Strain identifier
BacDive ID: 460
Type strain:
Species: Marinobacterium halophilum
Strain Designation: mano11, 30.101
Strain history: <- J.W. Bae, KRIBB
NCBI tax ID(s): 1122199 (strain), 267374 (species)
General
@ref: 7073
BacDive-ID: 460
DSM-Number: 17586
keywords: genome sequence, 16S sequence, Bacteria, aerobe, halophilic, mesophilic, Gram-negative, motile, rod-shaped, colony-forming
description: Marinobacterium halophilum mano11 is an aerobe, halophilic, mesophilic bacterium that forms circular colonies and was isolated from tidal flat area of Dae-Chun.
NCBI tax id
NCBI tax id | Matching level |
---|---|
1122199 | strain |
267374 | species |
strain history
@ref | history |
---|---|
7073 | <- J.-W. Bae, Korea Res. Inst. of Biosci. and Biotechnol. (KRIBB); mano11 |
67771 | <- J.W. Bae, KRIBB |
doi: 10.13145/bacdive460.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Alteromonadales
- family: Alteromonadaceae
- genus: Marinobacterium
- species: Marinobacterium halophilum
- full scientific name: Marinobacterium halophilum Chang et al. 2007
@ref: 7073
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Alteromonadales
family: Alteromonadaceae
genus: Marinobacterium
species: Marinobacterium halophilum
full scientific name: Marinobacterium halophilum Chang et al. 2007
strain designation: mano11, 30.101
type strain: yes
Morphology
cell morphology
@ref | gram stain | cell length | cell width | cell shape | motility | flagellum arrangement | confidence |
---|---|---|---|---|---|---|---|
23293 | negative | 2.1-3.0 µm | 0.5-0.7 µm | rod-shaped | yes | monotrichous, polar | |
67771 | negative | ||||||
69480 | yes | 97.45 | |||||
69480 | negative | 100 |
colony morphology
- @ref: 23293
- colony size: 2-3 mm
- colony color: pale orange to yellow
- colony shape: circular
- incubation period: 5 days
- medium used: Luria-Bertani agar
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
7073 | BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) | yes | https://mediadive.dsmz.de/medium/514 | 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 | yes |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
7073 | positive | growth | 28 | mesophilic |
23293 | positive | growth | 45 | thermophilic |
67771 | positive | growth | 25 | mesophilic |
culture pH
- @ref: 23293
- ability: positive
- type: growth
- pH: 5.3-9.3
- PH range: alkaliphile
Physiology and metabolism
oxygen tolerance
- @ref: 67771
- oxygen tolerance: aerobe
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.996 |
halophily
@ref | halophily level | salt | growth | tested relation | concentration |
---|---|---|---|---|---|
23293 | halophilic | NaCl | positive | growth | 3-12 % |
23293 | NaCl | no | growth | 0 % | |
23293 | NaCl | no | growth | 15 % |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
23293 | 22599 | arabinose | - | builds acid from |
23293 | 18333 | D-arabitol | - | builds acid from |
23293 | 65327 | D-xylose | - | builds acid from |
23293 | 16813 | galactitol | - | builds acid from |
23293 | 28260 | galactose | - | builds acid from |
23293 | 15443 | inulin | - | builds acid from |
23293 | 26546 | rhamnose | - | builds acid from |
23293 | 30911 | sorbitol | - | builds acid from |
23293 | 28757 | fructose | + | builds acid from |
23293 | 17234 | glucose | + | builds acid from |
23293 | 17754 | glycerol | + | builds acid from |
23293 | 17716 | lactose | + | builds acid from |
23293 | 17306 | maltose | + | builds acid from |
23293 | 29864 | mannitol | + | builds acid from |
23293 | 37684 | mannose | + | builds acid from |
23293 | 16634 | raffinose | + | builds acid from |
23293 | 33942 | ribose | + | builds acid from |
23293 | 17992 | sucrose | + | builds acid from |
23293 | 27082 | trehalose | + | builds acid from |
23293 | casein | + | hydrolysis | |
23293 | 28017 | starch | + | hydrolysis |
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
@ref | sample type | geographic location | country | origin.country | 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 | |||
23293 | Marine agar (Difco) | 25 | dilution plating technique | |||||||
67771 | From west sea | Republic of Korea | KOR | Asia |
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Tidal flat
taxonmaps
- @ref: 69479
- File name: preview.99_13127.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_240;96_6773;97_8107;98_9942;99_13127&stattab=map
- Last taxonomy: Marinobacterium halophilum subclade
- 16S sequence: AY563030
- Sequence Identity:
- Total samples: 486
- soil counts: 21
- aquatic counts: 390
- animal counts: 66
- plant counts: 9
Safety information
risk assessment
- @ref: 7073
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 7073
- description: Marinobacterium halophilum strain mano11 16S ribosomal RNA gene, partial sequence
- accession: AY563030
- length: 1400
- database: ena
- NCBI tax ID: 267374
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Marinobacterium halophilum DSM 17586 | GCA_003014615 | scaffold | ncbi | 267374 |
66792 | Marinobacterium halophilum strain DSM 17586 | 267374.3 | wgs | patric | 267374 |
66792 | Marinobacterium halophilum DSM 17586 | 2728369480 | draft | img | 267374 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
flagellated | yes | 94.489 | yes |
gram-positive | no | 99.353 | yes |
anaerobic | no | 95.047 | yes |
halophile | yes | 76.261 | yes |
spore-forming | no | 94.855 | no |
glucose-util | no | 51.517 | no |
aerobic | yes | 72.888 | yes |
thermophile | no | 98.69 | no |
motile | yes | 92.696 | yes |
glucose-ferment | no | 86.025 | no |
External links
@ref: 7073
culture collection no.: DSM 17586, KCTC 12240
straininfo link
- @ref: 70139
- straininfo: 232780
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 17220446 | 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 | Alteromonadaceae/*classification/isolation & purification, Bacterial Typing Techniques, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Genes, rRNA, Genotype, Korea, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/microbiology, Sequence Analysis, DNA | Genetics |
Phylogeny | 18175703 | 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 | Bacterial Typing Techniques, Base Composition, Chenopodiaceae/*microbiology, DNA, Bacterial/analysis, Fatty Acids/analysis, Gammaproteobacteria/*classification/genetics/isolation & purification/physiology, Genes, rRNA, Geologic Sediments/*microbiology, Molecular Sequence Data, Phenotype, Phylogeny, Plant Roots/*microbiology, RNA, Ribosomal, 16S/genetics, Seawater/microbiology, Sequence Analysis, DNA, Species Specificity | Genetics |
Phylogeny | 19643903 | 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 | Alteromonadaceae/*classification/genetics/*isolation & purification/metabolism, Arctic Regions, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/chemistry/metabolism, Geologic Sediments/*microbiology, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology | Metabolism |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
7073 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17586) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-17586 | |||
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 | |||
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 | 10.1099/ijs.0.64505-0 | Marinobacterium halophilum sp. nov., a marine bacterium isolated from the Yellow Sea | IJSEM 57: 77-80 2007 | 17220446 | |
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) | |||
67771 | Curators of the KCTC | https://kctc.kribb.re.kr/En/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. | https://microbeatlas.org/ | MicrobeAtlas 1.0 beta | |||
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |||
70139 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID232780.1 | StrainInfo: A central database for resolving microbial strain identifiers |