Strain identifier

BacDive ID: 66

Type strain: Yes

Species: Zavarzinia compransoris

Strain Designation: Z-1155

Strain history: <- G.A. Zavarzin, Z-1155 ("Comamonas compransoris")

NCBI tax ID(s): 1264899 (species)

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General

@ref: 543

BacDive-ID: 66

DSM-Number: 1231

keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative

description: Zavarzinia compransoris Z-1155 is a mesophilic, Gram-negative bacterium that was isolated from mud.

NCBI tax id

  • NCBI tax id: 1264899
  • Matching level: species

strain history

  • @ref: 543
  • history: <- G.A. Zavarzin, Z-1155 ("Comamonas compransoris")

doi: 10.13145/bacdive66.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Rhodospirillales
  • family: Zavarziniaceae
  • genus: Zavarzinia
  • species: Zavarzinia compransoris
  • full scientific name: Zavarzinia compransoris (ex Nozhevnikova and Zavarzin 1974) Meyer et al. 1994

@ref: 543

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhizobiales

family: Zavarziniaceae

genus: Zavarzinia

species: Zavarzinia compransoris

full scientific name: Zavarzinia compransoris (ex Nozhevnikova and Zavarzin 1974) Meyer et al. 1994

strain designation: Z-1155

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: negative
  • confidence: 99.992

Culture and growth conditions

culture medium

  • @ref: 543
  • name: CARBON MONOXIDE OXIDIZER MEDIUM (DSMZ Medium 133)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/133
  • composition: Name: CARBON MONOXIDE OXIDIZER MEDIUM (DSMZ Medium 133) Composition: Agar 12.0 g/l Na2HPO4 x 12 H2O 4.5 g/l NH4Cl 1.5 g/l KH2PO4 0.75 g/l MgSO4 x 7 H2O 0.2 g/l CaCl2 x 2 H2O 0.03 g/l Ferric ammonium citrate 0.018 g/l H3BO3 0.0003 g/l CoCl2 x 6 H2O 0.0002 g/l ZnSO4 x 7 H2O 0.0001 g/l MnCl2 x 4 H2O 3e-05 g/l Na2MoO4 x 2 H2O 3e-05 g/l NiCl2 x 6 H2O 2e-05 g/l CuCl2 x 2 H2O 1e-05 g/l Distilled water

culture temp

  • @ref: 543
  • growth: positive
  • type: growth
  • temperature: 30
  • range: mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481no99
69480no99.934

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836925115malate+assimilation
6836917128adipate-assimilation
6836927689decanoate+assimilation
6836924265gluconate-assimilation
6836917306maltose-assimilation
6836959640N-acetylglucosamine-assimilation
6836916899D-mannitol-assimilation
6836916024D-mannose-assimilation
6836930849L-arabinose-assimilation
6836917634D-glucose-assimilation
683695291gelatin-hydrolysis
683694853esculin-hydrolysis
6836916199urea+hydrolysis
6836929016arginine-hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate-reduction

metabolite production

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382beta-glucosidase-3.2.1.21
68382alpha-glucosidase-3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase-3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382naphthol-AS-BI-phosphohydrolase-
68382acid phosphatase+3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382trypsin-3.4.21.4
68382cystine arylamidase+3.4.11.3
68382valine arylamidase-
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382esterase (C 4)+
68382alkaline phosphatase-3.1.3.1
68369cytochrome oxidase+1.9.3.1
68369gelatinase-
68369beta-glucosidase-3.2.1.21
68369urease+3.5.1.5
68369arginine dihydrolase-3.5.3.6

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
46225--++-+-+--+---------

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
46225----+----------+-+--+

Isolation, sampling and environmental information

isolation

  • @ref: 543
  • sample type: mud
  • geographic location: Moskwa river
  • country: Russia
  • origin.country: RUS
  • continent: Europe

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Terrestrial
  • Cat3: #Mud (Sludge)

taxonmaps

  • @ref: 69479
  • File name: preview.99_46088.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_16679;96_5655;97_6813;98_8448;99_46088&stattab=map
  • Last taxonomy: Zavarzinia compransoris
  • 16S sequence: JX986958
  • Sequence Identity:
  • Total samples: 3209
  • soil counts: 456
  • aquatic counts: 1906
  • animal counts: 715
  • plant counts: 132

Safety information

risk assessment

  • @ref: 543
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 543
  • description: Zavarzinia compransoris strain LMG 5821 16S ribosomal RNA gene, partial sequence
  • accession: JX986958
  • length: 1437
  • database: ena
  • NCBI tax ID: 1264899

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Zavarzinia compransoris DSM 1231GCA_003173055contigncbi1264899
66792Zavarzinia compransoris DSM 1231GCA_004362995scaffoldncbi1264899
66792Zavarzinia compransoris strain DSM 12311264899.4wgspatric1264899
66792Zavarzinia compransoris strain DSM 12311264899.3wgspatric1264899
66792Zavarzinia compransoris DSM 12312831716260draftimg1264899
66792Zavarzinia compransoris DSM 12312770939497draftimg1264899

GC content

  • @ref: 543
  • GC-content: 56.0

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno99no
motileyes85.278no
flagellatedyes59.036no
gram-positiveno98.766no
anaerobicno97.27no
aerobicyes87.841no
halophileno85.269no
spore-formingno93.397no
glucose-utilyes60.605no
thermophileno98.946no
glucose-fermentno91.004yes

External links

@ref: 543

culture collection no.: DSM 1231, ATCC 51430, CCUG 15334, LMG 5821, LMG 8357

straininfo link

  • @ref: 69750
  • straininfo: 2012

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny30605080Zavarzinia aquatilis sp. nov., isolated from a freshwater river.Lee Y, Park HY, Jeon COInt J Syst Evol Microbiol10.1099/ijsem.0.0032142019Acetobacteraceae/*classification/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Putrescine/chemistry, RNA, Ribosomal, 16S/genetics, Republic of Korea, Rivers/*microbiology, Sequence Analysis, DNA, Spermidine/chemistry, Ubiquinone/chemistryTranscriptome
Phylogeny36251753Zavarzinia marina sp. nov., a novel hydrocarbon-degrading bacterium isolated from deep chlorophyll maximum layer seawater of the West Pacific Ocean and emended description of the genus Zavarzinia.Hu Z, Chen Y, Lai Q, Yu Z, Shao Z, Dong CInt J Syst Evol Microbiol10.1099/ijsem.0.0055272022Bacterial Typing Techniques, Base Composition, *Cardiolipins, *Chlorophyll, DNA, Bacterial/genetics, Fatty Acids/chemistry, Hydrocarbons, Nucleotides, Pacific Ocean, Phosphatidylethanolamines, Phospholipids/chemistry, Phylogeny, Quinones, RNA, Ribosomal, 16S/genetics, Seawater/microbiology, Sequence Analysis, DNA, Sodium ChlorideTranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
543Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 1231)https://www.dsmz.de/collection/catalogue/details/culture/DSM-1231
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
46225Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 15334)https://www.ccug.se/strain?id=15334
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)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
68369Automatically annotated from API 20NE
68382Automatically annotated from API zym
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
69750Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID2012.1StrainInfo: A central database for resolving microbial strain identifiers