Strain identifier

BacDive ID: 140072

Type strain: Yes

Species: Amphiplicatus metriothermophilus

Strain Designation: GU51

Strain history: Z.-L. Zhang and M. Wu GU51.

NCBI tax ID(s): 1519374 (species)

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General

@ref: 42679

BacDive-ID: 140072

DSM-Number: 105738

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

description: Amphiplicatus metriothermophilus GU51 is a thermophilic, Gram-negative bacterium that was isolated from water of hot spring.

NCBI tax id

  • NCBI tax id: 1519374
  • Matching level: species

strain history

@refhistory
42679<- JCM <- Z.-L. Zhang and M. Wu, College of Life Sciences, Zhejiang University, Hangzhou, PR China
67770Z.-L. Zhang and M. Wu GU51.

doi: 10.13145/bacdive140072.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Parvularculales
  • family: Parvularculaceae
  • genus: Amphiplicatus
  • species: Amphiplicatus metriothermophilus
  • full scientific name: Amphiplicatus metriothermophilus Zhang et al. 2014

@ref: 42679

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Parvularculales

family: Parvularculaceae

genus: Amphiplicatus

species: Amphiplicatus metriothermophilus

full scientific name: Amphiplicatus metriothermophilus Zhang et al. 2014

strain designation: GU51

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: negative
  • confidence: 99.994

multimedia

  • @ref: 42679
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_105738.jpg
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

  • @ref: 42679
  • name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/514
  • composition: Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
42679positivegrowth50thermophilic
67770positivegrowth50thermophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481no100
69480no99.999

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836830849L-arabinose-fermentation
6836827613amygdalin-fermentation
6836828053melibiose-fermentation
6836817992sucrose-fermentation
6836862345L-rhamnose-fermentation
6836830911sorbitol-fermentation
6836817268myo-inositol-fermentation
6836816899D-mannitol-fermentation
6836817634D-glucose-fermentation
683685291gelatin+hydrolysis
6836827897tryptophan-energy source
6836816199urea-hydrolysis
6836816947citrate-assimilation
6836818257ornithine-degradation
6836825094lysine-degradation
6836829016arginine-hydrolysis

metabolite production

@refChebi-IDmetaboliteproduction
6836815688acetoinyes
6836835581indoleno
6836816136hydrogen sulfideno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole test
6836815688acetoin+
6836835581indole-

enzymes

@refvalueactivityec
68368cytochrome oxidase+1.9.3.1
68368gelatinase+
68368tryptophan deaminase-4.1.99.1
68368urease-3.5.1.5
68368ornithine decarboxylase-4.1.1.17
68368lysine decarboxylase-4.1.1.18
68368arginine dihydrolase-3.5.3.6
68368beta-galactosidase+3.2.1.23

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGELGLUMANINOSorRHASACMELAMYARAOX
42679+--------++---------+

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitude
42679water of hot springGuhai hot springChinaCHNAsia44.7588.8167
67770Water sample of Guhai hot springJimsar County, Xinjiang Province, north-west ChinaChinaCHNAsia

isolation source categories

Cat1Cat2Cat3
#Condition#Thermophilic (>45°C)
#Environmental#Aquatic#Thermal spring

Safety information

risk assessment

  • @ref: 42679
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 42679
  • description: Amphiplicatus metriothermophilus strain GU51 16S ribosomal RNA gene, partial sequence
  • accession: KF153051
  • length: 1284
  • database: ena
  • NCBI tax ID: 1519374

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Amphiplicatus metriothermophilus CGMCC 1.12710GCA_900199215contigncbi1519374
66792Amphiplicatus metriothermophilus DSM 105738GCA_014199495contigncbi1519374
66792Amphiplicatus metriothermophilus strain CGMCC 1.127101519374.3wgspatric1519374
66792Amphiplicatus metriothermophilus strain DSM 1057381519374.5wgspatric1519374
66792Amphiplicatus metriothermophilus CGMCC 1.127102737472027draftimg1519374
66792Amphiplicatus metriothermophilus DSM 1057382828471905draftimg1519374

GC content

  • @ref: 67770
  • GC-content: 66.3-67.1
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes88.959no
gram-positiveno98.249no
anaerobicno99.247no
aerobicyes91.05no
halophileno59.842no
spore-formingno96.024no
glucose-utilyes85.663no
flagellatedno76.646no
glucose-fermentno89.915yes
thermophileno56.809yes

External links

@ref: 42679

culture collection no.: DSM 105738, CGMCC 1.12710, JCM 19779

straininfo link

  • @ref: 96486
  • straininfo: 403377

literature

  • topic: Phylogeny
  • Pubmed-ID: 24867176
  • title: Amphiplicatus metriothermophilus gen. nov., sp. nov., a thermotolerant alphaproteobacterium isolated from a hot spring.
  • authors: Zhen-Li Z, Xin-Qi Z, Nan W, Wen-Wu Z, Xu-Fen Z, Yi C, Min W
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.062471-0
  • year: 2014
  • mesh: Alphaproteobacteria/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Hot Springs/*microbiology, Molecular Sequence Data, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Ubiquinone/chemistry
  • topic2: Genetics

Reference

@idauthorstitledoi/urlcataloguejournalpubmed
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
42679Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-105738Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 105738)
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar SchomburgBRENDA, the ELIXIR core data resource in 2021: new developments and updates10.1093/nar/gkaa1025Nucleic Acids Res. 49: D498-D508 202033211880
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68368Automatically annotated from API 20E
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
96486Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID403377.1