Strain identifier
BacDive ID: 130471
Type strain: 
Species: Crenobacter luteus
Strain history: <- Wen-Jun Li (Yunnan Inst. Microbiol.)
NCBI tax ID(s): 1452487 (species)
version 8.1 (current version)
General
@ref: 22134
BacDive-ID: 130471
DSM-Number: 27258
keywords: genome sequence, 16S sequence, Bacteria, aerobe, thermophilic, motile
description: Crenobacter luteus DSM 27258 is an aerobe, thermophilic, motile bacterium that was isolated from From a sediment sample collected at Hehua hot spring.
NCBI tax id
- NCBI tax id: 1452487
- Matching level: species
strain history
| @ref | history |
|---|---|
| 22134 | <- W.-J. Li, YIM; YIM 78141 <- L. Dong |
| 67770 | W.-J. Li YIM 78141. |
| 67771 | <- Wen-Jun Li (Yunnan Inst. Microbiol.) |
doi: 10.13145/bacdive130471.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Betaproteobacteria
- order: Neisseriales
- family: Neisseriaceae
- genus: Crenobacter
- species: Crenobacter luteus
- full scientific name: Crenobacter luteus Dong et al. 2015
@ref: 22134
domain: Bacteria
phylum: Proteobacteria
class: Betaproteobacteria
order: Neisseriales
family: Neisseriaceae
genus: Crenobacter
species: Crenobacter luteus
full scientific name: Crenobacter luteus Dong et al. 2015
type strain: yes
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | yes | 97.275 | |
| 69480 | 99.998 | negative |
multimedia
- @ref: 22134
- multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_27258.jpg
- intellectual property rights: © Leibniz-Institut DSMZ
Culture and growth conditions
culture medium
- @ref: 22134
- name: MODIFIED T5 (DSMZ Medium 1335)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1335
- composition: Name: MODIFIED T5 MEDIUM (DSMZ Medium 1335) Composition: Agar 20.0 g/l Yeast extract 2.0 g/l CaCl2 x 2 H2O 1.0 g/l Starch 1.0 g/l Glucose 1.0 g/l Tryptone 0.5 g/l Distilled water
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 22134 | positive | growth | 40 | thermophilic |
| 67770 | positive | growth | 40 | thermophilic |
| 67771 | positive | growth | 40 | thermophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 67771
- oxygen tolerance: aerobe
spore formation
- @ref: 69480
- spore formation: no
- confidence: 99.997
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 68369 | 25115 | malate | + | assimilation |
| 68369 | 17128 | adipate | - | assimilation |
| 68369 | 27689 | decanoate | + | assimilation |
| 68369 | 24265 | gluconate | - | assimilation |
| 68369 | 17306 | maltose | + | assimilation |
| 68369 | 59640 | N-acetylglucosamine | - | assimilation |
| 68369 | 16899 | D-mannitol | - | assimilation |
| 68369 | 16024 | D-mannose | - | assimilation |
| 68369 | 30849 | L-arabinose | - | assimilation |
| 68369 | 17634 | D-glucose | + | assimilation |
| 68369 | 5291 | gelatin | - | hydrolysis |
| 68369 | 4853 | esculin | - | hydrolysis |
| 68369 | 16199 | urea | - | hydrolysis |
| 68369 | 29016 | arginine | - | hydrolysis |
| 68369 | 17634 | D-glucose | - | fermentation |
| 68369 | 27897 | tryptophan | + | energy source |
| 68369 | 17632 | nitrate | - | reduction |
metabolite production
- @ref: 68369
- Chebi-ID: 35581
- metabolite: indole
- production: yes
metabolite tests
- @ref: 68369
- Chebi-ID: 35581
- metabolite: indole
- indole test: +
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 68369 | cytochrome oxidase | + | 1.9.3.1 |
| 68369 | gelatinase | - | |
| 68369 | beta-glucosidase | - | 3.2.1.21 |
| 68369 | urease | - | 3.5.1.5 |
| 68369 | arginine dihydrolase | - | 3.5.3.6 |
API 20NE
| @ref | NO3 | TRP | GLU_ Ferm | ADH Arg | URE | ESC | GEL | PNPG | GLU_ Assim | ARA | MNE | MAN | NAG | MAL | GNT | CAP | ADI | MLT | CIT | PAC | OX |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 22134 | - | + | - | - | - | - | - | - | + | - | - | - | - | + | - | + | - | + | - | - | + |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent | latitude | longitude |
|---|---|---|---|---|---|---|---|
| 67771 | From a sediment sample collected at Hehua hot spring | Tengchong, Yunnan province | China | CHN | Asia | ||
| 22134 | hot spring sediment | Yunnan Province, Tengchong county, Hehua hot spring (24.9728° N 98.39706° E) | China | CHN | Asia | 24.9728 | 98.3971 |
| 67770 | Hot spring sediment at Hehua hot spring | Tengchong, Yunnan Province | China | CHN | Asia |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Sediment |
| #Environmental | #Aquatic | #Thermal spring |
| #Condition | #Thermophilic (>45°C) |
taxonmaps
- @ref: 69479
- File name: preview.99_4641.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15355;96_2310;97_2805;98_3483;99_4641&stattab=map
- Last taxonomy: Crenobacter luteus subclade
- 16S sequence: KF771276
- Sequence Identity:
- Total samples: 3035
- soil counts: 1443
- aquatic counts: 1071
- animal counts: 387
- plant counts: 134
Safety information
risk assessment
- @ref: 22134
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 22134
- description: Crenobacter luteus strain YIM 78141 16S ribosomal RNA gene, partial sequence
- accession: KF771276
- length: 1557
- database: ena
- NCBI tax ID: 1452487
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Crenobacter luteus strain DSM 27258 | 1452487.14 | wgs | patric | 1452487 |
| 66792 | Crenobacter luteus DSM 27258 | 2795385459 | draft | img | 1452487 |
| 67770 | Crenobacter luteus DSM 27258 | GCA_004345725 | scaffold | ncbi | 1452487 |
GC content
- @ref: 22134
- GC-content: 67.3
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 88 | no |
| motile | yes | 91.726 | no |
| gram-positive | no | 98.764 | no |
| anaerobic | no | 98.063 | yes |
| halophile | no | 88.631 | no |
| spore-forming | no | 97.193 | no |
| glucose-util | yes | 87.129 | yes |
| thermophile | no | 94.334 | no |
| aerobic | yes | 84.933 | no |
| flagellated | yes | 87.851 | no |
| glucose-ferment | no | 89.217 | yes |
External links
@ref: 22134
culture collection no.: DSM 27258, BCRC 80650, KCTC 32558, YIM 78141, JCM 19652
straininfo link
- @ref: 89000
- straininfo: 399228
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 25332210 | Crenobacter luteus gen. nov., sp. nov., isolated from a hot spring. | Dong L, Ming H, Zhou EM, Yin YR, Liu L, Feng HG, Xian WD, Nie GX, Li WJ | Int J Syst Evol Microbiol | 10.1099/ijs.0.060996-0 | 2014 | Bacteria, Aerobic/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Geologic Sediments/microbiology, Gram-Negative Aerobic Rods and Cocci/*classification/genetics/isolation & purification, Hot Springs/*microbiology, Molecular Sequence Data, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Ubiquinone/chemistry | Enzymology |
| Phylogeny | 33683417 | Crenobacter intestini sp. nov., Isolated from the Intestinal Tract of Konosirus punctatus. | Shi SB, Wu JF, Yang LF, Jiang MG, Gao CM, Jiang CL, Jiang Y | Curr Microbiol | 10.1007/s00284-021-02372-5 | 2021 | Bacterial Typing Techniques, Betaproteobacteria, China, DNA, Bacterial/genetics, *Fatty Acids, Neisseriaceae, *Phospholipids, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA | Transcriptome |
Reference
| @id | authors | title | doi/url | catalogue | journal | 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 | |||
| 22134 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-27258 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 27258) | |||
| 66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |||
| 66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | 10.1093/nar/gkaa1025 | Nucleic Acids Res. 49: D498-D508 2020 | 33211880 | |
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
| 67771 | Curators of the KCTC | https://kctc.kribb.re.kr/En/Kctc | ||||
| 68369 | Automatically annotated from API 20NE | |||||
| 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/ | |||
| 69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |||
| 89000 | 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-ID399228.1 |