Strain identifier
BacDive ID: 5721
Type strain:
Species: Lutibacter maritimus
Strain Designation: S7-2
Strain history: <- JH Yoon, KRIBB
NCBI tax ID(s): 593133 (species)
General
@ref: 17679
BacDive-ID: 5721
DSM-Number: 24450
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, rod-shaped
description: Lutibacter maritimus S7-2 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from tidal flat sediment.
NCBI tax id
- NCBI tax id: 593133
- Matching level: species
strain history
@ref | history |
---|---|
17679 | <- CCUG <- J.-H. Yoon <- S. Park, KRIBB |
67771 | <- JH Yoon, KRIBB |
doi: 10.13145/bacdive5721.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacteroidota
- domain: Bacteria
- phylum: Bacteroidota
- class: Flavobacteriia
- order: Flavobacteriales
- family: Flavobacteriaceae
- genus: Lutibacter
- species: Lutibacter maritimus
- full scientific name: Lutibacter maritimus Park et al. 2010
@ref: 17679
domain: Bacteria
phylum: Bacteroidetes
class: Flavobacteriia
order: Flavobacteriales
family: Flavobacteriaceae
genus: Lutibacter
species: Lutibacter maritimus
full scientific name: Lutibacter maritimus Park et al. 2010
strain designation: S7-2
type strain: yes
Morphology
cell morphology
@ref | gram stain | cell length | cell width | cell shape | motility | confidence |
---|---|---|---|---|---|---|
29402 | negative | 3 µm | 0.55 µm | rod-shaped | no | |
67771 | negative | |||||
69480 | negative | 99.989 |
pigmentation
- @ref: 29402
- production: yes
Culture and growth conditions
culture medium
- @ref: 17679
- name: REACTIVATION WITH LIQUID MEDIUM 514 (DSMZ Medium 514c)
- growth: yes
- link: https://mediadive.dsmz.de/medium/514c
- composition: Name: REACTIVATION WITH LIQUID MEDIUM 514 (DSMZ Medium 514c) Composition: NaCl 19.45 g/l Agar 18.0 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 Na2CO3 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 |
---|---|---|---|---|
17679 | positive | growth | 28 | mesophilic |
29402 | positive | growth | 04-37 | |
29402 | positive | optimum | 27.5 | mesophilic |
61358 | positive | growth | 30 | mesophilic |
67771 | positive | growth | 30 | mesophilic |
culture pH
@ref | ability | type | pH |
---|---|---|---|
29402 | positive | growth | 05-08 |
29402 | positive | optimum | 7.5 |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
29402 | aerobe |
61358 | aerobe |
67771 | aerobe |
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.978 |
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
29402 | NaCl | positive | growth | 0.5-5 % |
29402 | NaCl | positive | optimum | 2 % |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
29402 | 17057 | cellobiose | + | carbon source |
29402 | 28260 | galactose | + | carbon source |
29402 | 17234 | glucose | + | carbon source |
29402 | 17306 | maltose | + | carbon source |
enzymes
- @ref: 29402
- value: acid phosphatase
- activity: +
- ec: 3.1.3.2
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | sampling date |
---|---|---|---|---|---|---|
17679 | tidal flat sediment | Saemankum | Republic of Korea | KOR | Asia | |
61358 | Tidal flat sediment | Saemankum | Republic of Korea | KOR | Asia | 2006-01-01 |
67771 | From tideland | Saemangeum | Republic of Korea | KOR | Asia |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Terrestrial | #Tidal flat |
#Environmental | #Terrestrial | #Sediment |
taxonmaps
- @ref: 69479
- File name: preview.99_114480.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_333;96_2985;97_58389;98_77487;99_114480&stattab=map
- Last taxonomy: Lutibacter maritimus subclade
- 16S sequence: FJ598048
- Sequence Identity:
- Total samples: 144
- soil counts: 8
- aquatic counts: 129
- animal counts: 1
- plant counts: 6
Safety information
risk assessment
- @ref: 17679
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 17679
- description: Lutibacter maritimus strain S7-2 16S ribosomal RNA gene, partial sequence
- accession: FJ598048
- length: 1436
- database: ena
- NCBI tax ID: 593133
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Lutibacter maritimus DSM 24450 | GCA_900116115 | scaffold | ncbi | 593133 |
66792 | Lutibacter maritimus strain DSM 24450 | 593133.4 | wgs | patric | 593133 |
66792 | Lutibacter maritimus DSM 24450 | 2622736611 | draft | img | 593133 |
GC content
@ref | GC-content | method |
---|---|---|
17679 | 34.6 | high performance liquid chromatography (HPLC) |
29402 | 34.6 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
motile | no | 91.807 | yes |
flagellated | no | 96.998 | yes |
gram-positive | no | 98.676 | yes |
anaerobic | no | 97.164 | no |
aerobic | yes | 80.064 | yes |
halophile | no | 86.466 | no |
spore-forming | no | 96.769 | no |
glucose-ferment | no | 89.057 | no |
thermophile | no | 94.231 | yes |
glucose-util | yes | 83.564 | yes |
External links
@ref: 17679
culture collection no.: DSM 24450, CCUG 57524, KCTC 22635
straininfo link
- @ref: 75201
- straininfo: 397176
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 19654353 | Lutibacter maritimus sp. nov., isolated from a tidal flat sediment. | Park S, Kang SJ, Oh TK, Yoon JH | Int J Syst Evol Microbiol | 10.1099/ijs.0.012401-0 | 2009 | DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/chemistry/metabolism, Flavobacteriaceae/*classification/genetics/*isolation & purification/metabolism, Geologic Sediments/*microbiology, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology | Metabolism |
Phylogeny | 21460139 | Lutibacter aestuarii sp. nov., isolated from a tidal flat sediment, and emended description of the genus Lutibacter Choi and Cho 2006. | Lee SY, Lee MH, Oh TK, Yoon JH | Int J Syst Evol Microbiol | 10.1099/ijs.0.030320-0 | 2011 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Fatty Acids/analysis, Flavobacteriaceae/chemistry/*classification/genetics/*isolation & purification, Genes, rRNA, Geologic Sediments/*microbiology, Lipids/analysis, Molecular Sequence Data, Phenotype, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Republic of Korea, Seawater/*microbiology, Sequence Analysis, DNA, Species Specificity | Genetics |
Reference
@id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed | journal |
---|---|---|---|---|---|---|---|
17679 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 24450) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-24450 | ||||
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 | ||||
29402 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | 10.1128/mSphere.00237-17 | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 25809 | 28776041 | ||
61358 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 57524) | https://www.ccug.se/strain?id=57524 | ||||
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) | ||||
66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | 10.1093/nar/gkaa1025 | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | 33211880 | Nucleic Acids Res. 49: D498-D508 2020 | ||
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 | ||||
75201 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID397176.1 | StrainInfo: A central database for resolving microbial strain identifiers |