Strain identifier

BacDive ID: 11306

Type strain: Yes

Species: Herminiimonas saxobsidens

Strain Designation: NS11

Strain history: <- N. Sahin; NS11

NCBI tax ID(s): 427333 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 8.1 (current version)

General

@ref: 7682

BacDive-ID: 11306

DSM-Number: 18748

keywords: 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, motile, ovoid-shaped

description: Herminiimonas saxobsidens NS11 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from lichen colonized rock.

NCBI tax id

  • NCBI tax id: 427333
  • Matching level: species

strain history

  • @ref: 7682
  • history: <- N. Sahin; NS11

doi: 10.13145/bacdive11306.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Betaproteobacteria
  • order: Burkholderiales
  • family: Oxalobacteraceae
  • genus: Herminiimonas
  • species: Herminiimonas saxobsidens
  • full scientific name: Herminiimonas saxobsidens Lang et al. 2007

@ref: 7682

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Burkholderiales

family: Oxalobacteraceae

genus: Herminiimonas

species: Herminiimonas saxobsidens

full scientific name: Herminiimonas saxobsidens Lang et al. 2007

strain designation: NS11

type strain: yes

Morphology

cell morphology

  • @ref: 32228
  • gram stain: negative
  • cell length: 0.8 µm
  • cell width: 0.4 µm
  • cell shape: ovoid-shaped
  • motility: yes

pigmentation

  • @ref: 32228
  • production: no

Culture and growth conditions

culture medium

  • @ref: 7682
  • name: REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/1a
  • composition: Name: REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
7682positivegrowth30mesophilic
32228positivegrowth04-37
32228positiveoptimum20.5psychrophilic

culture pH

  • @ref: 32228
  • ability: positive
  • type: optimum
  • pH: 7.25

Physiology and metabolism

oxygen tolerance

  • @ref: 32228
  • oxygen tolerance: aerobe

spore formation

  • @ref: 32228
  • spore formation: no

halophily

  • @ref: 32228
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-2 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3222830089acetate+carbon source
3222816449alanine+carbon source
3222822599arabinose+carbon source
3222815740formate+carbon source
3222824996lactate+carbon source
3222825115malate+carbon source
3222817272propionate+carbon source
3222851850methyl pyruvate+carbon source
3222830031succinate+carbon source
3222817632nitrate+reduction

enzymes

@refvalueactivityec
32228alkaline phosphatase+3.1.3.1
32228catalase+1.11.1.6
32228cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

  • @ref: 7682
  • sample type: lichen colonized rock
  • geographic location: Mugla
  • country: Turkey
  • origin.country: TUR
  • continent: Asia

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial
#Host#Other#Lichen

taxonmaps

  • @ref: 69479
  • File name: preview.99_5056.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_12;96_2343;97_2853;98_3549;99_5056&stattab=map
  • Last taxonomy: Herminiimonas
  • 16S sequence: AM493906
  • Sequence Identity:
  • Total samples: 2485
  • soil counts: 780
  • aquatic counts: 491
  • animal counts: 395
  • plant counts: 819

Safety information

risk assessment

  • @ref: 7682
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Herminiimonas saxobsidens gene for 16S rRNA, partial sequence, strain: NEU 1218AB5121411485ena427333
7682Herminiimonas saxobsidens 16S rRNA gene, type strain NS11TAM4939061504ena427333

External links

@ref: 7682

culture collection no.: DSM 18748, CCM 7436, NEU 1218

straininfo link

  • @ref: 80539
  • straininfo: 404429

literature

  • topic: Phylogeny
  • Pubmed-ID: 17978229
  • title: Herminiimonas saxobsidens sp. nov., isolated from a lichen-colonized rock.
  • authors: Lang E, Swiderski J, Stackebrandt E, Schumann P, Sproer C, Sahin N
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.65163-0
  • year: 2007
  • mesh: Bacterial Typing Techniques, *Calcium Carbonate, DNA, Ribosomal/analysis, Fatty Acids/analysis, Genes, rRNA, Genotype, Lichens/growth & development/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Oxalobacteraceae/chemistry/*classification/genetics/isolation & purification, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Species Specificity, Turkey
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmedID_cross_reference
7682Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18748)https://www.dsmz.de/collection/catalogue/details/culture/DSM-18748
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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
32228Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2877604128470
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
80539Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID404429.1StrainInfo: A central database for resolving microbial strain identifiers