Strain identifier
BacDive ID: 10523
Type strain:
Species: Chitinilyticum aquatile
Strain Designation: c14
Strain history: <- S.-C. Chang, Tajen Univ.; c14
NCBI tax ID(s): 1121275 (strain), 362520 (species)
General
@ref: 15751
BacDive-ID: 10523
DSM-Number: 21506
keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, mesophilic, Gram-negative, motile, rod-shaped
description: Chitinilyticum aquatile c14 is a facultative anaerobe, mesophilic, Gram-negative bacterium that was isolated from surface water of freshwater pond used for culture of Pacific white shrimp.
NCBI tax id
NCBI tax id | Matching level |
---|---|
362520 | species |
1121275 | strain |
strain history
- @ref: 15751
- history: <- S.-C. Chang, Tajen Univ.; c14
doi: 10.13145/bacdive10523.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Betaproteobacteria
- order: Neisseriales
- family: Chromobacteriaceae
- genus: Chitinilyticum
- species: Chitinilyticum aquatile
- full scientific name: Chitinilyticum aquatile Chang et al. 2007
@ref: 15751
domain: Bacteria
phylum: Proteobacteria
class: Betaproteobacteria
order: Neisseriales
family: Chromobacteriaceae
genus: Chitinilyticum
species: Chitinilyticum aquatile
full scientific name: Chitinilyticum aquatile Chang et al. 2007
strain designation: c14
type strain: yes
Morphology
cell morphology
@ref | gram stain | cell length | cell width | cell shape | motility | confidence |
---|---|---|---|---|---|---|
32232 | negative | 3.25 µm | 0.35 µm | rod-shaped | yes | |
69480 | yes | 97.749 | ||||
69480 | negative | 99.98 |
pigmentation
- @ref: 32232
- production: no
multimedia
@ref | multimedia content | caption | intellectual property rights |
---|---|---|---|
66793 | EM_DSM_21506_1.jpg | electron microscopic image | © HZI/Manfred Rohde |
66793 | EM_DSM_21506_2.jpg | electron microscopic image | © HZI/Manfred Rohde |
66793 | EM_DSM_21506_3.jpg | electron microscopic image | © HZI/Manfred Rohde |
66793 | EM_DSM_21506_4.jpg | electron microscopic image | © HZI/Manfred Rohde |
66793 | EM_DSM_21506_5.jpg | electron microscopic image | © HZI/Manfred Rohde |
Culture and growth conditions
culture medium
- @ref: 15751
- name: REACTIVATION WITH LIQUID MEDIUM 830 (DSMZ Medium 830c)
- growth: yes
- link: https://mediadive.dsmz.de/medium/830c
- composition: Name: REACTIVATION WITH LIQUID MEDIUM 830 (DSMZ Medium 830c) Composition: Agar 15.0 g/l Yeast extract 0.5 g/l Proteose peptone 0.5 g/l Casamino acids 0.5 g/l Glucose 0.5 g/l Starch 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
15751 | positive | growth | 28 | mesophilic |
32232 | positive | growth | 15-40 | |
32232 | positive | optimum | 27.5 | mesophilic |
culture pH
@ref | ability | type | pH | PH range |
---|---|---|---|---|
32232 | positive | growth | 07-11 | alkaliphile |
32232 | positive | optimum | 9 |
Physiology and metabolism
oxygen tolerance
- @ref: 32232
- oxygen tolerance: facultative anaerobe
spore formation
@ref | spore formation | confidence |
---|---|---|
32232 | no | |
69481 | no | 100 |
69480 | no | 99.717 |
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
32232 | NaCl | positive | growth | 0-0.75 % |
32232 | NaCl | positive | optimum | 0.375 % |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
32232 | 30089 | acetate | + | carbon source |
32232 | 16449 | alanine | + | carbon source |
32232 | 28644 | 2-oxopentanoate | + | carbon source |
32232 | 17057 | cellobiose | + | carbon source |
32232 | 23652 | dextrin | + | carbon source |
32232 | 28757 | fructose | + | carbon source |
32232 | 24265 | gluconate | + | carbon source |
32232 | 17234 | glucose | + | carbon source |
32232 | 24996 | lactate | + | carbon source |
32232 | 37684 | mannose | + | carbon source |
32232 | 506227 | N-acetylglucosamine | + | carbon source |
32232 | 17992 | sucrose | + | carbon source |
32232 | 27082 | trehalose | + | carbon source |
32232 | 17632 | nitrate | + | reduction |
enzymes
@ref | value | activity | ec |
---|---|---|---|
32232 | acid phosphatase | + | 3.1.3.2 |
32232 | alkaline phosphatase | + | 3.1.3.1 |
32232 | catalase | + | 1.11.1.6 |
32232 | gelatinase | + | |
32232 | cytochrome oxidase | + | 1.9.3.1 |
Isolation, sampling and environmental information
isolation
- @ref: 15751
- sample type: surface water of freshwater pond used for culture of Pacific white shrimp
- geographic location: Pingtung
- country: Taiwan
- origin.country: TWN
- continent: Asia
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Engineered | #Food production | #Aquaculture |
#Environmental | #Aquatic | #Freshwater |
#Environmental | #Aquatic | #Pond (small) |
#Environmental | #Aquatic | #Surface water |
taxonmaps
- @ref: 69479
- File name: preview.99_155574.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_168;96_58741;97_76043;98_102573;99_155574&stattab=map
- Last taxonomy: Chitinilyticum aquatile subclade
- 16S sequence: DQ314581
- Sequence Identity:
- Total samples: 4439
- soil counts: 177
- aquatic counts: 1834
- animal counts: 2316
- plant counts: 112
Safety information
risk assessment
- @ref: 15751
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 15751
- description: Chitinilyticum aquatile strain c14 16S ribosomal RNA gene, partial sequence
- accession: DQ314581
- length: 1455
- database: ena
- NCBI tax ID: 362520
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Chitinilyticum aquatile DSM 21506 | GCA_000430805 | scaffold | ncbi | 1121275 |
66792 | Chitinilyticum aquatile DSM 21506 | 1121275.4 | wgs | patric | 1121275 |
66792 | Chitinilyticum aquatile DSM 21506 | 2524023225 | draft | img | 1121275 |
GC content
- @ref: 32232
- GC-content: 69.5
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
motile | yes | 91.799 | yes |
flagellated | yes | 87.91 | no |
gram-positive | no | 98.92 | no |
anaerobic | no | 92.71 | yes |
aerobic | no | 86.472 | yes |
halophile | no | 93.559 | yes |
spore-forming | no | 93.321 | yes |
thermophile | no | 98.448 | yes |
glucose-util | yes | 87.008 | no |
glucose-ferment | no | 78.82 | no |
External links
@ref: 15751
culture collection no.: DSM 21506, BCRC 17533, LMG 23346
straininfo link
- @ref: 79799
- straininfo: 282014
literature
- topic: Phylogeny
- Pubmed-ID: 18048738
- title: Chitinilyticum aquatile gen. nov., sp. nov., a chitinolytic bacterium isolated from a freshwater pond used for Pacific white shrimp culture.
- authors: Chang SC, Chen WM, Wang JT, Wu MC
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.65168-0
- year: 2007
- mesh: Aerobiosis/physiology, Anaerobiosis/physiology, Animals, Bacterial Typing Techniques, Base Composition, Betaproteobacteria/chemistry/*classification/genetics/*isolation & purification, Chitin/*metabolism, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Fresh Water/*microbiology, Genes, rRNA, Microscopy, Electron, Molecular Sequence Data, Penaeidae, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Taiwan
- topic2: Genetics
Reference
@id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed | journal |
---|---|---|---|---|---|---|---|
15751 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21506) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-21506 | ||||
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 | ||||
32232 | 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 | 28474 | 28776041 | ||
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) | ||||
66793 | Mukherjee et al. | 10.1038/nbt.3886 | GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life | 28604660 | 35: 676-683 2017 | ||
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 | ||||
79799 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID282014.1 | StrainInfo: A central database for resolving microbial strain identifiers |