Strain identifier

BacDive ID: 132170

Type strain: Yes

Species: Polymorphobacter multimanifer

Strain Designation: 262-7

Strain history: T. Imanaka 262-7.

NCBI tax ID(s): 1070431 (species)

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General

@ref: 23959

BacDive-ID: 132170

DSM-Number: 102189

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

description: Polymorphobacter multimanifer 262-7 is a Gram-negative bacterium that was isolated from crack of white rock.

NCBI tax id

  • NCBI tax id: 1070431
  • Matching level: species

strain history

@refhistory
23959<- JCM <- T. Imanaka, Ritsumeikan University, Dept. of Biotechnology, College of Life Sciences, Shiga, Japan; 262-7
67770T. Imanaka 262-7.

doi: 10.13145/bacdive132170.20240916.9.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Sphingomonadales
  • family: Sphingosinicellaceae
  • genus: Polymorphobacter
  • species: Polymorphobacter multimanifer
  • full scientific name: Polymorphobacter multimanifer Fukuda et al. 2014

@ref: 23959

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Pseudomonadales

family: Sphingosinicellaceae

genus: Polymorphobacter

species: Polymorphobacter multimanifer

full scientific name: Polymorphobacter multimanifer Fukuda et al. 2014

strain designation: 262-7

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: negative
  • confidence: 96.828

Culture and growth conditions

culture medium

  • @ref: 23959
  • name: POLYMORPHOBACTER MEDIUM (DSMZ Medium 1620)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/1620
  • composition: Name: POLYMORHOBACTER MEDIUM (DSMZ Medium 1620) Composition: NaCl 5.0 g/l Tryptone 2.5 g/l Yeast extract 1.3 g/l Tap water

culture temp

@refgrowthtypetemperature
23959positivegrowth25
67770positivegrowth25

Physiology and metabolism

oxygen tolerance

  • @ref: 69480
  • oxygen tolerance: aerobe
  • confidence: 90.122

spore formation

  • @ref: 69481
  • spore formation: no
  • confidence: 100

observation

  • @ref: 67770
  • observation: quinones: Q-10

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836925115malate-assimilation
6836917128adipate-assimilation
6836927689decanoate-assimilation
6836924265gluconate-assimilation
6836917306maltose-assimilation
6836959640N-acetylglucosamine-assimilation
6836916899D-mannitol-assimilation
6836916024D-mannose-assimilation
6836930849L-arabinose-assimilation
6836917634D-glucose-assimilation
683695291gelatin+hydrolysis
683694853esculin+hydrolysis
6836916199urea-hydrolysis
6836929016arginine-hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate-reduction

metabolite production

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
68369cytochrome oxidase-1.9.3.1
68369gelatinase+
68369beta-glucosidase+3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
23959-----++--------------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
23959crack of white rockSkallen regionAntarcticaATAAustralia and Oceania
67770Crack of white rock in the Skallen region of Antarctica

isolation source categories

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

Safety information

risk assessment

  • @ref: 23959
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 23959
  • description: Polymorphobacter multimanifer gene for 16S rRNA, partial sequence
  • accession: AB649056
  • length: 1458
  • database: nuccore
  • NCBI tax ID: 1070431

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Polymorphobacter multimanifer DSM 102189GCA_014205635scaffoldncbi1070431
66792Polymorphobacter multimanifer JCM 18140GCA_014647295scaffoldncbi1070431
66792Polymorphobacter multimanifer strain DSM 1021891070431.3wgspatric1070431
66792Polymorphobacter multimanifer strain JCM 181401070431.4wgspatric1070431
66792Polymorphobacter multimanifer DSM 1021892828297358draftimg1070431

GC content

  • @ref: 67770
  • GC-content: 68
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

@reftraitmodeldescriptionpredictionconfidencetraining_data
69481spore-formingspore-formingAbility to form endo- or exosporesno100no
69480gram-positivegram-positivePositive reaction to Gram-stainingno96.828no
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no94.69no
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes90.122no
69480spore-formingspore-formingAbility to form endo- or exosporesno89.599no
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno96.478yes
69480flagellatedmotile2+Ability to perform flagellated movementyes60.105no

External links

@ref: 23959

culture collection no.: DSM 102189, ATCC BAA-2413, JCM 18140

straininfo link

  • @ref: 90525
  • straininfo: 401552

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny24651306Polymorphobacter multimanifer gen. nov., sp. nov., a polymorphic bacterium isolated from Antarctic white rock.Fukuda W, Chino Y, Araki S, Kondo Y, Imanaka H, Kanai T, Atomi H, Imanaka TInt J Syst Evol Microbiol10.1099/ijs.0.050005-02014Antarctic Regions, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Glycolipids/chemistry, Molecular Sequence Data, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sphingomonadaceae/*classification/genetics/isolation & purification, Ubiquinone/chemistryGenetics
Phylogeny26246176Polymorphobacter fuscus sp. nov., isolated from permafrost soil, and emended description of the genus Polymorphobacter.Jia L, Feng X, Zheng Z, Han L, Hou X, Lu Z, Lv JInt J Syst Evol Microbiol10.1099/ijsem.0.0005142015
Phylogeny27902289Polymorphobacter glacialis sp. nov., isolated from ice core.Xing T, Liu Y, Wang N, Xu B, Shen L, Liu K, Gu Z, Guo B, Zhou Y, Liu HInt J Syst Evol Microbiol10.1099/ijsem.0.0016722017Bacterial Typing Techniques, Base Composition, Carotenoids/chemistry, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Ice Cover/*microbiology, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sphingomonadaceae/*classification/genetics/isolation & purification, Ubiquinone/chemistryTranscriptome
Phylogeny31851602Polymorphobacter arshaanensis sp. nov., containing the photosynthetic gene pufML, isolated from a volcanic lake.Phurbu D, Liu ZX, Liu HC, Lhamo Y, Yangzom P, Li AH, Zhou YGInt J Syst Evol Microbiol10.1099/ijsem.0.0038802020Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Lakes/*microbiology, Phospholipids/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sphingomonadaceae/*classification/isolation & purification, Ubiquinone/analogs & derivatives/chemistryTranscriptome

Reference

@idauthorstitledoi/urlcatalogue
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
23959Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-102189Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 102189)
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
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68369Automatically annotated from API 20NE
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
90525Reimer, 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-ID401552.1