Strain identifier
BacDive ID: 132172
Type strain: 
Species: Lutimonas saemankumensis
Strain Designation: SMK-142
Strain history: <- JH Yoon, KRIBB
NCBI tax ID(s): 483016 (species)
version 9 (current version)
General
@ref: 23961
BacDive-ID: 132172
DSM-Number: 103928
keywords: 16S sequence, Bacteria, aerobe, Gram-negative, ovoid-shaped
description: Lutimonas saemankumensis SMK-142 is an aerobe, Gram-negative, ovoid-shaped bacterium that was isolated from tidal flat sediment.
NCBI tax id
- NCBI tax id: 483016
- Matching level: species
strain history
| @ref | history |
|---|---|
| 23961 | <- KCTC <- J.-H. Yoon and T.-K. Oh, Korea Research Institute of Bioscience and Biotechnology (KRIBB), Daejeon, South Korea |
| 67771 | <- JH Yoon, KRIBB |
doi: 10.13145/bacdive132172.20240510.9
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacteroidota
- domain: Bacteria
- phylum: Bacteroidota
- class: Flavobacteriia
- order: Flavobacteriales
- family: Flavobacteriaceae
- genus: Lutimonas
- species: Lutimonas saemankumensis
- full scientific name: Lutimonas saemankumensis (Yoon et al. 2008) Kim et al. 2014
synonyms
- @ref: 20215
- synonym: Aestuariicola saemankumensis
@ref: 23961
domain: Bacteria
phylum: Bacteroidetes
class: Flavobacteriia
order: Flavobacteriales
family: Flavobacteriaceae
genus: Lutimonas
species: Lutimonas saemankumensis
full scientific name: Lutimonas saemankumensis (Yoon et al. 2008) Kim et al. 2014
strain designation: SMK-142
type strain: no
Morphology
cell morphology
| @ref | gram stain | cell length | cell width | cell shape | motility |
|---|---|---|---|---|---|
| 32575 | negative | 0.5-7 µm | 0.3-0.5 µm | ovoid-shaped | no |
| 67771 | rod-shaped | no | |||
| 67771 | negative |
colony morphology
- @ref: 60531
- incubation period: 7 days
pigmentation
- @ref: 32575
- production: yes
Culture and growth conditions
culture medium
- @ref: 23961
- 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 |
|---|---|---|---|
| 23961 | positive | growth | 28 |
| 32575 | positive | growth | 04-33 |
| 32575 | positive | optimum | 25 |
| 60531 | positive | growth | 25-30 |
| 67771 | positive | growth | 25 |
culture pH
| @ref | ability | type | pH |
|---|---|---|---|
| 32575 | positive | growth | 5.5-8 |
| 32575 | positive | optimum | 07-08 |
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance |
|---|---|
| 32575 | aerobe |
| 60531 | aerobe |
| 67771 | aerobe |
spore formation
- @ref: 32575
- spore formation: no
halophily
| @ref | salt | growth | tested relation | concentration |
|---|---|---|---|---|
| 32575 | NaCl | positive | growth | 0.5-4 % |
| 32575 | NaCl | positive | optimum | 2 % |
observation
| @ref | observation |
|---|---|
| 32575 | aggregates in chains |
| 67771 | quinones: MK-6 |
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 32575 | catalase | + | 1.11.1.6 |
| 32575 | cytochrome oxidase | + | 1.9.3.1 |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent | sampling date |
|---|---|---|---|---|---|---|
| 23961 | tidal flat sediment | Saemankum | Republic of Korea | KOR | Asia | |
| 60531 | Tidal flat sediment | Saemankum,Yellow Sea | Republic of Korea | KOR | Asia | 2005 |
| 67771 | From tideland | Saemankum | 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_35277.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_1049;96_16956;97_20811;98_26052;99_35277&stattab=map
- Last taxonomy: Lutimonas saemankumensis
- 16S sequence: EU239499
- Sequence Identity:
- Total samples: 3507
- soil counts: 59
- aquatic counts: 3368
- animal counts: 68
- plant counts: 12
Safety information
risk assessment
- @ref: 23961
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 23961
- description: Aestuariicola saemankumensis strain SMK-142 16S ribosomal RNA gene, partial sequence
- accession: EU239499
- length: 1482
- database: nuccore
- NCBI tax ID: 483016
GC content
- @ref: 32575
- GC-content: 37.2
External links
@ref: 23961
culture collection no.: DSM 103928, CCUG 55329, KCTC 22171
straininfo link
- @ref: 90527
- straininfo: 397164
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 18768617 | Aestuariicola saemankumensis gen. nov., sp. nov., a member of the family Flavobacteriaceae, isolated from tidal flat sediment. | Yoon JH, Kang SJ, Jung YT, Oh TK | Int J Syst Evol Microbiol | 10.1099/ijs.0.65717-0 | 2008 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Flavobacteriaceae/*classification/genetics/*isolation & purification/physiology, Genes, rRNA, Geologic Sediments/*microbiology, Hydrogen-Ion Concentration, Korea, Locomotion, Molecular Sequence Data, Phylogeny, Quinones/analysis, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Sodium Chloride/metabolism, Temperature | Genetics |
| Phylogeny | 24614845 | Description of Lutimonas halocynthiae sp. nov., isolated from a golden sea squirt (Halocynthia aurantium), reclassification of Aestuariicola saemankumensis as Lutimonas saemankumensis comb. nov. and emended description of the genus Lutimonas. | Kim YO, Park S, Nam BH, Jung YT, Kim DG, Bae KS, Yoon JH | Int J Syst Evol Microbiol | 10.1099/ijs.0.059923-0 | 2014 | Animals, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacteriaceae/*classification/genetics/isolation & purification, Molecular Sequence Data, Nucleic Acid Hybridization, Phosphatidylethanolamines/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, Urochordata/*microbiology, Vitamin K 2/analogs & derivatives/chemistry | Genetics |
Reference
| @id | authors | title | doi/url | catalogue | ID_cross_reference | pubmed |
|---|---|---|---|---|---|---|
| 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 | 10.1099/ijsem.0.004332 | |||
| 23961 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-103928 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 103928) | |||
| 32575 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 10.1128/mSphere.00237-17 | 28790 | 28776041 | |
| 60531 | Curators of the CCUG | https://www.ccug.se/strain?id=55329 | Culture Collection University of Gothenburg (CCUG) (CCUG 55329) | |||
| 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. | MicrobeAtlas 1.0 beta | https://microbeatlas.org/ | |||
| 90527 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | StrainInfo: A central database for resolving microbial strain identifiers | 10.60712/SI-ID397164.1 |