Strain identifier
BacDive ID: 3037
Type strain:
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)
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
@ref | cell length | cell width | cell shape | motility | confidence | gram stain |
---|---|---|---|---|---|---|
30438 | 1.95 µm | 0.9 µm | rod-shaped | yes | ||
69480 | no | 93.965 | ||||
69480 | 98.532 | positive |
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
@ref | growth | type | temperature | range |
---|---|---|---|---|
16776 | positive | growth | 28 | mesophilic |
30438 | positive | growth | 05-46 |
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
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
30438 | 58143 | 5-dehydro-D-gluconate | + | carbon source |
30438 | 18403 | L-arabitol | + | carbon source |
30438 | 33984 | fucose | + | carbon source |
30438 | 17234 | glucose | + | carbon source |
30438 | 17754 | glycerol | + | carbon source |
30438 | 37684 | mannose | + | carbon source |
30438 | 26546 | rhamnose | + | carbon source |
30438 | 17814 | salicin | + | carbon source |
30438 | 27082 | trehalose | + | carbon source |
30438 | 18222 | xylose | + | carbon source |
30438 | 17632 | nitrate | + | reduction |
enzymes
@ref | value | activity | ec |
---|---|---|---|
30438 | acid phosphatase | + | 3.1.3.2 |
30438 | alkaline phosphatase | + | 3.1.3.1 |
30438 | alpha-galactosidase | + | 3.2.1.22 |
30438 | catalase | + | 1.11.1.6 |
30438 | gelatinase | + |
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
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Conexibacter arvalis DSM 23288 | GCA_014199525 | scaffold | ncbi | 912552 |
66792 | Conexibacter arvalis strain DSM 23288 | 912552.3 | wgs | patric | 912552 |
66792 | Conexibacter arvalis DSM 23288 | 2828580265 | draft | img | 912552 |
GC content
@ref | GC-content | method |
---|---|---|
16776 | 74 | high performance liquid chromatography (HPLC) |
30438 | 74-75 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | yes | 71 | no |
flagellated | no | 92.93 | no |
gram-positive | yes | 85.018 | no |
anaerobic | no | 95.411 | no |
aerobic | yes | 82.186 | yes |
halophile | no | 87.586 | no |
spore-forming | no | 90.442 | no |
glucose-util | yes | 83.759 | yes |
thermophile | no | 95.079 | yes |
motile | yes | 78.391 | yes |
glucose-ferment | no | 86.794 | no |
External links
@ref: 16776
culture collection no.: DSM 23288, NBRC 106558
straininfo link
- @ref: 72557
- straininfo: 399136
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 22140169 | Conexibacter arvalis sp. nov., isolated from a cultivated field soil sample. | Seki T, Matsumoto A, Shimada R, Inahashi Y, Omura S, Takahashi Y | Int J Syst Evol Microbiol | 10.1099/ijs.0.036095-0 | 2011 | Actinobacteria/*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/analysis | Genetics |
Phylogeny | 36018778 | Capillimicrobium 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 J | Int J Syst Evol Microbiol | 10.1099/ijsem.0.005508 | 2022 | Bacteria, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Grassland, Phospholipids, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil | Transcriptome |
Reference
@id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
---|---|---|---|---|---|---|
16776 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23288) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-23288 | |||
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 | |||
30438 | 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 | 26774 | 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) | |||
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) | |||
72557 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID399136.1 | StrainInfo: A central database for resolving microbial strain identifiers |