Strain identifier

BacDive ID: 6281

Type strain: Yes

Species: Ornithinimicrobium murale

Strain Designation: 01-Gi-040

Strain history: CCM 7610 <-- P. Kämpfer; Justus-Liebig-Univ. Giessen, Germany; 01-Gi-040.

NCBI tax ID(s): 1050153 (species)

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General

@ref: 16112

BacDive-ID: 6281

DSM-Number: 22056

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-positive, coccus-shaped

description: Ornithinimicrobium murale 01-Gi-040 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from indoor wall colonized by moulds.

NCBI tax id

  • NCBI tax id: 1050153
  • Matching level: species

strain history

@refhistory
16112<- P. Kämpfer, Univ. Giessen, Germany <- J. Schäfer; 01-Gi-040
67770CCM 7610 <-- P. Kämpfer; Justus-Liebig-Univ. Giessen, Germany; 01-Gi-040.

doi: 10.13145/bacdive6281.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Micrococcales
  • family: Ornithinimicrobiaceae
  • genus: Ornithinimicrobium
  • species: Ornithinimicrobium murale
  • full scientific name: Ornithinimicrobium murale Kämpfer et al. 2013

@ref: 16112

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Ornithinimicrobiaceae

genus: Ornithinimicrobium

species: Ornithinimicrobium murale

full scientific name: Ornithinimicrobium murale Kämpfer et al. 2013

strain designation: 01-Gi-040

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapeconfidence
30430positive1.3 µm1.3 µmcoccus-shaped
69480positive99.666

pigmentation

  • @ref: 30430
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
16112GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium65.pdf
16112TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)yeshttps://mediadive.dsmz.de/medium/92Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
16112positivegrowth28mesophilic
30430positivegrowth22.5psychrophilic
30430positiveoptimum15-30
67770positivegrowth28mesophilic

culture pH

@refabilitytypepHPH range
30430positivegrowth7.5-8.5alkaliphile
30430positiveoptimum8

Physiology and metabolism

oxygen tolerance

  • @ref: 30430
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
30430no
69481no99
69480no99.997

observation

  • @ref: 67770
  • observation: quinones: MK-8(H4)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
30430370543-hydroxybutyrate+carbon source
3043030089acetate+carbon source
3043016449alanine+carbon source
3043017057cellobiose+carbon source
3043028757fructose+carbon source
3043028260galactose+carbon source
3043024996lactate+carbon source
3043025115malate+carbon source
3043017306maltose+carbon source
3043029864mannitol+carbon source
3043026271proline+carbon source
3043015361pyruvate+carbon source
3043033942ribose+carbon source
3043017822serine+carbon source
3043017992sucrose+carbon source
3043027082trehalose+carbon source

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
16112indoor wall colonized by mouldsGiessenGermanyDEUEurope
67770Cellar wall of a house colonized by mouldsGiessenGermanyDEUEurope

isolation source categories

Cat1Cat2Cat3
#Engineered#Built environment#Indoor
#Host#Fungi

Safety information

risk assessment

  • @ref: 16112
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 16112
  • description: Ornithinimicrobium murale partial 16S rRNA gene, type strain 01-Gi-040T
  • accession: FR874098
  • length: 1437
  • database: ena
  • NCBI tax ID: 1050153

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Ornithinimicrobium murale strain DSM 220561050153.3wgspatric1050153
66792Ornithinimicrobium murale DSM 220562833457382draftimg1050153
67770Ornithinimicrobium murale DSM 22056GCA_003352835contigncbi1050153

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno99no
motileno94.493no
flagellatedno98.822no
gram-positiveyes91.395yes
anaerobicno97.678yes
aerobicyes91.883yes
halophileno85.732no
spore-formingno92.727no
thermophileno97.407yes
glucose-utilyes78.781no
glucose-fermentno89.312no

External links

@ref: 16112

culture collection no.: DSM 22056, CCM 7610, JCM 30495

straininfo link

  • @ref: 75757
  • straininfo: 403006

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny22888195Ornithinimicrobium murale sp. nov., isolated from an indoor wall colonized by moulds.Kampfer P, Glaeser SP, Schafer J, Lodders N, Martin K, Schumann PInt J Syst Evol Microbiol10.1099/ijs.0.035873-02012Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Environmental Microbiology, Fatty Acids/analysis, Fungi/growth & development, Germany, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/analysis, Phospholipids/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/analysisGenetics
Phylogeny23907216Ornithinimicrobium tianjinense sp. nov., isolated from a recirculating aquaculture system.Liu LZ, Liu Y, Chen Z, Liu HC, Zhou YG, Liu ZPInt J Syst Evol Microbiol10.1099/ijs.0.052514-02013Actinomycetales/*classification/genetics/isolation & purification, *Aquaculture, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Molecular Sequence Data, Peptidoglycan/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistry, *Water MicrobiologyGenetics
Phylogeny30123944Ornithinimicrobium cavernae sp. nov., an actinobacterium isolated from a karst cave.Zhang LY, Ming H, Meng XL, Fang BZ, Jiao JY, Salam N, Zhang XT, Li WJ, Nie GXAntonie Van Leeuwenhoek10.1007/s10482-018-1141-62018Actinomycetales/classification/genetics/*isolation & purification/metabolism, Bacterial Typing Techniques, Base Composition, Caves/chemistry/*microbiology, DNA, Bacterial/genetics, Fatty Acids/chemistry/metabolism, Phospholipids/chemistry/metabolism, Phylogeny, RNA, Ribosomal, 16S/genetics, Sodium Chloride/metabolism, Soil MicrobiologyMetabolism
Phylogeny35460374Ornithinimicrobium sediminis sp. nov., a novel actinobacterium isolated from a saline lake sediment.Gao L, Fang BZ, Liu YH, Huang Y, Jiao JY, Li L, Antunes A, Li WJArch Microbiol10.1007/s00203-022-02898-72022*Actinomycetales, Bacterial Typing Techniques, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Lakes, Phospholipids/chemistry, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNATranscriptome

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
16112Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 22056)https://www.dsmz.de/collection/catalogue/details/culture/DSM-22056
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
30430Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2676628776041
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)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
75757Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID403006.1StrainInfo: A central database for resolving microbial strain identifiers