Marinobacter similis (DSM 27079, CIP 110589, JCM 19398)

Name: Marinobacter similis (DSM 27079, CIP 110589, JCM 19398)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 130156

Type strain

Strain Designation A3d10

Culture col. no. DSM 27079 CIP 110589 JCM 19398 KMM 7501 A3d10

NCBI tax ID(s) 1420916

Special Collections DSMZ JCM CIP

History DSMZ <- E. P. Ivanova, Swinburne Univ. Technol., IRIS, Hawthorn, Australia; A3d10 JCM <-- E. P. Ivanova A3d10. CIP <- 2013, E. Ivanova, Swinburne Univ., Hawthorn, Victoria, Australia: strain A3d10 <- H. Webb

Links

Marinobacter similis A3d10 is a Gram-negative, motile, rod-shaped bacterium that was isolated from sea water collected one metre below the water surface.

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

Name and taxonomic classification

SI-ID 402002

JCM 19398,DSM 27079,CIP 110589

@ref 20215

Last LPSN update 2026-05-29 08:37:18

Domain Bacteria

Phylum Pseudomonadota

Class Gammaproteobacteria

Order Alteromonadales

Family Alteromonadaceae

Genus Marinobacter

Species Marinobacter similis

Full scientific name Marinobacter similis Ng et al. 2015

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Confidence
125439	negative		97.471
125438	negative		98.994
122617	negative	rod-shaped

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
22045	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
122617	CIP Medium 13		Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
22045	positive	growth	25
67770	positive	growth	25

Physiology and metabolism

Spore formation

@ref	Spore formation	Confidence
125439		99.734

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	Latitude	Longitude	Isolation date
22045	sea water collected one metre below the water surface	Pacific Ocean, Tasman Sea, Port Philip Bay, St Kilda Beach (37°51'50''S 144°58'55''E)	Australia	AUS	Australia and Oceania	-37.8639	144.982 -37.8639/144.982
67770	Seawater from the 1st meter below the water surface from St. Kilda Beach	Port Philip Bay, Victoria	Australia	AUS	Australia and Oceania
122617	Environment, Sea water	Port Phillip bay, Melbourne	Australia	AUS	Australia and Oceania			2009-01-02

Taxonmaps

69479

Global distribution of 16S sequence KJ547704 (>99% sequence identity) for Marinobacter from Microbeatlas

Aquatic Samples	218
Soil Samples	5
Animal Samples	2
Plant Samples	2
Total Samples	227

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
22045	1	Risk group (German classification)
122617	1	Risk group (French classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	Marinobacter similis A3d10	complete		1420916.4		1420916	80.5
66792	ASM83098v1 assembly for Marinobacter similis A3d10	complete	GCA_000830985	1420916.16	2667527567	1420916	79.07

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
22045	Marinobacter similis strain A3d10 16S ribosomal RNA gene, partial sequence	KJ547704	1532		1420916

GC content

@ref	GC-content (mol%)	Method
22045	57.6	sequence analysis

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Marinobacter similis A3d10
BV-BRC: 1420916.4

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	aerobe	87.63	no
125439	motility	BacteriaNetⓘ	yes	81.41	no
125439	gram_stain	BacteriaNetⓘ	negative	97.47	no
125439	spore_formation	BacteriaNetⓘ	no	99.73	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Marinobacter similis A3d10
NCBI: GCA_000830985.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	98.99	no
125438	anaerobic	anaerobicⓘ	no	96.56	no
125438	aerobic	aerobicⓘ	yes	84.55	no
125438	spore-forming	spore-formingⓘ	no	88.00	no
125438	thermophilic	thermophileⓘ	no	97.00	yes
125438	flagellated	motile2+ⓘ	yes	84.98	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Draft Genome Sequences of Marinobacter similis A3d10T and Marinobacter salarius R9SW1T.	Ivanova EP, Ng HJ, Webb HK, Feng G, Oshima K, Hattori M, Ohkuma M, Sergeev AF, Mikhailov VV, Crawford RJ, Sawabe T	Genome Announc	10.1128/genomeA.00442-14	2014
Phylogeny	Marinobacter salinus sp. nov., a moderately halophilic bacterium isolated from a tidal flat environment.	Rani S, Koh HW, Kim H, Rhee SK, Park SJ	Int J Syst Evol Microbiol	10.1099/ijsem.0.001587	2017
Phylogeny	Marinobacter salarius sp. nov. and Marinobacter similis sp. nov., isolated from sea water.	Ng HJ, Lopez-Perez M, Webb HK, Gomez D, Sawabe T, Ryan J, Vyssotski M, Bizet C, Malherbe F, Mikhailov VV, Crawford RJ, Ivanova EP	PLoS One	10.1371/journal.pone.0106514	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 )
#22045	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 27079
#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 .
#122617	Collection of Institut Pasteur ; Curators of the CIP; CIP 110589
#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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Marinobacter similis (DSM 27079, CIP 110589, JCM 19398)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Spore formation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000830985

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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