Strain identifier

BacDive ID: 17874

Type strain: Yes

Species: Amorphus orientalis

Strain history: <- X.-L. Cui, YIM; YIM D10 <- J.-H. Liu

NCBI tax ID(s): 649198 (species)

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General

@ref: 15576

BacDive-ID: 17874

DSM-Number: 21202

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, rod-shaped, polysaccharide production

description: Amorphus orientalis DSM 21202 is an aerobe, mesophilic, Gram-negative bacterium that produces polysaccharides and was isolated from salt mine sediment.

NCBI tax id

  • NCBI tax id: 649198
  • Matching level: species

strain history

  • @ref: 15576
  • history: <- X.-L. Cui, YIM; YIM D10 <- J.-H. Liu

doi: 10.13145/bacdive17874.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Hyphomicrobiales
  • family: Amorphaceae
  • genus: Amorphus
  • species: Amorphus orientalis
  • full scientific name: Amorphus orientalis Wang et al. 2010

@ref: 15576

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhizobiales

family: Amorphaceae

genus: Amorphus

species: Amorphus orientalis

full scientific name: Amorphus orientalis Wang et al. 2010

type strain: yes

Morphology

cell morphology

  • @ref: 29550
  • gram stain: negative
  • cell length: 1-2.5 µm
  • cell width: 1-2.5 µm
  • cell shape: rod-shaped
  • motility: no

pigmentation

  • @ref: 29550
  • production: yes

Culture and growth conditions

culture medium

  • @ref: 15576
  • name: ISP MEDIUM 2 WITH 5% NaCl (DSMZ Medium 636)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/636
  • composition: Name: ISP MEDIUM 2 WITH 5% NaCl (DSMZ Medium 636) Composition: NaCl 50.0 g/l Agar 20.0 g/l Malt extract 10.0 g/l Dextrose 4.0 g/l Yeast extract 4.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
15576positivegrowth28mesophilic
29550positivegrowth15-37
29550positiveoptimum28mesophilic

culture pH

@refabilitytypepHPH range
29550positivegrowth6.5-8.5alkaliphile
29550positiveoptimum7.5

Physiology and metabolism

oxygen tolerance

  • @ref: 29550
  • oxygen tolerance: aerobe

compound production

  • @ref: 15576
  • compound: exopolysaccharide

halophily

@refsaltgrowthtested relationconcentration
29550NaClpositivegrowth0.5-12 %
29550NaClpositiveoptimum03-08 %

observation

  • @ref: 29550
  • observation: aggregates in chains

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2955030089acetate+carbon source
2955022599arabinose+carbon source
2955016947citrate+carbon source
2955023652dextrin+carbon source
2955017234glucose+carbon source
2955017754glycerol+carbon source
2955017306maltose+carbon source
2955029864mannitol+carbon source
2955037684mannose+carbon source
2955030031succinate+carbon source
2955017992sucrose+carbon source

enzymes

@refvalueactivityec
29550catalase+1.11.1.6
29550urease+3.5.1.5

Isolation, sampling and environmental information

isolation

  • @ref: 15576
  • sample type: salt mine sediment
  • geographic location: Yunnan, Fenggang salt mine
  • country: China
  • origin.country: CHN
  • continent: Asia

isolation source categories

Cat1Cat2Cat3
#Engineered#Other#Mine
#Environmental#Terrestrial#Sediment
#Condition#Saline

taxonmaps

  • @ref: 69479
  • File name: preview.99_14375.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_5;96_2498;97_3049;98_10899;99_14375&stattab=map
  • Last taxonomy: Amorphus orientalis subclade
  • 16S sequence: FJ998414
  • Sequence Identity:
  • Total samples: 92
  • soil counts: 38
  • aquatic counts: 45
  • animal counts: 6
  • plant counts: 3

Safety information

risk assessment

  • @ref: 15576
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 15576
  • description: Amorphus orientalis strain YIM D10 16S ribosomal RNA gene, partial sequence
  • accession: FJ998414
  • length: 1385
  • database: ena
  • NCBI tax ID: 649198

Genome sequences

  • @ref: 66792
  • description: Amorphus orientalis DSM 21202
  • accession: 2926584956
  • assembly level: draft
  • database: img
  • NCBI tax ID: 649198

GC content

@refGC-contentmethod
1557658.6fluorimetric
1557667.1high performance liquid chromatography (HPLC)
2955065.4

External links

@ref: 15576

culture collection no.: DSM 21202, CCTCC AA 208035, YIM D10

straininfo link

  • @ref: 86863
  • straininfo: 407935

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny19749037Amorphus orientalis sp. nov., an exopolysaccharide-producing bacterium isolated from salt mine sediment.Wang YX, Liu JH, Chen YG, Zhang XX, Wang ZG, Chen Y, Tian SP, Hu B, Cui XLInt J Syst Evol Microbiol10.1099/ijs.0.015735-02009Alphaproteobacteria/*classification/genetics/*isolation & purification/metabolism, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/metabolism, Geologic Sediments/*microbiology, Molecular Sequence Data, Phylogeny, Polysaccharides, Bacterial/*metabolism, RNA, Ribosomal, 16S/genetics, Sodium Chloride/*metabolismMetabolism
Phylogeny23687061Amorphus suaedae sp. nov., isolated from the root of a tidal flat plant, Suaeda maritima.Hwang JM, Chung EJ, Park JA, Jeong JH, Jeon CO, Chung YRInt J Syst Evol Microbiol10.1099/ijs.0.048959-02013Alphaproteobacteria/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, Chenopodiaceae/*microbiology, DNA, Bacterial/genetics, Fatty Acids/analysis, Molecular Sequence Data, *Phylogeny, Plant Roots/*microbiology, RNA, Ribosomal, 16S/genetics, Republic of Korea, Salt-Tolerant Plants/microbiology, Sequence Analysis, DNA, Ubiquinone/analysisGenetics
Phylogeny25013230Pseudoxanthobacter liyangensis sp. nov., isolated from dichlorodiphenyltrichloroethane-contaminated soil.Liu XM, Chen K, Meng C, Zhang L, Zhu JC, Huang X, Li SP, Jiang JDInt J Syst Evol Microbiol10.1099/ijs.0.056507-02014Alphaproteobacteria/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DDT/*chemistry, DNA, Bacterial/genetics, Fatty Acids/chemistry, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Soil Pollutants/chemistry, Ubiquinone/chemistryGenetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
15576Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21202)https://www.dsmz.de/collection/catalogue/details/culture/DSM-21202
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
29550Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2594528776041
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)
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
86863Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID407935.1StrainInfo: A central database for resolving microbial strain identifiers