Strain identifier

BacDive ID: 491

Type strain: Yes

Species: Marinobacter santoriniensis

Strain Designation: NKSG1

Strain history: <- K. M. Handley, SEAES, Univ. Manchester, United Kingdom; NKSG1

NCBI tax ID(s): 523742 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 15597

BacDive-ID: 491

DSM-Number: 21262

keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, moderately halophilic, mesophilic, Gram-negative, motile, rod-shaped

description: Marinobacter santoriniensis NKSG1 is a facultative anaerobe, moderately halophilic, mesophilic bacterium that was isolated from shallow marine hydrothermal sediment.

NCBI tax id

  • NCBI tax id: 523742
  • Matching level: species

strain history

  • @ref: 15597
  • history: <- K. M. Handley, SEAES, Univ. Manchester, United Kingdom; NKSG1

doi: 10.13145/bacdive491.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Alteromonadales
  • family: Alteromonadaceae
  • genus: Marinobacter
  • species: Marinobacter santoriniensis
  • full scientific name: Marinobacter santoriniensis Handley et al. 2009

@ref: 15597

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Alteromonadales

family: Alteromonadaceae

genus: Marinobacter

species: Marinobacter santoriniensis

full scientific name: Marinobacter santoriniensis Handley et al. 2009

strain designation: NKSG1

type strain: yes

Morphology

cell morphology

  • @ref: 23124
  • gram stain: negative
  • cell length: 1.2-4.5 µm
  • cell width: 0.5-1.3 µm
  • cell shape: rod-shaped
  • motility: yes
  • flagellum arrangement: polar

colony morphology

  • @ref: 23124
  • colony size: 7 mm

Culture and growth conditions

culture medium

  • @ref: 15597
  • name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/514
  • composition: 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

@refgrowthtypetemperaturerange
15597positivegrowth37mesophilic
23124positiveoptimum35-40

culture pH

@refabilitytypepHPH range
23124positiveminimum5.5
23124positivemaximum9.0alkaliphile
23124positiveoptimum7.0-8.0

Physiology and metabolism

oxygen tolerance

  • @ref: 23124
  • oxygen tolerance: facultative anaerobe

spore formation

  • @ref: 23124
  • spore formation: no

halophily

@refhalophily levelsaltgrowthtested relationconcentration
23124moderately halophilicNaClpositivegrowth>0.5 %
23124NaClpositivegrowth<16 %
23124NaClpositiveoptimum5-10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2312427689decanoate-carbon source
2312416947citrate-carbon source
2312417634D-glucose-carbon source
2312416899D-mannitol-carbon source
2312416024D-mannose-carbon source
2312430849L-arabinose-carbon source
2312417306maltose-carbon source
23124506227N-acetylglucosamine-carbon source
2312417128adipate+carbon source
2312424265gluconate+carbon source
2312425115malate+carbon source
2312418401phenylacetate+carbon source
2312430089acetate+oxidation
2312417968butyrate+oxidation
2312475832ferrous sulfate+oxidation
2312415740formate+oxidation
2312429806fumarate+oxidation
2312424996lactate+oxidation
2312425115malate+oxidation
2312416452oxaloacetate+oxidation
2312417272propionate+oxidation
2312415361pyruvate+oxidation
2312430031succinate+oxidation
23124yeast extract+oxidation
2312417632nitrate+reduction

enzymes

@refvalueactivityec
231246-phospho-beta-galactosidase-3.2.1.85
23124acid phosphatase+3.1.3.2
23124alkaline phosphatase+3.1.3.1
23124alpha-chymotrypsin-3.4.21.1
23124alpha-fucosidase-3.2.1.51
23124alpha-galactosidase-3.2.1.22
23124alpha-glucosidase-3.2.1.20
23124alpha-mannosidase-3.2.1.24
23124beta-glucosidase-3.2.1.21
23124beta-glucuronidase-3.2.1.31
23124cystine arylamidase+3.4.11.3
23124esterase (C 4)+
23124esterase lipase (C 8)+
23124leucine arylamidase+3.4.11.1
23124lipase (C 14)+
23124N-acetyl-beta-glucosaminidase-3.2.1.52
23124naphthol-AS-BI-phosphohydrolase+
23124trypsin-3.4.21.4
23124urease+3.5.1.5
23124valine arylamidase+

Isolation, sampling and environmental information

isolation

  • @ref: 15597
  • sample type: shallow marine hydrothermal sediment
  • geographic location: Santorini, Nea Kameni
  • country: Greece
  • origin.country: GRC
  • continent: Europe

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Marine
#Environmental#Aquatic#Sediment
#Condition#Thermophilic (>45°C)

taxonmaps

  • @ref: 69479
  • File name: preview.99_3505.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_89;96_693;97_2189;98_2686;99_3505&stattab=map
  • Last taxonomy: Marinobacter
  • 16S sequence: EU496088
  • Sequence Identity:
  • Total samples: 562
  • soil counts: 33
  • aquatic counts: 499
  • animal counts: 18
  • plant counts: 12

Safety information

risk assessment

  • @ref: 15597
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 15597
  • description: Marinobacter santoriniensis strain NKSG1 16S ribosomal RNA gene, partial sequence
  • accession: EU496088
  • length: 1383
  • database: ena
  • NCBI tax ID: 1288826

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Marinobacter santoriniensis NKSG1GCA_000347775contigncbi1288826
66792Marinobacter santoriniensis NKSG11288826.3wgspatric1288826
66792Marinobacter santoriniensis NKSG12545824694draftimg1288826

GC content

  • @ref: 15597
  • GC-content: 58.1
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes87.259yes
gram-positiveno99.098no
anaerobicno97.078yes
aerobicyes62.197yes
halophileyes91.188yes
spore-formingno95.953yes
glucose-utilno61.795yes
flagellatedyes83.29no
glucose-fermentno89.542no
thermophileno99.274yes

External links

@ref: 15597

culture collection no.: DSM 21262

straininfo link

  • @ref: 70170
  • straininfo: 403638

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Metabolism19226300Redox cycling of arsenic by the hydrothermal marine bacterium Marinobacter santoriniensis.Handley KM, Hery M, Lloyd JREnviron Microbiol10.1111/j.1462-2920.2009.01890.x2009Arsenate Reductases/genetics/metabolism, Arsenates/metabolism, Arsenic/*metabolism, Arsenites/metabolism, Base Sequence, Geologic Sediments/*microbiology, Hot Springs/*microbiology, Marinobacter/genetics/isolation & purification/*metabolism, Molecular Sequence Data, Oxidation-Reduction, Oxidoreductases/genetics/metabolism, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiologyPhylogeny
Phylogeny19329625Marinobacter santoriniensis sp. nov., an arsenate-respiring and arsenite-oxidizing bacterium isolated from hydrothermal sediment.Handley KM, Hery M, Lloyd JRInt J Syst Evol Microbiol10.1099/ijs.0.003145-02009Aerobiosis, Anaerobiosis, Arsenates/*metabolism, Arsenites/*metabolism, Bacterial Typing Techniques, Base Composition, Carbohydrate Metabolism, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Greece, Hot Springs/*microbiology, Locomotion, Marinobacter/*classification/genetics/*isolation & purification/physiology, Molecular Sequence Data, Nucleic Acid Hybridization, Oxidation-Reduction, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic AcidMetabolism
Phylogeny20935087Marinobacter oulmenensis sp. nov., a moderately halophilic bacterium isolated from brine of a salt concentrator.Kharroub K, Aguilera M, Jimenez-Pranteda ML, Gonzalez-Paredes A, Ramos-Cormenzana A, Monteoliva-Sanchez MInt J Syst Evol Microbiol10.1099/ijs.0.027284-02010Algeria, Bacterial Typing Techniques, Base Composition, Carbon/metabolism, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Geologic Sediments/*microbiology, Heterotrophic Processes, Hydrogen-Ion Concentration, Marinobacter/*classification/genetics/*isolation & purification/physiology, Molecular Sequence Data, Nitrogen/metabolism, Nucleic Acid Hybridization, Phospholipids/analysis, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sodium Chloride/metabolism, TemperatureMetabolism
Genetics23661489Genome Sequence of Hydrothermal Arsenic-Respiring Bacterium Marinobacter santoriniensis NKSG1T.Handley KM, Upton M, Beatson SA, Hery M, Lloyd JRGenome Announc10.1128/genomeA.00231-132013
Phylogeny30231958Marinobacter bohaiensis sp. nov., a moderate halophile isolated from benthic sediment of the Bohai Sea.Xu S, Wang D, Wei Y, Cui Q, Li WInt J Syst Evol Microbiol10.1099/ijsem.0.0030252018Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Geologic Sediments/*microbiology, Marinobacter/*classification/genetics/isolation & purification, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Ubiquinone/chemistryTranscriptome
Phylogeny31778353Marinobacter fonticola sp. nov., isolated from deep sea cold seep sediment.Sun QL, Sun YL, Sun YY, Luan ZD, Lian CInt J Syst Evol Microbiol10.1099/ijsem.0.0038952020Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Geologic Sediments/*microbiology, Glycolipids/chemistry, Marinobacter/*classification/isolation & purification, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Ubiquinone/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
15597Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21262)https://www.dsmz.de/collection/catalogue/details/culture/DSM-21262
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
23124Kim M. Handley, Marina Héry, Jonathan R. Lloyd10.1099/ijs.0.003145-0Marinobacter santoriniensis sp. nov., an arsenate-respiring and arsenite-oxidizing bacterium isolated from hydrothermal sedimentIJSEM 59: 886-892 200919329625
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69479João 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.https://microbeatlas.org/MicrobeAtlas 1.0 beta
70170Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID403638.1StrainInfo: A central database for resolving microbial strain identifiers