Marinobacterium halophilum (DSM 17586, KCTC 12240, mano11)

Name: Marinobacterium halophilum (DSM 17586, KCTC 12240, mano11)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 460

Type strain

Strain Designation mano11, 30.101

Culture col. no. DSM 17586 KCTC 12240 mano11 30.101

NCBI tax ID(s) 1122199 267374

Special Collections DSMZ KCTC Literature strains

History DSMZ <- J.-W. Bae, Korea Res. Inst. of Biosci. and Biotechnol. (KRIBB); mano11 KCTC <- J.W. Bae, KRIBB

Links

Marinobacterium halophilum mano11 is an aerobe, halophilic, Gram-negative bacterium that forms circular colonies and was isolated from tidal flat area of Dae-Chun.

Gram-negative motile rod-shaped colony-forming aerobe halophilic genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 232780

KCTC 12240,DSM 17586

@ref 20215

Last LPSN update 2026-05-29 08:25:02

Domain Bacteria

Phylum Pseudomonadota

Class Gammaproteobacteria

Order Alteromonadales

Family Alteromonadaceae

Genus Marinobacterium

Species Marinobacterium halophilum

Full scientific name Marinobacterium halophilum Chang et al. 2007

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Flagellum arrangement	Confidence
23293	negative	2.1-3.0 µm	0.5-0.7 µm	rod-shaped	monotrichous, polar
67771	negative
125439	negative					99.119
125438	negative					97.25

Colony morphology

@ref	Colony size	Colony color	Colony shape	Incubation period	Medium used
23293	2-3 mm	pale orange to yellow	circular	5 days	Luria-Bertani agar

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
7073	BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)		Medium recipe at MediaDive	Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514; with strain-specific modifications) Composition: NaCl 40.0 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
23293	LB (Luria-Bertani) MEDIUM

Culture temp

@ref	Growth	Type	Temperature (°C)
7073	positive	growth	28
23293	positive	growth	45
67771	positive	growth	25

Culture pH

@ref	Ability	Type	PH	PH range
23293	positive	growth	5.3-9.3	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
67771	aerobe
125439	obligate aerobe	98.201

Spore formation

@ref	Spore formation	Confidence
125438		94.51
125439		99.898

Halophily

@ref	Halophily level	Salt	Growth	Tested relation	Concentration
23293	halophilic	NaCl	positive	growth	3-12 %
23293		NaCl		growth	0 %
23293		NaCl		growth	15 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
23293	22599 ChEBI	arabinose	-	builds acid from
23293		casein	+	hydrolysis
23293	18333 ChEBI	D-arabitol	-	builds acid from
23293	65327 ChEBI	D-xylose	-	builds acid from
23293	28757 ChEBI	fructose	+	builds acid from
23293	16813 ChEBI	galactitol	-	builds acid from
23293	28260 ChEBI	galactose	-	builds acid from
23293	17234 ChEBI	glucose	+	builds acid from
23293	17754 ChEBI	glycerol	+	builds acid from
23293	15443 ChEBI	inulin	-	builds acid from
23293	17716 ChEBI	lactose	+	builds acid from
23293	17306 ChEBI	maltose	+	builds acid from
23293	29864 ChEBI	mannitol	+	builds acid from
23293	37684 ChEBI	mannose	+	builds acid from
23293	16634 ChEBI	raffinose	+	builds acid from
23293	26546 ChEBI	rhamnose	-	builds acid from
23293	33942 ChEBI	ribose	+	builds acid from
23293	30911 ChEBI	sorbitol	-	builds acid from
23293	28017 ChEBI	starch	+	hydrolysis
23293	17992 ChEBI	sucrose	+	builds acid from
23293	27082 ChEBI	trehalose	+	builds acid from

Enzymes

@ref	Value	Activity	Ec
23293	acid phosphatase	+	3.1.3.2
23293	alkaline phosphatase	+	3.1.3.1
23293	alpha-chymotrypsin	-	3.4.21.1
23293	alpha-fucosidase	-	3.2.1.51
23293	alpha-galactosidase	-	3.2.1.22
23293	alpha-glucosidase	-	3.2.1.20
23293	alpha-mannosidase	-	3.2.1.24
23293	beta-galactosidase	-	3.2.1.23
23293	beta-glucosidase	-	3.2.1.21
23293	beta-glucuronidase	-	3.2.1.31
23293	cystine arylamidase	-	3.4.11.3
23293	esterase (C 4)	+
23293	esterase lipase (C 8)	+
23293	leucine arylamidase	+	3.4.11.1
23293	lipase (C 14)	-
23293	N-acetyl-beta-glucosaminidase	-	3.2.1.52
23293	naphthol-AS-BI-phosphohydrolase	+
23293	trypsin	-	3.4.21.4
23293	valine arylamidase	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Tidal flat

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Latitude	Longitude	Enrichment culture	Enrichment culture temperature	Isolation procedure
7073	tidal flat area of Dae-Chun	Chung-Nam (36° 17' 45.2" N 126° 31' 9.5" E),	Republic of Korea	KOR	Asia	36.2959	126.519 36.2959/126.519
23293								Marine agar (Difco)	25	dilution plating technique
67771	From west sea		Republic of Korea	KOR	Asia

Taxonmaps

69479

Global distribution of 16S sequence AY563030 (>99% sequence identity) for Marinobacterium halophilum subclade from Microbeatlas

Aquatic Samples	390
Soil Samples	21
Animal Samples	66
Plant Samples	9
Total Samples	486

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
7073	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	ASM301461v1 assembly for Marinobacterium halophilum DSM 17586	scaffold	GCA_003014615	267374.3	2728369480	267374	63.6

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
7073	Marinobacterium halophilum strain mano11 16S ribosomal RNA gene, partial sequence	AY563030	1400		267374

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM301461v1 assembly for Marinobacterium halophilum DSM 17586
BV-BRC: 267374.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	98.20	no
125439	gram_stain	BacteriaNetⓘ	negative	99.12	no
125439	motility	BacteriaNetⓘ	yes	86.91	no
125439	spore_formation	BacteriaNetⓘ	no	99.90	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Marinobacterium halophilum DSM 17586
NCBI: GCA_003014615.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	97.25	yes
125438	anaerobic	anaerobicⓘ	no	92.57	no
125438	aerobic	aerobicⓘ	yes	70.01	no
125438	spore-forming	spore-formingⓘ	no	94.51	no
125438	thermophilic	thermophileⓘ	no	98.00	yes
125438	flagellated	motile2+ⓘ	yes	89.38	yes

Literature

Topic	Title	Authors	Journal	DOI	Year
Metabolism	Genome analysis of the salt-resistant Paludifilum halophilum DSM 102817^T reveals genes involved in flux-tuning of ectoines and unexplored bioactive secondary metabolites.	Frikha-Dammak D, Ayadi H, Hakim-Rekik I, Belbahri L, Maalej S.	World J Microbiol Biotechnol	10.1007/s11274-021-03147-7	2021
Genetics	Mining biosynthetic gene clusters in Paenibacillus genomes to discover novel antibiotics	Kim M, Jeong D, Jang J, Jang J, Choi S.	BMC Microbiol		2024
	Comparative Study of the Marinobacter hydrocarbonoclasticus Biofilm Formation on Antioxidants Containing Siloxane Composite Coatings.	Vladkova TG, Monov DM, Akuzov DT, Ivanova IA, Gospodinova D.	Materials (Basel)	10.3390/ma15134530	2022
Metabolism	[Characterization of an acidotolerant, thermophilic Thermoanaerobacter sp. xyl-d with a high xylose conversion].	Zhang W, Ma S, Deng Y, Zhang H.	Wei Sheng Wu Xue Bao		2011
	Abundant Sulfitobacter marine bacteria protect Emiliania huxleyi algae from pathogenic bacteria.	Beiralas R, Ozer N, Segev E.	ISME Commun	10.1038/s43705-023-00311-y	2023
	The phylogeny and metabolic potentials of an n-alkane-degrading Venatorbacter bacterium isolated from deep-sea sediment of the Mariana Trench.	Wang J, Zhang Y, Liu Y, Xie Z, Cao J, Zhang H, Liu J, Bao T, Sun C, Liu B, Wei Y, Fang J.	Front Microbiol	10.3389/fmicb.2023.1108651	2023
	Isolation and Characterization of Infection of Four New Bacteriophages Infecting a Vibrio parahaemolyticus Strain.	Duarte J, Trindade D, Oliveira V, Gomes NCM, Calado R, Pereira C, Almeida A.	Antibiotics (Basel)	10.3390/antibiotics13111086	2024
	Draft Genome Sequence of Altererythrobacter marensis DSM 21428T, Isolated from Seawater.	Cheng H, Wu YH, Huo YY, Wang CS, Xu XW.	Genome Announc	10.1128/genomea.01607-15	2016
	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
Metabolism	[NiFe]-hydrogenases are constitutively expressed in an enriched Methanobacterium sp. population during electromethanogenesis.	Perona-Vico E, Blasco-Gomez R, Colprim J, Puig S, Baneras L.	PLoS One	10.1371/journal.pone.0215029	2019
	Safety and efficacy of Pediococcus parvulus DSM 28875 as a silage additive for all animal species.	EFSA Panel on Additives and Products or Substances used in Animal Feed (FEEDAP), Rychen G, Aquilina G, Azimonti G, Bampidis V, Bastos ML, Bories G, Chesson A, Cocconcelli PS, Flachowsky G, Gropp J, Kolar B, Kouba M, Mantovani A, Mayo B, Lopez-Alonso M, Lopez Puente S, Ramos F, Villa RE, Wallace RJ, Wester P, Aguilera J, Brozzi R, Saarela M.	EFSA J	10.2903/j.efsa.2017.4702	2017
Phylogeny	Proliferation of hydrocarbon-degrading microbes at the bottom of the Mariana Trench.	Liu J, Zheng Y, Lin H, Wang X, Li M, Liu Y, Yu M, Zhao M, Pedentchouk N, Lea-Smith DJ, Todd JD, Magill CR, Zhang WJ, Zhou S, Song D, Zhong H, Xin Y, Yu M, Tian J, Zhang XH.	Microbiome	10.1186/s40168-019-0652-3	2019
	Long-term surveillance of sulfate-reducing bacteria in highly saline industrial wastewater evaporation ponds.	Ben-Dov E, Kushmaro A, Brenner A.	Saline Syst	10.1186/1746-1448-5-2	2009
Phylogeny	Defining the Pseudomonas genus: where do we draw the line with Azotobacter?	Ozen AI, Ussery DW.	Microb Ecol	10.1007/s00248-011-9914-8	2012
Phylogeny	Rapid genus- and species-specific identification of Cronobacter spp. by matrix-assisted laser desorption ionization-time of flight mass spectrometry.	Stephan R, Ziegler D, Pfluger V, Vogel G, Lehner A.	J Clin Microbiol	10.1128/jcm.00156-10	2010
Enzymology	Detection of Lactobacillus, Pediococcus, Leuconostoc, and Weissella species in human feces by using group-specific PCR primers and denaturing gradient gel electrophoresis.	Walter J, Hertel C, Tannock GW, Lis CM, Munro K, Hammes WP.	Appl Environ Microbiol	10.1128/aem.67.6.2578-2585.2001	2001
	Osmotically regulated synthesis of the compatible solute ectoine in Bacillus pasteurii and related Bacillus spp.	Kuhlmann AU, Bremer E.	Appl Environ Microbiol	10.1128/aem.68.2.772-783.2002	2002
Phylogeny	Flavobacterium chryseum sp. nov. and Flavobacterium psychroterrae sp. nov., novel environmental bacteria isolated from Antarctica.	Kralova S, Svec P, Busse HJ, Stankova E, Vaczi P, Sedlacek I.	Int J Syst Evol Microbiol	10.1099/ijsem.0.002952	2018
Phylogeny	Paenibacillus crassostreae sp. nov., isolated from the Pacific oyster Crassostrea gigas.	Shin SK, Kim E, Yi H.	Int J Syst Evol Microbiol	10.1099/ijsem.0.002444	2018
Phylogeny	Sphingomonas panacis sp. nov., isolated from rhizosphere of rusty ginseng.	Singh P, Singh P, Kim YJ, Hoang VA, Farh Mel-A, Yang DC.	Antonie Van Leeuwenhoek	10.1007/s10482-015-0527-y	2015
Phylogeny	Paenibacillus taihuensis sp. nov., isolated from an eutrophic lake.	Wu YF, Wu QL, Liu SJ.	Int J Syst Evol Microbiol	10.1099/ijs.0.050419-0	2013
Phylogeny	Description of Tersicoccus phoenicis gen. nov., sp. nov. isolated from spacecraft assembly clean room environments.	Vaishampayan P, Moissl-Eichinger C, Pukall R, Schumann P, Sproer C, Augustus A, Roberts AH, Namba G, Cisneros J, Salmassi T, Venkateswaran K.	Int J Syst Evol Microbiol	10.1099/ijs.0.047134-0	2013
Phylogeny	Reclassification of Bacillus haloalkaliphilus Fritze 1996 as Alkalibacillus haloalkaliphilus gen. nov., comb. nov. and the description of Alkalibacillus salilacus sp. nov., a novel halophilic bacterium isolated from a salt lake in China.	Jeon CO, Lim JM, Lee JM, Xu LH, Jiang CL, Kim CJ.	Int J Syst Evol Microbiol	10.1099/ijs.0.63456-0	2005
	Genome-based taxonomic rearrangement of Oceanobacter-related bacteria including the description of Thalassolituus hydrocarbonoclasticus sp. nov. and Thalassolituus pacificus sp. nov. and emended description of the genus Thalassolituus.	Dong C, Wei L, Wang J, Lai Q, Huang Z, Shao Z.	Front Microbiol	10.3389/fmicb.2022.1051202	2022
Phylogeny	Marinobacterium maritimum sp. nov., a marine bacterium isolated from Arctic sediment.	Kim SJ, Park SJ, Yoon DN, Park BJ, Choi BR, Lee DH, Roh Y, Rhee SK	Int J Syst Evol Microbiol	10.1099/ijs.0.009134-0	2009
Phylogeny	Marinobacterium rhizophilum sp. nov., isolated from the rhizosphere of the coastal tidal-flat plant Suaeda japonica.	Kim YG, Jin YA, Hwang CY, Cho BC	Int J Syst Evol Microbiol	10.1099/ijs.0.65176-0	2008
Phylogeny	Marinobacterium halophilum sp. nov., a marine bacterium isolated from the Yellow Sea.	Chang HW, Nam YD, Kwon HY, Park JR, Lee JS, Yoon JH, An KG, Bae JW	Int J Syst Evol Microbiol	10.1099/ijs.0.64505-0	2007

References

#7073	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 17586
#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 )
#23293	Ho-Won Chang, Young-Do Nam, Hyuk-Yong Kwon, Ja Ryeong Park, Jung-Sook Lee, Jung-Hoon Yoon, Kwang-Guk An and Jin-Woo Bae: Marinobacterium halophilum sp. nov., a marine bacterium isolated from the Yellow Sea. IJSEM 57: 77 - 80 2007 ( DOI 10.1099/ijs.0.64505-0 , PubMed 17220446 )
#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;
#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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Marinobacterium halophilum (DSM 17586, KCTC 12240, mano11)

Name and taxonomic classification

Morphology

Cell morphology

Colony 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_003014615

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

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