Strain identifier
BacDive ID: 491
Type strain:
Species: Marinobacter santoriniensis
Strain Designation: NKSG1
Strain history: <- K. M. Handley, SEAES, Univ. Manchester, United Kingdom; NKSG1
NCBI tax ID(s): 523742 (species)
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
@ref | growth | type | temperature | range |
---|---|---|---|---|
15597 | positive | growth | 37 | mesophilic |
23124 | positive | optimum | 35-40 |
culture pH
@ref | ability | type | pH | PH range |
---|---|---|---|---|
23124 | positive | minimum | 5.5 | |
23124 | positive | maximum | 9.0 | alkaliphile |
23124 | positive | optimum | 7.0-8.0 |
Physiology and metabolism
oxygen tolerance
- @ref: 23124
- oxygen tolerance: facultative anaerobe
spore formation
- @ref: 23124
- spore formation: no
halophily
@ref | halophily level | salt | growth | tested relation | concentration |
---|---|---|---|---|---|
23124 | moderately halophilic | NaCl | positive | growth | >0.5 % |
23124 | NaCl | positive | growth | <16 % | |
23124 | NaCl | positive | optimum | 5-10 % |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
23124 | 27689 | decanoate | - | carbon source |
23124 | 16947 | citrate | - | carbon source |
23124 | 17634 | D-glucose | - | carbon source |
23124 | 16899 | D-mannitol | - | carbon source |
23124 | 16024 | D-mannose | - | carbon source |
23124 | 30849 | L-arabinose | - | carbon source |
23124 | 17306 | maltose | - | carbon source |
23124 | 506227 | N-acetylglucosamine | - | carbon source |
23124 | 17128 | adipate | + | carbon source |
23124 | 24265 | gluconate | + | carbon source |
23124 | 25115 | malate | + | carbon source |
23124 | 18401 | phenylacetate | + | carbon source |
23124 | 30089 | acetate | + | oxidation |
23124 | 17968 | butyrate | + | oxidation |
23124 | 75832 | ferrous sulfate | + | oxidation |
23124 | 15740 | formate | + | oxidation |
23124 | 29806 | fumarate | + | oxidation |
23124 | 24996 | lactate | + | oxidation |
23124 | 25115 | malate | + | oxidation |
23124 | 16452 | oxaloacetate | + | oxidation |
23124 | 17272 | propionate | + | oxidation |
23124 | 15361 | pyruvate | + | oxidation |
23124 | 30031 | succinate | + | oxidation |
23124 | yeast extract | + | oxidation | |
23124 | 17632 | nitrate | + | reduction |
enzymes
@ref | value | activity | ec |
---|---|---|---|
23124 | 6-phospho-beta-galactosidase | - | 3.2.1.85 |
23124 | acid phosphatase | + | 3.1.3.2 |
23124 | alkaline phosphatase | + | 3.1.3.1 |
23124 | alpha-chymotrypsin | - | 3.4.21.1 |
23124 | alpha-fucosidase | - | 3.2.1.51 |
23124 | alpha-galactosidase | - | 3.2.1.22 |
23124 | alpha-glucosidase | - | 3.2.1.20 |
23124 | alpha-mannosidase | - | 3.2.1.24 |
23124 | beta-glucosidase | - | 3.2.1.21 |
23124 | beta-glucuronidase | - | 3.2.1.31 |
23124 | cystine arylamidase | + | 3.4.11.3 |
23124 | esterase (C 4) | + | |
23124 | esterase lipase (C 8) | + | |
23124 | leucine arylamidase | + | 3.4.11.1 |
23124 | lipase (C 14) | + | |
23124 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
23124 | naphthol-AS-BI-phosphohydrolase | + | |
23124 | trypsin | - | 3.4.21.4 |
23124 | urease | + | 3.5.1.5 |
23124 | valine 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
Cat1 | Cat2 | Cat3 |
---|---|---|
#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
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Marinobacter santoriniensis NKSG1 | GCA_000347775 | contig | ncbi | 1288826 |
66792 | Marinobacter santoriniensis NKSG1 | 1288826.3 | wgs | patric | 1288826 |
66792 | Marinobacter santoriniensis NKSG1 | 2545824694 | draft | img | 1288826 |
GC content
- @ref: 15597
- GC-content: 58.1
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
motile | yes | 87.259 | yes |
gram-positive | no | 99.098 | no |
anaerobic | no | 97.078 | yes |
aerobic | yes | 62.197 | yes |
halophile | yes | 91.188 | yes |
spore-forming | no | 95.953 | yes |
glucose-util | no | 61.795 | yes |
flagellated | yes | 83.29 | no |
glucose-ferment | no | 89.542 | no |
thermophile | no | 99.274 | yes |
External links
@ref: 15597
culture collection no.: DSM 21262
straininfo link
- @ref: 70170
- straininfo: 403638
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Metabolism | 19226300 | Redox cycling of arsenic by the hydrothermal marine bacterium Marinobacter santoriniensis. | Handley KM, Hery M, Lloyd JR | Environ Microbiol | 10.1111/j.1462-2920.2009.01890.x | 2009 | Arsenate 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/*microbiology | Phylogeny |
Phylogeny | 19329625 | Marinobacter santoriniensis sp. nov., an arsenate-respiring and arsenite-oxidizing bacterium isolated from hydrothermal sediment. | Handley KM, Hery M, Lloyd JR | Int J Syst Evol Microbiol | 10.1099/ijs.0.003145-0 | 2009 | Aerobiosis, 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 Acid | Metabolism |
Phylogeny | 20935087 | Marinobacter 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 M | Int J Syst Evol Microbiol | 10.1099/ijs.0.027284-0 | 2010 | Algeria, 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, Temperature | Metabolism |
Genetics | 23661489 | Genome Sequence of Hydrothermal Arsenic-Respiring Bacterium Marinobacter santoriniensis NKSG1T. | Handley KM, Upton M, Beatson SA, Hery M, Lloyd JR | Genome Announc | 10.1128/genomeA.00231-13 | 2013 | ||
Phylogeny | 30231958 | Marinobacter bohaiensis sp. nov., a moderate halophile isolated from benthic sediment of the Bohai Sea. | Xu S, Wang D, Wei Y, Cui Q, Li W | Int J Syst Evol Microbiol | 10.1099/ijsem.0.003025 | 2018 | Bacterial 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/chemistry | Transcriptome |
Phylogeny | 31778353 | Marinobacter fonticola sp. nov., isolated from deep sea cold seep sediment. | Sun QL, Sun YL, Sun YY, Luan ZD, Lian C | Int J Syst Evol Microbiol | 10.1099/ijsem.0.003895 | 2020 | Bacterial 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/chemistry | Transcriptome |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
15597 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21262) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-21262 | |||
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
23124 | Kim M. Handley, Marina Héry, Jonathan R. Lloyd | 10.1099/ijs.0.003145-0 | Marinobacter santoriniensis sp. nov., an arsenate-respiring and arsenite-oxidizing bacterium isolated from hydrothermal sediment | IJSEM 59: 886-892 2009 | 19329625 | |
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
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. | https://microbeatlas.org/ | MicrobeAtlas 1.0 beta | |||
70170 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID403638.1 | StrainInfo: A central database for resolving microbial strain identifiers |