Strain identifier

BacDive ID: 13998

Type strain: Yes

Species: Azospirillum rugosum

Strain history: <- IMMIB <- A. B. Arun, Dept. Soil and Environmental Sci., Natl. Chung Hsing Univ., Taichung, Taiwan; IMMIB AFH-6

NCBI tax ID(s): 416170 (species)

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General

@ref: 8235

BacDive-ID: 13998

DSM-Number: 19657

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

description: Azospirillum rugosum DSM 19657 is an aerobe, Gram-negative, motile bacterium that was isolated from oil-contaminated soil near the oil refinery located in Kaohsiung county.

NCBI tax id

  • NCBI tax id: 416170
  • Matching level: species

strain history

  • @ref: 8235
  • history: <- IMMIB <- A. B. Arun, Dept. Soil and Environmental Sci., Natl. Chung Hsing Univ., Taichung, Taiwan; IMMIB AFH-6

doi: 10.13145/bacdive13998.20240510.9

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Rhodospirillales
  • family: Azospirillaceae
  • genus: Azospirillum
  • species: Azospirillum rugosum
  • full scientific name: Azospirillum rugosum Young et al. 2008

@ref: 8235

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhodospirillales

family: Azospirillaceae

genus: Azospirillum

species: Azospirillum rugosum

full scientific name: Azospirillum rugosum Young et al. 2008

type strain: yes

Morphology

cell morphology

  • @ref: 32167
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: yes

pigmentation

  • @ref: 32167
  • production: yes

Culture and growth conditions

culture medium

  • @ref: 8235
  • name: NUTRIENT AGAR (DSMZ Medium 1)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/1
  • composition: Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water

culture temp

@refgrowthtypetemperature
8235positivegrowth28
32167positivegrowth22-37
60090positivegrowth35

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
32167aerobe
60090aerobe

halophily

  • @ref: 32167
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 2 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
32167168082-dehydro-D-gluconate+carbon source
3216717128adipate+carbon source
3216728757fructose+carbon source
3216717754glycerol+carbon source
3216725115malate+carbon source
3216718222xylose+carbon source
321674853esculin+hydrolysis
3216717632nitrate+reduction

enzymes

@refvalueactivityec
32167alkaline phosphatase+3.1.3.1
32167alpha-galactosidase+3.2.1.22
32167catalase+1.11.1.6
32167gelatinase+
32167cytochrome oxidase+1.9.3.1
32167pyrazinamidase+3.5.1.B15
32167urease+3.5.1.5

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentgeographic location
8235oil-contaminated soil near the oil refinery located in Kaohsiung countyTaiwan, Province of ChinaTWNAsia
60090Oil contaminated soilTaiwan, Province of ChinaTWNAsiaKaohsiung County

isolation source categories

Cat1Cat2Cat3
#Engineered#Contamination#Oil (Fuel)
#Environmental#Terrestrial#Soil

Safety information

risk assessment

  • @ref: 8235
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 8235
  • description: Azospirillum rugosum partial 16S rRNA gene, strain IMMIB AFH-6T
  • accession: AM419042
  • length: 1448
  • database: nuccore
  • NCBI tax ID: 416170

Genome sequences

  • @ref: 66792
  • description: Azospirillum rugosum DSM 19657
  • accession: 2928256362
  • assembly level: draft
  • database: img
  • NCBI tax ID: 416170

GC content

  • @ref: 32167
  • GC-content: 69-71

External links

@ref: 8235

culture collection no.: DSM 19657, CCUG 53966, IMMIB AFH-6

straininfo link

  • @ref: 83169
  • straininfo: 398830

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny18398202Azospirillum rugosum sp. nov., isolated from oil-contaminated soil.Young CC, Hupfer H, Siering C, Ho MJ, Arun AB, Lai WA, Rekha PD, Shen FT, Hung MH, Chen WM, Yassin AFInt J Syst Evol Microbiol10.1099/ijs.0.65065-02008Azospirillum/*classification/genetics/*isolation & purification/metabolism, DNA, Bacterial/genetics, Fatty Acids/metabolism, Fuel Oils, Genes, Bacterial, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Soil Microbiology, Soil Pollutants/metabolism, Species Specificity, Terminology as Topic, Ubiquinone/metabolismMetabolism
Phylogeny21742820Azospirillum formosense sp. nov., a diazotroph from agricultural soil.Lin SY, Shen FT, Young LS, Zhu ZL, Chen WM, Young CCInt J Syst Evol Microbiol10.1099/ijs.0.030585-02011Azospirillum brasilense/*classification/genetics/*isolation & purification/metabolism, Bacterial Typing Techniques, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Molecular Sequence Data, Nitrogen Fixation, Nucleic Acid Hybridization, Phospholipids/analysis, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, TaiwanGenetics
Phylogeny23645021Azospirillum fermentarium sp. nov., a nitrogen-fixing species isolated from a fermenter.Lin SY, Liu YC, Hameed A, Hsu YH, Lai WA, Shen FT, Young CCInt J Syst Evol Microbiol10.1099/ijs.0.050872-02013Azospirillum/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, Bioreactors/*microbiology, DNA, Bacterial/genetics, Fatty Acids/analysis, *Fermentation, Molecular Sequence Data, Nitrogen Fixation, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Taiwan, Ubiquinone/analysisGenetics
Phylogeny26382036Azospirillum soli sp. nov., a nitrogen-fixing species isolated from agricultural soil.Lin SY, Hameed A, Liu YC, Hsu YH, Lai WA, Shen FT, Young CCInt J Syst Evol Microbiol10.1099/ijsem.0.0006182015Azospirillum/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Molecular Sequence Data, *Nitrogen Fixation, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Taiwan, Ubiquinone/chemistryGenetics
Phylogeny31651377Azospirillum thermophilum sp. nov., isolated from a hot spring.Zhao ZL, Ming H, Ding CL, Ji WL, Cheng LJ, Niu MM, Zhang YM, Zhang LY, Meng XL, Nie GXInt J Syst Evol Microbiol10.1099/ijsem.0.0037882020Azospirillum/*classification/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Hot Springs/*microbiology, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/analogs & derivatives/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
8235Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19657)https://www.dsmz.de/collection/catalogue/details/culture/DSM-19657
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
32167Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2841028776041
60090Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 53966)https://www.ccug.se/strain?id=53966
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)
83169Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID398830.1StrainInfo: A central database for resolving microbial strain identifiers