiomarina donghaiensis strain CGMCC 1.7284
PATRIC: 519452.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	98.99	no
125438	anaerobic	anaerobicⓘ	no	97.19	yes
125438	spore-forming	spore-formingⓘ	no	92.44	yes
125438	aerobic	aerobicⓘ	yes	80.87	yes
125438	thermophilic	thermophileⓘ	no	96.98	yes
125438	flagellated	motile2+ⓘ	yes	63.68	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Pseudidiomarina donghaiensis sp. nov. and Pseudidiomarina maritima sp. nov., isolated from the East China Sea.	Wu YH, Shen YQ, Xu XW, Wang CS, Oren A, Wu M	Int J Syst Evol Microbiol	10.1099/ijs.0.005702-0	2009
Phylogeny	Pseudidiomarina gelatinasegens sp. nov., isolated from surface sediment of the Terra Nova Bay, Antarctica.	Li A, Zhang M, Xu S, Chen M, Yao Q, Zhu HH	Int J Syst Evol Microbiol	10.1099/ijsem.0.003760	2020
Phylogeny	Comparative analysis of 16S rRNA signature sequences of the genus Idiomarina and Idiomarina woesei sp. nov., a novel marine bacterium isolated from the Andaman Sea.	Poddar A, Lepcha RT, Mukherjee D, Bhattacharyya D, Das SK	Res Microbiol	10.1016/j.resmic.2014.07.008	2014

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 )
#29079	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 #25509 (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) .
#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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Pseudidiomarina donghaiensis (CGMCC 1.7284, JCM 15533, 908033)

Name and taxonomic classification

Morphology

Cell morphology

Pigmentation

Culture and growth conditions

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Observation

Metabolite utilization

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_900116895

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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