Strain identifier

BacDive ID: 3037

Type strain: Yes

Species: Conexibacter arvalis

Strain Designation: KV-962

Strain history: <- Y. Takahashi, Kitasato Inst., Tokyo, Japan; KV-962 <- T. Seki

NCBI tax ID(s): 912552 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 16776

BacDive-ID: 3037

DSM-Number: 23288

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, motile, rod-shaped

description: Conexibacter arvalis KV-962 is an aerobe, mesophilic, motile bacterium that was isolated from soil.

NCBI tax id

  • NCBI tax id: 912552
  • Matching level: species

strain history

  • @ref: 16776
  • history: <- Y. Takahashi, Kitasato Inst., Tokyo, Japan; KV-962 <- T. Seki

doi: 10.13145/bacdive3037.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Thermoleophilia
  • order: Solirubrobacterales
  • family: Conexibacteraceae
  • genus: Conexibacter
  • species: Conexibacter arvalis
  • full scientific name: Conexibacter arvalis Seki et al. 2012

@ref: 16776

domain: Bacteria

phylum: Actinobacteria

class: Thermoleophilia

order: Solirubrobacterales

family: Conexibacteraceae

genus: Conexibacter

species: Conexibacter arvalis

full scientific name: Conexibacter arvalis Seki et al. 2012

strain designation: KV-962

type strain: yes

Morphology

cell morphology

@refcell lengthcell widthcell shapemotilityconfidencegram stain
304381.95 µm0.9 µmrod-shapedyes
69480no93.965
6948098.532positive

colony morphology

  • @ref: 16776
  • incubation period: 3-7 days

pigmentation

  • @ref: 30438
  • production: yes

Culture and growth conditions

culture medium

  • @ref: 16776
  • name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/92
  • composition: Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
16776positivegrowth28mesophilic
30438positivegrowth05-46

culture pH

  • @ref: 30438
  • ability: positive
  • type: growth
  • pH: 05-10
  • PH range: alkaliphile

Physiology and metabolism

oxygen tolerance

  • @ref: 30438
  • oxygen tolerance: aerobe

spore formation

  • @ref: 69480
  • spore formation: no
  • confidence: 99.948

halophily

  • @ref: 30438
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: <4 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
30438581435-dehydro-D-gluconate+carbon source
3043818403L-arabitol+carbon source
3043833984fucose+carbon source
3043817234glucose+carbon source
3043817754glycerol+carbon source
3043837684mannose+carbon source
3043826546rhamnose+carbon source
3043817814salicin+carbon source
3043827082trehalose+carbon source
3043818222xylose+carbon source
3043817632nitrate+reduction

enzymes

@refvalueactivityec
30438acid phosphatase+3.1.3.2
30438alkaline phosphatase+3.1.3.1
30438alpha-galactosidase+3.2.1.22
30438catalase+1.11.1.6
30438gelatinase+

Isolation, sampling and environmental information

isolation

  • @ref: 16776
  • sample type: soil
  • geographic location: Saitama prefecture
  • country: Japan
  • origin.country: JPN
  • continent: Asia

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Terrestrial
  • Cat3: #Soil

Safety information

risk assessment

  • @ref: 16776
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 16776
  • description: Conexibacter arvalis gene for 16S rRNA, partial sequence, strain: KV-962
  • accession: AB597950
  • length: 1474
  • database: ena
  • NCBI tax ID: 912552

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Conexibacter arvalis DSM 23288GCA_014199525scaffoldncbi912552
66792Conexibacter arvalis strain DSM 23288912552.3wgspatric912552
66792Conexibacter arvalis DSM 232882828580265draftimg912552

GC content

@refGC-contentmethod
1677674high performance liquid chromatography (HPLC)
3043874-75

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes71no
flagellatedno92.93no
gram-positiveyes85.018no
anaerobicno95.411no
aerobicyes82.186yes
halophileno87.586no
spore-formingno90.442no
glucose-utilyes83.759yes
thermophileno95.079yes
motileyes78.391yes
glucose-fermentno86.794no

External links

@ref: 16776

culture collection no.: DSM 23288, NBRC 106558

straininfo link

  • @ref: 72557
  • straininfo: 399136

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny22140169Conexibacter arvalis sp. nov., isolated from a cultivated field soil sample.Seki T, Matsumoto A, Shimada R, Inahashi Y, Omura S, Takahashi YInt J Syst Evol Microbiol10.1099/ijs.0.036095-02011Actinobacteria/*classification/genetics/isolation & purification, Bacterial Typing Techniques, DNA, Bacterial/genetics, Fatty Acids/analysis, Japan, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Soil/analysis, *Soil Microbiology, Vitamin K 2/analogs & derivatives/analysisGenetics
Phylogeny36018778Capillimicrobium parvum gen. nov., sp. nov., a novel representative of Capillimicrobiaceae fam. nov. within the order Solirubrobacterales, isolated from a grassland soil.Vieira S, Huber KJ, Geppert A, Wolf J, Neumann-Schaal M, Luckner M, Wanner G, Musken M, Overmann JInt J Syst Evol Microbiol10.1099/ijsem.0.0055082022Bacteria, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Grassland, Phospholipids, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *SoilTranscriptome

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
16776Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23288)https://www.dsmz.de/collection/catalogue/details/culture/DSM-23288
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
30438Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2677428776041
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)
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)
72557Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID399136.1StrainInfo: A central database for resolving microbial strain identifiers