Strain identifier

BacDive ID: 2979

Type strain: Yes

Species: Ottowia thiooxydans

Strain Designation: K11

Strain history: S. Spring K11 <-- P. Kämpfer <-- M. Wagner.

NCBI tax ID(s): 1122623 (strain), 219182 (species)

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General

@ref: 5412

BacDive-ID: 2979

DSM-Number: 14619

keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, mesophilic, Gram-negative, rod-shaped

description: Ottowia thiooxydans K11 is a facultative anaerobe, mesophilic, Gram-negative bacterium that was isolated from activated sludge.

NCBI tax id

NCBI tax idMatching level
219182species
1122623strain

strain history

@refhistory
5412<- S. Spring <- P. Kämpfer <- M. Wagner
67770S. Spring K11 <-- P. Kämpfer <-- M. Wagner.

doi: 10.13145/bacdive2979.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Betaproteobacteria
  • order: Burkholderiales
  • family: Comamonadaceae
  • genus: Ottowia
  • species: Ottowia thiooxydans
  • full scientific name: Ottowia thiooxydans Spring et al. 2004

@ref: 5412

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Burkholderiales

family: Comamonadaceae

genus: Ottowia

species: Ottowia thiooxydans

full scientific name: Ottowia thiooxydans Spring et al. 2004

strain designation: K11

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
29945negative4 µm0.8 µmrod-shapedno
69480negative99.998

pigmentation

  • @ref: 29945
  • production: yes

multimedia

@refmultimedia contentcaptionintellectual property rights
66793EM_DSM_14619_1.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_14619_2.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_14619_3.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_14619_4.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_14619_5.jpgelectron microscopic image© HZI/Manfred Rohde

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
5412REACTIVATION WITH LIQUID MEDIUM (DSMZ Medium 535b)yeshttps://mediadive.dsmz.de/medium/535bName: REACTIVATION WITH LIQUID MEDIUM (DSMZ Medium 535b) Composition: Trypticase soy broth 30.0 g/l Casein peptone 17.0 g/l Agar 15.0 g/l NaCl 5.0 g/l Soy peptone 3.0 g/l K2HPO4 2.5 g/l D(+)-Glucose 2.5 g/l Distilled water
5412REACTIVATION WITH LIQUID MEDIUM 830 (DSMZ Medium 830c)yeshttps://mediadive.dsmz.de/medium/830cName: 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
5412REACTIVATION WITH TRYPTONE SOYA BROTH (DSMZ Medium 220a)yeshttps://mediadive.dsmz.de/medium/220aName: REACTIVATION WITH TRYPTONE SOYA BROTH (DSMZ Medium 220a) Composition: Casein peptone 17.0 g/l Agar 15.0 g/l NaCl 5.0 g/l Soy peptone 3.0 g/l D(+)-Glucose 2.5 g/l K2HPO4 2.5 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
5412positivegrowth25mesophilic
29945positivegrowth02-29
29945positiveoptimum26mesophilic
67770positivegrowth26mesophilic

culture pH

@refabilitytypepHPH range
29945positivegrowth5.6-9.8alkaliphile
29945positiveoptimum7.3

Physiology and metabolism

oxygen tolerance

  • @ref: 29945
  • oxygen tolerance: facultative anaerobe

spore formation

@refspore formationconfidence
29945no
69481no100
69480no99.996

observation

@refobservation
29945aggregates in chains
67770quinones: Q-8

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
29945370543-hydroxybutyrate+carbon source
2994530089acetate+carbon source
2994535391aspartate+carbon source
2994524996lactate+carbon source
2994525017leucine+carbon source
2994525115malate+carbon source
2994518401phenylacetate+carbon source
2994528044phenylalanine+carbon source
2994526271proline+carbon source
2994517272propionate+carbon source
2994515361pyruvate+carbon source
299459300suberic acid+carbon source
2994517632nitrate+reduction

enzymes

@refvalueactivityec
29945catalase+1.11.1.6
29945cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
5412activated sludgeMunichGermanyDEUEurope
67770Activated sludge of a municipal wastewater treatment plantGrosslappenGermanyDEUEurope

isolation source categories

  • Cat1: #Engineered
  • Cat2: #Waste
  • Cat3: #Activated sludge

taxonmaps

  • @ref: 69479
  • File name: preview.99_8266.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_1;96_3799;97_4684;98_6018;99_8266&stattab=map
  • Last taxonomy: Ottowia thiooxydans subclade
  • 16S sequence: LC373193
  • Sequence Identity:
  • Total samples: 430
  • soil counts: 27
  • aquatic counts: 274
  • animal counts: 116
  • plant counts: 13

Safety information

risk assessment

  • @ref: 5412
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
29945Ottowia thiooxidans partial 16S rRNA gene, type strain K11TAJ5374661525nuccore219182
67770Ottowia thiooxydans JCM 11629 gene for 16S ribosomal RNA, partial sequenceLC3731931470ena219182

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Ottowia thiooxydans DSM 146191122623.5wgspatric1122623
66792Ottowia thiooxydans DSM 146192523533611draftimg1122623
67770Ottowia thiooxydans DSM 14619GCA_000422885scaffoldncbi1122623

GC content

@refGC-contentmethod
541259.3thermal denaturation, midpoint method (Tm)
2994559

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno65.736no
flagellatedno91.833yes
gram-positiveno97.956yes
anaerobicno98.617no
aerobicyes94.449no
halophileno94.558no
spore-formingno93.65yes
glucose-utilno76.507no
thermophileno99.727yes
glucose-fermentno91.1no

External links

@ref: 5412

culture collection no.: DSM 14619, JCM 11629

straininfo link

  • @ref: 72501
  • straininfo: 130849

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny14742465Ottowia thiooxydans gen. nov., sp. nov., a novel facultatively anaerobic, N2O-producing bacterium isolated from activated sludge, and transfer of Aquaspirillum gracile to Hylemonella gracilis gen. nov., comb. nov.Spring S, Jackel U, Wagner M, Kampfer PInt J Syst Evol Microbiol10.1099/ijs.0.02727-02004Betaproteobacteria/*classification/genetics/growth & development, Burkholderiaceae/*classification/genetics/growth & development/isolation & purification, Cell Division/drug effects, DNA, Ribosomal/genetics, Molecular Sequence Data, Nitrogen Oxides/*metabolism, Phylogeny, RNA, Ribosomal, 16S/genetics, Sewage/*microbiology, Thiosulfates/pharmacologyGenetics
Phylogeny30102146Ottowia oryzae sp. nov., isolated from Andong sikhye, a Korean traditional rice beverage.Heo J, Cho H, Hong SB, Kim JS, Kwon SW, Kim SJInt J Syst Evol Microbiol10.1099/ijsem.0.0029352018Bacterial Typing Techniques, Base Composition, Beverages/*microbiology, Comamonadaceae/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Food Microbiology, Oryza, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, Ubiquinone/chemistryBiotechnology
Phylogeny31147966Ottowia flava sp. nov., isolated from fish intestines.Shi SB, Li GD, Yang LF, Liu C, Jiang MG, Li QY, Wu JF, Zhang K, Jiang LQ, Shen NK, Jiang CL, Jiang YAntonie Van Leeuwenhoek10.1007/s10482-019-01284-62019Aerobiosis, Animals, Aquatic Organisms/microbiology, Bacterial Typing Techniques, Base Composition, China, Cluster Analysis, Comamonadaceae/*classification/genetics/*isolation & purification/physiology, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Fishes/*microbiology, Hydrogen-Ion Concentration, Intestines/*microbiology, Nucleic Acid Hybridization, Phospholipids/analysis, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sodium Chloride/metabolism, TemperatureTranscriptome
Phylogeny34878373Ottowia caeni sp. nov., a novel phenylacetic acid degrading bacterium isolated from sludge.Pang FH, Yang HY, Sun J, Yu X, Zhang HInt J Syst Evol Microbiol10.1099/ijsem.0.0051442021Bacterial Typing Techniques, Base Composition, Comamonadaceae/*classification/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Nucleic Acid Hybridization, Phenylacetates/*metabolism, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Sewage/microbiologyTranscriptome
Phylogeny35604929Ottowia testudinis sp. nov., isolated from the cloaca of a giant Asian pond turtle (Heosemys grandis).Busse HJ, Kampfer P, Szostak MP, Spergser JInt J Syst Evol Microbiol10.1099/ijsem.0.0053482022Animals, Bacterial Typing Techniques, Base Composition, Cloaca, DNA, Bacterial/genetics, Fatty Acids/chemistry, Phospholipids/chemistry, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *TurtlesTranscriptome

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmedjournal
5412Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 14619)https://www.dsmz.de/collection/catalogue/details/culture/DSM-14619
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
29945Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2631428776041
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
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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
72501Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID130849.1StrainInfo: A central database for resolving microbial strain identifiers