Strain identifier

BacDive ID: 10523

Type strain: Yes

Species: Chitinilyticum aquatile

Strain Designation: c14

Strain history: <- S.-C. Chang, Tajen Univ.; c14

For citation purpose refer to the digital object identifier (doi) of the current version.
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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 idMatching level
362520species
1121275strain

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

@refgram staincell lengthcell widthcell shapemotilityconfidence
32232negative3.25 µm0.35 µmrod-shapedyes
69480yes97.749
69480negative99.98

pigmentation

  • @ref: 32232
  • production: no

multimedia

@refmultimedia contentcaptionintellectual property rights
66793EM_DSM_21506_1.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_21506_2.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_21506_3.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_21506_4.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_21506_5.jpgelectron 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

@refgrowthtypetemperaturerange
15751positivegrowth28mesophilic
32232positivegrowth15-40
32232positiveoptimum27.5mesophilic

culture pH

@refabilitytypepHPH range
32232positivegrowth07-11alkaliphile
32232positiveoptimum9

Physiology and metabolism

oxygen tolerance

  • @ref: 32232
  • oxygen tolerance: facultative anaerobe

spore formation

@refspore formationconfidence
32232no
69481no100
69480no99.717

halophily

@refsaltgrowthtested relationconcentration
32232NaClpositivegrowth0-0.75 %
32232NaClpositiveoptimum0.375 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3223230089acetate+carbon source
3223216449alanine+carbon source
32232286442-oxopentanoate+carbon source
3223217057cellobiose+carbon source
3223223652dextrin+carbon source
3223228757fructose+carbon source
3223224265gluconate+carbon source
3223217234glucose+carbon source
3223224996lactate+carbon source
3223237684mannose+carbon source
32232506227N-acetylglucosamine+carbon source
3223217992sucrose+carbon source
3223227082trehalose+carbon source
3223217632nitrate+reduction

enzymes

@refvalueactivityec
32232acid phosphatase+3.1.3.2
32232alkaline phosphatase+3.1.3.1
32232catalase+1.11.1.6
32232gelatinase+
32232cytochrome 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

Cat1Cat2Cat3
#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

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Chitinilyticum aquatile DSM 21506GCA_000430805scaffoldncbi1121275
66792Chitinilyticum aquatile DSM 215061121275.4wgspatric1121275
66792Chitinilyticum aquatile DSM 215062524023225draftimg1121275

GC content

  • @ref: 32232
  • GC-content: 69.5

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes91.799yes
flagellatedyes87.91no
gram-positiveno98.92no
anaerobicno92.71yes
aerobicno86.472yes
halophileno93.559yes
spore-formingno93.321yes
thermophileno98.448yes
glucose-utilyes87.008no
glucose-fermentno78.82no

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

@idauthorscataloguedoi/urltitleID_cross_referencepubmedjournal
15751Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21506)https://www.dsmz.de/collection/catalogue/details/culture/DSM-21506
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
32232Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2847428776041
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
66793Mukherjee et al.10.1038/nbt.3886GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life28604660 35: 676-683 2017
69479João 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
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
79799Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID282014.1StrainInfo: A central database for resolving microbial strain identifiers